Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 117 of 433
Found at i:35690121 original size:28 final size:28
Alignment explanation
Indices: 35690052--35690152 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
35690042 GACAAGATTG
* * * *
35690052 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
35690082 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35690110 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
35690139 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35690153 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35698078 original size:28 final size:28
Alignment explanation
Indices: 35698009--35698109 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
35697999 GACAAGATTG
* * * *
35698009 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
35698039 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35698067 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
35698096 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35698110 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35702408 original size:24 final size:24
Alignment explanation
Indices: 35702376--35702424 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
35702366 GGCCCAATTG
35702376 CCCTTTAAGTGCTCATTTATTTAT
1 CCCTTTAAGTGCTCATTTATTTAT
35702400 CCCTTTAAGTGCTCATTTATTTAT
1 CCCTTTAAGTGCTCATTTATTTAT
35702424 C
1 C
35702425 TCTTAGACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.08, T:0.49
Consensus pattern (24 bp):
CCCTTTAAGTGCTCATTTATTTAT
Found at i:35711009 original size:40 final size:39
Alignment explanation
Indices: 35710964--35711093 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
35710954 CGGAATACAA
35710964 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
35711004 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
35711044 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
35711084 CCGGATATAA
1 CCGGATATAA
35711094 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:35719071 original size:40 final size:39
Alignment explanation
Indices: 35719026--35719155 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
35719016 CGGAATACAA
35719026 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
35719066 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
35719106 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
35719146 CCGGATATAA
1 CCGGATATAA
35719156 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:35722835 original size:35 final size:35
Alignment explanation
Indices: 35722760--35722835 Score: 80
Period size: 35 Copynumber: 2.2 Consensus size: 35
35722750 ATTTCACTCT
* * * * *
35722760 GAAGAGCATGTATACCATTTACACGGTGTCATTTT
1 GAAGAGCATGTATACCACTTAAACAGTGTCACTTC
* * *
35722795 AAAGAGCTTGTATATCACTTAAACAGTGTCACTTC
1 GAAGAGCATGTATACCACTTAAACAGTGTCACTTC
35722830 GAAGAG
1 GAAGAG
35722836 TTAATAGATA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (35 bp):
GAAGAGCATGTATACCACTTAAACAGTGTCACTTC
Found at i:35724610 original size:50 final size:49
Alignment explanation
Indices: 35724551--35724727 Score: 212
Period size: 50 Copynumber: 3.6 Consensus size: 49
35724541 AGTGCTAGTT
* * *
35724551 TAAGACCATGTCTGGAACATGGCAACGGCACCAATA-GATAAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGC-CCAATATG-TGAGAGCCAGTG
* * * * *
35724601 TAAGACCATGTTTGGGACATGGCATTGGCTTCAATATGTGAGGGCCAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGC-CCAATATGTGAGAGCCAGTG
* *
35724651 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCC-CAATATGTGAGAGCCAGTG
*
35724701 CAAGACCATGTCTGGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
35724728 ACTTTGATGT
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
50 107 0.99
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCCAATATGTGAGAGCCAGTG
Found at i:35724724 original size:100 final size:98
Alignment explanation
Indices: 35724551--35724778 Score: 253
Period size: 100 Copynumber: 2.3 Consensus size: 98
35724541 AGTGCTAGTT
* * * *
35724551 TAAGACCATGTCTGGAACATGGCAACGGCACCAATAGATAAGAGCCAGTGTAAGACCATGTTTGG
1 TAAGACCATGTCTGGGACATGGCATCGGCACCAATAGATAAGAGCCAGTGCAAGACCATGTCTGG
* * * * *
35724616 GACATGGCATTGGCTTCAATATGTGAGGGCCAGTA
66 GACATGGCATCGACTTCAATATAT-A-AGCCAATA
* * *
35724651 TAAGACCATGTCTGGGACATGGCATCGGC-CTCGATATG-TGAGAGTCAGTGCAAGACCATGTCT
1 TAAGACCATGTCTGGGACATGGCATCGGCAC-CAATA-GATAAGAGCCAGTGCAAGACCATGTCT
** *
35724714 GGGACATGGCATCGACTTTGATGTATAAGCCAATA
64 GGGACATGGCATCGACTTCAATATATAAGCCAATA
* *
35724749 TAAGACCATGTCTGGGGCATGGCGTCGGCA
1 TAAGACCATGTCTGGGACATGGCATCGGCA
35724779 TCTTACCCTA
Statistics
Matches: 108, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
98 33 0.31
99 2 0.02
100 72 0.67
101 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (98 bp):
TAAGACCATGTCTGGGACATGGCATCGGCACCAATAGATAAGAGCCAGTGCAAGACCATGTCTGG
GACATGGCATCGACTTCAATATATAAGCCAATA
Found at i:35729497 original size:27 final size:27
Alignment explanation
Indices: 35729467--35729670 Score: 282
Period size: 27 Copynumber: 7.6 Consensus size: 27
35729457 CCCTAATTGA
*
35729467 TAAAATGACAATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
35729494 TAAAATGACTATTTTGGCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
35729521 TAAAATGACTATTTTGCCTTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
35729548 TAAAATTACTGTTTTTCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
35729575 TAAAATGACTATTTTGTCATTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
35729602 TAAAATGACTGTTTTGTCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
35729629 TAAAATGACTGTTTCGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
35729656 TAAATTGACTATTTT
1 TAAAATGACTATTTT
35729671 ACCCCATGTG
Statistics
Matches: 156, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:35736367 original size:15 final size:15
Alignment explanation
Indices: 35736347--35736375 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35736337 AATAAGGTGA
35736347 ATTCTACTTTAGATT
1 ATTCTACTTTAGATT
35736362 ATTCTACTTTAGAT
1 ATTCTACTTTAGAT
35736376 ATAGAATTCT
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:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (15 bp):
ATTCTACTTTAGATT
Found at i:35738478 original size:40 final size:39
Alignment explanation
Indices: 35738423--35738630 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 39
35738413 TGAATGATAC
* *
35738423 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
** *
35738463 CCGGGCTAAGACCCGAAGGCATTTGTGAGAGTTGTTATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
*
35738503 CCGGGTTAAGACCCGAAGGCATTTGTG-TGAGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGT-GTTATAT
* * *
35738543 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
35738583 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
35738623 CC-GGCTAA
1 CCGGGCTAA
35738631 ATTCCGAAGA
Statistics
Matches: 143, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 7 0.05
40 133 0.93
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:35738556 original size:80 final size:80
Alignment explanation
Indices: 35738419--35738630 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
35738409 CATTTGAATG
* * * *
35738419 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
*
35738484 TTTGTGAGAGTTGTT
66 TTTGTGAGAGTTGCT
**
35738499 ATTTCCGGGTTAAGACCCGAAGGCATTTGTG-TGAGTGGTTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCT-AGTGGTTATATCCGGGCTAAGACCCGAAGGC
*
35738563 ATTTGTGCGAGTTGCT
65 ATTTGTGAGAGTTGCT
* *
35738579 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAA
35738631 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 7 0.06
80 110 0.93
81 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGAGAGTTGCT
Found at i:35745088 original size:30 final size:30
Alignment explanation
Indices: 35745030--35745165 Score: 95
Period size: 32 Copynumber: 4.5 Consensus size: 30
35745020 AAATCCATGC
* *
35745030 ATATATATTATATATGTATAATCACCCACGT
1 ATATATATTATATATATACAA-CACCCACGT
35745061 ATATATATGTATATATATACAAC-CCCAC-T
1 ATATATAT-TATATATATACAACACCCACGT
* **
35745090 CATATATATATATATATATTACCAACTCCC-CCA
1 -ATATATAT-TATATATA-TA-CAACACCCACGT
*
35745123 ATTATATATTATATATA-AC-ACCCCCTA-GT
1 A-TATATATTATATATATACAACACCC-ACGT
*
35745152 ATATATATTGTATA
1 ATATATATTATATA
35745166 CACAATAAAG
Statistics
Matches: 88, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
28 17 0.19
29 3 0.03
30 22 0.25
31 11 0.12
32 25 0.28
33 10 0.11
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.38
Consensus pattern (30 bp):
ATATATATTATATATATACAACACCCACGT
Found at i:35745096 original size:32 final size:31
Alignment explanation
Indices: 35745060--35745165 Score: 100
Period size: 32 Copynumber: 3.5 Consensus size: 31
35745050 ATCACCCACG
35745060 TATATATATGTATATATATACAACCCCACTCA
1 TATATATATGTATATATATACAACCCC-CTCA
*
35745092 TATATATATATATATAT-TACCAACTCCCC-CA
1 TATATATATGTATATATATA-CAAC-CCCCTCA
35745123 -ATTATATAT-TATATATA-AC-ACCCCCT-A
1 TA-TATATATGTATATATATACAACCCCCTCA
35745150 GTATATATATTGTATA
1 -TATATATA-TGTATA
35745166 CACAATAAAG
Statistics
Matches: 64, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
27 5 0.08
28 8 0.12
29 3 0.05
30 13 0.20
31 11 0.17
32 21 0.33
33 3 0.05
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.38
Consensus pattern (31 bp):
TATATATATGTATATATATACAACCCCCTCA
Found at i:35749499 original size:40 final size:40
Alignment explanation
