Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 116 of 168
Found at i:33796514 original size:17 final size:19
Alignment explanation
Indices: 33796492--33796533 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
33796482 TATAGGGCAG
33796492 TCTTTTGGGT-TTCT-TTT
1 TCTTTTGGGTCTTCTGTTT
33796509 TCTTTT--GTCTTCTGTTT
1 TCTTTTGGGTCTTCTGTTT
33796526 TCTTTTGG
1 TCTTTTGG
33796534 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.10
16 4 0.19
17 15 0.71
ACGTcount: A:0.00, C:0.14, G:0.17, T:0.69
Consensus pattern (19 bp):
TCTTTTGGGTCTTCTGTTT
Found at i:33797651 original size:31 final size:32
Alignment explanation
Indices: 33797586--33797653 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
33797576 AAACAACAAC
* * *
33797586 AATTTGACCTTTTTCTGAAAGATTGATAGTTA
1 AATTTGACCTTTTTCTAAAAGATTAATAGCTA
33797618 AATTTGA-CTCTTTT-TAAAAGATTAATAGCTA
1 AATTTGACCT-TTTTCTAAAAGATTAATAGCTA
33797649 AATTT
1 AATTT
33797654 ATCTCAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 21 0.66
32 11 0.34
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (32 bp):
AATTTGACCTTTTTCTAAAAGATTAATAGCTA
Found at i:33800539 original size:29 final size:28
Alignment explanation
Indices: 33800497--33800571 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
33800487 TGGACCTTGG
* * *
33800497 ACTTTGAACGTTAGACCCCAGACCCCTAA
1 ACTTTAAACCTTAGACCCCA-AACCCTAA
33800526 ACTTTAAACCTTAGACCCCAAACCCTAA
1 ACTTTAAACCTTAGACCCCAAACCCTAA
* *
33800554 A-TCCTAGACCTTAGACCC
1 ACT-TTAAACCTTAGACCC
33800572 TCGACCCTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
27 1 0.03
28 21 0.52
29 18 0.45
ACGTcount: A:0.33, C:0.36, G:0.09, T:0.21
Consensus pattern (28 bp):
ACTTTAAACCTTAGACCCCAAACCCTAA
Found at i:33800554 original size:21 final size:22
Alignment explanation
Indices: 33800516--33800563 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
33800506 GTTAGACCCC
**
33800516 AGACCCCTAAACTTTAAA-CCTT
1 AGACCCCTAAACCCTAAATCC-T
33800538 AGACCCC-AAACCCTAAATCCT
1 AGACCCCTAAACCCTAAATCCT
33800559 AGACC
1 AGACC
33800564 TTAGACCCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.38, C:0.38, G:0.06, T:0.19
Consensus pattern (22 bp):
AGACCCCTAAACCCTAAATCCT
Found at i:33803177 original size:33 final size:34
Alignment explanation
Indices: 33803114--33803183 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 34
33803104 ATTATATCAT
33803114 AAGTGTAGAAATCACGTATTTAGTACGATCAAACATA
1 AAGTGTAGAAATCAC---TTTAGTACGATCAAACATA
* *
33803151 AAGTGTAGAAATCAC-TTAGTATGATCAGACATA
1 AAGTGTAGAAATCACTTTAGTACGATCAAACATA
33803184 TAGTAAGGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 16 0.52
37 15 0.48
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (34 bp):
AAGTGTAGAAATCACTTTAGTACGATCAAACATA
Found at i:33814937 original size:125 final size:125
Alignment explanation
Indices: 33814651--33815034 Score: 525
Period size: 125 Copynumber: 3.0 Consensus size: 125
33814641 GTGTACGTAC
* * *
33814651 ACAATTGAACCTTGTGTGGAACGCTTGTTGTAGTTTATGTAGAACTTGTAATGTTGATCGATAGT
1 ACAATTGAACCTTGTGTGGAACTCTTGTTGTAGTTTATATAGAACTTGTAATGTTGATAGATAGT
*
33814716 AATGTTCTACTATGTTACTTGGACCAGGACTGAGGACTCAAGTGTATGTGTGGATACGAGTATGT
66 AATGCTCTACTATGTTACTT-G---A--ACT-AGGACTCAAGTGTATGTGTGGATACGAGTATGT
33814781 AA
124 AA
* * * *
33814783 ACAATTGAACCTTGTGTTGAACTCTTGTTGTAGTTTATACAGAACTGGTAATGTTGATAGATACT
1 ACAATTGAACCTTGTGTGGAACTCTTGTTGTAGTTTATATAGAACTTGTAATGTTGATAGATAGT
*
33814848 AATGCTCTACTATGTTACTTGAACTAGGACTCAAGTGTATGTGTGGATATGAGTATGTAA
66 AATGCTCTACTATGTTACTTGAACTAGGACTCAAGTGTATGTGTGGATACGAGTATGTAA
* *
33814908 ACAATTGAACCTTGTGTGGAATTCTTGTTGTAGTTTATATAGAACTTGTAATGTTAATAGATAGT
1 ACAATTGAACCTTGTGTGGAACTCTTGTTGTAGTTTATATAGAACTTGTAATGTTGATAG--A-T
* * * * *
33814973 AGTAATGCTCTACTATCTTACTTGGACTAGGACTCCAGTGTATGTGTGAATACCGAGCATGT
63 AGTAATGCTCTACTATGTTACTTGAACTAGGACTCAAGTGTATGTGTGGATA-CGAGTATGT
33815035 GTCCAACATG
Statistics
Matches: 227, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
125 89 0.39
126 3 0.01
127 1 0.00
128 49 0.22
129 7 0.03
131 1 0.00
132 77 0.34
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.36
Consensus pattern (125 bp):
ACAATTGAACCTTGTGTGGAACTCTTGTTGTAGTTTATATAGAACTTGTAATGTTGATAGATAGT
AATGCTCTACTATGTTACTTGAACTAGGACTCAAGTGTATGTGTGGATACGAGTATGTAA
Found at i:33815823 original size:19 final size:20
Alignment explanation
Indices: 33815799--33815836 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33815789 TGCTTTTCTT
33815799 TTTTTTTCCTTTTG-AATAC
1 TTTTTTTCCTTTTGTAATAC
*
33815818 TTTTTTTTCTTTTGTAATA
1 TTTTTTTCCTTTTGTAATA
33815837 ACCATATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTTTTCCTTTTGTAATAC
Found at i:33815823 original size:20 final size:20
Alignment explanation
Indices: 33815798--33815836 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
33815788 TTGCTTTTCT
33815798 TTTTTTTTCCTTTTG-AATAC
1 TTTTTTTT-CTTTTGTAATAC
33815818 TTTTTTTTCTTTTGTAATA
1 TTTTTTTTCTTTTGTAATA
33815837 ACCATATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTTTTTTCTTTTGTAATAC
Found at i:33816443 original size:24 final size:23
Alignment explanation
Indices: 33816406--33816453 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
33816396 TTTATGTTTG
* *
33816406 TATATTACATATATATAAATAAT
1 TATATTACAAATATAAAAATAAT
33816429 TATATTTACAAATATAAAAATAAT
1 TATA-TTACAAATATAAAAATAAT
33816453 T
1 T
33816454 TGATATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
TATATTACAAATATAAAAATAAT
Found at i:33820048 original size:18 final size:17
Alignment explanation
Indices: 33820015--33820053 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
33820005 TTTTATAAAT
33820015 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
33820033 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
33820050 TGTG
1 TGTG
33820054 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:33830344 original size:87 final size:87
Alignment explanation
Indices: 33830198--33830372 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
33830188 TTTATGCCAT
33830198 TGGGTATGAGTTGTAAGGATCGACTTGTGATATATGCACTGCAATAGTTTGTTCGAACCGATAAT
1 TGGGTATGAGTTGTAAGGATCGACTTGTGATATATGCACTGCAATAGTTTGTTCGAACCGATAAT
33830263 ATGTGAAATGTATATATTCTTA
66 ATGTGAAATGTATATATTCTTA
* *
33830285 TGGGTTTGAGTTGTAAGGATCGACTTTTGATATATGCACTGCAATAGTTTGTTCGAACCGATAAT
1 TGGGTATGAGTTGTAAGGATCGACTTGTGATATATGCACTGCAATAGTTTGTTCGAACCGATAAT
33830350 ATGTGAAATGTATATATTCTTA
66 ATGTGAAATGTATATATTCTTA
33830372 T
1 T
33830373 CTTTCATGTG
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (87 bp):
TGGGTATGAGTTGTAAGGATCGACTTGTGATATATGCACTGCAATAGTTTGTTCGAACCGATAAT
ATGTGAAATGTATATATTCTTA
Found at i:33830639 original size:12 final size:11
Alignment explanation
Indices: 33830607--33830635 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
33830597 TTGAATTGTC
33830607 AAAATATTATA
1 AAAATATTATA
33830618 AAAA-ATTATA
1 AAAATATTATA
33830628 AAAATATT
1 AAAATATT
33830636 TATATATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATATTATA
Found at i:33836512 original size:31 final size:31
Alignment explanation
Indices: 33836457--33836534 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
33836447 TTTTCCTTAA
* *
33836457 TGGCTTGGATAAGCCTT--GATGCAATTGAGT
1 TGGCTT-GAGAAGCCTTGAGATGCAATTGAAT
*
33836487 TGGCTTGAGTAGCCTTGAGATGCAATTGAAT
1 TGGCTTGAGAAGCCTTGAGATGCAATTGAAT
33836518 TGGCTTGAGAAGCCTTG
1 TGGCTTGAGAAGCCTTG
33836535 TGGAAAACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 8 0.19
30 6 0.14
31 28 0.67
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (31 bp):
TGGCTTGAGAAGCCTTGAGATGCAATTGAAT
Found at i:33837325 original size:26 final size:26
Alignment explanation
Indices: 33837295--33837345 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
33837285 AGCCATGAGT
33837295 TTGAG-TCGAGATGAGTCGGAGGACCC
1 TTGAGTTCGAGATG-GTCGGAGGACCC
* *
33837321 TTGAGTTTGAGTTGGTCGGAGGACC
1 TTGAGTTCGAGATGGTCGGAGGACC
33837346 ATAAGCGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.20, C:0.16, G:0.39, T:0.25
Consensus pattern (26 bp):
TTGAGTTCGAGATGGTCGGAGGACCC
Found at i:33838808 original size:164 final size:165
Alignment explanation
Indices: 33838523--33838841 Score: 419
Period size: 164 Copynumber: 1.9 Consensus size: 165
33838513 TTGCTGGCTA
* * ** **
33838523 TGTTAACATTCTCATAATTGCATTAGTGTACAAGTTTGTTGCTTGTGGGGAGTTTTTAACATAAT
1 TGTTAACA-TCTCATAATTGCATTAGAGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAAT
* * * *
33838588 TATTTAGTTGTTGAAATTGCGAGTATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTA
65 TATGTAGTTATTGAAAATGCGAATATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTA
* *
33838653 CCGATGTATCCGGCTGAGAAATTCTCAACTGGAATC
130 CCAATGTATCCGACTGAGAAATTCTCAACTGGAATC
* *
33838689 TGTTAAC-TCTCTTAATTGCATTAGAGTACAAATCAGTTGCTTGTGGGGAG-TCATAACATGCA-
1 TGTTAACATCTCATAATTGCATTAGAGTACAAATCAGTTGCTTGTGGGGAGTTCATAACAT-AAT
* *
33838751 TATGTAGTTATTGAAAATGCTGAATATTAGGCTTTTGAAGAATATTGACTTATGTTTCTTGATTT
65 TATGTAGTTATTGAAAATGC-GAATATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTT
