Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 372 of 373
Found at i:123016878 original size:61 final size:61
Alignment explanation
Indices: 123016753--123016875 Score: 151
Period size: 60 Copynumber: 2.0 Consensus size: 61
123016743 TATTAATATA
* ****
123016753 TTAATAAATTTAGCTCTTCAATATTTATATGTTTTATTAATTTAATCTTAAATCTAAAAAT
1 TTAATAAATTTAACTCTTCAATATTTATAAAAATTATTAATTTAATCTTAAATCTAAAAAT
* * *
123016814 TTAATAAATTTAACTCTT-AATATTTATAAAAATTATTATTTTAGT-TCTAATTCTAAAAAT
1 TTAATAAATTTAACTCTTCAATATTTATAAAAATTATTAATTTAATCT-TAAATCTAAAAAT
123016874 TT
1 TT
123016876 TAAAAATAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 1 0.02
60 35 0.66
61 17 0.32
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (61 bp):
TTAATAAATTTAACTCTTCAATATTTATAAAAATTATTAATTTAATCTTAAATCTAAAAAT
Found at i:123025149 original size:22 final size:22
Alignment explanation
Indices: 123025078--123025157 Score: 67
Period size: 21 Copynumber: 3.7 Consensus size: 22
123025068 CGATTGTGTG
123025078 TTGTTTAAATCGATTC--TTTA
1 TTGTTTAAATCGATTCTTTTTA
* * *
123025098 CTTCTTTAAATTGATT-TTTTTG
1 -TTGTTTAAATCGATTCTTTTTA
* *
123025120 TTGATTGAATCGATTCTTTTTA
1 TTGTTTAAATCGATTCTTTTTA
* *
123025142 TTGTTTGAATCAATTC
1 TTGTTTAAATCGATTC
123025158 ATTGGTGTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
21 24 0.52
22 22 0.48
ACGTcount: A:0.23, C:0.10, G:0.11, T:0.56
Consensus pattern (22 bp):
TTGTTTAAATCGATTCTTTTTA
Found at i:123025409 original size:15 final size:15
Alignment explanation
Indices: 123025389--123025440 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
123025379 ACTACAAAAG
123025389 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
123025404 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
123025423 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
123025438 ATT
1 ATT
123025441 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:123025848 original size:18 final size:19
Alignment explanation
Indices: 123025809--123025849 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
123025799 GTTGTTTATA
*
123025809 TATTGTATAATTCTTGTTT
1 TATTGTATAATTCTTGTAT
123025828 TATTGT-TAATT-TTGCTAT
1 TATTGTATAATTCTTG-TAT
123025846 TATT
1 TATT
123025850 TTGGAGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 11 0.55
19 6 0.30
ACGTcount: A:0.22, C:0.05, G:0.10, T:0.63
Consensus pattern (19 bp):
TATTGTATAATTCTTGTAT
Found at i:123027318 original size:187 final size:187
Alignment explanation
Indices: 123026967--123027334 Score: 515
Period size: 187 Copynumber: 2.0 Consensus size: 187
123026957 TGAAGGCTAA
* * * * ** *
123026967 ACTTTTTTGAAAGTGTCACACATGCTGTTGAAGGATGCGAGAAGAGAGCTGGATTTGTTTAGTAG
1 ACTTCTTTGAAAATATCACACATGCTGCTGAAGGATGCGAGAAGAGAGCTAAATTTGTTTAGTAC
* * * *
123027032 TAAGGAGTGCAAGAACGATACTCAAACTTTAAATTTTACCCTTTTTGACATTTTAATTACTTTTA
66 TAAGGAGTCCAAGAACGATAATCAAACTTTAAATTTTACCCTTTTTAACATTTTAATTAATTTTA
* *
123027097 AAAATTATGCAACAACTTTTTACTCTTTTTTTTTTCAAAATTTTCATTTTAGGTTGG
131 AAAATTATACAACAACATTTTACTCTTTTTTTTTTCAAAATTTTCATTTTAGGTTGG
123027154 ACTTCTTTGAAAATATCACACATGCTGCTGAAGGATGCGAGAAGAGAGCTAAATTTGTTTAGTAC
1 ACTTCTTTGAAAATATCACACATGCTGCTGAAGGATGCGAGAAGAGAGCTAAATTTGTTTAGTAC
* * *
123027219 TAGGGAGCTCCAGGAACTATAATCAAACTTTAAATTTTACCCTTTTTAACATTTTAATTAATTTT
66 TAAGGAG-TCCAAGAACGATAATCAAACTTTAAATTTTACCCTTTTTAACATTTTAATTAATTTT
* * ** *
123027284 AAAAGTTATACAATAACATTTTA-T-TTTATTTTTTTTTAAATTTTTATTTTA
130 AAAAATTATACAACAACATTTTACTCTTT-TTTTTTTCAAAATTTTCATTTTA
123027335 AATCATGCAC
Statistics
Matches: 158, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
186 3 0.02
187 85 0.54
188 70 0.44
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (187 bp):
ACTTCTTTGAAAATATCACACATGCTGCTGAAGGATGCGAGAAGAGAGCTAAATTTGTTTAGTAC
TAAGGAGTCCAAGAACGATAATCAAACTTTAAATTTTACCCTTTTTAACATTTTAATTAATTTTA
AAAATTATACAACAACATTTTACTCTTTTTTTTTTCAAAATTTTCATTTTAGGTTGG
Found at i:123027328 original size:13 final size:13
Alignment explanation
Indices: 123027302--123027337 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
123027292 TACAATAACA
123027302 TTTTATTTT--AT
1 TTTTATTTTAAAT
123027313 TTTT-TTTTAAAT
1 TTTTATTTTAAAT
123027325 TTTTATTTTAAAT
1 TTTTATTTTAAAT
123027338 CATGCACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.18
11 4 0.18
12 6 0.27
13 8 0.36
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTATTTTAAAT
Found at i:123030477 original size:22 final size:23
Alignment explanation
Indices: 123030434--123030479 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
123030424 TTAATTTTGA
*
123030434 ATTTTTGAAATTTAATTAAATTT
1 ATTTATGAAATTTAATTAAATTT
*
123030457 ATTTATGAAA-TTAATTTAATTT
1 ATTTATGAAATTTAATTAAATTT
123030479 A
1 A
123030480 AGTTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
ATTTATGAAATTTAATTAAATTT
Found at i:123033159 original size:42 final size:42
Alignment explanation
Indices: 123033113--123033255 Score: 101
Period size: 42 Copynumber: 3.1 Consensus size: 42
123033103 AAAATCAGAG
123033113 TGAATTGAAGATGGAAATTGTGAAATTGAAGCAAAAAAATGA
1 TGAATTGAAGATGGAAATTGTGAAATTGAAGCAAAAAAATGA
* * ** *
123033155 TGAATCTAATGATAAACTGGAAGCTGAGATTGGGATTTTGAAG-AAAAATCAAAG-
1 TGAA--T--TGA-AGA-TGG-A----A-ATTGTGAAATTGAAGCAAAAA--AATGA
123033209 TGAATTGAAGATGGAAATTGTGAAATTGAAGCAAAAAAATGA
1 TGAATTGAAGATGGAAATTGTGAAATTGAAGCAAAAAAATGA
123033251 TGAAT
1 TGAAT
123033256 CTAATGATAA
Statistics
Matches: 75, Mismatches: 10, Indels: 32
0.64 0.09 0.27
Matches are distributed among these distances:
41 3 0.04
42 21 0.28
43 6 0.08
44 1 0.01
46 3 0.04
47 3 0.04
48 6 0.08
49 3 0.04
50 3 0.04
52 1 0.01
53 6 0.08
54 16 0.21
55 3 0.04
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.25
Consensus pattern (42 bp):
TGAATTGAAGATGGAAATTGTGAAATTGAAGCAAAAAAATGA
Found at i:123033201 original size:96 final size:96
Alignment explanation
Indices: 123033076--123033269 Score: 379
Period size: 96 Copynumber: 2.0 Consensus size: 96
123033066 AATACTGAAT
*
123033076 TGGAAGCTGAGATTGGGATTTTGAAGAAAAATCAGAGTGAATTGAAGATGGAAATTGTGAAATTG
1 TGGAAGCTGAGATTGGGATTTTGAAGAAAAATCAAAGTGAATTGAAGATGGAAATTGTGAAATTG
123033141 AAGCAAAAAAATGATGAATCTAATGATAAAC
66 AAGCAAAAAAATGATGAATCTAATGATAAAC
123033172 TGGAAGCTGAGATTGGGATTTTGAAGAAAAATCAAAGTGAATTGAAGATGGAAATTGTGAAATTG
1 TGGAAGCTGAGATTGGGATTTTGAAGAAAAATCAAAGTGAATTGAAGATGGAAATTGTGAAATTG
123033237 AAGCAAAAAAATGATGAATCTAATGATAAAC
66 AAGCAAAAAAATGATGAATCTAATGATAAAC
123033268 TG
1 TG
123033270 ACTGTATTCG
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (96 bp):
TGGAAGCTGAGATTGGGATTTTGAAGAAAAATCAAAGTGAATTGAAGATGGAAATTGTGAAATTG
AAGCAAAAAAATGATGAATCTAATGATAAAC
Found at i:123033529 original size:42 final size:41
Alignment explanation
Indices: 123033453--123033834 Score: 291
Period size: 42 Copynumber: 9.1 Consensus size: 41
123033443 TGAGACACAA
* * * * * *
123033453 GTCACTAAGAGTTTGCTTGAGCTTATGGGAACTGATCAAACG
1 GTCACAAAGAGCTTGCCTGAGCCTATGGG-ACTGACCAAAGG
** **
123033495 GTCACAAAGAGCTTGAATGAGCCTATGGAGACTGACCGGAGG
1 GTCACAAAGAGCTTGCCTGAGCCTATGG-GACTGACCAAAGG
* * * *
123033537 GGCACCAAGAACTTGCCTGAGCCTATAGGGACTGACCAGAGG
1 GTCACAAAGAGCTTGCCTGAGCCTAT-GGGACTGACCAAAGG
* * * * *
123033579 GTCACCAAGAACTTGCCTGGGCCTATGGGGAATGACCAAAGT
1 GTCACAAAGAGCTTGCCTGAGCCTAT-GGGACTGACCAAAGG
* *
123033621 GTCACAAAGAGCTTGCCTGAGCCTATGGGGACTGACCGAAGT