Indices: 35749444--35749661 Score: 350
Period size: 40 Copynumber: 5.5 Consensus size: 40
35749434 CGGATGATAA
*
35749444 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
35749484 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
35749524 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35749564 TCGGGCTGAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35749604 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
35749644 CC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
35749662 TACTCGGTTT
Statistics
Matches: 168, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 16 0.10
40 152 0.90
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35757532 original size:39 final size:39
Alignment explanation
Indices: 35757400--35757612 Score: 342
Period size: 39 Copynumber: 5.5 Consensus size: 39
35757390 GGATGATAAC
35757400 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
35757438 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
35757477 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35757517 CGGGCTGAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35757556 CCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCTATAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
35757595 CCGGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
35757613 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
38 47 0.28
39 70 0.42
40 48 0.29
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35759703 original size:45 final size:45
Alignment explanation
Indices: 35759639--35759729 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
35759629 GCCAAAAATG
* *
35759639 TGTCATATACATCATGAACTCAGGCCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
* *
35759684 TGTCACATATATCATGAACTCAGACTACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
35759729 T
1 T
35759730 CGCATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:35766124 original size:30 final size:30
Alignment explanation
Indices: 35766073--35766151 Score: 74
Period size: 30 Copynumber: 2.6 Consensus size: 30
35766063 CCTGCATTTG
* *
35766073 ATATGTTCTAATTTTGATTCTGACTAT-GAC
1 ATATGTTCTGATTTAGATTCTGA-TATCGAC
*
35766103 ATATGTTCTGATTCTAG-TTCTGATATCGAG
1 ATATGTTCTGATT-TAGATTCTGATATCGAC
*
35766133 ACATGTTCTGAATTT-GATT
1 ATATGTTCTG-ATTTAGATT
35766152 ATGTTATATG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
29 4 0.10
30 32 0.78
31 5 0.12
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (30 bp):
ATATGTTCTGATTTAGATTCTGATATCGAC
Found at i:35766325 original size:9 final size:10
Alignment explanation
Indices: 35766295--35766328 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
35766285 TGGACTTATT
35766295 CTATTTTGGA
1 CTATTTTGGA
35766305 CTATTTTCGGA
1 CTATTTT-GGA
35766316 CT-TTTTGGA
1 CTATTTTGGA
35766325 CTAT
1 CTAT
35766329 CTCTTTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.23
10 12 0.55
11 5 0.23
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.50
Consensus pattern (10 bp):
CTATTTTGGA
Found at i:35775312 original size:12 final size:11
Alignment explanation
Indices: 35775282--35775316 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
35775272 TTGTGTCCTG
35775282 AACAATTACAA
1 AACAATTACAA
35775293 AACAATTACAA
1 AACAATTACAA
35775304 AACCAATTA-AA
1 AA-CAATTACAA
35775315 AA
1 AA
35775317 GGTCCTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (11 bp):
AACAATTACAA
Found at i:35776287 original size:29 final size:29
Alignment explanation
Indices: 35776236--35776301 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
35776226 ATTCAAAAAT
*
35776236 AAATGTAT-AA-GTATACATAATAATTTA
1 AAATGTATAAAGGTATACATAATAAATTA
* *
35776263 AAATTTATAAAGGTATACATTATAAATTA
1 AAATGTATAAAGGTATACATAATAAATTA
35776292 AAATGTATAA
1 AAATGTATAA
35776302 GTAAATCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 7 0.21
28 2 0.06
29 24 0.73
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (29 bp):
AAATGTATAAAGGTATACATAATAAATTA
Found at i:35787168 original size:96 final size:97
Alignment explanation
Indices: 35787018--35787230 Score: 293
Period size: 96 Copynumber: 2.2 Consensus size: 97
35787008 ATGGCGATAT
* * * *
35787018 GAGAGCCAGTGTAAGACCATGTCGAAGGACATAGCATCGGCATCGATATGTGTCAATTTAAGACC
1 GAGAGCTAGTGTAAGACCATATCGAAGGACATAGCATCGACATCGATATGTGTCAATGTAAGACC
*
35787083 ATGTTTGGGACATGGCATCGGCACCAGTATAC
66 ATGTTTGGGACATGGCATCGGCACCAGTACAC
* * * * * *
35787115 GAGAGCTAATGTAAGACCATATC-TAGGACATGGCATCGACCTCGATATTTGTCAGTGTAAGACC
1 GAGAGCTAGTGTAAGACCATATCGAAGGACATAGCATCGACATCGATATGTGTCAATGTAAGACC
* *
35787179 ATGTTTGGGACATGGCATCGGCACCGGTACAT
66 ATGTTTGGGACATGGCATCGGCACCAGTACAC
*
35787211 GCGAGCTAGTGTAAGACCAT
1 GAGAGCTAGTGTAAGACCAT
35787231 GTCTGGAACA
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
96 81 0.80
97 20 0.20
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (97 bp):
GAGAGCTAGTGTAAGACCATATCGAAGGACATAGCATCGACATCGATATGTGTCAATGTAAGACC
ATGTTTGGGACATGGCATCGGCACCAGTACAC
Found at i:35787230 original size:50 final size:49
Alignment explanation
Indices: 35787014--35787299 Score: 221
Period size: 50 Copynumber: 5.9 Consensus size: 49
35787004 GACCATGGCG
* * * *
35787014 ATATGAGAGCCAGTGTAAGACCATGTC-GAAGGACATAGCATCGGCATCG-
1 ATATGTGAGCTAGTGTAAGACCATGTCTG--GGACATGGCATCGGCACCGT
* * * *
35787063 ATATGTG-TC-AATTTAAGACCATGTTTGGGACATGGCATCGGCACCAGT
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACC-GT
* * * * * *
35787111 ATACGAGAGCTAATGTAAGACCATATCTAGGACATGGCATCGAC-CTCG-
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGT
* * *
35787159 ATATTTG-TC-AGTGTAAGACCATGTTTGGGACATGGCATCGGCACCGGT
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACC-GT
* * * * * * * *
35787207 ACATGCGAGCTAGTGTAAGACCATGTCTGGAACACGACATTGGCATCAT
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGT
* *
35787256 -TATGTGAGCCAGTGTAACACCATGTCTGGGACATGGCATCGGCA
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
35787300 TGAGGCATTG
Statistics
Matches: 183, Mismatches: 43, Indels: 23
0.73 0.17 0.09
Matches are distributed among these distances:
46 45 0.25
47 17 0.09
48 51 0.28
49 11 0.06
50 59 0.32
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (49 bp):
ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGT
Found at i:35787299 original size:98 final size:96
Alignment explanation
Indices: 35787080--35787299 Score: 255
Period size: 96 Copynumber: 2.3 Consensus size: 96
35787070 TCAATTTAAG
*
35787080 ACCATGTTTGGGACATGGCATCGGCACCAGTATACGAGAGCTAATGTAAGACCATATCTAGGACA
1 ACCATGTTTGGGACATGGCATCGGCACCAGTACACGAGAGCTAATGTAAGACCATATCTAGGACA
* * * * * *
35787145 TGGCATCGACCTCGATATTTGTCAGTGTAAG
66 CGACATCGACATCGATATTAGCCAGTGTAAC
* * * * *
35787176 ACCATGTTTGGGACATGGCATCGGCACCGGTACATGCGAGCTAGTGTAAGACCATGTCT-GGAAC
1 ACCATGTTTGGGACATGGCATCGGCACCAGTACACGAGAGCTAATGTAAGACCATATCTAGG-AC
* *
35787240 ACGACATTGGCATC-ATTATGTGAGCCAGTGTAAC
65 ACGACATCGACATCGA-TAT-T-AGCCAGTGTAAC
*
35787274 ACCATGTCTGGGACATGGCATCGGCA
1 ACCATGTTTGGGACATGGCATCGGCA
35787300 TGAGGCATTG
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
95 3 0.03
96 67 0.64
97 1 0.01
98 34 0.32
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (96 bp):
ACCATGTTTGGGACATGGCATCGGCACCAGTACACGAGAGCTAATGTAAGACCATATCTAGGACA
CGACATCGACATCGATATTAGCCAGTGTAAC
Found at i:35789845 original size:22 final size:25
Alignment explanation
Indices: 35789802--35789851 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
35789792 AAGAAAATTT
35789802 AAAATAAAAATAATAACTG-AAATA
1 AAAATAAAAATAATAACTGAAAATA
*
35789826 AAAAT-AAAA-AATTACTGAAAATA
1 AAAATAAAAATAATAACTGAAAATA
35789849 AAA
1 AAA
35789852 TTCGTATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 7 0.29
23 12 0.50
24 5 0.21
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (25 bp):
AAAATAAAAATAATAACTGAAAATA
Found at i:35794668 original size:40 final size:39
Alignment explanation
Indices: 35794624--35794848 Score: 272
Period size: 40 Copynumber: 5.7 Consensus size: 39
35794614 GCCACTAGCT
* *
35794624 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
35794664 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* * *
35794703 CAAATGCCTTCGGGACTTAGCCTGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
35794743 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
35794783 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
35794823 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
35794849 TATCATCCGA
Statistics
Matches: 164, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 39 0.24
40 125 0.76
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:35799201 original size:49 final size:49
Alignment explanation
Indices: 35799141--35799312 Score: 161
Period size: 49 Copynumber: 3.5 Consensus size: 49
35799131 GTTGTGTGTT
* * *
35799141 AGTGTATGACCTGTCTGGGATATGGCATCGACACT-GATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * * *
35799190 AGTGTAAGACCTATCTGGGACACGGCAACGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
** * ** *
35799239 AGTGTAAGACCTGTCTGGGACATGGCATCGAATTTGAT-G-TGCTAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
*
35799286 AGTGTAAGACCATGTCTGGGACTTGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
35799313 GTCGGCTTCT
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
47 17 0.17
48 16 0.16
49 68 0.67
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:35805867 original size:40 final size:40