* * *
33838816 ACTAATGTGTCTGACTGAGAAATTCT
129 ACCAATGTATCCGACTGAGAAATTCT
33838842 AAACCAAAAT
Statistics
Matches: 132, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
163 24 0.18
164 101 0.77
166 7 0.05
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (165 bp):
TGTTAACATCTCATAATTGCATTAGAGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAATT
ATGTAGTTATTGAAAATGCGAATATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTAC
CAATGTATCCGACTGAGAAATTCTCAACTGGAATC
Found at i:33852540 original size:17 final size:18
Alignment explanation
Indices: 33852520--33852553 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33852510 TTTTTGCTTT
33852520 TATTTTTATTT-TTTATA
1 TATTTTTATTTATTTATA
*
33852537 TATTTTTGTTTATTTAT
1 TATTTTTATTTATTTAT
33852554 TTCTGATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
TATTTTTATTTATTTATA
Found at i:33853123 original size:23 final size:22
Alignment explanation
Indices: 33853097--33853140 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
33853087 ATATTTAATT
33853097 TTATCATTTTAAT-TGAAACTTTA
1 TTAT-ATTTTAATAT-AAACTTTA
*
33853120 TTATTTTTTAATATAAACTTT
1 TTATATTTTAATATAAACTTT
33853141 TATAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATATTTTAATATAAACTTTA
Found at i:33862418 original size:22 final size:20
Alignment explanation
Indices: 33862377--33862436 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
33862367 CAATTCAATA
* * *
33862377 TAAAGTATAGATATATATAT
1 TAAAATATAAATATAGATAT
33862397 TAAAATTATAAAATATAGATAT
1 TAAAA-TAT-AAATATAGATAT
*
33862419 TAAAATATAGATATAGAT
1 TAAAATATAAATATAGAT
33862437 TTGGTTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 13 0.38
21 6 0.18
22 15 0.44
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (20 bp):
TAAAATATAAATATAGATAT
Found at i:33862424 original size:14 final size:14
Alignment explanation
Indices: 33862405--33862432 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33862395 ATTAAAATTA
33862405 TAAAATATAGATAT
1 TAAAATATAGATAT
33862419 TAAAATATAGATAT
1 TAAAATATAGATAT
33862433 AGATTTGGTT
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:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
TAAAATATAGATAT
Found at i:33864598 original size:30 final size:30
Alignment explanation
Indices: 33864564--33864643 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
33864554 AATTGAATCA
33864564 AAATCAAAGTTCTATGTATAGAATTGCAC-T
1 AAATCAAAGTTCTATGTATA-AATTGCACAT
* * *
33864594 AAATCAAAATTCGTATAT-TATATTGCACATT
1 AAATCAAAGTTC-TATGTATAAATTGCACA-T
*
33864625 AAATCCAAGTTC-ATGTATA
1 AAATCAAAGTTCTATGTATA
33864644 CTTTTGAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
29 10 0.25
30 15 0.38
31 15 0.38
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (30 bp):
AAATCAAAGTTCTATGTATAAATTGCACAT
Found at i:33867415 original size:23 final size:24
Alignment explanation
Indices: 33867363--33867411 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
33867353 ATTTTTACCC
33867363 CAAA-TTAGCCCTATAAAATTTTA
1 CAAATTTAGCCCTATAAAATTTTA
*
33867386 CAAATTTAGCCCT-TAACA-TTTA
1 CAAATTTAGCCCTATAAAATTTTA
33867408 CAAA
1 CAAA
33867412 ATTTGTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 8 0.33
24 8 0.33
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (24 bp):
CAAATTTAGCCCTATAAAATTTTA
Found at i:33869875 original size:30 final size:32
Alignment explanation
Indices: 33869828--33869893 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
33869818 GTCCTAAAGG
*
33869828 TTTTAAATGTCGTCAGTT-TTGAGCCATTTT-A
1 TTTTAAATGTCGTCAGTTAGTGAG-CATTTTAA
*
33869859 TTTTAAAT-TTGTCAGTTAGTGAGCATTTTAA
1 TTTTAAATGTCGTCAGTTAGTGAGCATTTTAA
33869890 TTTT
1 TTTT
33869894 GGTGTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (32 bp):
TTTTAAATGTCGTCAGTTAGTGAGCATTTTAA
Found at i:33890263 original size:68 final size:67
Alignment explanation
Indices: 33890191--33890346 Score: 163
Period size: 67 Copynumber: 2.3 Consensus size: 67
33890181 CATAGCCCCA
* * *
33890191 CTATGGTCTTACACAATATGAACTCATGTTTAACG-TCTTGGCGGACTCCCTTTATTACCATAG-
1 CTATGGTCTTACACAGTATGAACACATG-TTAACGTTC-TAGCGGACTCCCTTTATTACCATAGC
33890254 TCGAG
64 T-GAG
* * * * * * *
33890259 CTATGGGCTTACATAGTAGGAACACATGTTAACGTTCTAGCGGGCTCCTTTTGTTGCCATAGCTG
1 CTATGGTCTTACACAGTATGAACACATGTTAACGTTCTAGCGGACTCCCTTTATTACCATAGCTG
33890324 AG
66 AG
* *
33890326 TTATGGTCTTAGACAGTATGA
1 CTATGGTCTTACACAGTATGA
33890347 CATCTTTTGA
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
67 45 0.63
68 26 0.37
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (67 bp):
CTATGGTCTTACACAGTATGAACACATGTTAACGTTCTAGCGGACTCCCTTTATTACCATAGCTG
AG
Found at i:33891877 original size:14 final size:14
Alignment explanation
Indices: 33891860--33891888 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33891850 TTGAGCATGG
33891860 GTCGTTGCAATGAA
1 GTCGTTGCAATGAA
33891874 GTCGTTGCAATGAA
1 GTCGTTGCAATGAA
33891888 G
1 G
33891889 AGCCAAGTTA
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:0.14, G:0.31, T:0.28
Consensus pattern (14 bp):
GTCGTTGCAATGAA
Found at i:33894545 original size:74 final size:74
Alignment explanation
Indices: 33894456--33894606 Score: 293
Period size: 74 Copynumber: 2.0 Consensus size: 74
33894446 ATCTCTCTTG
33894456 TAAATGCTTATTATGAACAAGATAAATACATGACCATATTAGTGCTAAAAACAAACGACCTCTGA
1 TAAATGCTTATTATGAACAAGATAAATACATGACCATATTAGTGCTAAAAACAAACGACCTCTGA
33894521 CAGAAAAAT
66 CAGAAAAAT
*
33894530 TAAATGCTTATTATGAACAAGATAAATACATGACGATATTAGTGCTAAAAACAAACGACCTCTGA
1 TAAATGCTTATTATGAACAAGATAAATACATGACCATATTAGTGCTAAAAACAAACGACCTCTGA
33894595 CAGAAAAAT
66 CAGAAAAAT
33894604 TAA
1 TAA
33894607 TGAATATTAT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.25
Consensus pattern (74 bp):
TAAATGCTTATTATGAACAAGATAAATACATGACCATATTAGTGCTAAAAACAAACGACCTCTGA
CAGAAAAAT
Found at i:33901057 original size:2 final size:2
Alignment explanation
Indices: 33901050--33901093 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
33901040 AGGATCTTGA
33901050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33901092 AT
1 AT
33901094 TACAGTAGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33901910 original size:214 final size:216
Alignment explanation
Indices: 33901530--33902090 Score: 623
Period size: 214 Copynumber: 2.6 Consensus size: 216
33901520 AGCCCTGTGG
* * * * *
33901530 CTGTTATTGTATCGAAGTTGCCGATATGCTCTTTCTTTTGGGAATTCTTTTTTATGATTATATGA
1 CTGTTATTGCATCTAAGCTGCCGATATGCTCTTTCTTTTGGGACTT-TTTTTT-TGGTTATATGA
* * *
33901595 TATAATGATCTTTGGTTTCATTTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGC
64 TATAATGATCTTTGGATTCAGTTTTTCTTTGCAGATATCTGGATATAACTCTATTTGAGCCATGC
* * * *
33901660 TTACCACGATCAAATACAGTTGTTCGGGGTAGCTTAATAGATGATATTTCTGTTTT-GGTACGGT
129 TTACCACGATAAAATACAGTTGTTCGGGGAAGCTTAATAGATGATATTTCTATTTTCCGTACGGT
*
33901724 TTTGCCATGCCA-TGGTATTAAC
194 TTTGCCATGCAATTGGTATTAAC
*
33901746 TCTGTTATTGCATCTAAGCTGCTGATATGCTCTTTCTTTTGGGACTTTTTTTTTGGTTATATGAT
1 -CTGTTATTGCATCTAAGCTGCCGATATGCTCTTTCTTTTGGGACTTTTTTTTTGGTTATATGAT
* *
33901811 ATAATGATCTTTGGATTC-GTTTTTCTTTGCGGAT-TGCTGGATATAACTCTATTTGAGCCTTGC
65 ATAATGATCTTTGGATTCAGTTTTTCTTTGCAGATAT-CTGGATATAACTCTATTTGAGCCATGC
** * ** * * * *
33901874 TTATTACTATAAAATATTGTTGTTTGGGGAAGCTTAATTGATGATCTTTTTATTTTCCGTACGGT
129 TTACCACGATAAAATACAGTTGTTCGGGGAAGCTTAATAGATGATATTTCTATTTTCCGTACGGT
33901939 TTTGCCATGCAATGGTTTTGGTATTAAC
194 TTTGCCATGCAA-----TTGGTATTAAC
* * *
33901967 CTTGTTATTGCAT-TGAAGCTTCCGATATGCTCTTTCTTTTAGGAC-TTTTTTATGGTTGACTAT
1 C-TGTTATTGCATCT-AAGCTGCCGATATGCTCTTTCTTTTGGGACTTTTTTTTTGGTT-A-TAT
* * ** * ** * *
33902030 GATATAATGATCTATGGGTTCTCTTTTT-TATGCCTATATCTAGATATTACTCTATTTGAGC
62 GATATAATGATCTTTGGATTCAGTTTTTCTTTGCAGATATCTGGATATAACTCTATTTGAGC
33902091 TATTCTTATT
Statistics
Matches: 293, Mismatches: 37, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
213 1 0.00
214 83 0.28
215 46 0.16
216 6 0.02
217 41 0.14
220 13 0.04
221 49 0.17
222 48 0.16
223 6 0.02
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.46
Consensus pattern (216 bp):
CTGTTATTGCATCTAAGCTGCCGATATGCTCTTTCTTTTGGGACTTTTTTTTTGGTTATATGATA
TAATGATCTTTGGATTCAGTTTTTCTTTGCAGATATCTGGATATAACTCTATTTGAGCCATGCTT
ACCACGATAAAATACAGTTGTTCGGGGAAGCTTAATAGATGATATTTCTATTTTCCGTACGGTTT
TGCCATGCAATTGGTATTAAC
Found at i:33902132 original size:222 final size:220
Alignment explanation
Indices: 33901384--33902153 Score: 760
Period size: 222 Copynumber: 3.5 Consensus size: 220
33901374 ACATGATCAG
* *
33901384 TTTTTCTTTGCCTATATCTGCATATATAACTCTATTTGAGCCATGCTTATTACTATCGAATACTG
1 TTTTT-TTTGCCTATATCTG--GATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTG
* * * * * *
33901449 TTGTT-CAGGATAGCTTAATGGGTGATATTTCTGTTTTCGGTACGATTTTTCCATACAATGGTTT
63 TTGTTCCAGG-TAGCTTAATAGATGATATTTCTGTTTTCCGTACGGTTTTGCCATGCAATGGTTT
* * *
33901513 TGGTATTAGCCCTGTGGCTGTTATTGTATCGAAG-TTGCCGATATGCTCTTTCTTTTGGGAATTC
127 TGGTATTA-ACC--T--CTGTTATTGCATTGAAGCTT-CCGATATGCTCTTTCTTTTGGG-A--C