1 GTCACAAAGAGCTTGCCTGAGCCTAT-GGGACTGACCAAAGG
*
123033663 GT-AGCAAAGAGCTTGCCTGAGCCTATAGGGACTGACCAGAGG
1 GTCA-CAAAGAGCTTGCCTGAGCCTAT-GGGACTGACCAAAGG
* * * *
123033705 GTCACCAAAGAG-TTGGCTGAGCCTACGGGGACTGACCAATGT
1 GTCA-CAAAGAGCTTGCCTGAGCCTA-TGGGACTGACCAAAGG
* * * * ** * *
123033747 GTCCCAAAGACCTTGCCTAAGCCAATGGAGACCAACCAACGT
1 GTCACAAAGAGCTTGCCTGAGCCTATGG-GACTGACCAAAGG
* * * * * *
123033789 ATCACAAAGACCTTGCCTAAGCCTATGGAGATTGGCCAAAGT
1 GTCACAAAGAGCTTGCCTGAGCCTATGG-GACTGACCAAAGG
123033831 GTCA
1 GTCA
123033835 TCAACTCTAA
Statistics
Matches: 279, Mismatches: 54, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
41 9 0.03
42 259 0.93
43 11 0.04
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (41 bp):
GTCACAAAGAGCTTGCCTGAGCCTATGGGACTGACCAAAGG
Found at i:123033678 original size:126 final size:125
Alignment explanation
Indices: 123033495--123033778 Score: 374
Period size: 126 Copynumber: 2.3 Consensus size: 125
123033485 TGATCAAACG
** * *
123033495 GTCACAAAGAGCTTGAATGAGCCTATGGAGACTGACCGGAGGGGCACCAAGAACTTGCCTGAGCC
1 GTCACAAAGAGCTTGCCTGAGCCTATGGAGACTGACCGAAGGAGCA-CAAGAACTTGCCTGAGCC
* *
123033560 TATAGGGACTGACCAGAGGGTCACC-AAGAACTTGCCTGGGCCTATGGGGAATGACCAAAGT
65 TATAGGGACTGACCAGAGGGTCACCAAAG-ACTTGCCTGAGCCTACGGGGAATGACCAAAGT
* *
123033621 GTCACAAAGAGCTTGCCTGAGCCTATGGGGACTGACCGAAGTGTAGCA-AAGAGCTTGCCTGAGC
1 GTCACAAAGAGCTTGCCTGAGCCTATGGAGACTGACCGAAG-G-AGCACAAGAACTTGCCTGAGC
* * * *
123033685 CTATAGGGACTGACCAGAGGGTCACCAAAGAGTTGGCTGAGCCTACGGGGACTGACCAATGT
64 CTATAGGGACTGACCAGAGGGTCACCAAAGACTTGCCTGAGCCTACGGGGAATGACCAAAGT
* * * *
123033747 GTCCCAAAGACCTTGCCTAAGCCAATGGAGAC
1 GTCACAAAGAGCTTGCCTGAGCCTATGGAGAC
123033779 CAACCAACGT
Statistics
Matches: 138, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
126 131 0.95
127 4 0.03
128 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.30, T:0.17
Consensus pattern (125 bp):
GTCACAAAGAGCTTGCCTGAGCCTATGGAGACTGACCGAAGGAGCACAAGAACTTGCCTGAGCCT
ATAGGGACTGACCAGAGGGTCACCAAAGACTTGCCTGAGCCTACGGGGAATGACCAAAGT
Found at i:123033797 original size:126 final size:126
Alignment explanation
Indices: 123033543--123033814 Score: 343
Period size: 126 Copynumber: 2.2 Consensus size: 126
123033533 GAGGGGCACC
* *
123033543 AAGAACTTGCCTGAGCCTATAGGGACTGACCAGAGGGTCACCAAGAACTTGCCTGGGCCTATGGG
1 AAGAACTTGCCTGAGCCTATAGGGACTGACCAGAGGGTCACCAAGAACTTGCCTGAGCCTACGGG
* * * * ** *
123033608 GAATGACCAAAGTGTCACAAAGAGCTTGCCTGAGCCTATGGGGACTGACCGAAGTGTAGCA
66 GAATGACCAAAGTGTCACAAAGACCTTGCCTAAGCCAATGGAGACCAACCGAAGTATAGCA
* * *
123033669 AAGAGCTTGCCTGAGCCTATAGGGACTGACCAGAGGGTCACCAA-AGAGTTGGCTGAGCCTACGG
1 AAGAACTTGCCTGAGCCTATAGGGACTGACCAGAGGGTCACCAAGA-ACTTGCCTGAGCCTACGG
* * *
123033733 GGACTGACCAATGTGTCCCAAAGACCTTGCCTAAGCCAATGGAGACCAACC-AACGTATCA-CA
65 GGAATGACCAAAGTGTCACAAAGACCTTGCCTAAGCCAATGGAGACCAACCGAA-GTAT-AGCA
* *
123033795 AAGACCTTGCCTAAGCCTAT
1 AAGAACTTGCCTGAGCCTAT
123033815 GGAGATTGGC
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
125 3 0.02
126 122 0.97
127 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.18
Consensus pattern (126 bp):
AAGAACTTGCCTGAGCCTATAGGGACTGACCAGAGGGTCACCAAGAACTTGCCTGAGCCTACGGG
GAATGACCAAAGTGTCACAAAGACCTTGCCTAAGCCAATGGAGACCAACCGAAGTATAGCA
Found at i:123041225 original size:41 final size:41
Alignment explanation
Indices: 123041099--123041225 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 41
123041089 CTTCGTTTTC
* *
123041099 TCGATGCCATAGTTCA-ACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAG-CCAGA-TATGGTCTTACACATATTCACAT-A
* * * *
123041142 T-GATGTCATAACCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCAT-AGCCAGATATGGTCTTACACATATTCACATA
* *
123041183 TCGATGCCATAGCCAGATATGGTCTTACACGTAATCACATA
1 TCGATGCCATAGCCAGATATGGTCTTACACATATTCACATA
123041224 TC
1 TC
123041226 ACATATCGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 30 0.43
42 37 0.54
43 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (41 bp):
TCGATGCCATAGCCAGATATGGTCTTACACATATTCACATA
Found at i:123041243 original size:48 final size:48
Alignment explanation
Indices: 123041169--123041351 Score: 160
Period size: 47 Copynumber: 3.9 Consensus size: 48
123041159 TATGGTCTTA
*
123041169 CACATATTCATATATCGATGCCATAG-CCAGATATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGATATGGTCTTACACG-AAT
* * *
123041218 CACATATCACATATCGATGCTATAGCCCAGCTATGGTTTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGAAT
* * * * * * * *
123041266 CACATATCTCA-CT-GATGTCATATCCCAAATATGGTCTTATACAGTAG
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACAC-GAAT
* * * *
123041313 CATATATCAC--ACCGATGCCATATCCTAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTA
123041352 TACAGAAATC
Statistics
Matches: 109, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 22 0.20
47 34 0.31
48 30 0.28
49 23 0.21
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGAAT
Found at i:123042683 original size:44 final size:45
Alignment explanation
Indices: 123042630--123042732 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
123042620 TGTCTTTGAC
* * * *
123042630 ATGGACTTACATGAATTATTCTTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
123042674 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
123042720 ATGGACTTACATG
1 ATGGACTTACATG
123042733 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:123042731 original size:46 final size:44
Alignment explanation
Indices: 123042652--123042737 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
123042642 GAATTATTCT
*
123042652 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCC
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
*
123042696 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
123042738 TTTCTGTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 15 0.39
46 23 0.61
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
Found at i:123050549 original size:44 final size:45
Alignment explanation
Indices: 123050459--123050570 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 45
123050449 ATAGAACAAA
*
123050459 AATGAGCCATGTAAGTCCA-GATTAGAAATATGGCTTTGAAGACAGG
1 AATGAGCCATGTAAGTCCATG-TTA-AAATATGGCTTGGAAGACAGG
* *
123050505 ATTGAGCCATGTAAGTCCATGTT-ATATATGGCATTGGAA-ACAGG
1 AATGAGCCATGTAAGTCCATGTTAAAATATGGC-TTGGAAGACAGG
* **
123050549 AATAATTCATGTAAGTCCATGT
1 AATGAGCCATGTAAGTCCATGT
123050571 CAAAGACATG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
44 31 0.54
45 5 0.09
46 20 0.35
47 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATGTTAAAATATGGCTTGGAAGACAGG
Found at i:123056468 original size:5 final size:5
Alignment explanation
Indices: 123056442--123056499 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
123056432 ATGTGTTAAA
* *
123056442 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
123056491 ATATT ATAT
1 ATATT ATAT
123056500 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:123056478 original size:10 final size:9
Alignment explanation
Indices: 123056443--123056500 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
123056433 TGTGTTAAAA
123056443 TATATATAT
1 TATATATAT
*
123056452 TAAAT-TAT
1 TATATATAT
123056460 TAT-TATAT
1 TATATATAT
123056468 TATAGTATAT
1 TATA-TATAT
123056478 TATAT-TA-
1 TATATATAT
123056485 TATATTATAT
1 TATA-TATAT
123056495 TATATA
1 TATATA
123056501 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:123056490 original size:12 final size:12