Alignment explanation
Indices: 35805731--35805920 Score: 238
Period size: 40 Copynumber: 4.8 Consensus size: 40
35805721 CGAATGGTGT
* * * * * *
35805731 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
35805772 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
35805812 -CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
35805851 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
35805891 CCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
35805921 ATCACTATAA
Statistics
Matches: 131, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 37 0.28
40 70 0.53
41 24 0.18
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:35805908 original size:80 final size:80
Alignment explanation
Indices: 35805730--35805962 Score: 254
Period size: 80 Copynumber: 2.9 Consensus size: 80
35805720 TCGAATGGTG
* * * * *
35805730 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATT
*
35805795 TGTGCGAGTTACCAAA
65 CGTGCGAGTTACCAAA
* * * *
35805811 -ACGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTC
*
35805875 GTGCGAGTTACTAAA
66 GTGCGAGTTACCAAA
* * * * * * * *
35805890 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAA-GTCCCGAAGGCATT
*
35805954 CGAGCGAGT
65 CGTGCGAGT
35805963 CGCTATATCG
Statistics
Matches: 127, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 45 0.35
80 82 0.65
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTC
GTGCGAGTTACCAAA
Found at i:35805935 original size:40 final size:39
Alignment explanation
Indices: 35805731--35805962 Score: 209
Period size: 40 Copynumber: 5.8 Consensus size: 39
35805721 CGAATGGTGT
** * *
35805731 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAA
* * *
35805771 TCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 -CCGGGCT-AAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
* * * *
35805811 ACGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
*
35805851 CCGGGTTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACTAAA
* * *
35805890 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
* * *
35805931 CCGGGC-AATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAA-GTCCCGAAGGCAATTGTGCGAGT
35805963 CGCTATATCG
Statistics
Matches: 163, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 38 0.23
40 96 0.59
41 29 0.18
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
Found at i:35805962 original size:120 final size:120
Alignment explanation
Indices: 35805731--35805962 Score: 281
Period size: 120 Copynumber: 1.9 Consensus size: 120
35805721 CGAATGGTGT
* * *
35805731 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* * * * * * *
35805796 GTGCGAGTTACCAAAACGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAACGGGTCAAGTCCCGAAGACAATCGAGCGAGTTACCAAAA
* * *
35805851 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
35805914 TGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAATCGAGCGAGT
65 TGTGCGAATCACCA-AAACGGGTCAA-GTCCCGAAGACAATCGAGCGAGT
35805963 CGCTATATCG
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
118 1 0.01
119 43 0.46
120 50 0.53
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAACGGGTCAAGTCCCGAAGACAATCGAGCGAGTTACCAAAA
Found at i:35814161 original size:40 final size:40
Alignment explanation
Indices: 35814102--35814243 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
35814092 AAATTGAATG
* * *
35814102 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
35814142 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
35814182 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
35814222 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
35814244 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:35814244 original size:40 final size:39
Alignment explanation
Indices: 35814141--35814269 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
35814131 TGCTGGAAAT
* * *
35814141 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
35814181 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
35814221 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
35814261 TATATCCGG
1 TATATCCGG
35814270 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:35824501 original size:40 final size:40
Alignment explanation
Indices: 35824435--35824585 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
35824425 AAATTGAATG
* * *
35824435 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
35824474 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
35824514 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
35824554 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
35824586 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:35824599 original size:40 final size:40
Alignment explanation
Indices: 35824472--35824601 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
35824462 ATGCTGGAAA
* * *
35824472 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
35824512 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
35824552 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
35824592 TTATATCCGG
1 TTATATCCGG
35824602 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:35832547 original size:39 final size:39
Alignment explanation
Indices: 35832466--35832631 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 39
35832456 AAATTGAATG
* *
35832466 ATATCCGGGCTAAG-CCCGAAGACAATTATGC--TGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGG---TT
* *
35832505 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
**
35832544 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AGTGGTT
* * *
35832584 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGGTT
35832624 ATATCCGG
1 ATATCCGG
35832632 TTATATTCCG
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.40
40 56 0.53
41 2 0.02
42 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
Found at i:35834897 original size:48 final size:48
Alignment explanation
Indices: 35834823--35834950 Score: 141
Period size: 48 Copynumber: 2.7 Consensus size: 48
35834813 CGATGTCGAT
* * * *
35834823 GCCATATCCCAAATATGGTCTGACACTGGCTCAC-ACGTCGAGGGTGAC
1 GCCATGTCCCAAATATGGTCTTACACTGGCTCACGAC-TCAAGGCTGAC
* * * * * *
35834871 GCCATGTCCCAGATATGGTCTTACACTAGCTCTCGTCTCAATGCTGAT
1 GCCATGTCCCAAATATGGTCTTACACTGGCTCACGACTCAAGGCTGAC
*
35834919 GCCATGTCCCAAACATGGTCTTACACTGGCTC
1 GCCATGTCCCAAATATGGTCTTACACTGGCTC
35834951 TCAAATGTGG
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
48 65 0.98
49 1 0.02
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (48 bp):
GCCATGTCCCAAATATGGTCTTACACTGGCTCACGACTCAAGGCTGAC
Found at i:35834951 original size:48 final size:47
Alignment explanation
Indices: 35834820--35835065 Score: 206
Period size: 47 Copynumber: 5.2 Consensus size: 47
35834810 TTTCGATGTC
* * * * ** *
35834820 GATGCCATATCCCAAATATGGTCTGACACTGGCTCACACGTCGAGGGT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAAATC-AGGCT
* * * * *** *
35834868 GACGCCATGTCCCAGATATGGTCTTACACTAGCTCTCGTCTCAATGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAAATC-AGGCT
** *
35834916 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAAATGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAAATCAGGCT
* * * **
35834963 GATACCATGTCCCAGACATGGTCTTACACAGGCTCTCAAATGTGGGC-
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAAAT-CAGGCT
* * ** *
35835010 GATGCCATGTCCTAAACATGGTCTTACACAGGCTCTCAAATGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAAATCAGGCT
35835057 GATGCCATG
1 GATGCCATG
35835066 CCACCAACCT
Statistics
Matches: 163, Mismatches: 33, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
46 3 0.02
47 87 0.53
48 73 0.45
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (47 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAAATCAGGCT
Found at i:35834986 original size:47 final size:47
Alignment explanation
Indices: 35834916--35835065 Score: 255
Period size: 47 Copynumber: 3.2 Consensus size: 47
35834906 TCTCAATGCT
*
35834916 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAAATGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACAGGCTCTCAAATGTGGCC
* * *
35834963 GATACCATGTCCCAGACATGGTCTTACACAGGCTCTCAAATGTGGGC
1 GATGCCATGTCCCAAACATGGTCTTACACAGGCTCTCAAATGTGGCC
*
35835010 GATGCCATGTCCTAAACATGGTCTTACACAGGCTCTCAAATGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACAGGCTCTCAAATGTGGCC
35835057 GATGCCATG
1 GATGCCATG
35835066 CCACCAACCT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 95 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (47 bp):
GATGCCATGTCCCAAACATGGTCTTACACAGGCTCTCAAATGTGGCC
Found at i:35836592 original size:15 final size:15
Alignment explanation
Indices: 35836557--35836601 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
35836547 CAAAGATAAC
*
35836557 AAGAAAACCAAG-TA
1 AAGAAATCCAAGATA
35836571 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
35836586 GAGAAATCCCAAGATA
1 AAGAAAT-CCAAGATA
35836602 CGATACTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 11 0.41
15 8 0.30
16 8 0.30
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:35839180 original size:30 final size:30
Alignment explanation
Indices: 35839146--35839218 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
35839136 CAAGCTATTT
* *
35839146 TCTTGAGTCACAGTCACTATATTATTTATA
1 TCTTGAGCCACAGTCACTAAATTATTTATA
35839176 TCTTGAGCCACAGTCACTAAATTATTTATA
1 TCTTGAGCCACAGTCACTAAATTATTTATA
*
35839206 TCTTGAGCTACAG
1 TCTTGAGCCACAG