* *
33901577 TTTTTTATGATTATATGATATAATGATCTTTGGTTTCA
183 TTTTTTATGGTTATATGATATAATGATCTTTGGATTCA
* ** * *
33901615 TTTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTACCACGATCAAATACAGT
1 -TTTTT-TTTGCCTATATCTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGT
** * *
33901680 TGTTCGGGGTAGCTTAATAGATGATATTTCTGTTTT-GGTACGGTTTTGCCATGCCA------TG
64 TGTTCCAGGTAGCTTAATAGATGATATTTCTGTTTTCCGTACGGTTTTGCCATGCAATGGTTTTG
* * *
33901738 GTATTAA-CTCTGTTATTGCATCT-AAGCTGCTGATATGCTCTTTCTTTTGGGACTTTTTTTTTG
129 GTATTAACCTCTGTTATTGCAT-TGAAGCTTCCGATATGCTCTTTCTTTTGGGAC-TTTTTTATG
*
33901801 GTTATATGATATAATGATCTTTGGATTCG
192 GTTATATGATATAATGATCTTTGGATTCA
** * * *
33901830 TTTTTCTTTGCGGAT-TGCTGGATATAACTCTATTTGAGCCTTGCTTATTACTATAAAATATTGT
1 TTTTT-TTTGCCTATAT-CTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGT
*** * * * * *
33901894 TGTTTGGGGAAGCTTAATTGATGATCTTTTTATTTTCCGTACGGTTTTGCCATGCAATGGTTTTG
64 TGTTCCAGGTAGCTTAATAGATGATATTTCTGTTTTCCGTACGGTTTTGCCATGCAATGGTTTTG
*
33901959 GTATTAACCT-TGTTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTAGGACTTTTTTATGGT
129 GTATTAACCTCTGTTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTGGGACTTTTTTATGGT
* *
33902023 TGACTATGATATAATGATCTATGGGTTC-
194 T-A-TATGATATAATGATCTTTGGATTCA
* * * * **
33902051 TCTTTTTTATGCCTATATCTAGATATTACTCTATTTGAGCTATTCTTATTA-TGATCAAATTTTG
1 T-TTTTTT-TGCCTATATCTGGATATAACTCTATTTGAGCCATGCTTATTACT-ATCAAATACTG
* * *
33902115 TTGTTCCAGGTAGCTTAATCGATGATTTTTGTGTTTTCC
63 TTGTTCCAGGTAGCTTAATAGATGATATTTCTGTTTTCC
33902154 ATGTGGTTTT
Statistics
Matches: 454, Mismatches: 64, Indels: 50
0.80 0.11 0.09
Matches are distributed among these distances:
213 1 0.00
214 84 0.19
215 52 0.11
216 1 0.00
217 35 0.08
218 1 0.00
219 1 0.00
220 12 0.03
221 53 0.12
222 101 0.22
223 9 0.02
229 16 0.04
230 67 0.15
231 2 0.00
232 19 0.04
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (220 bp):
TTTTTTTTGCCTATATCTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGTTG
TTCCAGGTAGCTTAATAGATGATATTTCTGTTTTCCGTACGGTTTTGCCATGCAATGGTTTTGGT
ATTAACCTCTGTTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTGGGACTTTTTTATGGTTA
TATGATATAATGATCTTTGGATTCA
Found at i:33909572 original size:58 final size:59
Alignment explanation
Indices: 33909503--33909639 Score: 163
Period size: 58 Copynumber: 2.3 Consensus size: 59
33909493 TTTACATCTT
* * *
33909503 GGTACTTGAACTCGGCTTTAAGGTTTAAATTG-TCACCTAAAGCTTTA-TT-GTCCAATTA
1 GGTACTTGAACTTGGCTTTAAGATTCAAATTGAT-ACCTAAAG-TTTATTTGGTCCAATTA
* * *
33909561 GGTACTTGAACTTGACTTTAATATTCAATTTGATACCTAAAGTTTATTTTGGTCCAATTA
1 GGTACTTGAACTTGGCTTTAAGATTCAAATTGATACCTAAAGTTTA-TTTGGTCCAATTA
*
33909621 GGTACTTAAACTTGGCTTT
1 GGTACTTGAACTTGGCTTT
33909640 TTGGTTCAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
57 4 0.06
58 34 0.51
59 3 0.04
60 26 0.39
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (59 bp):
GGTACTTGAACTTGGCTTTAAGATTCAAATTGATACCTAAAGTTTATTTGGTCCAATTA
Found at i:33920464 original size:30 final size:30
Alignment explanation
Indices: 33920430--33920491 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
33920420 CATTTTACTT
*
33920430 TTAGGTACAGTTTGGAAAA-CTATTTAGTAA
1 TTAGGTACAGTTTGGAAAATC-ATTTAATAA
*
33920460 TTAGGTACTGTTTGGAAAATCATTTAATAA
1 TTAGGTACAGTTTGGAAAATCATTTAATAA
33920490 TT
1 TT
33920492 GAATTTGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.40
Consensus pattern (30 bp):
TTAGGTACAGTTTGGAAAATCATTTAATAA
Found at i:33922413 original size:9 final size:9
Alignment explanation
Indices: 33922399--33922424 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33922389 TTTGTTAATT
33922399 TAGAAACCC
1 TAGAAACCC
33922408 TAGAAACCC
1 TAGAAACCC
33922417 TAGAAACC
1 TAGAAACC
33922425 AAGAGTGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.31, G:0.12, T:0.12
Consensus pattern (9 bp):
TAGAAACCC
Found at i:33928058 original size:10 final size:11
Alignment explanation
Indices: 33928026--33928068 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
33928016 TTTGGGTTTA
*
33928026 GGTTTTTATTT
1 GGTTTTGATTT
* *
33928037 TGTTTTGGTTT
1 GGTTTTGATTT
33928048 GGTTTT-ATTT
1 GGTTTTGATTT
33928058 GGTTTTGATTT
1 GGTTTTGATTT
33928069 CAGATTTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.07, C:0.00, G:0.23, T:0.70
Consensus pattern (11 bp):
GGTTTTGATTT
Found at i:33928921 original size:3 final size:3
Alignment explanation
Indices: 33928913--33928940 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
33928903 TATTTAGTCT
33928913 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33928941 AAAACAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33937197 original size:15 final size:15
Alignment explanation
Indices: 33937177--33937206 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33937167 ATTGATGGTT
*
33937177 AATATTTTTCTGAAA
1 AATATTTGTCTGAAA
33937192 AATATTTGTCTGAAA
1 AATATTTGTCTGAAA
33937207 TTCTGCTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (15 bp):
AATATTTGTCTGAAA
Found at i:33940433 original size:23 final size:23
Alignment explanation
Indices: 33940386--33940436 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
33940376 GGATTTAAAC
*
33940386 AAATATTCATATTTATATAATTA
1 AAATATTCATATTTATATAAATA
*
33940409 AAATATTCATATTT-TGTAACATA
1 AAATATTCATATTTATATAA-ATA
33940432 AAATA
1 AAATA
33940437 ATAATTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATATTCATATTTATATAAATA
Found at i:33940873 original size:19 final size:19
Alignment explanation
Indices: 33940835--33940873 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
33940825 TGACTAGTAC
* *
33940835 ATTATTTTTCATTAATCAA
1 ATTATTTTTCATGAAACAA
*
33940854 ATTATTTTTCGTGAAACAA
1 ATTATTTTTCATGAAACAA
33940873 A
1 A
33940874 CATATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (19 bp):
ATTATTTTTCATGAAACAA
Found at i:33944793 original size:62 final size:59
Alignment explanation
Indices: 33944724--33944837 Score: 147
Period size: 62 Copynumber: 1.9 Consensus size: 59
33944714 AACGATTATC
* * *
33944724 TTAATATTAAATTAAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTAAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGAT
* * *
33944786 TTAATATTCAATTTAATCTAATATTTATCTTGATAATTATTATATTAATTTA
1 TTAATATTAAATTAAATCTAATATTTATCTTGATAAATATTATATTAATTTA
33944838 TTATTAAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 19 0.41
60 1 0.02
61 1 0.02
62 25 0.54
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:33951955 original size:29 final size:30
Alignment explanation
Indices: 33951893--33951968 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
33951883 TACTTATACT
**
33951893 CTTTTAACA-TTT-AAAATTTAGTCTCTTTA
1 CTTTTAA-ATTTTAAAAATTTAGTCTCTCAA
* * *
33951922 -TTTTTATTTTTAAAAATTTAGTTTCTCAA
1 CTTTTAAATTTTAAAAATTTAGTCTCTCAA
33951951 CTTTTAAATTTTAAAAAT
1 CTTTTAAATTTTAAAAAT
33951969 ATAAATTCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
28 8 0.22
29 14 0.38
30 15 0.41
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (30 bp):
CTTTTAAATTTTAAAAATTTAGTCTCTCAA
Found at i:33955162 original size:17 final size:17
Alignment explanation
Indices: 33955124--33955165 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
33955114 TTATATATAT
*
33955124 TATA-ATTTAAAAATAA
1 TATATATTTAAAAAGAA
*
33955140 TATATATTTAAAAAGAT
1 TATATATTTAAAAAGAA
*
33955157 TCTATATTT
1 TATATATTT
33955166 TTATAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TATATATTTAAAAAGAA
Found at i:33956037 original size:28 final size:27
Alignment explanation
Indices: 33956006--33956059 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
33955996 AACATTTTAT
* *
33956006 CTATATCGGTTAATTTTTCTTAAAAGAA
1 CTATATCAGTTAATTTAT-TTAAAAGAA
*
33956034 CTATATTAGTTAATTTATTTAAAAGA
1 CTATATCAGTTAATTTATTTAAAAGA
33956060 TAAATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.44
Consensus pattern (27 bp):
CTATATCAGTTAATTTATTTAAAAGAA
Found at i:33956066 original size:27 final size:28
Alignment explanation
Indices: 33956014--33956068 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
33956004 ATCTATATCG
* *
33956014 GTTAATTTTTCTTAAAAGAACTATATTA
1 GTTAATTTATCTTAAAAGAACAATATTA
33956042 GTTAATTTAT-TTAAAAGATA-AATATTA
1 GTTAATTTATCTTAAAAGA-ACAATATTA
33956069 AAACTATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (28 bp):
GTTAATTTATCTTAAAAGAACAATATTA
Found at i:33958742 original size:21 final size:21
Alignment explanation
Indices: 33958716--33958762 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
33958706 ATTTTTACAT
*
33958716 TTTTTACCTTATGCAATTATA
1 TTTTTACCTAATGCAATTATA
* *
33958737 TTTTTACCTAATGGAGTTATA
1 TTTTTACCTAATGCAATTATA
33958758 TTTTT
1 TTTTT
33958763 TTGTCTTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTTTACCTAATGCAATTATA
Found at i:33964472 original size:21 final size:22
Alignment explanation
Indices: 33964443--33964489 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
33964433 CAGAAGGAGT
*
33964443 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
*