Alignment explanation
Indices: 123056445--123056500 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
123056435 TGTTAAAATA
*
123056445 TATATATTAAAT
1 TATATATTATAT
123056457 TAT-TATTATATT
1 TATATATTATA-T
123056469 ATAGTATATTATAT
1 -TA-TATATTATAT
123056483 TATATATTATAT
1 TATATATTATAT
123056495 TATATA
1 TATATA
123056501 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:123057837 original size:18 final size:19
Alignment explanation
Indices: 123057814--123057852 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
123057804 ATATATAGAT
123057814 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
123057832 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
123057851 AT
1 AT
123057853 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:123058202 original size:39 final size:39
Alignment explanation
Indices: 123058092--123058226 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
123058082 GACCTCGAGT
* * * *
123058092 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
123058133 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
123058171 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
123058210 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
123058227 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:123058370 original size:18 final size:19
Alignment explanation
Indices: 123058349--123058389 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
123058339 AATGAAATGA
123058349 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
123058367 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
123058386 GAAA
1 GAAA
123058390 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:123059333 original size:44 final size:45
Alignment explanation
Indices: 123059280--123059382 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 45
123059270 TGTCTTTGAC
* * *
123059280 ATGGACTTACATGAAT-TATTCTTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTT-TCTCCAAAGCCATATTATAAT
** *
123059324 ATGGACTTACATGGCTCAATCCTTTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTTTCTCCAAAGCCATA-TTATAAT
123059370 ATGGACTTACATG
1 ATGGACTTACATG
123059383 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
44 27 0.54
45 5 0.10
46 18 0.36
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTTTCTCCAAAGCCATATTATAAT
Found at i:123060645 original size:31 final size:31
Alignment explanation
Indices: 123060602--123060688 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
123060592 TGTTACACTT
*
123060602 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
123060633 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
123060664 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
123060689 TGTCATTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:123060763 original size:50 final size:51
Alignment explanation
Indices: 123060664--123060792 Score: 224
Period size: 50 Copynumber: 2.5 Consensus size: 51
123060654 CACTGATCAG
* * *
123060664 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGT
123060715 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGT
123060765 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
123060793 TGCCAAGGTC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
50 50 0.68
51 24 0.32
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGT
Found at i:123064677 original size:18 final size:18
Alignment explanation
Indices: 123064650--123064685 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
123064640 TTTTTAAATG
*
123064650 TTAAAAATAACGTAATAT
1 TTAAAAATAACATAATAT
*
123064668 TTAAATATAACATAATAT
1 TTAAAAATAACATAATAT
123064686 AAAATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.36
Consensus pattern (18 bp):
TTAAAAATAACATAATAT
Found at i:123064905 original size:59 final size:59
Alignment explanation
Indices: 123064835--123064951 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
123064825 ACCCTTTTAA
123064835 ACTTCAAATAAACTTTTAAACATAGATAGATAATCTAATTCACGAACAAATCGAATATT
1 ACTTCAAATAAACTTTTAAACATAGATAGATAATCTAATTCACGAACAAATCGAATATT
*
123064894 ACTTCAAATAAACTTTTAAACATAGATAGATAATTTAATTCACGAACAAATCGAATAT
1 ACTTCAAATAAACTTTTAAACATAGATAGATAATCTAATTCACGAACAAATCGAATAT
123064952 AAAAAATGGC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.31
Consensus pattern (59 bp):
ACTTCAAATAAACTTTTAAACATAGATAGATAATCTAATTCACGAACAAATCGAATATT
Found at i:123070373 original size:20 final size:20
Alignment explanation
Indices: 123070348--123070388 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
123070338 TTTTTAAGTT
123070348 TCTTTTTTGTAGATAAAAGA
1 TCTTTTTTGTAGATAAAAGA
123070368 TCTTTTTTGTAGATAAAAGA
1 TCTTTTTTGTAGATAAAAGA
123070388 T
1 T
123070389 TCACATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
TCTTTTTTGTAGATAAAAGA
Found at i:123070746 original size:29 final size:31
Alignment explanation
Indices: 123070695--123070756 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
123070685 ATACATTTGA
* *
123070695 ACCACAATTAGAGTTTCACGTGTATAATTAC
1 ACCACAATTAAAGTTTCACGTGTACAATTAC
*
123070726 ACCA-AATTAAAG-TTCATGTGTACAATTAC
1 ACCACAATTAAAGTTTCACGTGTACAATTAC
123070755 AC
1 AC
123070757 ATTAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 17 0.61
30 7 0.25
31 4 0.14
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (31 bp):
ACCACAATTAAAGTTTCACGTGTACAATTAC
Found at i:123075858 original size:21 final size:21
Alignment explanation
Indices: 123075819--123075859 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
123075809 TCCTCAACAA
*
123075819 ATAAATATATAATTTTTTAAT
1 ATAAATATATAATTATTTAAT
123075840 ATAAATAT-TAATATATTTAA
1 ATAAATATATAAT-TATTTAA
123075860 GTAATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAATATATAATTATTTAAT
Found at i:123079579 original size:141 final size:141
Alignment explanation
Indices: 123079325--123079594 Score: 486
Period size: 141 Copynumber: 1.9 Consensus size: 141
123079315 GCCTCCAACT
*
123079325 CCGCCTCCTGCAGCTGCATATCGTAAACCAAGGCGAAGTTATCAAGCTGTTGGCCGGAACGAGAA
1 CCGCCTCCTGCAGCTGCATATCGTAAACCAAGGCGAAGTTATCAAGCTGTTGGCCGGAAAGAGAA
*
123079390 TGTGAATAATACTCAGAAGTTTCATGTTAAGTACGATGGAAGTGAGTCTCCGGCTCCGCAGCCAT
66 TGTGAATAATACTCAAAAGTTTCATGTTAAGTACGATGGAAGTGAGTCTCCGGCTCCGCAGCCAT
123079455 TGAAGCCACCG
131 TGAAGCCACCG
*
123079466 CCGCCTCCTGCAGCTGGATATCGTAAACCAAGGCGAAGTTATCAAGCTGTTGGCCGGAAAGAGAA
1 CCGCCTCCTGCAGCTGCATATCGTAAACCAAGGCGAAGTTATCAAGCTGTTGGCCGGAAAGAGAA
* * *
123079531 TGTGAATAATGCTCAAAAGTTTCATGTTGAGTACGATGGAAGTGAGTCTCCGGCTCCTCAGCCA
66 TGTGAATAATACTCAAAAGTTTCATGTTAAGTACGATGGAAGTGAGTCTCCGGCTCCGCAGCCA
123079595 GTAACTCCAC
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
141 123 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (141 bp):
CCGCCTCCTGCAGCTGCATATCGTAAACCAAGGCGAAGTTATCAAGCTGTTGGCCGGAAAGAGAA
TGTGAATAATACTCAAAAGTTTCATGTTAAGTACGATGGAAGTGAGTCTCCGGCTCCGCAGCCAT
TGAAGCCACCG
Found at i:123080008 original size:3 final size:3
Alignment explanation
Indices: 123080000--123080045 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
123079990 CACTCAATCC
* * * *
123080000 CCA CCA CCA CCA CCA CCA CCA CCA CCT GCA CCG CCA ACA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
123080046 TCAGACCGTC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.63, G:0.04, T:0.02