35839219 AACTCCAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (30 bp):
TCTTGAGCCACAGTCACTAAATTATTTATA
Found at i:35840105 original size:48 final size:48
Alignment explanation
Indices: 35840049--35840428 Score: 308
Period size: 48 Copynumber: 8.0 Consensus size: 48
35840039 CATTTTGATT
* *
35840049 CCGATGCCATATCCCAGATATGGTCTTACACTAGCTCTCATAATAATG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATAATG
* * ** * *
35840097 CCGATGCCATATCCCAGATATGGTCTTACACTGGCTCACA-GGTCGAGG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-AATG
* * * * * * * *
35840145 CCGGTGCCATGTCTCAGACATGGGCTTACACTAGCTCTCGT-CTCACTG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-AATG
* * * *
35840193 CCGATGCCATGTCCCAAACAAGGTCTTACACTGGCTCTCA-AAT-GTGG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATAAT-G
* *
35840240 CCGATGCCATATCCTAGACATGGTCTTACACTGGCTCTCA-AAT-GTGG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATAAT-G
* * * * *
35840287 CCGATGCCA-AGTCCCAAACATGGTCTTACACTAGCACACAT-ATCAAAG
1 CCGATGCCATA-TCCCAGACATGGTCTTACACTGGCTCTCATAAT-AATG
** * * * * ** *
35840335 ATGATGCCATGTTCCAAACATGGTCTTACACTGCCTAACAAAATAATG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATAATG
* *
35840383 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAA
1 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATAA
35840429 CAGTGCCTCG
Statistics
Matches: 267, Mismatches: 55, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
46 2 0.01
47 80 0.30
48 183 0.69
49 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (48 bp):
CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATAATG
Found at i:35840423 original size:96 final size:94
Alignment explanation
Indices: 35840049--35840424 Score: 373
Period size: 96 Copynumber: 3.9 Consensus size: 94
35840039 CATTTTGATT
* * * *
35840049 CCGATGCCATATCCCAGATATGGTCTTACACTAGCTCTCATAATAATGCCGATGCCATATCCCAG
1 CCGATGCCATGT-CCAGACATGGTCTTACACTAGCTCTCA-AATAATGCCGATGCCATGTCCCAA
* **
35840114 ATATGGTCTTACACTGGCTCACAGGTCGAGG
64 ACATGGTCTTACACTGGCTCACATATCGAGG
* * *** *
35840145 CCGGTGCCATGTCTCAGACATGGGCTTACACTAGCTCTCGTCTCACTGCCGATGCCATGTCCCAA
1 CCGATGCCATGTC-CAGACATGGTCTTACACTAGCTCTCAAAT-AATGCCGATGCCATGTCCCAA
* * * *
35840210 ACAAGGTCTTACACTGGCTCTCAAAT-GTGG
64 ACATGGTCTTACACTGGCTCACATATCGAGG
* * * *
35840240 CCGATGCCATATCCTAGACATGGTCTTACACTGGCTCTCAAAT-GTGGCCGATGCCAAGTCCCAA
1 CCGATGCCATGTCC-AGACATGGTCTTACACTAGCTCTCAAATAAT-GCCGATGCCATGTCCCAA
* * * *
35840304 ACATGGTCTTACACTAGCACACATATCAAAG
64 ACATGGTCTTACACTGGCTCACATATCGAGG
** *
35840335 ATGATGCCATGTTCCAAACATGGTCTTACACT-GC-CTAACAAAATAATGCCGATGCCATGTCCC
1 CCGATGCCATG-TCCAGACATGGTCTTACACTAGCTCT--C-AAATAATGCCGATGCCATGTCCC
*
35840398 AGACATGGTCTTACACTGGCTCACATA
62 AAACATGGTCTTACACTGGCTCACATA
35840425 ATAACAGTGC
Statistics
Matches: 228, Mismatches: 42, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
93 3 0.01
94 41 0.18
95 65 0.29
96 118 0.52
97 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (94 bp):
CCGATGCCATGTCCAGACATGGTCTTACACTAGCTCTCAAATAATGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTCACATATCGAGG
Found at i:35846713 original size:21 final size:21
Alignment explanation
Indices: 35846689--35846733 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
35846679 CTGTGTTGTG
35846689 ACACCCATACCTTATGTCGCA
1 ACACCCATACCTTATGTCGCA
35846710 ACACCCATACCTTATGTCGCA
1 ACACCCATACCTTATGTCGCA
35846731 ACA
1 ACA
35846734 TCGGTGTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.38, G:0.09, T:0.22
Consensus pattern (21 bp):
ACACCCATACCTTATGTCGCA
Found at i:35848692 original size:20 final size:20
Alignment explanation
Indices: 35848667--35848710 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
35848657 GACTGTATAA
*
35848667 TTTTAATTTGGATGATTTAT
1 TTTTAATTTGCATGATTTAT
* *
35848687 TTTTAATTTGCTTTATTTAT
1 TTTTAATTTGCATGATTTAT
35848707 TTTT
1 TTTT
35848711 TATTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.68
Consensus pattern (20 bp):
TTTTAATTTGCATGATTTAT
Found at i:35854970 original size:27 final size:27
Alignment explanation
Indices: 35854936--35854989 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
35854926 CACATTCCTA
35854936 TAGCCATTTAAAACCTTTAACTGATAG
1 TAGCCATTTAAAACCTTTAACTGATAG
35854963 TAGCCATTTAAAACCTTTAACTGATAG
1 TAGCCATTTAAAACCTTTAACTGATAG
35854990 AAACTAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (27 bp):
TAGCCATTTAAAACCTTTAACTGATAG
Found at i:35858027 original size:40 final size:40
Alignment explanation
Indices: 35857968--35858175 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 40
35857958 CAATTGAATG
* * * *
35857968 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * ** *
35858008 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
35858048 ACATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
35858088 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
35858128 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
35858168 ATATCCGG
1 ATATCCGG
35858176 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:35858111 original size:80 final size:80
Alignment explanation
Indices: 35857969--35858175 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
35857959 AATTGAATGA
* * ** * ** * *
35857969 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
35858034 TTGTGCTAG-CG-AC
66 TTGTGCAAGTCGTAC
* * *
35858047 TACATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGC
* *
35858112 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
35858129 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
35858176 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
78 1 0.01
80 102 0.95
81 2 0.02
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:35860303 original size:20 final size:20
Alignment explanation
Indices: 35860278--35860315 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35860268 GTTTATTTGC
*
35860278 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
35860298 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
35860316 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:35861966 original size:28 final size:28
Alignment explanation
Indices: 35861934--35862002 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
35861924 GCGTAGATCA
35861934 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
35861962 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
35861990 CGATA-TACCCCTA
1 CGAAATTACCCCTA
35862003 GGGTTTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:35869714 original size:25 final size:25
Alignment explanation
Indices: 35869686--35869755 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
35869676 CTCTTTTAAT
35869686 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* *
35869711 AACTGTGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35869736 TACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
35869756 TGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:35872363 original size:14 final size:14
Alignment explanation
Indices: 35872344--35872373 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
35872334 TAAAGTCGAA
35872344 TGACCCTCTCTGAC
1 TGACCCTCTCTGAC
35872358 TGACCCTCTCTGAC
1 TGACCCTCTCTGAC
35872372 TG
1 TG
35872374 CCCATCCGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.40, G:0.17, T:0.30
Consensus pattern (14 bp):
TGACCCTCTCTGAC
Found at i:35877562 original size:25 final size:25
Alignment explanation
Indices: 35877534--35877605 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
35877524 CTCTTTTAAT
35877534 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
35877559 AACTGGGGCACAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
35877584 AACTGGGGCAAAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
35877606 CACTTCCTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:35877678 original size:21 final size:21
Alignment explanation
Indices: 35877651--35877711 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
35877641 TATAATGAGT
35877651 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* *
35877672 ATGTCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
35877693 ATATCA-GGTCATATCATGT
1 ATATCATAG-CATATCATGT
35877712 ATATCAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:35882488 original size:63 final size:63
Alignment explanation
Indices: 35882370--35882493 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
35882360 GAATGATGGG
***
35882370 GCATGTTGTCGTGCTTGTGTAAAATAAACTGGTGTTGAATATGTTGATGAAGGGAATGATTAT
1 GCATGTTGTCGTGCTTGTGTAAAATAAACTGGAACTGAATATGTTGATGAAGGGAATGATTAT
* *
35882433 GCATGTTGTGGTGGTTGTGTAAAATAAACTGGAACT-AA-ATG-TGATGATACGGGGAATGATT
1 GCATGTTGTCGTGCTTGTGTAAAATAAACTGGAACTGAATATGTTGATGA-A--GGGAATGATT
35882494 GTGTGTGCTA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
60 6 0.11
61 4 0.08
62 2 0.04
63 41 0.77
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.34
Consensus pattern (63 bp):
GCATGTTGTCGTGCTTGTGTAAAATAAACTGGAACTGAATATGTTGATGAAGGGAATGATTAT
Found at i:35886475 original size:13 final size:13
Alignment explanation
Indices: 35886457--35886495 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
35886447 GCTCGACAGG
35886457 GACACGCCCGTGT
1 GACACGCCCGTGT
*
35886470 GACACGCTCGTGT
1 GACACGCCCGTGT
*
35886483 GACATGCCCGTGT
1 GACACGCCCGTGT
35886496 ACAATTACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.21
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:35898678 original size:3 final size:3