33964465 GAGT-GTACTCCGCAGTAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
33964486 GAGT
1 GAGT
33964490 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.17, G:0.38, T:0.23
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:33970160 original size:29 final size:30
Alignment explanation
Indices: 33970117--33970197 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
33970107 GAATTGGATC
33970117 AAATCAAAATTTCATGTATAAAATTACACA-
1 AAATCAAAA-TTCATGTATAAAATTACACAT
* *
33970147 AAATCAAAATTCATGTATACAATTGCACATT
1 AAATCAAAATTCATGTATAAAATTACACA-T
* *
33970178 AAACCATAATTCATGTATAA
1 AAATCAAAATTCATGTATAA
33970198 TTTTAAGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 18 0.41
30 9 0.20
31 17 0.39
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTCATGTATAAAATTACACAT
Found at i:33970809 original size:10 final size:9
Alignment explanation
Indices: 33970786--33970860 Score: 73
Period size: 9 Copynumber: 8.2 Consensus size: 9
33970776 AATACATTTT
33970786 AAAATTATA
1 AAAATTATA
33970795 AAAATTATA
1 AAAATTATA
*
33970804 AAAAAT-TA
1 AAAATTATA
*
33970812 AAATTTATA
1 AAAATTATA
33970821 AAAATTATA
1 AAAATTATA
33970830 ATAAATTAAATA
1 A-AAATT--ATA
*
33970842 AAAA-CATA
1 AAAATTATA
*
33970850 AAATTTATA
1 AAAATTATA
33970859 AA
1 AA
33970861 TATATATATA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
8 12 0.22
9 30 0.56
10 5 0.09
11 3 0.06
12 4 0.07
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:33970825 original size:16 final size:17
Alignment explanation
Indices: 33970793--33970860 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
33970783 TTTAAAATTA
33970793 TAAAAATTATAAAAAAT
1 TAAAAATTATAAAAAAT
* *
33970810 TAAAATTTATAAAAATT
1 TAAAAATTATAAAAAAT
33970827 ATAATAAATTAAATAAAAACA-
1 -TAA-AAATT--ATAAAAA-AT
*
33970848 TAAAATTTATAAA
1 TAAAAATTATAAA
33970861 TATATATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
17 20 0.49
18 3 0.07
19 8 0.20
20 3 0.07
21 7 0.17
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAATTATAAAAAAT
Found at i:33970826 original size:26 final size:25
Alignment explanation
Indices: 33970784--33970839 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
33970774 TAAATACATT
33970784 TTAAAATTATAAAAATTATAAAAAA
1 TTAAAATTATAAAAATTATAAAAAA
*
33970809 TTAAAATTTATAAAAATTATAATAAA
1 TTAAAA-TTATAAAAATTATAAAAAA
33970835 TTAAA
1 TTAAA
33970840 TAAAAACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
TTAAAATTATAAAAATTATAAAAAA
Found at i:33970843 original size:38 final size:35
Alignment explanation
Indices: 33970786--33970860 Score: 107
Period size: 38 Copynumber: 2.1 Consensus size: 35
33970776 AATACATTTT
33970786 AAAATTATAAAAATTATAAAAA-ATTAAAATTTATA
1 AAAATTATAAAAATTATAAAAACA-TAAAATTTATA
33970821 AAAATTATAATAAATTAAATAAAAACATAAAATTTATA
1 AAAATTATAA-AAATT--ATAAAAACATAAAATTTATA
33970859 AA
1 AA
33970861 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
35 10 0.28
36 5 0.14
38 20 0.56
39 1 0.03
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (35 bp):
AAAATTATAAAAATTATAAAAACATAAAATTTATA
Found at i:33973559 original size:109 final size:109
Alignment explanation
Indices: 33973366--33973583 Score: 427
Period size: 109 Copynumber: 2.0 Consensus size: 109
33973356 TTACAACTAA
33973366 CGGGAAAGAATTTGTCCTTCCCTCACCAAATCAGTAATTAGATGTTGGGCTAGCCAAATTTGCCA
1 CGGGAAAGAATTTGTCCTTCCCTCACCAAATCAGTAATTAGATGTTGGGCTAGCCAAATTTGCCA
*
33973431 AACAGCTTTAACTGTTGGCTGGGGTTAGATCACTAGGCTAGGAT
66 AACAGCTTTAACTGCTGGCTGGGGTTAGATCACTAGGCTAGGAT
33973475 CGGGAAAGAATTTGTCCTTCCCTCACCAAATCAGTAATTAGATGTTGGGCTAGCCAAATTTGCCA
1 CGGGAAAGAATTTGTCCTTCCCTCACCAAATCAGTAATTAGATGTTGGGCTAGCCAAATTTGCCA
33973540 AACAGCTTTAACTGCTGGCTGGGGTTAGATCACTAGGCTAGGAT
66 AACAGCTTTAACTGCTGGCTGGGGTTAGATCACTAGGCTAGGAT
33973584 ATCTCTTTTT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (109 bp):
CGGGAAAGAATTTGTCCTTCCCTCACCAAATCAGTAATTAGATGTTGGGCTAGCCAAATTTGCCA
AACAGCTTTAACTGCTGGCTGGGGTTAGATCACTAGGCTAGGAT
Found at i:33975353 original size:32 final size:32
Alignment explanation
Indices: 33975309--33975375 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
33975299 TTAAAAATTA
*
33975309 AAAATTTTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTTAAAAAAAGTATTTTAAAAATATTTT
*
33975341 AAAATTTAAAAAAATTATTTTAAAAATATTTT
1 AAAATTTAAAAAAAGTATTTTAAAAATATTTT
33975373 AAA
1 AAA
33975376 TTAAAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (32 bp):
AAAATTTAAAAAAAGTATTTTAAAAATATTTT
Found at i:33975372 original size:11 final size:11
Alignment explanation
Indices: 33975306--33975390 Score: 77
Period size: 11 Copynumber: 7.6 Consensus size: 11
33975296 TATTTAAAAA
33975306 TTAAAAAT-TT
1 TTAAAAATATT
*
33975316 TAAAAAAGTATT
1 TTAAAAA-TATT
33975328 TTAAAAATATT
1 TTAAAAATATT
33975339 TT-AAAAT-TT
1 TTAAAAATATT
**
33975348 AAAAAAATTATT
1 TTAAAAA-TATT
33975360 TTAAAAATATT
1 TTAAAAATATT
*
33975371 TTAAATTAAAATT
1 TTAAA--AATATT
33975384 TTAAAAA
1 TTAAAAA
33975391 CAAATATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
9 2 0.03
10 15 0.25
11 19 0.31
12 15 0.25
13 10 0.16
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:33975377 original size:31 final size:31
Alignment explanation
Indices: 33975288--33975381 Score: 115
Period size: 32 Copynumber: 3.1 Consensus size: 31
33975278 AATAAATACC
**
33975288 AAAAAAATTA-TTT-AAAA-ATTAAAAATTT
1 AAAAAAATTATTTTAAAAATATTTTAAATTT
* *
33975316 TAAAAAAGTATTTTAAAAATATTTTAAAATTT
1 AAAAAAATTATTTTAAAAATATTTT-AAATTT
33975348 AAAAAAATTATTTTAAAAATATTTTAAA-TT
1 AAAAAAATTATTTTAAAAATATTTTAAATTT
33975378 AAAA
1 AAAA
33975382 TTTTAAAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.14
29 3 0.05
30 10 0.18
31 6 0.11
32 29 0.52
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (31 bp):
AAAAAAATTATTTTAAAAATATTTTAAATTT
Found at i:33978920 original size:2 final size:2
Alignment explanation
Indices: 33978915--33978945 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33978905 TACACCCTTG
*
33978915 TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33978946 GATGTGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33982648 original size:29 final size:29
Alignment explanation
Indices: 33982606--33982664 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
33982596 AACCCTAACA
33982606 CTGGTCCTTGATTGATAGGTAGATAAAAG
1 CTGGTCCTTGATTGATAGGTAGATAAAAG
33982635 CTGGTCCTTGATTGATAGGTAGATAAAAG
1 CTGGTCCTTGATTGATAGGTAGATAAAAG
33982664 C
1 C
33982665 AAAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (29 bp):
CTGGTCCTTGATTGATAGGTAGATAAAAG
Found at i:33983871 original size:2 final size:2
Alignment explanation
Indices: 33983866--33983903 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
33983856 ATTCAAACCT
*
33983866 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33983904 AACTTTATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33986260 original size:44 final size:43
Alignment explanation
Indices: 33986116--33986277 Score: 209
Period size: 43 Copynumber: 3.7 Consensus size: 43
33986106 TTGCCGCAAA
* * *
33986116 CTTTTGCGGCGCTTTTACCACAAACGCCGCTATAGATCAGGAT
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTATAGATCAAGAC
* *
33986159 CTTTAGCGGCGCTTTT-CTAACAAACGCCGCTATAGCTCAAGAC
1 CTTTAGCGGCGCTTTTAC-CACAAACGCCGCTATAGATCAAGAC
*
33986202 CTTTAGCGGCGCTTTTACCACAAACGCCACTATAGATCAAAGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTATAGATC-AAGAC
* * **
33986246 CTTTAGCGACGCTTTGATTACAAACGCCGCTA
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTA
33986278 AAAACACCAT
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.01
43 69 0.67
44 33 0.32
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTACCACAAACGCCGCTATAGATCAAGAC
Found at i:33986370 original size:16 final size:16
Alignment explanation
Indices: 33986349--33986382 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33986339 AAATATTAAA
*
33986349 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
33986365 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
33986381 TA
1 TA
33986383 ATTAGTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:33986646 original size:18 final size:18
Alignment explanation
Indices: 33986610--33986647 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
33986600 CTGAAATGGA
*
33986610 TCATCTTCATCTTCATCT
1 TCATCTTCATCATCATCT
*
33986628 TCATCTTCATCATCTTCT
1 TCATCTTCATCATCATCT
33986646 TC
1 TC
33986648 TTCACTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (18 bp):
TCATCTTCATCATCATCT
Found at i:33986650 original size:6 final size:6
Alignment explanation
Indices: 33986610--33986638 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
33986600 CTGAAATGGA
33986610 TCATCT TCATCT TCATCT TCATCT TCATC
1 TCATCT TCATCT TCATCT TCATCT TCATC
33986639 ATCTTCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.48
Consensus pattern (6 bp):
TCATCT
Found at i:33992381 original size:73 final size:73
Alignment explanation
Indices: 33992221--33992453 Score: 295
Period size: 73 Copynumber: 3.2 Consensus size: 73