Consensus pattern (3 bp):
CCA
Found at i:123085934 original size:21 final size:21
Alignment explanation
Indices: 123085893--123085937 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
123085883 ATCATTATTC
*
123085893 TAAATAAATCTTGGTAGAAAA
1 TAAATAAATCTTAGTAGAAAA
*
123085914 TAAATAAATTTTAGT-GCAAAA
1 TAAATAAATCTTAGTAG-AAAA
123085935 TAA
1 TAA
123085938 TTGACAACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.31
Consensus pattern (21 bp):
TAAATAAATCTTAGTAGAAAA
Found at i:123088690 original size:20 final size:18
Alignment explanation
Indices: 123088647--123088691 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
123088637 GAATATATAC
*
123088647 TATTAAATAAATTTTAAT
1 TATTAAATAAATTTTAAA
*
123088665 TTTTAAATTAAAATTTTAAA
1 TATTAAA-T-AAATTTTAAA
123088685 TATTAAA
1 TATTAAA
123088692 ATGTCACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 6 0.27
19 1 0.05
20 15 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTAAATAAATTTTAAA
Found at i:123090192 original size:13 final size:13
Alignment explanation
Indices: 123090176--123090202 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
123090166 TCATTAATTA
123090176 AAAAAATTATTTT
1 AAAAAATTATTTT
123090189 AAAAAATTATTTT
1 AAAAAATTATTTT
123090202 A
1 A
123090203 TTTTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAAATTATTTT
Found at i:123090229 original size:15 final size:14
Alignment explanation
Indices: 123090197--123090230 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
123090187 TTAAAAAATT
*
123090197 ATTTTATTTTTTTA
1 ATTTTATTTTTCTA
123090211 ATTTTATTTTTCTA
1 ATTTTATTTTTCTA
123090225 GATTTT
1 -ATTTT
123090231 GTATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (14 bp):
ATTTTATTTTTCTA
Found at i:123092409 original size:50 final size:50
Alignment explanation
Indices: 123092334--123092436 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
123092324 AGAAACGGTT
123092334 CAAAATGTTGAGCCCAACAGAGAGAGATTTTAATGGTCTCATATGGCGTC
1 CAAAATGTTGAGCCCAACAGAGAGAGATTTTAATGGTCTCATATGGCGTC
123092384 CAAAATGTTGAGCCCAACAGAGAGAGATTTTAATGGTCTCATATGGCGTC
1 CAAAATGTTGAGCCCAACAGAGAGAGATTTTAATGGTCTCATATGGCGTC
123092434 CAA
1 CAA
123092437 TTGATGTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (50 bp):
CAAAATGTTGAGCCCAACAGAGAGAGATTTTAATGGTCTCATATGGCGTC
Found at i:123103705 original size:13 final size:13
Alignment explanation
Indices: 123103687--123103711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123103677 TTTTCAAATA
123103687 TTAAATTTTAGAT
1 TTAAATTTTAGAT
123103700 TTAAATTTTAGA
1 TTAAATTTTAGA
123103712 AGTGTTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TTAAATTTTAGAT
Found at i:123104090 original size:143 final size:143
Alignment explanation
Indices: 123103881--123104166 Score: 509
Period size: 143 Copynumber: 2.0 Consensus size: 143
123103871 TTTTAACTTA
*
123103881 TTTTATAAATAGTTAATGCAATCTCGTTTGGGTTCAAGCTTCGAATATAAAAATTTGAGTCCAAC
1 TTTTATAAATAGTTAATGCAATCTCGTTTGGGCTCAAGCTTCGAATATAAAAATTTGAGTCCAAC
123103946 TTATATTTAAATCGGAACTGTTTTTCTCCAAATTTGATTTTATTTTTTTGTACATAACGAAGGAA
66 TTATATTTAAATCGGAACTGTTTTTCTCCAAATTTGATTTTATTTTTTTGTACATAACGAAGGAA
123104011 AAACTAATGAAAG
131 AAACTAATGAAAG
* * *
123104024 TTTTATAAATAGTTAATGCAATCTCGTTTGGGCTCAGGCTTTGAATATAAAAATTTGAGTTCAAC
1 TTTTATAAATAGTTAATGCAATCTCGTTTGGGCTCAAGCTTCGAATATAAAAATTTGAGTCCAAC
* * *
123104089 TTATATTTAAATTGGAACTGTTTTTCTCCAAATTTGTTTTTATTTTTTTGTACATAATGAAGGAA
66 TTATATTTAAATCGGAACTGTTTTTCTCCAAATTTGATTTTATTTTTTTGTACATAACGAAGGAA
123104154 AAACTAATGAAAG
131 AAACTAATGAAAG
123104167 CTTGCGAAGC
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
143 136 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (143 bp):
TTTTATAAATAGTTAATGCAATCTCGTTTGGGCTCAAGCTTCGAATATAAAAATTTGAGTCCAAC
TTATATTTAAATCGGAACTGTTTTTCTCCAAATTTGATTTTATTTTTTTGTACATAACGAAGGAA
AAACTAATGAAAG
Found at i:123105739 original size:3 final size:3
Alignment explanation
Indices: 123105731--123105772 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
123105721 CTCCATGATC
*
123105731 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
123105773 TAATCGTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:123106764 original size:3 final size:3
Alignment explanation
Indices: 123106756--123106804 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
123106746 GCCGCCATGG
* *
123106756 CTT CTT CTT CTT CTT CTT TTT CTT CTT CTT CTT CTT CTT CAT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
123106804 C
1 C
123106805 CTCGTGTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:123108051 original size:21 final size:22
Alignment explanation
Indices: 123108025--123108071 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
123108015 CTCTGCTCAA
*
123108025 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
123108046 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
123108068 ACTC
1 ACTC
123108072 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:123131092 original size:19 final size:19
Alignment explanation
Indices: 123131064--123131110 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
123131054 ACTTGCTTTG
*
123131064 AATTTTTTATAAGTT-TTAT
1 AATTTATTAT-AGTTGTTAT
*
123131083 AATTTATTATTGTTGTTAT
1 AATTTATTATAGTTGTTAT
123131102 AATTTATTA
1 AATTTATTA
123131111 CATCTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (19 bp):
AATTTATTATAGTTGTTAT
Found at i:123137320 original size:29 final size:30
Alignment explanation
Indices: 123137261--123137318 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
123137251 TCCGAGCCTT
*
123137261 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
123137291 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
123137319 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:123137548 original size:13 final size:13
Alignment explanation
Indices: 123137530--123137573 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
123137520 TTCCAGCAAC
123137530 TATGAATTTATTT
1 TATGAATTTATTT
123137543 TATGAATTTATTT
1 TATGAATTTATTT
123137556 TATGAATTTATTT
1 TATGAATTTATTT
*
123137569 GATGA
1 TATGA
123137574 TGATCTAAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:123137742 original size:50 final size:50
Alignment explanation
Indices: 123137667--123137909 Score: 387
Period size: 50 Copynumber: 4.8 Consensus size: 50
123137657 ATTTGGGTAA
*
123137667 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
123137717 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
123137767 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
123137817 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
123137867 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
123137910 TGTTATTATC
Statistics
Matches: 178, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 144 0.81
51 34 0.19
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:123144895 original size:29 final size:30
Alignment explanation
Indices: 123144836--123144893 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
123144826 TCCGAGCCTT
*
123144836 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
123144866 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
123144894 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:123145124 original size:13 final size:13
Alignment explanation