Alignment explanation
Indices: 35898670--35898716 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
35898660 CTTAAAAGGA
35898670 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
35898717 GGGGTGGTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:35902417 original size:16 final size:15
Alignment explanation
Indices: 35902391--35902425 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
35902381 TGATGTGAAT
35902391 AATATAAAATATTAA
1 AATATAAAATATTAA
*
35902406 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
35902422 AATA
1 AATA
35902426 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:35902620 original size:2 final size:2
Alignment explanation
Indices: 35902613--35902683 Score: 51
Period size: 2 Copynumber: 36.5 Consensus size: 2
35902603 ATAACATGTA
* * *
35902613 AT AT AT AT AT AT AT AT AT AT AT AA AT A- AT AT AGT AT -T AA AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* *
35902654 AT AT AT AC AT A- AA AT AGT AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A
35902684 CGTAATATAG
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
1 4 0.07
2 47 0.85
3 4 0.07
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (2 bp):
AT
Found at i:35902643 original size:25 final size:26
Alignment explanation
Indices: 35902615--35902683 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 26
35902605 AACATGTAAT
35902615 ATATA-TATATATATATATATAAATA
1 ATATAGTATATATATATATATAAATA
* * *
35902640 ATATAGTAT-TAAAGATATATACATA
1 ATATAGTATATATATATATATAAATA
*
35902665 AAATAGTATA-ATATATATA
1 ATATAGTATATATATATATA
35902684 CGTAATATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 33 0.92
26 3 0.08
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (26 bp):
ATATAGTATATATATATATATAAATA
Found at i:35902736 original size:24 final size:23
Alignment explanation
Indices: 35902709--35902760 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
35902699 AGAATATACC
*
35902709 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
35902733 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
35902756 TAATA
1 TAATA
35902761 ACAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:35903323 original size:30 final size:30
Alignment explanation
Indices: 35903248--35903331 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 30
35903238 TGGGTGGTGG
* * * *
35903248 AGTGTGGCTAGTGGAATAGGTAGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTAGAGCA
*
35903278 AGTGTAGCTAGTGGAGTTGGTGGTAGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTAGAGCA
35903308 AGTGTGGCTAGTGGAGTTGGTGGT
1 AGTGTGGCTAGTGGAGTTGGTGGT
35903332 GGCAAAGGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.21, C:0.06, G:0.45, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTGGTAGAGCA
Found at i:35907170 original size:2 final size:2
Alignment explanation
Indices: 35907163--35907187 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35907153 GAATGCCAAG
35907163 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
35907188 TACGTCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35908306 original size:3 final size:3
Alignment explanation
Indices: 35908292--35908321 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
35908282 ACTTTTGTAC
*
35908292 TCA TCA TAA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
35908322 CCATGGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:35909966 original size:14 final size:14
Alignment explanation
Indices: 35909947--35909975 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35909937 CAATATTTTA
35909947 TTTTTATTTAAATT
1 TTTTTATTTAAATT
35909961 TTTTTATTTAAATT
1 TTTTTATTTAAATT
35909975 T
1 T
35909976 AATTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTATTTAAATT
Found at i:35910060 original size:18 final size:19
Alignment explanation
Indices: 35910039--35910078 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
35910029 TAATATCGAT
35910039 AATTT-AAAATGTAA-TTAA
1 AATTTAAAAAT-TAATTTAA
35910057 AATTTAAAAATTAATTTAA
1 AATTTAAAAATTAATTTAA
35910076 AAT
1 AAT
35910079 AAAAGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (19 bp):
AATTTAAAAATTAATTTAA
Found at i:35911570 original size:17 final size:16
Alignment explanation
Indices: 35911530--35911571 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
35911520 TAGGTAAAAT
35911530 AAAATATTTTACGTTA
1 AAAATATTTTACGTTA
**
35911546 AAAATATTTTATTTTA
1 AAAATATTTTACGTTA
35911562 AAAATTATTT
1 AAAA-TATTT
35911572 AATAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
AAAATATTTTACGTTA
Found at i:35914691 original size:35 final size:35
Alignment explanation
Indices: 35914651--35914722 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
35914641 TCATGGGTAA
35914651 AGAAAAATTCACTAAAACTGGCAAAAAACAAAAGG
1 AGAAAAATTCACTAAAACTGGCAAAAAACAAAAGG
*
35914686 AGAAAAATTCACTAAAACTGGCAAAAAACCAAAGG
1 AGAAAAATTCACTAAAACTGGCAAAAAACAAAAGG
35914721 AG
1 AG
35914723 GGTACAAGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.11
Consensus pattern (35 bp):
AGAAAAATTCACTAAAACTGGCAAAAAACAAAAGG
Found at i:35916439 original size:17 final size:18
Alignment explanation
Indices: 35916395--35916439 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
35916385 AAAACCTAAT
*
35916395 AAATG-TAAATGTTCGAC
1 AAATGATAAATGCTCGAC
*
35916412 AAATTAT-AATGCTCGAC
1 AAATGATAAATGCTCGAC
35916429 -AATGATAAATG
1 AAATGATAAATG
35916440 ATAAAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.22
17 17 0.74
18 1 0.04
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (18 bp):
AAATGATAAATGCTCGAC
Found at i:35923561 original size:38 final size:39
Alignment explanation
Indices: 35923378--35923685 Score: 505
Period size: 39 Copynumber: 8.0 Consensus size: 39
35923368 AAGACACTGA
35923378 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
35923417 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
35923456 AAATATATCCGGGCTAAAATCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
35923495 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
35923534 AAATGTATCC-GACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
35923572 AAATGTATCC-GGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
35923610 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTTGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
35923649 AAATGTATCCGGGTTAAAGT-CCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
35923686 ATAATATAAT
Statistics
Matches: 256, Mismatches: 12, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
38 89 0.35
39 167 0.65
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:35928576 original size:39 final size:39
Alignment explanation
Indices: 35928522--35928793 Score: 454
Period size: 39 Copynumber: 7.0 Consensus size: 39
35928512 AAGACACTGA
35928522 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
35928561 AAATGTATCCGGGCTAAAGTCCAGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
35928600 AAATATATTCGGGCTAAAGTCCCGCAGGCTTCATGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
35928639 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
35928678 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
35928717 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
35928756 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
35928794 ATAATATAAT
Statistics
Matches: 217, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 217 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:35931342 original size:14 final size:14
Alignment explanation
Indices: 35931323--35931350 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35931313 ATGTATCTGA
35931323 CTGTATATGAAATT
1 CTGTATATGAAATT
35931337 CTGTATATGAAATT
1 CTGTATATGAAATT
35931351 TTGTGTTATG
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:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
CTGTATATGAAATT
Found at i:35936798 original size:20 final size:20
Alignment explanation
Indices: 35936773--35936824 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
35936763 CGAGTAAGGG
*
35936773 ACACGGGTGTGTCCCTAAGC
1 ACACGGGCGTGTCCCTAAGC
35936793 ACACGGGCGTGTCCCTAAGC
1 ACACGGGCGTGTCCCTAAGC
35936813 ACACGGGCGTGT
1 ACACGGGCGTGT
35936825 GCTTTTCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.31, G:0.33, T:0.17
Consensus pattern (20 bp):
ACACGGGCGTGTCCCTAAGC
Found at i:35942997 original size:2 final size:2
Alignment explanation
Indices: 35942990--35943020 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35942980 TAAGAAATTA
35942990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35943021 GGTATGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35949326 original size:22 final size:21
Alignment explanation
Indices: 35949290--35949335 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
35949280 AATTTAAACT
35949290 AAAAATGTATCAAACTTAATATA
1 AAAAATGTATCAAAC-T-ATATA
*
35949313 AAAAATTTAT-AAACTATATA
1 AAAAATGTATCAAACTATATA
35949333 AAA
1 AAA
35949336 GAAATTAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 1 0.05
22 4 0.18
23 9 0.41
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAAATGTATCAAACTATATA
Found at i:35951029 original size:26 final size:26
Alignment explanation
Indices: 35950992--35951075 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
35950982 TGATACAAAT
*
35950992 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