33992211 TAAATCAATT
* * * * ** * *
33992221 AAACACCGCTAAATCCCCAAAAGCGCAAAAAAATGTGTAGTTTTGGCTTAGGTTTTTTTGCGGCG
1 AAACGCCGCTAAATCCCCGAAAGCACACAAAACGGAGTCGTTTTGGCTTAGG-TTTTTTGCGGCG
* *
33992286 CTTCCTTAA
65 CTTTCTAAA
* *
33992295 AAACGCCGCTAAATCCCCGAAAGCACACAAAACGGAGTCGTTTTGCCTTATGTTTTTTGCGGCGC
1 AAACGCCGCTAAATCCCCGAAAGCACACAAAACGGAGTCGTTTTGGCTTAGGTTTTTTGCGGCGC
33992360 TTTCTAAA
66 TTTCTAAA
* * * *
33992368 AAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGATTAGGTTTTTTGTGGCGC
1 AAACGCCGCTAAATCCCCGAAAGCACACAAAACGGAGTCGTTTTGGCTTAGGTTTTTTGCGGCGC
**
33992433 TTTCCCAA
66 TTTCTAAA
33992441 AAACGCCGCTAAA
1 AAACGCCGCTAAA
33992454 GCCCTGAGCA
Statistics
Matches: 139, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 97 0.70
74 42 0.30
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (73 bp):
AAACGCCGCTAAATCCCCGAAAGCACACAAAACGGAGTCGTTTTGGCTTAGGTTTTTTGCGGCGC
TTTCTAAA
Found at i:33992478 original size:114 final size:114
Alignment explanation
Indices: 33992353--33992681 Score: 482
Period size: 115 Copynumber: 2.9 Consensus size: 114
33992343 TATGTTTTTT
* *
33992353 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTTGGATTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTA
* *
33992418 GGTTTTTTGTGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * ** *
33992467 GCGGCGCTTTCTTAAAAACGCCACTAAATCTCCGAAAGCTCACAAAAACTGCGAGGTTTTACG-T
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAC-AAAACTGCGTCGTTTT-GGAT
* *
33992531 TAGGTTTTTTGCGGCGCTATCTCAAAAACGCCGCTAAAGCCGTGAGCATTA
64 TAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* ** * *
33992582 GCGGCGCTTCCTTAAAAATACCGCTAAATCCAC-AAAGCTCACAAAACTGCATCGTTTTGGATTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTA
33992646 GGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
66 GGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
33992682 TCCACAAAGC
Statistics
Matches: 190, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
112 1 0.01
113 51 0.27
114 49 0.26
115 88 0.46
116 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACTGCGTCGTTTTGGATTA
GGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:33992699 original size:72 final size:72
Alignment explanation
Indices: 33992582--33992753 Score: 299
Period size: 72 Copynumber: 2.4 Consensus size: 72
33992572 GTGAGCATTA
* * *
33992582 GCGGCGCTTCCTTAAAAATACCGCTAAATCCACAAAGCTCACAAAACTGCATCGTTTTGGATTAG
1 GCGGCGCTTTCTCAAAAATGCCGCTAAATCCACAAAGCTCACAAAACTGCATCGTTTTGGATTAG
33992647 GTTTTTT
66 GTTTTTT
* *
33992654 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCACAAAGCTCACAAAACTGCGTCGTTTTGGATTAG
1 GCGGCGCTTTCTCAAAAATGCCGCTAAATCCACAAAGCTCACAAAACTGCATCGTTTTGGATTAG
33992719 GTTTTTT
66 GTTTTTT
33992726 GCGGCGCTTTCTCAAAAATGCCGCTAAA
1 GCGGCGCTTTCTCAAAAATGCCGCTAAA
33992754 GCCCTAAGCA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 94 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (72 bp):
GCGGCGCTTTCTCAAAAATGCCGCTAAATCCACAAAGCTCACAAAACTGCATCGTTTTGGATTAG
GTTTTTT
Found at i:33992741 original size:185 final size:187
Alignment explanation
Indices: 33992467--33992864 Score: 606
Period size: 185 Copynumber: 2.1 Consensus size: 187
33992457 CTGAGCATTA
* *
33992467 GCGGCGCTTTCTTAAAAACGCCACTAAATCTCCGAAAGCTCACAAAAACTGCGAGGTTTTACGTT
1 GCGGCGCTTTCTAAAAAACGCCACTAAATCTCCGAAAGCTCACAAAAACTGCGACGTTTTACGTT
* *
33992532 AGGTTTTTTGCGGCGCTATCTCAAAAACGCCGCTAAAGCCGTGAGCATTAGCGGCGCTTCCTTAA
66 AGGTTTTTTGCGGCGCTATCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTCCTTAA
*
33992597 AAATACCGCTAAATCCACAAAGCTCACAAAACTGCATCGTTTTGGATTAGGTTTTTT
131 AAACACCGCTAAATCCACAAAGCTCACAAAACTGCATCGTTTTGGATTAGGTTTTTT
* * * *
33992654 GCGGCGCTTTCTCAAAAACGCCGCTAAATC-CAC-AAAGCTCAC-AAAACTGCGTCGTTTT-GGA
1 GCGGCGCTTTCTAAAAAACGCCACTAAATCTC-CGAAAGCTCACAAAAACTGCGACGTTTTACG-
* *
33992715 TTAGGTTTTTTGCGGCGCTTTCTCAAAAATGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTCCTT
64 TTAGGTTTTTTGCGGCGCTATCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTCCTT
** * *
33992780 AAAAACGTCGCTAAATCCACAAAGCTCACAAAACTGCGTCGTTTTGGATTCGGTTTTTT
129 AAAAACACCGCTAAATCCACAAAGCTCACAAAACTGCATCGTTTTGGATTAGGTTTTTT
*
33992839 GCGGCGCTTTTTAAAAAACGCCACTA
1 GCGGCGCTTTCTAAAAAACGCCACTA
33992865 TTGCTTATTG
Statistics
Matches: 192, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
184 1 0.01
185 152 0.79
186 10 0.05
187 29 0.15
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (187 bp):
GCGGCGCTTTCTAAAAAACGCCACTAAATCTCCGAAAGCTCACAAAAACTGCGACGTTTTACGTT
AGGTTTTTTGCGGCGCTATCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTCCTTAA
AAACACCGCTAAATCCACAAAGCTCACAAAACTGCATCGTTTTGGATTAGGTTTTTT
Found at i:33992951 original size:12 final size:12
Alignment explanation
Indices: 33992934--33992959 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33992924 TTTTTTATTC
33992934 AAACGCCGCTAA
1 AAACGCCGCTAA
33992946 AAACGCCGCTAA
1 AAACGCCGCTAA
33992958 AA
1 AA
33992960 GCCGGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:33996812 original size:21 final size:21
Alignment explanation
Indices: 33996773--33996839 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
33996763 CAATATTCAT
33996773 TTCAAT-TCAAATAATCAATATA
1 TTCAATAT-AAAT-ATCAATATA
*
33996795 TTCAATATATATATCAAT-TCA
1 TTCAATATAAATATCAATAT-A
* *
33996816 ATCAATATAAAT-TCAATAAA
1 TTCAATATAAATATCAATATA
33996836 TTCA
1 TTCA
33996840 TCACATACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 10 0.27
21 17 0.46
22 9 0.24
23 1 0.03
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.37
Consensus pattern (21 bp):
TTCAATATAAATATCAATATA
Found at i:33996855 original size:24 final size:24
Alignment explanation
Indices: 33996810--33996856 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33996800 TATATATATC
33996810 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
33996834 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
33996857 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:33997531 original size:11 final size:11
Alignment explanation
Indices: 33997500--33997591 Score: 51
Period size: 11 Copynumber: 7.9 Consensus size: 11
33997490 AAGCCCTTAA
33997500 CTTTTGTCTTTC
1 CTTTT-TCTTTC
*
33997512 TCCTTTTCTTTC
1 -CTTTTTCTTTC
33997524 CTTTTTC-TTC
1 CTTTTTCTTTC
*
33997534 CTTTTTTTTTC
1 CTTTTTCTTTC
* * *
33997545 CCTTGTGTTTC
1 CTTTTTCTTTC
*
33997556 GTTTGTTCTTTC
1 CTTT-TTCTTTC
* *
33997568 TTTCTTTTCTATTT
1 -CT-TTTTCT-TTC
33997582 CTTTTTCTTT
1 CTTTTTCTTT
33997592 TATTTTATTA
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
10 9 0.15
11 21 0.34
12 17 0.28
13 10 0.16
14 4 0.07
ACGTcount: A:0.01, C:0.23, G:0.05, T:0.71
Consensus pattern (11 bp):
CTTTTTCTTTC
Found at i:34001026 original size:21 final size:21
Alignment explanation
Indices: 34000970--34001038 Score: 72
Period size: 20 Copynumber: 3.3 Consensus size: 21
34000960 ATTATAAATG
*
34000970 TTTTATAATATTA-TTTTT-AA
1 TTTTA-AATATAATTTTTTAAA
*
34000990 TTTTAAATA-GATTTTTTAAA
1 TTTTAAATATAATTTTTTAAA
34001010 TTTTAAATATAATTTTTTAATA
1 TTTTAAATATAATTTTTTAA-A
*
34001032 TTATAAA
1 TTTTAAA
34001039 ACATTTAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.02
19 9 0.21
20 16 0.38
21 9 0.21
22 7 0.17
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
TTTTAAATATAATTTTTTAAA
Found at i:34001044 original size:20 final size:20
Alignment explanation
Indices: 34000983--34001038 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
34000973 TATAATATTA
*
34000983 TTTTTAAT-TTTAAATAGAT
1 TTTTTAATATTTAAATAAAT
34001002 TTTTTAA-ATTTTAAATATAAT
1 TTTTTAATA-TTTAAATA-AAT
34001023 TTTTTAATATTATAAA
1 TTTTTAATATT-TAAA
34001039 ACATTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 7 0.23
20 8 0.26
21 11 0.35
22 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTTAATATTTAAATAAAT
Found at i:34001061 original size:16 final size:15
Alignment explanation
Indices: 34001046--34001089 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
34001036 AAAACATTTA
34001046 AAATATATTATTTTT
1 AAATATATTATTTTT
* *
34001061 AAAGATATGACTTTTT
1 AAATATATTA-TTTTT
*
34001077 AAATTTATTATTT
1 AAATATATTATTT
34001090 GTTTTATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (15 bp):
AAATATATTATTTTT
Found at i:34001152 original size:18 final size:19
Alignment explanation
Indices: 34001129--34001174 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
34001119 AAAAATTTAA
*
34001129 ATAATATTTTA-TTTCAAT
1 ATAATATTTTATTTTAAAT
* *
34001147 ATAATA-ATAATTTTAAAT
1 ATAATATTTTATTTTAAAT
34001165 ATAATATTTT
1 ATAATATTTT
34001175 TAAAATTTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
17 2 0.10
18 18 0.86
19 1 0.05
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAATATTTTATTTTAAAT
Found at i:34001181 original size:23 final size:23
Alignment explanation
Indices: 34001155--34001202 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
34001145 ATATAATAAT
34001155 AATTTTAAATATAATATTTTTAA
1 AATTTTAAATATAATATTTTTAA
* *
34001178 AATTTTAAATATACTTTTTTTAA