Indices: 123145106--123145136 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
123145096 TTCCAGCAAC
123145106 TATGAATTTATTT
1 TATGAATTTATTT
123145119 TATGAATTTATTT
1 TATGAATTTATTT
*
123145132 GATGA
1 TATGA
123145137 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:123145306 original size:50 final size:50
Alignment explanation
Indices: 123145231--123145472 Score: 378
Period size: 50 Copynumber: 4.8 Consensus size: 50
123145221 ATTTGGGTAA
123145231 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
123145281 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
123145330 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
123145380 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
123145430 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
123145473 TGTTATTATA
Statistics
Matches: 175, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
49 48 0.27
50 93 0.53
51 34 0.19
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:123145402 original size:99 final size:100
Alignment explanation
Indices: 123145231--123145473 Score: 389
Period size: 99 Copynumber: 2.4 Consensus size: 100
123145221 ATTTGGGTAA
* *
123145231 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCATATAA
* *
123145296 GACCATGTCTGGGACATGGCAT-GGCACCGAGATG
66 GACCATGTCTGGGACATGGCATGGGCACCAACATG
* *
123145330 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCCCTATAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCATATAA
123145395 GACCATGTCTGGGACATGGCATGGGCACCAACATG
66 GACCATGTCTGGGACATGGCATGGGCACCAACATG
** *
123145430 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
123145474 GTTATTATAG
Statistics
Matches: 133, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
99 83 0.62
100 12 0.09
101 38 0.29
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCATATAA
GACCATGTCTGGGACATGGCATGGGCACCAACATG
Found at i:123153205 original size:2 final size:2
Alignment explanation
Indices: 123153198--123153227 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
123153188 TACATACATG
123153198 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
123153228 TATGTATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:123157435 original size:6 final size:6
Alignment explanation
Indices: 123157424--123157451 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
123157414 CCATTTTTTA
123157424 AATTAT AATTAT AATTAT AATTAT AATT
1 AATTAT AATTAT AATTAT AATTAT AATT
123157452 TTACCGATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTAT
Found at i:123157901 original size:18 final size:18
Alignment explanation
Indices: 123157880--123157936 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
123157870 ATGATAATTA
123157880 ATTTTGTGGAAATTCAAT
1 ATTTTGTGGAAATTCAAT
123157898 ATTTATGAT-GATAATT--A-
1 ATTT-TG-TGGA-AATTCAAT
123157915 ATTTTGTGGAAATTCAAT
1 ATTTTGTGGAAATTCAAT
123157933 ATTT
1 ATTT
123157937 GTACTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
15 5 0.16
16 4 0.12
17 5 0.16
18 9 0.28
19 4 0.12
20 5 0.16
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (18 bp):
ATTTTGTGGAAATTCAAT
Found at i:123157907 original size:35 final size:35
Alignment explanation
Indices: 123157868--123157936 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
123157858 GTGCCAATTG
123157868 TGATGATAATTAATTTTGTGGAAATTCAATATTTA
1 TGATGATAATTAATTTTGTGGAAATTCAATATTTA
123157903 TGATGATAATTAATTTTGTGGAAATTCAATATTT
1 TGATGATAATTAATTTTGTGGAAATTCAATATTT
123157937 GTACTTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.46
Consensus pattern (35 bp):
TGATGATAATTAATTTTGTGGAAATTCAATATTTA
Found at i:123157937 original size:17 final size:17
Alignment explanation
Indices: 123157882--123157938 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
123157872 GATAATTAAT
123157882 TTTGTGGAAATTCAATA
1 TTTGTGGAAATTCAATA
*
123157899 TTTATGATGATAATT-AAT-
1 TTTGTG--GA-AATTCAATA
123157917 TTTGTGGAAATTCAATA
1 TTTGTGGAAATTCAATA
123157934 TTTGT
1 TTTGT
123157939 ACTTTATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
15 4 0.12
16 5 0.15
17 10 0.30
18 5 0.15
19 5 0.15
20 4 0.12
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (17 bp):
TTTGTGGAAATTCAATA
Found at i:123158284 original size:21 final size:22
Alignment explanation
Indices: 123158246--123158286 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
123158236 TGCTTTTATT
*
123158246 AATTTAAAATTAAAATTTTTAG
1 AATTTAAAATGAAAATTTTTAG
*
123158268 AATTT-AAATGAATATTTTT
1 AATTTAAAATGAAAATTTTT
123158287 TCATTTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
AATTTAAAATGAAAATTTTTAG
Found at i:123163714 original size:44 final size:44
Alignment explanation
Indices: 123163666--123163750 Score: 170
Period size: 44 Copynumber: 1.9 Consensus size: 44
123163656 CAGAGTTTGA
123163666 AATTTTAAAATTTGAAAAGAATAAGAATTAAAATTGACCAAATT
1 AATTTTAAAATTTGAAAAGAATAAGAATTAAAATTGACCAAATT
123163710 AATTTTAAAATTTGAAAAGAATAAGAATTAAAATTGACCAA
1 AATTTTAAAATTTGAAAAGAATAAGAATTAAAATTGACCAA
123163751 GGGGTAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (44 bp):
AATTTTAAAATTTGAAAAGAATAAGAATTAAAATTGACCAAATT
Found at i:123163746 original size:22 final size:23
Alignment explanation
Indices: 123163670--123163744 Score: 84
Period size: 22 Copynumber: 3.3 Consensus size: 23
123163660 GTTTGAAATT
123163670 TTAAAATTTGAAAAGAATAAGAA
1 TTAAAATTTGAAAAGAATAAGAA
* * **
123163693 TTAAAA-TTGACCAA-ATTAA-TT
1 TTAAAATTTGA-AAAGAATAAGAA
123163714 TTAAAATTTGAAAAGAATAAGAA
1 TTAAAATTTGAAAAGAATAAGAA
123163737 TTAAAATT
1 TTAAAATT
123163745 GACCAAGGGG
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
21 8 0.20
22 16 0.40
23 16 0.40
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (23 bp):
TTAAAATTTGAAAAGAATAAGAA
Found at i:123167154 original size:192 final size:192
Alignment explanation
Indices: 123166800--123167198 Score: 568
Period size: 192 Copynumber: 2.1 Consensus size: 192
123166790 CCACCTTGCT
* *
123166800 CAACACTAAGCACGCTACTTGCTAGTTCATTAATCAATGATCCGATCTGTTCATTGGAATTGTGA
1 CAACACTAAGCATGCTACTTGCTAGTTCATTAATCAATGATCCGATCTGTTCACTGGAATTGTGA
* * *
123166865 TTGTAAACCGATGCGTGAATGATGTTATTCATTATGATTTGAAGCGTCGGAAACTCTTTAGTTTG
66 TTGTAAACCGATGCGTGAATGATGTTACTCATTATGATTTGAAGAGTCGGAAACTCTTTACTTTG
* * * *
123166930 ATGCTTAGTCTGTTTCGGTATGAGAGGAATTGTTGAAAAACTGAATCAGTGACTGCATCGAC
131 ATGCATAGTCTGTTTCGGTACGAGAAGAATTGTTGAAAAACTGAATCAGTAACTGCATCGAC
* *
123166992 CAACACTGAGCATGCTACTTGTTAGTTCAATT-ATCAATGATCCGATCTGTTCACTGGAATTGTG
1 CAACACTAAGCATGCTACTTGCTAGTTC-ATTAATCAATGATCCGATCTGTTCACTGGAATTGTG
* * * * *
123167056 ATTGTAAATCGATGCGTGAATGATGTTACTCTTTATGATTTGAAGAGTCTGAAGCTTTTTACTTT
65 ATTGTAAACCGATGCGTGAATGATGTTACTCATTATGATTTGAAGAGTCGGAAACTCTTTACTTT
* * * * * *
123167121 GATGCATATTTTGTTTCTGTACGAGAAGAATTGTTGAAAAATTGAATCAGTAACTGCATCTAT
130 GATGCATAGTCTGTTTCGGTACGAGAAGAATTGTTGAAAAACTGAATCAGTAACTGCATCGAC
123167184 CAACAC-ACAGCATGC
1 CAACACTA-AGCATGC
123167199 AAATGCGTAA
Statistics
Matches: 182, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
192 179 0.98
193 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (192 bp):
CAACACTAAGCATGCTACTTGCTAGTTCATTAATCAATGATCCGATCTGTTCACTGGAATTGTGA
TTGTAAACCGATGCGTGAATGATGTTACTCATTATGATTTGAAGAGTCGGAAACTCTTTACTTTG
ATGCATAGTCTGTTTCGGTACGAGAAGAATTGTTGAAAAACTGAATCAGTAACTGCATCGAC
Found at i:123167763 original size:39 final size:39
Alignment explanation