35951018 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
35951044 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
35951070 TGATAA
1 TGATAA
35951076 GAATATCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:35953110 original size:136 final size:137
Alignment explanation
Indices: 35952864--35953149 Score: 529
Period size: 136 Copynumber: 2.1 Consensus size: 137
35952854 GAGTAGTCTC
35952864 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
35952929 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
35952994 ACTGTTA
131 ACTGTTA
*
35953001 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
35953065 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
35953130 ACTGTTA
131 ACTGTTA
**
35953137 CCTGAATGGGCTT
1 CCCAAATGGGCTT
35953150 AGGCCCAATG
Statistics
Matches: 145, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
136 125 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:35954541 original size:8 final size:9
Alignment explanation
Indices: 35954528--35954578 Score: 77
Period size: 9 Copynumber: 5.8 Consensus size: 9
35954518 TTCTTATATT
*
35954528 TTTTTTTAT
1 TTTTTTTAC
35954537 TTTTTTTAC
1 TTTTTTTAC
35954546 TTTTTTTAC
1 TTTTTTTAC
*
35954555 TTTTTTAAC
1 TTTTTTTAC
35954564 -TTTTTTAC
1 TTTTTTTAC
35954572 TTTTTTT
1 TTTTTTT
35954579 CTTATATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
8 7 0.18
9 31 0.82
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:35954567 original size:26 final size:26
Alignment explanation
Indices: 35954529--35954578 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
35954519 TCTTATATTT
**
35954529 TTTTTTATTTTTTTTACTTTTTTTAC
1 TTTTTTAACTTTTTTACTTTTTTTAC
35954555 TTTTTTAACTTTTTTACTTTTTTT
1 TTTTTTAACTTTTTTACTTTTTTT
35954579 CTTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTTTAACTTTTTTACTTTTTTTAC
Found at i:35954663 original size:36 final size:36
Alignment explanation
Indices: 35954594--35954667 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
35954584 ATTTTGTCTC
*
35954594 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
35954631 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
35954667 T
1 T
35954668 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:35954672 original size:18 final size:17
Alignment explanation
Indices: 35954621--35954668 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
35954611 TTTTTTAAGT
*
35954621 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
35954639 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
35954657 TTTATATTATTA
1 TTTATATTATTA
35954669 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:35954681 original size:23 final size:22
Alignment explanation
Indices: 35954655--35954745 Score: 64
Period size: 23 Copynumber: 4.1 Consensus size: 22
35954645 TTACTTATTT
*
35954655 AATTTATATTATTAATTTTAAAA
1 AATTTATAATATT-ATTTTAAAA
*
35954678 AATTTGTAATA-TATATTTAAAA
1 AATTTATAATATTAT-TTTAAAA
**
35954700 TGTTTTATAATATT-TTTT--AA
1 -AATTTATAATATTATTTTAAAA
* *
35954720 AATTTTTAATTATTATTTTTAAA
1 AATTTATAA-TATTATTTTAAAA
35954743 AAT
1 AAT
35954746 ATTTTTTAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
19 6 0.11
20 6 0.11
21 6 0.11
22 11 0.21
23 23 0.43
24 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTTATAATATTATTTTAAAA
Found at i:35954712 original size:21 final size:21
Alignment explanation
Indices: 35954657--35954737 Score: 65
Period size: 23 Copynumber: 3.7 Consensus size: 21
35954647 ACTTATTTAA
* **
35954657 TTTATATTATTAATTTTAAAAAA
1 TTTATAATATT-A-TTTAAAATT
*
35954680 TTTGTAATATATATTTAAAATGT
1 TTTATAATAT-TATTTAAAAT-T
*
35954703 TTTATAATATTTTTTAAAATT
1 TTTATAATATTATTTAAAATT
*
35954724 TTTA-ATTATTATTT
1 TTTATAATATTATTT
35954738 TTAAAAATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
20 8 0.17
21 5 0.10
22 16 0.33
23 18 0.38
24 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTATAATATTATTTAAAATT
Found at i:35954718 original size:22 final size:23
Alignment explanation
Indices: 35954684--35954750 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
35954674 AAAAAATTTG
*
35954684 TAATATATATTTAAAATGTTTT-A-
1 TAATAT-TTTTTAAAAT-TTTTAAT
35954707 TAATATTTTTTAAAATTTTTAAT
1 TAATATTTTTTAAAATTTTTAAT
* *
35954730 TATTATTTTTAAAAATATTTT
1 TAATATTTTTTAAAAT-TTTT
35954751 TTAACTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 4 0.11
22 10 0.26
23 20 0.53
24 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
TAATATTTTTTAAAATTTTTAAT
Found at i:35954843 original size:37 final size:37
Alignment explanation
Indices: 35954763--35954844 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
35954753 AACTTTATAT
* * *
35954763 ATATTTGTGAAATTAATTATTTATAAATTTTAAAAAT
1 ATATTTTTCAAATTAATTATTTATAAATTTTAAAAAA
* *
35954800 GTATTTTTCAAATTAATTTTTTA-AAATTTTAAAAAA
1 ATATTTTTCAAATTAATTATTTATAAATTTTAAAAAA
35954836 ATAATTTTT
1 AT-ATTTTT
35954845 TTTTTTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 13 0.34
37 25 0.66
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTTTTCAAATTAATTATTTATAAATTTTAAAAAA
Found at i:35954894 original size:9 final size:9
Alignment explanation
Indices: 35954878--35954911 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
35954868 TAATTTTTTC
35954878 TTATTTTAT
1 TTATTTTAT
35954887 TT-TGTTTAT
1 TTAT-TTTAT
35954896 TTATTTTAT
1 TTATTTTAT
35954905 TTATTTT
1 TTATTTT
35954912 TATTATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:35954917 original size:18 final size:17
Alignment explanation
Indices: 35954871--35954917 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
35954861 TGAAGTCTAA
*
35954871 TTTTTTCTTATTTTATT
1 TTTTTTATTATTTTATT
*
35954888 TTGTTTATTTATTTTATT
1 TTTTTTA-TTATTTTATT
35954906 TATTTTTATTAT
1 T-TTTTTATTAT
35954918 ACATTTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 5 0.20
18 15 0.60
19 5 0.20
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTTTATTATTTTATT
Found at i:35955125 original size:13 final size:12
Alignment explanation
Indices: 35955101--35955157 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 12
35955091 AGATTTTATA
35955101 ATTTTTTT-TTT
1 ATTTTTTTATTT
35955112 ATTTTTTTAGTTT
1 ATTTTTTTA-TTT
*
35955125 ATTTAATTTATTT
1 ATTT-TTTTATTT
*
35955138 ATTTCTTATTATTA
1 ATTT-TT-TTATTT
35955152 ATTTTT
1 ATTTTT
35955158 AAAAGTTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
11 8 0.21
13 17 0.45
14 13 0.34
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (12 bp):
ATTTTTTTATTT
Found at i:35955283 original size:21 final size:23
Alignment explanation
Indices: 35955259--35955301 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
35955249 TATATTTCTC
35955259 AAAT-TAATTTTTGAAA-ATTAT
1 AAATATAATTTTTGAAATATTAT
* *
35955280 AAATATTATTTTTTAAATATTA
1 AAATATAATTTTTGAAATATTA
35955302 ACCATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
AAATATAATTTTTGAAATATTAT
Found at i:35955512 original size:10 final size:9
Alignment explanation
Indices: 35955500--35955588 Score: 63
Period size: 10 Copynumber: 9.4 Consensus size: 9
35955490 TAAATTTAAA
35955500 AAAATATTT
1 AAAATATTT
35955509 AAAATCATTT
1 AAAAT-ATTT
*
35955519 AAAATATTAA
1 AAAATATT-T
35955529 AAAATATTT
1 AAAATATTT
*
35955538 TAAATCATTT
1 AAAAT-ATTT
* *
35955548 TAAATGTTTT
1 AAAAT-ATTT
* *
35955558 ATAATATTA
1 AAAATATTT
35955567 AAAATATATT
1 AAAATAT-TT
*
35955577 -TAATATTT
1 AAAATATTT
35955585 AAAA
1 AAAA
35955589 AATAATTTGA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
8 2 0.03
9 27 0.44
10 33 0.53
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (9 bp):
AAAATATTT
Found at i:35955522 original size:19 final size:18
Alignment explanation
Indices: 35955500--35955588 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 18
35955490 TAAATTTAAA
35955500 AAAATATTTAAAATCATTT
1 AAAATATTTAAAAT-ATTT
*
35955519 AAAATATTAAAAAATATTT
1 AAAATATT-TAAAATATTT
* * *
35955538 TAAATCATTTTAAATGTTTT
1 AAAAT-ATTTAAAAT-ATTT
* *
35955558 ATAATATTAAAAATATATT
1 AAAATATTTAAAATAT-TT
*
35955577 -TAATATTTAAAA
1 AAAATATTTAAAA
35955589 AATAATTTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 12 0.22
19 29 0.53
20 14 0.25
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (18 bp):
AAAATATTTAAAATATTT
Found at i:35955523 original size:29 final size:29
Alignment explanation
Indices: 35955498--35955602 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
35955488 TGTAAATTTA
35955498 AAAAAATATTTAAAATCATTTAAAATATT
1 AAAAAATATTTAAAATCATTTAAAATATT
* * *
35955527 AAAAAATATTTTAAATCATTTTAAATGTT
1 AAAAAATATTTAAAATCATTTAAAATATT
** * * * *
35955556 TTATAATATTAAAAATATATTTAATAT-TT
1 AAAAAATATTTAAAAT-CATTTAAAATATT
35955585 AAAAAATAATTTGAAAAT
1 AAAAAAT-ATTT-AAAAT
35955603 ATATTTTTAA
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
29 43 0.74
30 10 0.17
31 5 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (29 bp):
AAAAAATATTTAAAATCATTTAAAATATT
Found at i:35955605 original size:31 final size:34
Alignment explanation
Indices: 35955558--35955646 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 34
35955548 TAAATGTTTT
35955558 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
35955590 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTATAAAA
*
35955624 A-ATATATTATAAAACAT-TTTTAA
1 ATA-ATATTA-AAAATATATTTTAA
35955647 AAAATACATT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
31 10 0.21
32 5 0.10
33 12 0.25
34 13 0.27
35 2 0.04