1 AATTTTAAATATAATATTTTTAA
34001201 AA
1 AA
34001203 CGTTTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTAAATATAATATTTTTAA
Found at i:34001217 original size:23 final size:23
Alignment explanation
Indices: 34001158--34001217 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
34001148 TAATAATAAT
* * *
34001158 TTTAAATATAATATTTTTAAAAT
1 TTTAAATATACTTTTTTTAAAAG
34001181 TTTAAATATACTTTTTTTAAAACG
1 TTTAAATATACTTTTTTTAAAA-G
*
34001205 TTTGAATAT-CTTT
1 TTTAAATATACTTT
34001218 AAAAATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 24 0.75
24 8 0.25
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.53
Consensus pattern (23 bp):
TTTAAATATACTTTTTTTAAAAG
Found at i:34001268 original size:20 final size:20
Alignment explanation
Indices: 34001260--34001302 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
34001250 TTTTTATAAT
34001260 ATTAAAAAATTATATTTAAA
1 ATTAAAAAATTATATTTAAA
*
34001280 ATTAAAAAATAATATTATAAA
1 ATTAAAAAATTATATT-TAAA
34001301 AT
1 AT
34001303 ATTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTAAAAAATTATATTTAAA
Found at i:34001292 original size:33 final size:33
Alignment explanation
Indices: 34001216--34001303 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
34001206 TTGAATATCT
*
34001216 TTAAAAATAATTTTAAAAAATAATAATTTAAAA
1 TTAAAAATAATATTAAAAAATAATAATTTAAAA
**** *
34001249 TTTTTTATAATATTAAAAAATTAT-ATTTAAAA
1 TTAAAAATAATATTAAAAAATAATAATTTAAAA
*
34001281 TTAAAAAATAATATTATAAAATA
1 TT-AAAAATAATATTAAAAAATA
34001304 TTTAAAATAT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
32 10 0.24
33 32 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TTAAAAATAATATTAAAAAATAATAATTTAAAA
Found at i:34001312 original size:22 final size:22
Alignment explanation
Indices: 34001280--34001344 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
34001270 TATATTTAAA
*
34001280 ATTAAAAAATAATATTATAAAAT
1 ATTATAAAATAA-ATTATAAAAT
34001303 ATT-TAAAATATACATT-TAAAAT
1 ATTATAAAATA-A-ATTATAAAAT
*
34001325 ATTATAAAATAAATAATAAA
1 ATTATAAAATAAATTATAAA
34001345 CAAACAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
21 2 0.06
22 20 0.56
23 14 0.39
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTATAAAATAAATTATAAAAT
Found at i:34001332 original size:23 final size:23
Alignment explanation
Indices: 34001252--34001335 Score: 88
Period size: 22 Copynumber: 3.8 Consensus size: 23
34001242 TTTAAAATTT
*
34001252 TTTATAATATTAAAAAAT-TATA
1 TTTAAAATATTAAAAAATATATA
34001274 TTT-AAA-ATTAAAAAATA-ATA
1 TTTAAAATATTAAAAAATATATA
* *
34001294 TTATAAAATATT-TAAAATATACA
1 TT-TAAAATATTAAAAAATATATA
*
34001317 TTTAAAATATTATAAAATA
1 TTTAAAATATTAAAAAATA
34001336 AATAATAAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
20 15 0.28
21 3 0.06
22 21 0.40
23 14 0.26
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTAAAATATTAAAAAATATATA
Found at i:34001380 original size:14 final size:15
Alignment explanation
Indices: 34001330--34001390 Score: 56
Period size: 14 Copynumber: 4.2 Consensus size: 15
34001320 AAAATATTAT
34001330 AAAATAAATAATA-AA
1 AAAATAAATAA-AGAA
* *
34001345 CAAACAAATAAA-AA
1 AAAATAAATAAAGAA
*
34001359 AAAATAAA-AATGAA
1 AAAATAAATAAAGAA
*
34001373 AAAGTAAATAAAGAA
1 AAAATAAATAAAGAA
34001388 AAA
1 AAA
34001391 CAAATAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
13 2 0.05
14 18 0.49
15 17 0.46
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (15 bp):
AAAATAAATAAAGAA
Found at i:34001381 original size:18 final size:17
Alignment explanation
Indices: 34001350--34001432 Score: 81
Period size: 16 Copynumber: 5.2 Consensus size: 17
34001340 ATAAACAAAC
*
34001350 AAAT-AAAAAAAAATAA
1 AAATGAAAAACAAATAA
*
34001366 AAATGAAAAAGTAAAT--
1 AAATGAAAAA-CAAATAA
34001382 AAA-GAAAAACAAAT-A
1 AAATGAAAAACAAATAA
34001397 AAATGAAAAA-AACA-AA
1 AAATGAAAAACAA-ATAA
34001413 AAATGAAAAACAAATAA
1 AAATGAAAAACAAATAA
34001430 AAA
1 AAA
34001433 AATCAGAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
14 4 0.07
15 11 0.19
16 26 0.46
17 12 0.21
18 4 0.07
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.11
Consensus pattern (17 bp):
AAATGAAAAACAAATAA
Found at i:34001382 original size:47 final size:46
Alignment explanation
Indices: 34001331--34001434 Score: 124
Period size: 47 Copynumber: 2.3 Consensus size: 46
34001321 AAATATTATA
* * *
34001331 AAATAAATAATAAACAAA-CAAAT-AAAAAAAAATAAAAATGAAAAAGT
1 AAATAAAGAA-AAACAAATAAAATGAAAAAAAAA-AAAAATGAAAAA-C
*
34001378 AAATAAAGAAAAACAAATAAAATGAAAAAAACAAAAAATGAAAAAC
1 AAATAAAGAAAAACAAATAAAATGAAAAAAAAAAAAAATGAAAAAC
34001424 AAATAAA-AAAA
1 AAATAAAGAAAA
34001435 TCAGAAAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
45 4 0.08
46 14 0.27
47 25 0.49
48 8 0.16
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (46 bp):
AAATAAAGAAAAACAAATAAAATGAAAAAAAAAAAAAATGAAAAAC
Found at i:34001395 original size:14 final size:14
Alignment explanation
Indices: 34001346--34001434 Score: 67
Period size: 14 Copynumber: 6.1 Consensus size: 14
34001336 AATAATAAAC
*
34001346 AAACAAATAAAAAA
1 AAACAAATAAAGAA
* *
34001360 AAATAAA-AATGAA
1 AAACAAATAAAGAA
*
34001373 AAAGTAAATAAAGAA
1 AAA-CAAATAAAGAA
34001388 AAACAAATAAAATGAAAA
1 AAACAAAT-AAA-G--AA
34001406 AAACAAA-AAATGAA
1 AAACAAATAAA-GAA
34001420 AAACAAATAAA-AA
1 AAACAAATAAAGAA
34001433 AA
1 AA
34001435 TCAGAAAAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.17
14 23 0.37
15 14 0.22
16 6 0.10
18 9 0.14
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (14 bp):
AAACAAATAAAGAA
Found at i:34001396 original size:32 final size:33
Alignment explanation
Indices: 34001342--34001432 Score: 109
Period size: 32 Copynumber: 2.8 Consensus size: 33
34001332 AATAAATAAT
*
34001342 AAACAAACAAAT-AAAAAAAAATAAAAATGAAAA
1 AAACAAA-AAATGAAAAACAAATAAAAATGAAAA
* *
34001375 AGTA-AATAAA-GAAAAACAAAT-AAAATGAAAA
1 A-AACAAAAAATGAAAAACAAATAAAAATGAAAA
34001406 AAACAAAAAATGAAAAACAAATAAAAA
1 AAACAAAAAATGAAAAACAAATAAAAA
34001433 AATCAGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
30 1 0.02
31 16 0.33
32 23 0.48
33 7 0.15
34 1 0.02
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.10
Consensus pattern (33 bp):
AAACAAAAAATGAAAAACAAATAAAAATGAAAA
Found at i:34002037 original size:6 final size:6
Alignment explanation
Indices: 34002003--34002035 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
34001993 ATCGTCTTTT
*
34002003 TATTTA TATTTA TATTTA TATTTA TATATA TAT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TAT
34002036 ATTTTGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATTTA
Found at i:34002603 original size:24 final size:23
Alignment explanation
Indices: 34002574--34002620 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
34002564 ATGTACATTC
* *
34002574 GCATATTTTATATGTCATATATAT
1 GCATATTTAATATAT-ATATATAT
34002598 GCATATTTAATATATATATATAT
1 GCATATTTAATATATATATATAT
34002621 ATATTAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (23 bp):
GCATATTTAATATATATATATAT
Found at i:34005009 original size:29 final size:28
Alignment explanation
Indices: 34004966--34005028 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
34004956 TTTGTTGAGC
* *
34004966 TCTGGCTGTATATTTGCAATTACTAGAGT
1 TCTGGCGGTAAATTTGCAATTAC-AGAGT
* *
34004995 TCTGGCGGTAAATTTGCAATTTCGGAGT
1 TCTGGCGGTAAATTTGCAATTACAGAGT
34005023 TCTGGC
1 TCTGGC
34005029 AATTTGTTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (28 bp):
TCTGGCGGTAAATTTGCAATTACAGAGT
Found at i:34007765 original size:9 final size:9
Alignment explanation
Indices: 34007745--34007813 Score: 93
Period size: 9 Copynumber: 7.7 Consensus size: 9
34007735 TTTAATTAAA
*
34007745 AATTAACTG
1 AATTAACCG
*
34007754 AATTACCCG
1 AATTAACCG
34007763 AATTAACCG
1 AATTAACCG
*
34007772 AATTAACCA
1 AATTAACCG
34007781 AATTAACCG
1 AATTAACCG
* *
34007790 GATTACCCG
1 AATTAACCG
34007799 AATTAACCG
1 AATTAACCG
34007808 AATTAA
1 AATTAA
34007814 ATCACTACAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:34007945 original size:18 final size:18
Alignment explanation
Indices: 34007902--34007945 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
34007892 AATTTTTATG
**
34007902 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
*
34007920 ATTAGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
34007938 CTTGGGTT
1 ATTGGGTT
34007946 TAGATTGGGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:34011709 original size:72 final size:71
Alignment explanation
Indices: 34011508--34011709 Score: 262
Period size: 72 Copynumber: 2.8 Consensus size: 71
34011498 CACTGCATAA
* * *
34011508 CCCATGACATGGGCTTGAAGTACTTGCCACCCAGGGGATTGTACTGGAGCTGGTGAATACTGCAA
1 CCCATGACATGGGC-TGAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTGATGAATACTGCAA
**
34011573 GCCTTGC
65 GCCAGGC
* * *
34011580 CCCATGACATGGGCTCGAACTGCTTGCCACCCAGGGGATTGTACAGGCGC-CAGTGAATACTGCA
1 CCCATGACATGGGCT-GAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTGA-TGAATACTGCA
34011644 AGCCAGGC
64 AGCCAGGC
* * *