Indices: 123167709--123167788 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
123167699 AAAAAATGAG
*
123167709 CAAATTAGTCTTTATCATTACATTAAAAAGCAAATTGAT
1 CAAATTAGTCTTTATCATTACATCAAAAAGCAAATTGAT
*
123167748 CAAATTAGTCTTTATCGTTACATCAAAAAGCAAATTGAT
1 CAAATTAGTCTTTATCATTACATCAAAAAGCAAATTGAT
123167787 CA
1 CA
123167789 TTCTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (39 bp):
CAAATTAGTCTTTATCATTACATCAAAAAGCAAATTGAT
Found at i:123171068 original size:25 final size:25
Alignment explanation
Indices: 123171021--123171068 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
123171011 ATCACAATTC
* *
123171021 AATAATTAATATATGATTTTAAAAA
1 AATAATTAATATATGAGTATAAAAA
123171046 AATAA-TAATATATTGAGTATAAA
1 AATAATTAATATA-TGAGTATAAA
123171069 TACATACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (25 bp):
AATAATTAATATATGAGTATAAAAA
Found at i:123187486 original size:23 final size:22
Alignment explanation
Indices: 123187438--123187486 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
123187428 CAGTAACAAT
* *
123187438 TTCTCAATTTAGGGTTCAGCCT
1 TTCTCAATTTAGGGGTCAGCCC
123187460 TTCTCAATTTAGGGGGTCAGCCC
1 TTCTCAATTTA-GGGGTCAGCCC
123187483 TTCT
1 TTCT
123187487 TCCTTTTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.39
Consensus pattern (22 bp):
TTCTCAATTTAGGGGTCAGCCC
Found at i:123188620 original size:27 final size:27
Alignment explanation
Indices: 123188548--123188614 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
123188538 ATGCCTGAAT
* *
123188548 CTAATTCAGTGGGCGTTTCGATAAAAG
1 CTAACTCAGTGGGCGTTTCAATAAAAG
123188575 CTAACTCAGTGGGCGTTTCAATAAAAG
1 CTAACTCAGTGGGCGTTTCAATAAAAG
123188602 CTAACTCAGTGGG
1 CTAACTCAGTGGG
123188615 ACTTTCCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (27 bp):
CTAACTCAGTGGGCGTTTCAATAAAAG
Found at i:123190700 original size:11 final size:11
Alignment explanation
Indices: 123190670--123190710 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
123190660 TCATGTAGTT
123190670 TTAATTTTTTAA
1 TTAA-TTTTTAA
123190682 TTTTAATTTTTAA
1 --TTAATTTTTAA
123190695 TTAATTTTTAA
1 TTAATTTTTAA
123190706 TTAAT
1 TTAAT
123190711 AAACATGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 16 0.59
13 7 0.26
14 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTAATTTTTAA
Found at i:123190742 original size:13 final size:13
Alignment explanation
Indices: 123190719--123190760 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
123190709 ATAAACATGT
*
123190719 TATTTTCAATTTA
1 TATTTTTAATTTA
* *
123190732 TCTTTTTAATTAA
1 TATTTTTAATTTA
123190745 TATTTTTAATTTA
1 TATTTTTAATTTA
123190758 TAT
1 TAT
123190761 AATAAAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTTAATTTA
Found at i:123190779 original size:19 final size:19
Alignment explanation
Indices: 123190755--123190792 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
123190745 TATTTTTAAT
123190755 TTATATAATAAAATAATAA
1 TTATATAATAAAATAATAA
* *
123190774 TTATATAATTACATAATAA
1 TTATATAATAAAATAATAA
123190793 AAATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
TTATATAATAAAATAATAA
Found at i:123190798 original size:19 final size:19
Alignment explanation
Indices: 123190757--123190799 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
123190747 TTTTTAATTT
**
123190757 ATATAATAAAATAATAATT
1 ATATAATAAAATAATAAAA
* *
123190776 ATATAATTACATAATAAAA
1 ATATAATAAAATAATAAAA
123190795 ATATA
1 ATATA
123190800 TTTGATATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATAATAAAA
Found at i:123191753 original size:23 final size:22
Alignment explanation
Indices: 123191711--123191761 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
123191701 TATTATTTTC
*
123191711 ATTATTATTTGAGATATTTAGTT
1 ATTATTATTTGAGATATTTA-CT
*
123191734 ATTATTATTTGATAGT-TTTACT
1 ATTATTATTTGAGA-TATTTACT
123191756 ATTATT
1 ATTATT
123191762 TAATTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.28
23 17 0.68
24 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (22 bp):
ATTATTATTTGAGATATTTACT
Found at i:123195005 original size:4 final size:4
Alignment explanation
Indices: 123194996--123195029 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
123194986 TTCAACAGTT
123194996 TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
123195030 AGCATGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:123212716 original size:29 final size:29
Alignment explanation
Indices: 123212674--123212743 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
123212664 ATTCCACTAA
*
123212674 AAAATGATTAGTTTTAATTTTAGTCAAA-
1 AAAATAATTAGTTTTAATTTTAGTCAAAT
123212702 ATAAATAATTAGTTTTAATTTTAGTCAAAT
1 A-AAATAATTAGTTTTAATTTTAGTCAAAT
*
123212732 AAAAAAATTAGT
1 AAAATAATTAGT
123212744 GAAGGAAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 1 0.03
29 36 0.95
30 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (29 bp):
AAAATAATTAGTTTTAATTTTAGTCAAAT
Found at i:123222305 original size:6 final size:6
Alignment explanation
Indices: 123222294--123222321 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
123222284 TGAATTCAGA
123222294 ATTTGG ATTTGG ATTTGG ATTTGG ATTT
1 ATTTGG ATTTGG ATTTGG ATTTGG ATTT
123222322 CAACAGTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.54
Consensus pattern (6 bp):
ATTTGG
Found at i:123227381 original size:20 final size:20
Alignment explanation
Indices: 123227356--123227405 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
123227346 TGGCTTAAAA
123227356 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
123227376 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
123227393 GTGGTAGTGGATT
1 TTGGTAGTGGATT
123227406 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:123232020 original size:20 final size:20
Alignment explanation
Indices: 123231995--123232044 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
123231985 TGGCTTAAAA
123231995 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
123232015 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
123232032 GTGGTAGTGGATT
1 TTGGTAGTGGATT
123232045 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:123236575 original size:3 final size:3
Alignment explanation
Indices: 123236567--123236592 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
123236557 CAACTATTTA
123236567 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
123236593 CAAAAGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:123239831 original size:16 final size:17
Alignment explanation
Indices: 123239807--123239841 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
123239797 TTAATTATTC
*
123239807 AAATTATTTTAAA-TTT
1 AAATAATTTTAAACTTT
123239823 AAATAATTTTAAACTTT
1 AAATAATTTTAAACTTT
123239840 AA
1 AA
123239842 TTTTGACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATAATTTTAAACTTT
Found at i:123244596 original size:33 final size:33
Alignment explanation
Indices: 123244558--123244625 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
123244548 ATGATATTTT
*
123244558 TTACATATAAAAAAGGTTAAATTTTACTATTAA
1 TTACATATAAAAAAGGTTAAATTCTACTATTAA
123244591 TTACATATAAAAAAGGTTAAATTCTACTATTAA
1 TTACATATAAAAAAGGTTAAATTCTACTATTAA
123244624 TT
1 TT
123244626 TATACGTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (33 bp):
TTACATATAAAAAAGGTTAAATTCTACTATTAA