36 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:35955637 original size:13 final size:13
Alignment explanation
Indices: 35955611--35955652 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
35955601 ATATATTTTT
35955611 AATATTTATAAAA
1 AATATTTATAAAA
35955624 AATATATTATAAAA
1 AATAT-TTATAAAA
*
35955638 CAT-TTT-TAAAA
1 AATATTTATAAAA
35955649 AATA
1 AATA
35955653 CATTTCAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATTTATAAAA
Found at i:35959130 original size:30 final size:30
Alignment explanation
Indices: 35959110--35959216 Score: 178
Period size: 30 Copynumber: 3.6 Consensus size: 30
35959100 ACCGTCTATA
35959110 TCCGGGTGATATGAACTCGAACCACCCATG
1 TCCGGGTGATATGAACTCGAACCACCCATG
* *
35959140 TCCGGATGATATGAACTCGAATCACCCATG
1 TCCGGGTGATATGAACTCGAACCACCCATG
*
35959170 TCCGGGTGATATGAACTCGAACCACCTATG
1 TCCGGGTGATATGAACTCGAACCACCCATG
*
35959200 TCCGGGTTATATGAACT
1 TCCGGGTGATATGAACT
35959217 GCTCTGGGAC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 71 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (30 bp):
TCCGGGTGATATGAACTCGAACCACCCATG
Found at i:35962373 original size:21 final size:20
Alignment explanation
Indices: 35962345--35962387 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
35962335 TTAAAAAAAG
35962345 AATTTAAAAATAATATT-TAA
1 AATTTAAAAAT-ATATTATAA
35962365 AATTGTAAAAATATATTATAA
1 AATT-TAAAAATATATTATAA
35962386 AA
1 AA
35962388 CATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AATTTAAAAATATATTATAA
Found at i:35962405 original size:23 final size:22
Alignment explanation
Indices: 35962363--35962419 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
35962353 AATAATATTT
* * *
35962363 AAAATTGTAAAAATATATTATA
1 AAAATTTTAAAAATACATTACA
*
35962385 AAACATTTTAAATATACATTACA
1 AAA-ATTTTAAAAATACATTACA
*
35962408 AAATTTTTAAAA
1 AAAATTTTAAAA
35962420 TTAATAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAATTTTAAAAATACATTACA
Found at i:35962542 original size:26 final size:26
Alignment explanation
Indices: 35962513--35962583 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
35962503 TTTTAAAAAA
*
35962513 TATTTAAAATATTATATTTCTTATAT-
1 TATTTAAAA-ATTATATTTCTTAAATG
* *
35962539 TATTAAAAAATTATAATTTTTTAAATG
1 TATTTAAAAATTAT-ATTTCTTAAATG
*
35962566 TATTTAAAAATTGTATTT
1 TATTTAAAAATTATATTT
35962584 AAAATTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 5 0.13
26 21 0.55
27 12 0.32
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (26 bp):
TATTTAAAAATTATATTTCTTAAATG
Found at i:35962569 original size:27 final size:25
Alignment explanation
Indices: 35962516--35962598 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
35962506 TAAAAAATAT
* *
35962516 TTAAAATATTATATTTCTTATATTA
1 TTAAAAAATTATATTTCTTAAATTA
*
35962541 TTAAAAAATTATAATTTTTTAAATGTA
1 TTAAAAAATTAT-ATTTCTTAAAT-TA
* * *
35962568 TTTAAAAATTGTA-TT-TAAAATT-
1 TTAAAAAATTATATTTCTTAAATTA
35962590 TTAAAAAAT
1 TTAAAAAAT
35962599 AATCTCAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
22 8 0.16
23 1 0.02
24 5 0.10
25 13 0.27
26 10 0.20
27 12 0.24
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (25 bp):
TTAAAAAATTATATTTCTTAAATTA
Found at i:35962761 original size:27 final size:27
Alignment explanation
Indices: 35962730--35962795 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
35962720 AAGAAAAAAA
35962730 TATATTTAATATTTTAAAA-TAATATT
1 TATATTTAATATTTTAAAATTAATATT
* * *
35962756 TA-ATATATATTTTTTAAAATTTATATT
1 TATATTTA-ATATTTTAAAATTAATATT
35962783 TATATTTAA-ATTT
1 TATATTTAATATTT
35962796 ATTAATAGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 4 0.12
26 15 0.47
27 9 0.28
28 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TATATTTAATATTTTAAAATTAATATT
Found at i:35962793 original size:18 final size:18
Alignment explanation
Indices: 35962751--35962797 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
35962741 TTTTAAAATA
*
35962751 ATATTT-AATATATATTT
1 ATATTTAAATTTATATTT
*
35962768 -T-TTAAAATTTATATTT
1 ATATTTAAATTTATATTT
35962784 ATATTTAAATTTAT
1 ATATTTAAATTTAT
35962798 TAATAGTCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 1 0.04
18 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTAAATTTATATTT
Found at i:35963035 original size:24 final size:24
Alignment explanation
Indices: 35962953--35963040 Score: 65
Period size: 24 Copynumber: 3.6 Consensus size: 24
35962943 TTAAACATAC
*
35962953 ATTTC-AAATAT-TATAAAACTAATA
1 ATTTCAAAATATATA-AAAAAT-ATA
* *
35962977 ATTTCAAACTAATTTAAAAAATATA
1 ATTTCAAAAT-ATATAAAAAATATA
* * *
35963002 TTTTTAAAATTTATAAAAAAT-TA
1 ATTTCAAAATATATAAAAAATATA
35963025 ATTTCACAAATATATA
1 ATTTCA-AAATATATA
35963041 TATATAAAGT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
23 6 0.12
24 22 0.44
25 13 0.26
26 7 0.14
27 2 0.04
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTCAAAATATATAAAAAATATA
Found at i:35963042 original size:26 final size:24
Alignment explanation
Indices: 35962953--35963042 Score: 71
Period size: 25 Copynumber: 3.7 Consensus size: 24
35962943 TTAAACATAC
35962953 ATTTC-AAATATTATAAAACTAA-TA
1 ATTTCAAAATATTATAAAA--AATTA
*
35962977 ATTTCAAACTAATT-TAAAAAATATA
1 ATTTCAAAAT-ATTATAAAAAAT-TA
* *
35963002 TTTTTAAAAT-TTATAAAAAATTA
1 ATTTCAAAATATTATAAAAAATTA
35963025 ATTTCACAAATATATATA
1 ATTTCA-AAATAT-TATA
35963043 TATAAAGTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
23 10 0.19
24 17 0.33
25 18 0.35
26 7 0.13
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTCAAAATATTATAAAAAATTA
Found at i:35963086 original size:21 final size:22
Alignment explanation
Indices: 35963061--35963146 Score: 79
Period size: 21 Copynumber: 4.0 Consensus size: 22
35963051 TAAAAAATAT
35963061 TTTTAAAAATAATAAT-TAAAA
1 TTTTAAAAATAATAATATAAAA
*
35963082 TTTTAAAAA-AATATTATAAAGCA
1 TTTTAAAAATAATAATATAAA--A
* * * *
35963105 TTTTAAATAT-ATATTACAAAT
1 TTTTAAAAATAATAATATAAAA
*
35963126 TTTTAAAATTAATAATATAAA
1 TTTTAAAAATAATAATATAAA
35963147 TTAAATAAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 5 0.10
21 21 0.40
22 8 0.15
23 18 0.35
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (22 bp):
TTTTAAAAATAATAATATAAAA
Found at i:35963147 original size:22 final size:21
Alignment explanation
Indices: 35963059--35963148 Score: 67
Period size: 22 Copynumber: 4.1 Consensus size: 21
35963049 GTTAAAAAAT
35963059 ATTTTTAAAAATAATAAT-TAA
1 ATTTTT-AAAATAATAATATAA
* * *
35963080 AATTTTAAAAAAATATTATAA
1 ATTTTTAAAATAATAATATAA
* * *
35963101 AGCATTTT-AAATATATATTACAA
1 A--TTTTTAAAATA-ATAATATAA
35963124 ATTTTTAAAATTAATAATATAA
1 ATTTTTAAAA-TAATAATATAA
35963146 ATT
1 ATT
35963149 AAATAAGCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
20 9 0.16
21 13 0.24
22 17 0.31
23 16 0.29
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (21 bp):
ATTTTTAAAATAATAATATAA
Found at i:35963181 original size:18 final size:18
Alignment explanation
Indices: 35963136--35963192 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
35963126 TTTTAAAATT
35963136 AATAATATAAATTAA-ATA
1 AATAATATAAATTAAGA-A
** *
35963154 AGCAAAATAAATTAAGAA
1 AATAATATAAATTAAGAA
35963172 AATAATATAAAACTTAAGAA
1 AATAATAT-AAA-TTAAGAA
35963192 A
1 A
35963193 GAGACAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 18 0.60
19 4 0.13
20 8 0.27
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (18 bp):
AATAATATAAATTAAGAA
Found at i:35969547 original size:10 final size:11
Alignment explanation
Indices: 35969532--35969560 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
35969522 CCACTTTGTG
35969532 AAAATAAAAT-
1 AAAATAAAATA
35969542 AAAATAAAATA
1 AAAATAAAATA
35969553 AAAATAAA
1 AAAATAAA
35969561 CAGATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:35974622 original size:55 final size:55
Alignment explanation
Indices: 35974553--35974687 Score: 193
Period size: 55 Copynumber: 2.5 Consensus size: 55
35974543 CGTGCCCTTA
* * *
35974553 GCCCGTGTGCAACACTGACTTTAAAACACGGCCATGACATACGCCCGTGTGGCCT
1 GCCCGTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCT
*
35974608 GCCCGTGTACAACACTGACTTTAAAACACGATCATGACACACGCCCGTGTGGCCT
1 GCCCGTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCT
* *
35974663 ACCTGTGTACTAA-ACTGAC-TTAAAA
1 GCCCGTGTAC-AACACTGACTTTAAAA
35974688 TTTTAAGTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
54 6 0.08
55 65 0.89
56 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
GCCCGTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCT
Found at i:35975519 original size:49 final size:48
Alignment explanation
Indices: 35975447--35975710 Score: 190
Period size: 49 Copynumber: 5.6 Consensus size: 48
35975437 GGATAAGTTA
*
35975447 CCGATGCCATGTCCCAGACATGGTCTCACACAGGCTATCATTATCAAGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACAGGCTATCATTATCAAGG
* * *
35975496 CCGATGCCATGTCCCAGACATGGTCTTATACTA-GCTCTCATATAT-ACGTG
1 CCGATG-CATGTCCCAGACATGGTCTTACAC-AGGCTATCAT-TATCAAG-G
* * * * * *
35975546 CTGATGCATGTCCCGGACAT-GTCTTACACTA-GC-ATGACTCTTAA--
1 CCGATGCATGTCCCAGACATGGTCTTACAC-AGGCTATCATTATCAAGG
* * * * * *
35975590 CCGATGCATGTTCTAGACA-CGTCTTACACTGGCTATCATCATCGAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACAGGCTATCATTATCAAGG
* * * * *
35975637 CCAATGCATGTCCCAGACAT-GTCTTACACTGGC-ACTCA-TCTCTACG
1 CCGATGCATGTCCCAGACATGGTCTTACACAGGCTA-TCATTATCAAGG
35975683 CCGATGCCATGTCCCAGACATGGTCTTA
1 CCGATG-CATGTCCCAGACATGGTCTTA
35975711 AAATGGCACT
Statistics
Matches: 171, Mismatches: 31, Indels: 27
0.75 0.14 0.12