34011652 CCCGTGACATGGGCATGAAGTGCTTGCCACCCCGGGGATTGTGCAGGAGCTGATGAAT
1 CCCATGACATGGGC-TGAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTGATGAAT
34011710 GGGTTGCTAC
Statistics
Matches: 112, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
71 1 0.01
72 109 0.97
73 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.31, T:0.20
Consensus pattern (71 bp):
CCCATGACATGGGCTGAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTGATGAATACTGCAAG
CCAGGC
Found at i:34013639 original size:159 final size:159
Alignment explanation
Indices: 34013342--34013823 Score: 660
Period size: 159 Copynumber: 3.0 Consensus size: 159
34013332 GAAATTCTCT
* * * *
34013342 TGCGATCAACATGCTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAATTGTTT
1 TGCGACCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACTGTTT
* ** *
34013407 CCTGAATCCCTTTCATCACTTGC-TCCACTAAATCCAGATCTCTCAGTGCTGCGTTGTTCATAGA
66 CCTGAATCTCTTTCATCAC-TGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGA
* * *
34013471 TATCTGAAGAAAGCATTTTATGAAGGCCAC
130 TTTCTGAAGAAAGCATTCTGTGAAGGCCAC
* ** * * * * * **
34013501 TGCGATCACTGTGTTTTTGAGATTTTTTAACATTTCCAATATTTCTCCTTTCACCATAACCATTT
1 TGCGACCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACTGTTT
* *
34013566 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATTTCTCAACACTGCGTTGTTCAAAGAT
66 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
*
34013631 TTCAGAAGAAAGCATTCTGTGAAGGCCAC
131 TTCTGAAGAAAGCATTCTGTGAAGGCCAC
* * * *
34013660 CGTGACCACCATGTTTTTCAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACTGCTT
1 TGCGACCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACTGTTT
* **
34013725 CCTGAATCTCTTTCATCACTTCTTCCAGAAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
66 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
*
34013790 TTCTGAAGAAAGTATTCTGTGAAGGCCAC
131 TTCTGAAGAAAGCATTCTGTGAAGGCCAC
34013819 TGCGA
1 TGCGA
34013824 GGAGTAAAAG
Statistics
Matches: 277, Mismatches: 45, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
158 3 0.01
159 274 0.99
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.37
Consensus pattern (159 bp):
TGCGACCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACTGTTT
CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
TTCTGAAGAAAGCATTCTGTGAAGGCCAC
Found at i:34014944 original size:4 final size:4
Alignment explanation
Indices: 34014935--34014993 Score: 118
Period size: 4 Copynumber: 14.8 Consensus size: 4
34014925 TAGCCATTGC
34014935 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
34014983 ACAT ACAT ACA
1 ACAT ACAT ACA
34014994 ATAAGAAACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:34031677 original size:103 final size:98
Alignment explanation
Indices: 34031483--34031709 Score: 260
Period size: 103 Copynumber: 2.3 Consensus size: 98
34031473 AGTTCATGTG
* *
34031483 AATAGTTGCAGATTAAATTTTCCAACAACAATAATAACAATCATAAAACAAAATTGAGCAGCAAA
1 AATAATTGCAGATTAGATTTTCCAACAACAATAATAACAATCATAAAACAAAATTGAGCAGCAAA
*
34031548 CTTACTTCGCACATCAAAACACTAAGTTCATACA
66 CTTACTTCGCACACCAAAACACTAAGTTCATA-A
* *
34031582 AATAATTGCAAATTAGATTTTCCAACAATC-ATAATAAACAAATACATAAAA-AGGCAATTGAGC
1 AATAATTGCAGATTAGATTTTCCAACAA-CAATAAT-AAC-AAT-CATAAAACA--AAATTGAGC
* * * * *
34031645 AGCAAACTTGCTTTGCACACCGAACCGCTAAGTTCATAA
60 AGCAAACTTACTTCGCACACCAAAACACTAAGTTCATAA
* *
34031684 AAAAGATTGCAGATTAGATTTCCCAA
1 AATA-ATTGCAGATTAGATTTTCCAA
34031710 AAACGATTTT
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
99 30 0.28
100 4 0.04
101 4 0.04
102 11 0.10
103 59 0.55
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (98 bp):
AATAATTGCAGATTAGATTTTCCAACAACAATAATAACAATCATAAAACAAAATTGAGCAGCAAA
CTTACTTCGCACACCAAAACACTAAGTTCATAA
Found at i:34032393 original size:7 final size:7
Alignment explanation
Indices: 34032377--34032413 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
34032367 GACAGAGAGT
34032377 AATC-GC
1 AATCGGC
34032383 AATCGGC
1 AATCGGC
34032390 AATCGGC
1 AATCGGC
34032397 AATCGGC
1 AATCGGC
34032404 AATCGGC
1 AATCGGC
34032411 AAT
1 AAT
34032414 TCAAGTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.16
Consensus pattern (7 bp):
AATCGGC
Found at i:34032718 original size:78 final size:79
Alignment explanation
Indices: 34032613--34032762 Score: 223
Period size: 78 Copynumber: 1.9 Consensus size: 79
34032603 AATTCTCCTA
**
34032613 CTTTTTCAATTTAAAAATCATACTCCAATCATTATCGTTGTTGGTAGA-TTTTGTTAAAATTTAT
1 CTTTTTCAATTTAAAAATCATACTCCAATCATTATCGTCATTGGTA-ATTTTTGTTAAAATTTAT
34032677 CAACTTAATATGTTT
65 CAACTTAATATGTTT
* * *
34032692 CTTTTT-AATTTAAAAATCCTAGTCCAATCATTATTGTCATTGGTAATTTTTGTTAAAATTTATC
1 CTTTTTCAATTTAAAAATCATACTCCAATCATTATCGTCATTGGTAATTTTTGTTAAAATTTATC
*
34032756 AATTTAA
66 AACTTAA
34032763 CATATTTATT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
77 1 0.02
78 57 0.89
79 6 0.09
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (79 bp):
CTTTTTCAATTTAAAAATCATACTCCAATCATTATCGTCATTGGTAATTTTTGTTAAAATTTATC
AACTTAATATGTTT
Found at i:34033178 original size:14 final size:14
Alignment explanation
Indices: 34033159--34033206 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
34033149 TAAATGATAT
34033159 TTTTTTTTACATAA
1 TTTTTTTTACATAA
* * *
34033173 TTTTTTTAATAAAA
1 TTTTTTTTACATAA
**
34033187 TTACTTTTACATAA
1 TTTTTTTTACATAA
34033201 TTTTTT
1 TTTTTT
34033207 CTCACTTATG
Statistics
Matches: 24, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTTTTACATAA
Found at i:34033703 original size:12 final size:12
Alignment explanation
Indices: 34033680--34033716 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
34033670 TTTTTGCAAC
34033680 TATTTTTGTTGT
1 TATTTTTGTTGT
*
34033692 TATTTTTATTGT
1 TATTTTTGTTGT
*
34033704 TGTTTTTGTTGT
1 TATTTTTGTTGT
34033716 T
1 T
34033717 TGGCAGTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (12 bp):
TATTTTTGTTGT
Found at i:34033717 original size:56 final size:56
Alignment explanation
Indices: 34033634--34033766 Score: 135
Period size: 56 Copynumber: 2.4 Consensus size: 56
34033624 AAAATTATCT
* * * * *
34033634 TGTTGTTTTGTTGTTGTTATTGGTGTTTTGG-TGTT-ATTTTTGCAACTATTTTTGT
1 TGTTTTTTTATTGTTGTTTTTGGTG-TTTGGCAGTTGATTTTTGCAACTATTTTTGA
* * * *
34033689 TGTTATTTTTATTGTTGTTTTTGTTGTTTGGCAGTTGTTTTTTGCTACTGTTTTTGA
1 TGTT-TTTTTATTGTTGTTTTTGGTGTTTGGCAGTTGATTTTTGCAACTATTTTTGA
* *
34033746 TGTTTTTTCATTGTCGTTTTT
1 TGTTTTTTTATTGTTGTTTTT
34033767 AATATTATTT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
55 9 0.14
56 35 0.55
57 20 0.31
ACGTcount: A:0.08, C:0.05, G:0.21, T:0.65
Consensus pattern (56 bp):
TGTTTTTTTATTGTTGTTTTTGGTGTTTGGCAGTTGATTTTTGCAACTATTTTTGA
Found at i:34034202 original size:30 final size:30
Alignment explanation
Indices: 34034157--34034219 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
34034147 ACTTAACAAG
*
34034157 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTAAAAATAATAACAAAATTAA
*
34034187 CAAATGTCTTAAAAATAATAACAAAATTAA
1 CAAATGCCTTAAAAATAATAACAAAATTAA
34034217 CAA
1 CAA
34034220 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTAAAAATAATAACAAAATTAA
Found at i:34038773 original size:3 final size:3
Alignment explanation
Indices: 34038765--34038793 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34038755 TTTGATCTAT
34038765 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34038794 CTGGGGGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:34040606 original size:21 final size:19
Alignment explanation
Indices: 34040578--34040617 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
34040568 TTGTGTTTGG
*
34040578 TAAAT-ATATTAACCTTTT
1 TAAATAATATAAACCTTTT
34040596 TAAATAATATAAACCTTTT
1 TAAATAATATAAACCTTTT
34040615 TAA
1 TAA
34040618 GTGTTTGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATAATATAAACCTTTT
Found at i:34041428 original size:14 final size:14
Alignment explanation
Indices: 34041409--34041456 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
34041399 TAAGTAAAAA
34041409 ATAATATAAATTTT
1 ATAATATAAATTTT
*
34041423 ATAATATATAACCTTT
1 ATAATATA-AA-TTTT
34041439 ATAA-ATAAGATTTT
1 ATAATATAA-ATTTT
34041453 ATAA
1 ATAA
34041457 ATTGTCCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 16 0.55
15 6 0.21
16 7 0.24
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (14 bp):
ATAATATAAATTTT
Found at i:34041433 original size:16 final size:15
Alignment explanation
Indices: 34041411--34041458 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 15
34041401 AGTAAAAAAT
34041411 AATATAAATTTTATA
1 AATATAAATTTTATA
**
34041426 ATATATAACCTTTATA
1 A-ATATAAATTTTATA
*
34041442 AATA-AGATTTTATA
1 AATATAAATTTTATA
34041456 AAT
1 AAT
34041459 TGTCCAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 10 0.37
15 4 0.15
16 13 0.48
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (15 bp):
AATATAAATTTTATA
Found at i:34043879 original size:17 final size:17
Alignment explanation
Indices: 34043844--34043903 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
34043834 GAAAACGTTT
* *
34043844 AATATTGTT-TCTAAAA