Found at i:123245257 original size:26 final size:28
Alignment explanation
Indices: 123245228--123245281 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
123245218 AGTTCGATTT
123245228 AATT-AAATAA-ATTATAAAAAA-ATTAA
1 AATTAAAATAATATT-TAAAAAATATTAA
123245254 AATTAAAATAATATTTAAAAAATATTAA
1 AATTAAAATAATATTTAAAAAATATTAA
123245282 CTATTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 4 0.16
27 13 0.52
28 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
AATTAAAATAATATTTAAAAAATATTAA
Found at i:123247358 original size:6 final size:6
Alignment explanation
Indices: 123247349--123247374 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
123247339 ATCACCACCT
123247349 TCTTCC TCTTCC TCTTCC TCTTCC TC
1 TCTTCC TCTTCC TCTTCC TCTTCC TC
123247375 CAACACCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTTCC
Found at i:123264336 original size:144 final size:140
Alignment explanation
Indices: 123264074--123264348 Score: 311
Period size: 144 Copynumber: 1.9 Consensus size: 140
123264064 TCGAATTGCT
* * * *
123264074 ATTGAGCTCCTTGTCATTATGGTTTTAGTCCCTCGATATTTGGTAGTTACATTGGGCTCGAATTT
1 ATTGAGCTCCTTATCATTATGGTTTTAGTCCCTCGATATTTAGTAGTTACATTAGGCTCGAATTC
* * * * * * *
123264139 TTAAACGAGGATGATGTTTTCTCAACTTTATTTTTTGTATTCATAAGACTTGAACTCTAAACTTA
66 CTAAACGAGGATAAAGTTCTCCCAACGTTATTTTTTG-ATTCACAAGACTTGAACTCTAAACTTA
123264204 GTTTAAAGAGC
130 GTTTAAAGAGC
* * *
123264215 ATTGAGCTCTTTATCATTATGGTTTTAGCCATCGCTTGATATTTAGTAGTTACATTAGGCTCGAA
1 ATTGAGCTCCTTATCATTATGGTTTTAG---TCCCTCGATATTTAGTAGTTACATTAGGCTCGAA
* * *
123264280 TTCCTAAATGAGCG-TAAAGTTCTCCCAACGTTCTTTTTCTCG-TTCACAAGAGTTGAACTCTAA
63 TTCCTAAACGAG-GATAAAGTTCTCCCAACGTTATTTTT-T-GATTCACAAGACTTGAACTCTAA
*
123264343 ATTTAG
125 ACTTAG
123264349 AGTATTGAGT
Statistics
Matches: 110, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
141 26 0.24
144 81 0.74
145 2 0.02
146 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (140 bp):
ATTGAGCTCCTTATCATTATGGTTTTAGTCCCTCGATATTTAGTAGTTACATTAGGCTCGAATTC
CTAAACGAGGATAAAGTTCTCCCAACGTTATTTTTTGATTCACAAGACTTGAACTCTAAACTTAG
TTTAAAGAGC
Found at i:123266738 original size:10 final size:10
Alignment explanation
Indices: 123266719--123266753 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
123266709 TTCGGTTTAG
*
123266719 TTTAGTAAAT
1 TTTAGAAAAT
123266729 TTTAGAAAAT
1 TTTAGAAAAT
123266739 TTTAGAAAAT
1 TTTAGAAAAT
123266749 TTTAG
1 TTTAG
123266754 CTTTGTCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (10 bp):
TTTAGAAAAT
Found at i:123266961 original size:18 final size:17
Alignment explanation
Indices: 123266918--123266951 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
123266908 CATCTATAAG
123266918 ATCATTTAAAAAATCAT
1 ATCATTTAAAAAATCAT
123266935 ATCATTTAAAAAATCAT
1 ATCATTTAAAAAATCAT
123266952 TTTATGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (17 bp):
ATCATTTAAAAAATCAT
Found at i:123271441 original size:82 final size:82
Alignment explanation
Indices: 123271269--123271444 Score: 284
Period size: 82 Copynumber: 2.2 Consensus size: 82
123271259 TTTTCCCTCT
* *
123271269 TTTTG-TTGAATATGAATTACATGGACTTAAAGATCTTGTTTTTATTTAATGTGTTGTGATATTT
1 TTTTGATTGAATATGAATTACATGGACTTAAAGATCTTGTTTTTATTTAATGTATGGTGATATTT
123271333 TTTCTGGGTTTTGCTTG
66 TTTCTGGGTTTTGCTTG
* * *
123271350 TTTTGATTGAGTATGCATTACTTGGACTTAAAGATCTTGTTTTTATTTAATGTATGGTGATATTT
1 TTTTGATTGAATATGAATTACATGGACTTAAAGATCTTGTTTTTATTTAATGTATGGTGATATTT
123271415 TTTCTGGGTTTTGCTTG
66 TTTCTGGGTTTTGCTTG
123271432 -TTTGAATTGAATA
1 TTTTG-ATTGAATA
123271445 CTGTTACGTA
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
81 9 0.10
82 78 0.90
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.52
Consensus pattern (82 bp):
TTTTGATTGAATATGAATTACATGGACTTAAAGATCTTGTTTTTATTTAATGTATGGTGATATTT
TTTCTGGGTTTTGCTTG
Found at i:123273874 original size:29 final size:29
Alignment explanation
Indices: 123273832--123273887 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
123273822 GGCTTCTGTG
123273832 ATACTTTTACTGTAATTTATATTATATGA
1 ATACTTTTACTGTAATTTATATTATATGA
123273861 ATACTTTTACTGTAATTTATATTATAT
1 ATACTTTTACTGTAATTTATATTATAT
123273888 TTTAAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (29 bp):
ATACTTTTACTGTAATTTATATTATATGA
Found at i:123279107 original size:22 final size:22
Alignment explanation
Indices: 123279065--123279107 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
123279055 TAATAAAATA
* *
123279065 ATATGTTTTTAATTTATATTTT
1 ATATCTTTTTAATTTAAATTTT
123279087 ATATCTTTTATAA-TTAAATTT
1 ATATCTTTT-TAATTTAAATTT
123279108 AAAATATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
ATATCTTTTTAATTTAAATTTT
Found at i:123280108 original size:8 final size:8
Alignment explanation
Indices: 123280097--123280174 Score: 58
Period size: 8 Copynumber: 10.1 Consensus size: 8
123280087 AATGTAAACA
123280097 ATTAAAAT
1 ATTAAAAT
123280105 ATTAAAA-
1 ATTAAAAT
*
123280112 ATT-ATAT
1 ATTAAAAT
123280119 A-TAAAATT
1 ATTAAAA-T
*
123280127 ATAATAAAT
1 ATTA-AAAT
*
123280136 A-AAAAAT
1 ATTAAAAT
123280143 ATTAAAAT
1 ATTAAAAT
123280151 A-TAAAAT
1 ATTAAAAT
*
123280158 ATTTAAAT
1 ATTAAAAT
*
123280166 ATTTAAAT
1 ATTAAAAT
123280174 A
1 A
123280175 AAATAAGATA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
6 3 0.05
7 18 0.31
8 31 0.53
9 3 0.05
10 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATTAAAAT
Found at i:123280167 original size:15 final size:15
Alignment explanation
Indices: 123280117--123280167 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
123280107 TAAAAATTAT
*
123280117 ATATAAAATTATAATAA
1 ATATAAAA-TAT-TTAA
* *
123280134 ATAAAAAATATTAAA
1 ATATAAAATATTTAA
123280149 ATATAAAATATTTAA
1 ATATAAAATATTTAA
123280164 ATAT
1 ATAT
123280168 TTAAATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 19 0.66
16 3 0.10
17 7 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATAAAATATTTAA
Found at i:123280180 original size:26 final size:25
Alignment explanation
Indices: 123280139--123280215 Score: 61
Period size: 26 Copynumber: 3.2 Consensus size: 25
123280129 AATAAATAAA
*
123280139 AAATA-TT-AAAATATAAAATATTT
1 AAATATTTAAAAAAATAAAATATTT
* **
123280162 AAATATTTAAATAAAATAAGATAAAT
1 AAATATTTAAA-AAAATAAAATATTT
* * *
123280188 ATATATTTAAAACAATATAA-ATTT
1 AAATATTTAAAAAAATAAAATATTT
123280212 AAAT
1 AAAT
123280216 TAACTATTTA
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
23 5 0.12
24 7 0.17
25 8 0.20
26 20 0.50
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (25 bp):
AAATATTTAAAAAAATAAAATATTT
Found at i:123284424 original size:130 final size:125
Alignment explanation
Indices: 123284064--123284412 Score: 407
Period size: 125 Copynumber: 2.8 Consensus size: 125
123284054 CAATTAACAG
* * * * *
123284064 AAACTTCAAACTAAGAGAATCCAACCGAAACAAATTCTTGAAGCTATAAATACACTAATGAAATG
1 AAACATCAAGCTAAGAGCATCCAACCAAAACAAATTCTTGAAGCTATAAATACAATAATGAAATG
** * * * **
123284129 CAAACAATGAAAGCTTTATCGTAAAGCACAAATCATAACATGGTCCACTTTGGGGGGAAA
66 CAAACAACAAAAGCTTTACCGTAAAGCACAAATCATAACACGGTCCACTTCGGGGAAAAA
* * *
123284189 AAACATCAAGCTAAGAGCATCCAACCAAAACAAATTCATGTAGCTATAAGTA-AACTAATGAAAT
1 AAACATCAAGCTAAGAGCATCCAACCAAAACAAATTCTTGAAGCTATAAATACAA-TAATGAAAT
* *
123284253 GCAAACAACACAAGCTTTTACCGTAAAGCGCAAATCATAACACGGTCCACTTCGGGGAAAAA
65 GCAAACAACAAAAGC-TTTACCGTAAAGCACAAATCATAACACGGTCCACTTCGGGGAAAAA
* * *