Matches are distributed among these distances:
44 26 0.15
45 5 0.03
46 12 0.07
47 49 0.29
48 18 0.11
49 51 0.30
50 10 0.06
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCATGTCCCAGACATGGTCTTACACAGGCTATCATTATCAAGG
Found at i:35975655 original size:47 final size:47
Alignment explanation
Indices: 35975447--35975762 Score: 191
Period size: 47 Copynumber: 6.7 Consensus size: 47
35975437 GGATAAGTTA
* * * *
35975447 CCGATGCCATGTCCCAGACATGGTCTCACACAGGCTATCATTATCAAGG
1 CCGATG-CATGTCCCAGACA-GGTCTTACACTGGCTATCATCATCGAGG
* * * * *
35975496 CCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATATATACG-TG
1 CCGATG-CATGTCCCAGACA-GGTCTTACACTGGCTATCAT-CAT-CGAGG
* * * * * * *
35975546 CTGATGCATGTCCCGGACATGTCTTACACTAGC-ATGA-C-TCTTA-A
1 CCGATGCATGTCCCAGACAGGTCTTACACTGGCTATCATCATC-GAGG
* * *
35975590 CCGATGCATGTTCTAGACACGTCTTACACTGGCTATCATCATCGAGG
1 CCGATGCATGTCCCAGACAGGTCTTACACTGGCTATCATCATCGAGG
* * * *
35975637 CCAATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TCTACG
1 CCGATGCATGTCCCAGACAGGTCTTACACTGGCTA-TCATCATCGAGG
* * * * *
35975683 CCGATGCCATGTCCCAGACATGGTCTTAAAATGGC-ACTTATAAT-GTGG
1 CCGATG-CATGTCCCAGACA-GGTCTTACACTGGCTA-TCATCATCGAGG
* * *
35975731 TCGATGTATGTCCCAGACATGTCTTACACTGG
1 CCGATGCATGTCCCAGACAGGTCTTACACTGG
35975763 TACACAAGAA
Statistics
Matches: 210, Mismatches: 45, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
43 1 0.00
44 28 0.13
45 3 0.01
46 22 0.10
47 63 0.30
48 34 0.16
49 49 0.23
50 9 0.04
51 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACAGGTCTTACACTGGCTATCATCATCGAGG
Found at i:35976151 original size:30 final size:31
Alignment explanation
Indices: 35976106--35976165 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
35976096 TAAAATTCAC
* *
35976106 ATCTTAGGTAAAATGACTATTTTGCCCCTAG
1 ATCTTAGGCAAAATGACCATTTTGCCCCTAG
35976137 ATCTTA-GCAAAATGACCATTTTGCCCCTA
1 ATCTTAGGCAAAATGACCATTTTGCCCCTA
35976166 TGCTCAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (31 bp):
ATCTTAGGCAAAATGACCATTTTGCCCCTAG
Found at i:35983132 original size:47 final size:47
Alignment explanation
Indices: 35982926--35983238 Score: 184
Period size: 47 Copynumber: 6.6 Consensus size: 47
35982916 ATAAGTTTCT
* * *
35982926 GATGCCATGTCCCAAACATGGTCTTACACAGGCTA-TCATCATCGAGGTC
1 GATG-CATGTCCCAGACAT-GTCTTACAC-TGCTACTCATCATCGAGGCC
* * * * * *
35982975 AATGCCATGTCCCAGATATGGTCTTATACTAGCT-CTCATATATACG-TGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACT-GCTACTCAT-CAT-CGAGGCC
* * * *
35983025 GATCCATGT-CCTGAACATGTCTTACACTAGC-AC-GA-C-TCTTA-GCC
1 GATGCATGTCCCAG-ACATGTCTTACACT-GCTACTCATCATC-GAGGCC
* * * *
35983069 GAAGCATGTTCTAGACACGTCTTACACTAGCTA-TCATCATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACT-GCTACTCATCATCGAGGCC
* * *
35983116 GATGCATGTCCCAGACATGTCTTACACTGGTACTCATC-TCTATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGCTACTCATCATCGAGGCC
* * * *
35983162 GATGTCATGTCCCAGACATGGTCATAAACTGGC-ACTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACT-GCTACTCATCATCGAGGCC
35983210 GATGCATGTCCCAGACATGTCTTACACTG
1 GATGCATGTCCCAGACATGTCTTACACTG
35983239 GCACACAATA
Statistics
Matches: 204, Mismatches: 41, Indels: 42
0.71 0.14 0.15
Matches are distributed among these distances:
43 1 0.00
44 26 0.13
45 5 0.02
46 23 0.11
47 63 0.31
48 37 0.18
49 42 0.21
50 5 0.02
51 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGCTACTCATCATCGAGGCC
Found at i:35984204 original size:37 final size:37
Alignment explanation
Indices: 35984143--35984287 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
35984133 GCTCAGACGA
* *
35984143 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
35984180 ACTCTCCACACGTAGTCATTGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
35984217 AATCTCCACACGTAGTCATCGGGTCTTACCAGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
35984254 AATCTCCACTCGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
35984288 ATATATTTCC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:35984403 original size:48 final size:48
Alignment explanation
Indices: 35984332--35984666 Score: 546
Period size: 48 Copynumber: 7.0 Consensus size: 48
35984322 TGTTACAACA
* *
35984332 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
35984380 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
35984428 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
35984476 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
35984524 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATA-
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
35984571 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * *
35984619 TTCAGATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
35984667 ACATTTATCT
Statistics
Matches: 267, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
47 45 0.17
48 222 0.83
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:35988201 original size:40 final size:40
Alignment explanation
Indices: 35988157--35988788 Score: 1066
Period size: 40 Copynumber: 15.8 Consensus size: 40
35988147 CCAGCATGAT
* * * *
35988157 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
*
35988197 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
*
35988237 TGCTCTTCGGAACTTAGTTCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
35988277 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
* *
35988317 TGCTCTTCGAAACTTAGTCTGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
*
35988357 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
* * *
35988397 TGCTCTTCGGAACATAGTCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
35988437 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
35988477 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
* *
35988517 TGCTCTTCGAAACTTAGTCCAGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
*
35988557 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
* *
35988597 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCAAGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
* *
35988637 TGCTCTTCGGAACTTAGTGCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
*
35988677 TGCTCTTCGGAATTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
*
35988717 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
*
35988757 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
35988789 CTCAATTCTC
Statistics
Matches: 558, Mismatches: 34, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 558 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
Found at i:35990063 original size:37 final size:37
Alignment explanation
Indices: 35990013--35990120 Score: 207
Period size: 37 Copynumber: 2.9 Consensus size: 37
35990003 GCTCAGATGA
35990013 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
35990050 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
35990087 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
35990121 ATATATTTCC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:35990236 original size:48 final size:48
Alignment explanation
Indices: 35990165--35990834 Score: 1060
Period size: 48 Copynumber: 14.0 Consensus size: 48
35990155 TGTTACAACA
* *
35990165 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
35990213 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
35990261 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
35990309 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATC-T-CATATATAT
*
35990359 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * * *
35990407 TTCACATTCGTCGTTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
35990455 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
35990503 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
35990551 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
35990599 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
35990647 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
35990695 TTCACATTAGCCATTTGG---TA-AACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
35990739 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
35990787 TTCATATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
35990835 ACATTTATCT
Statistics
Matches: 569, Mismatches: 47, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
44 37 0.07
45 2 0.00
47 2 0.00
48 480 0.84
49 2 0.00
50 46 0.08
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:35996373 original size:16 final size:16
Alignment explanation
Indices: 35996337--35996374 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35996327 TTCAAATTTA
*
35996337 ATAAAATTATTATTAT
1 ATAAAATTATTAATAT
35996353 ATAAAATTATTAA-AT
1 ATAAAATTATTAATAT
*
35996368 ATTAAAT
1 ATAAAAT
35996375 AAAACTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAAATTATTAATAT
Found at i:35996403 original size:2 final size:2
Alignment explanation
Indices: 35996398--35996434 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
35996388 AAACATTTTA
35996398 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35996435 ATGAACTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35999770 original size:8 final size:8
Alignment explanation
Indices: 35999757--35999785 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
35999747 TTTATGAATT
35999757 TTATTTAA
1 TTATTTAA
35999765 TTATTTAA
1 TTATTTAA
35999773 TTATTTAA
1 TTATTTAA
35999781 TTATT
1 TTATT
35999786 GGTTGATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTATTTAA
Done.