1 AATATTTTTATCTCAAA
34043860 AATATTTTTATCTCAAA
1 AATATTTTTATCTCAAA
* ***
34043877 AATACTTTTAAGACAAA
1 AATATTTTTATCTCAAA
34043894 AATATTTTTA
1 AATATTTTTA
34043904 AATAAGTTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
16 8 0.22
17 28 0.78
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (17 bp):
AATATTTTTATCTCAAA
Found at i:34043904 original size:17 final size:17
Alignment explanation
Indices: 34043857--34043904 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
34043847 ATTGTTTCTA
* *
34043857 AAAAATATTTTTATCTC
1 AAAAATATTTTTAACAC
* *
34043874 AAAAATACTTTTAAGAC
1 AAAAATATTTTTAACAC
34043891 AAAAATATTTTTAA
1 AAAAATATTTTTAA
34043905 ATAAGTTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (17 bp):
AAAAATATTTTTAACAC
Found at i:34045042 original size:21 final size:20
Alignment explanation
Indices: 34045004--34045042 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
34044994 TATAATTCGA
**
34045004 ATTTAAATTAATTTTAAATT
1 ATTTAAATTAATCATAAATT
34045024 ATTTAAATTTAATCATAAA
1 ATTTAAA-TTAATCATAAA
34045043 AATAACAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTAAATTAATCATAAATT
Found at i:34060006 original size:2 final size:2
Alignment explanation
Indices: 34059999--34060033 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
34059989 AGCACTAAAC
34059999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34060034 TTTATACTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:34064192 original size:29 final size:30
Alignment explanation
Indices: 34064114--34064198 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
34064104 GATTAAATCA
* * *
34064114 AAATTGAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATACAATTGAACC
* * *
34064144 ATAATTAGAGTTTCACGTATACAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGAACC
*
34064175 AAATTAAAG-TTCATGTATACAATT
1 AAATTAAAGTTTCAAGTATACAATT
34064199 ACACATTGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 14 0.30
30 8 0.17
31 24 0.52
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGAACC
Found at i:34068372 original size:15 final size:14
Alignment explanation
Indices: 34068349--34068379 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
34068339 AGAGATAACT
34068349 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
34068363 AAAAAGGAAAAAAAG
1 AAAAA-GAAAAAAAG
34068378 AA
1 AA
34068380 TAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:34074604 original size:30 final size:29
Alignment explanation
Indices: 34074526--34074604 Score: 72
Period size: 30 Copynumber: 2.7 Consensus size: 29
34074516 TTAATTTTTC
* *
34074526 TTTTTAAAAACTTTAATTAGACCCACAATT
1 TTTTTAAAAA-TTTAATTAAACCCACAATA
* *
34074556 TTTTTAAAAAATTCATTAAACTCCTA-AA-A
1 TTTTTAAAAATTTAATTAAAC-CC-ACAATA
34074585 TTTTTAAAAATTTTAATTAA
1 TTTTTAAAAA-TTTAATTAA
34074605 CCCGAAAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
29 18 0.45
30 21 0.52
31 1 0.03
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.43
Consensus pattern (29 bp):
TTTTTAAAAATTTAATTAAACCCACAATA
Found at i:34075695 original size:59 final size:60
Alignment explanation
Indices: 34075591--34075764 Score: 242
Period size: 59 Copynumber: 2.9 Consensus size: 60
34075581 TTAATATAAT
* * *
34075591 ATTTAGTACCTGAATTTGACACTTTTTCTTAATTTGGTACTTAAACTTTTTTT-GGCCCA
1 ATTTGGTACCTGAATTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTGGGCCCA
* * *
34075650 ATTTGGTACTTGAATTTGACACTTTTTCCTAATTTGATACCTAAACTTTTTTTGGGCTCA
1 ATTTGGTACCTGAATTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTGGGCCCA
* * *
34075710 ATTTGGTACCTGAACTTGACATTTTTTTCCCTAATTTGGTACCTAAGCTTTTTTT
1 ATTTGGTACCTGAATTTGACA-CTTTTT-CCTAATTTGGTACCTAAACTTTTTTT
34075765 TTAGGTTCAA
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
59 48 0.48
60 24 0.24
61 5 0.05
62 24 0.24
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (60 bp):
ATTTGGTACCTGAATTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTGGGCCCA
Found at i:34080197 original size:21 final size:18
Alignment explanation
Indices: 34080144--34080203 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
34080134 ATGGCTTTTA
*
34080144 AATAATTTTTTAAATTAAGT
1 AATAATATTTT-AA-TAAGT
34080164 AATAATATTTTAATAAGT
1 AATAATATTTTAATAAGT
* *
34080182 AATAATATTTTATTAATT
1 AATAATATTTTAATAAGT
34080200 AATA
1 AATA
34080204 TTATAAAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 25 0.68
19 2 0.05
20 10 0.27
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (18 bp):
AATAATATTTTAATAAGT
Found at i:34083628 original size:37 final size:37
Alignment explanation
Indices: 34083578--34083653 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
34083568 GATGTATTAA
*
34083578 TTCAAGAAAGGACTAAATTGTAAAAGTGAGAAAAGTT
1 TTCAAAAAAGGACTAAATTGTAAAAGTGAGAAAAGTT
34083615 TTCAAAAAAGGACTAAATTGTAAAAGTGAGAAAAGTT
1 TTCAAAAAAGGACTAAATTGTAAAAGTGAGAAAAGTT
34083652 TT
1 TT
34083654 ATGGTCCAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.26
Consensus pattern (37 bp):
TTCAAAAAAGGACTAAATTGTAAAAGTGAGAAAAGTT
Found at i:34085490 original size:25 final size:25
Alignment explanation
Indices: 34085434--34085490 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
34085424 CCTTAGCGCA
*
34085434 CTCTCTGATTATTAGCACGTTAGTG
1 CTCTCTGATTATTAGCACATTAGTG
*
34085459 CTATCTGATTATTAGCACATTAGTG
1 CTCTCTGATTATTAGCACATTAGTG
*
34085484 TTCTCTG
1 CTCTCTG
34085491 TTCAATAGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (25 bp):
CTCTCTGATTATTAGCACATTAGTG
Found at i:34092587 original size:17 final size:18
Alignment explanation
Indices: 34092565--34092599 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34092555 TTACATTTTG
*
34092565 GTTATTTAATT-TTAAAA
1 GTTATTAAATTGTTAAAA
34092582 GTTATTAAATTGTTAAAA
1 GTTATTAAATTGTTAAAA
34092600 TTGTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (18 bp):
GTTATTAAATTGTTAAAA
Found at i:34092935 original size:31 final size:31
Alignment explanation
Indices: 34092895--34092962 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
34092885 CTTAATAGCC
* * *
34092895 CAATGACTTAAATAAAAACTTTCAAATAGTT
1 CAATTACTTAAATAAAAACATTCAAATAATT
** *
34092926 CAATTACTTAAATGTAAACATTCGAATAATT
1 CAATTACTTAAATAAAAACATTCAAATAATT
34092957 CAATTA
1 CAATTA
34092963 TCATTTTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (31 bp):
CAATTACTTAAATAAAAACATTCAAATAATT
Found at i:34097912 original size:17 final size:17
Alignment explanation
Indices: 34097878--34097912 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34097868 GCATATCCTG
* *
34097878 ATTCGAAATTCAAAAAA
1 ATTCAAAATTAAAAAAA
34097895 ATTCAAAATTAAAAAAA
1 ATTCAAAATTAAAAAAA
34097912 A
1 A
34097913 AAGAGATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.23
Consensus pattern (17 bp):
ATTCAAAATTAAAAAAA
Found at i:34097933 original size:27 final size:30
Alignment explanation
Indices: 34097894--34097953 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 30
34097884 AATTCAAAAA
*
34097894 AATTCAAAATTAAA-AAA-AAA-AGAGATG
1 AATTCAAAATTAAATAAAGAAACAAAGATG
* *
34097921 AATTCATATTTAAATAAAGAAACAAAGATG
1 AATTCAAAATTAAATAAAGAAACAAAGATG
34097951 AAT
1 AAT
34097954 GAATTAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.44
28 3 0.11
29 3 0.11
30 9 0.33
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (30 bp):
AATTCAAAATTAAATAAAGAAACAAAGATG
Found at i:34098574 original size:16 final size:16
Alignment explanation
Indices: 34098553--34098594 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
34098543 ACGCAATTAC
34098553 GAGGCGTAATGGAATA
1 GAGGCGTAATGGAATA
34098569 GAGGCGTAATGGAATA
1 GAGGCGTAATGGAATA
34098585 GAGGCGTAAT
1 GAGGCGTAAT
34098595 AGGTAATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.36, C:0.07, G:0.38, T:0.19
Consensus pattern (16 bp):
GAGGCGTAATGGAATA
Found at i:34098663 original size:44 final size:46
Alignment explanation
Indices: 34098574--34098664 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
34098564 GAATAGAGGC
*
34098574 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
34098620 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
34098664 G
1 G
34098665 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:34098665 original size:39 final size:44
Alignment explanation
Indices: 34098574--34098681 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
34098564 GAATAGAGGC
*
34098574 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
34098620 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
34098660 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
34098682 CATAAGGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:34098843 original size:15 final size:15
Alignment explanation
Indices: 34098823--34098861 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
34098813 CATAATTGTT
34098823 ATAAAATATAATTTA
1 ATAAAATATAATTTA
34098838 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
34098855 ATAAAAT
1 ATAAAAT
34098862 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Done.