123284315 ACAACATCAAGCTAAGAGCAT-CATCCACATCTAAGAAATTCTTCAAGCTATGAAATACAATAAT
1 A-AACATCAAGCTAAGAGCATCCAACCA-A---AACAAATTCTTGAAGCTAT-AAATACAATAAT
* *
123284379 -AAATGCAAACAACAAAAGCTTTACCTTTAAGCAC
60 GAAATGCAAACAACAAAAGCTTTACCGTAAAGCAC
123284413 GAACCAATAA
Statistics
Matches: 188, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
124 1 0.01
125 66 0.35
126 46 0.24
127 20 0.11
129 12 0.06
130 33 0.18
131 8 0.04
132 2 0.01
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (125 bp):
AAACATCAAGCTAAGAGCATCCAACCAAAACAAATTCTTGAAGCTATAAATACAATAATGAAATG
CAAACAACAAAAGCTTTACCGTAAAGCACAAATCATAACACGGTCCACTTCGGGGAAAAA
Found at i:123287297 original size:27 final size:29
Alignment explanation
Indices: 123287247--123287311 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
123287237 TTTTTTACAA
* * *
123287247 ATATATTAAATTATTTATATAATTTTATT
1 ATATATTATATTATTTATAAAATTGTATT
123287276 ATATATTATA-TATTTA-AAAATTGTATT
1 ATATATTATATTATTTATAAAATTGTATT
* *
123287303 TTCTATTAT
1 ATATATTAT
123287312 TTTAATGGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 16 0.52
28 6 0.19
29 9 0.29
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
ATATATTATATTATTTATAAAATTGTATT
Found at i:123295017 original size:16 final size:16
Alignment explanation
Indices: 123294996--123295029 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
123294986 ATCATTGACA
123294996 GTTAATTACATAATGC
1 GTTAATTACATAATGC
123295012 GTTAATTACATAATGC
1 GTTAATTACATAATGC
123295028 GT
1 GT
123295030 GGGCTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (16 bp):
GTTAATTACATAATGC
Found at i:123298385 original size:9 final size:9
Alignment explanation
Indices: 123298371--123298398 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
123298361 AACCCAATGC
123298371 ATCAGCCCA
1 ATCAGCCCA
123298380 ATCAGCCCA
1 ATCAGCCCA
123298389 ATCAGCCCA
1 ATCAGCCCA
123298398 A
1 A
123298399 ACTACCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.43, G:0.11, T:0.11
Consensus pattern (9 bp):
ATCAGCCCA
Found at i:123299474 original size:15 final size:15
Alignment explanation
Indices: 123299454--123299487 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
123299444 ATTAATTTTG
*
123299454 ATATTTTCTATTATT
1 ATATTTACTATTATT
123299469 ATATTTACTATTATT
1 ATATTTACTATTATT
123299484 -TATT
1 ATATT
123299488 GCCATCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
ATATTTACTATTATT
Found at i:123299507 original size:3 final size:3
Alignment explanation
Indices: 123299499--123299546 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
123299489 CCATCTCTTC
123299499 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
123299545 TA
1 TA
123299547 GTATATACTC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:123300019 original size:22 final size:22
Alignment explanation
Indices: 123299991--123300033 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
123299981 TTTTATATAT
123299991 ATATTATCATGT-ATATATTTTG
1 ATATTATCA-GTAATATATTTTG
*
123300013 ATATTATTAGTAATATATTTT
1 ATATTATCAGTAATATATTTT
123300034 TTATACATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (22 bp):
ATATTATCAGTAATATATTTTG
Found at i:123300106 original size:14 final size:14
Alignment explanation
Indices: 123300089--123300120 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
123300079 TTTTATAATA
*
123300089 TTTCATGTATATAT
1 TTTCATGCATATAT
123300103 TTTCATGCATATAT
1 TTTCATGCATATAT
123300117 TTTC
1 TTTC
123300121 TTTTACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCATGCATATAT
Found at i:123313052 original size:25 final size:22
Alignment explanation
Indices: 123313016--123313066 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
123313006 AAGCCCTCCC
123313016 AAAAAAAAACCTAACCCCCCAAAA
1 AAAAAAAAACCTAA--CCCCAAAA
123313040 AAAAGAAAAACCTAACCCCAAAA
1 AAAA-AAAAACCTAACCCCAAAA
123313063 AAAA
1 AAAA
123313067 CCAAGAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 12 0.46
24 4 0.15
25 10 0.38
ACGTcount: A:0.67, C:0.27, G:0.02, T:0.04
Consensus pattern (22 bp):
AAAAAAAAACCTAACCCCAAAA
Found at i:123313314 original size:16 final size:15
Alignment explanation
Indices: 123313282--123313332 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
123313272 CCTAAAGGTG
*
123313282 ATTTTATC-TTCTTT
1 ATTTTATCTTTTTTT
123313296 ATTTTACTCTTTTTTT
1 ATTTTA-TCTTTTTTT
*
123313312 ATTTTTATTTTTTTTT
1 A-TTTTATCTTTTTTT
123313328 ATTTT
1 ATTTT
123313333 TTTCCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.19
15 6 0.19
16 15 0.47
17 5 0.16
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (15 bp):
ATTTTATCTTTTTTT
Found at i:123313341 original size:16 final size:16
Alignment explanation
Indices: 123313283--123313343 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
123313273 CTAAAGGTGA
*
123313283 TTTTA-TCTTCTTTA-
1 TTTTATTCTTTTTTAT
*
123313297 TTTTACTCTTTTTTTAT
1 TTTTATTC-TTTTTTAT
*
123313314 TTTTATTTTTTTTTAT
1 TTTTATTCTTTTTTAT
123313330 TTTT-TTCCTTTTTT
1 TTTTATT-CTTTTTT
123313344 TGAATCTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 5 0.13
15 4 0.10
16 24 0.62
17 6 0.15
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTCTTTTTTAT
Found at i:123313931 original size:21 final size:23
Alignment explanation
Indices: 123313905--123313947 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
123313895 ATACTTCTTG
*
123313905 TATATT-TCT-ATGTATATACTT
1 TATATTGTCTCATGTACATACTT
123313926 TATATTGTCTCATGTACATACT
1 TATATTGTCTCATGTACATACT
123313948 CCGAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (23 bp):
TATATTGTCTCATGTACATACTT
Found at i:123314284 original size:16 final size:15
Alignment explanation
Indices: 123314260--123314294 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
123314250 TAATTATTAT
123314260 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
123314276 TATTTTAATATTTTA
1 TATTCTAATATTTTA
123314291 TATT
1 TATT
123314295 ATTCACATCA
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:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:123327803 original size:29 final size:30
Alignment explanation
Indices: 123327771--123327837 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
123327761 TTAAAATTCC
123327771 ATATATAAAATTGT-ACA-AAATCAAAGTTT
1 ATATATAAAATT-TCACATAAATCAAAGTTT
* *
123327800 ATATATATAATTTCACATTAAATCATAGTTT
1 ATATATAAAATTTCACA-TAAATCAAAGTTT
*
123327831 ATGTATA
1 ATATATA
123327838 GTTTTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.03
29 14 0.44
31 17 0.53
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.40
Consensus pattern (30 bp):
ATATATAAAATTTCACATAAATCAAAGTTT
Found at i:123330787 original size:314 final size:313
Alignment explanation
Indices: 123330216--123330845 Score: 1050
Period size: 314 Copynumber: 2.0 Consensus size: 313
123330206 GGAGATAATT
*
123330216 TATTTTTTGAATCCTTGCTGAAAACCAACATTACCAAATGTGTGTGTGTGTGTGTGTGTTTAAAA
1 TATTTTTTGAATCCTTGCTGAAAACCAACATTACCAAATGTGTGTGTGTGTGTGTGTGTTGAAAA
123330281 ATGTTATAATAGAGCTTGAACTTCCATAATCAAGTTATTATGCATGGAGAAACACGAATCACCAT
66 ATGTTATAATAGAGCTTGAACTTCCATAATCAAGTTATTATGCATGGAGAAACACGAATCACCAT
* *
123330346 ATAGAATAAATGGATCCACAATGGTGATATGATTCCAAGAACCAAACATGGCATGCAGTGTATGA
131 ATAGAATAAATGGATCCACAATGGTGATATGATTCCAAGAACCAAACATGGCATGCAGTGCATAA
* *
123330411 TAACCCTGGATTTGACAATCAACAATGTAAAACATAAACCTGCCATGACGTCTAGGCTCCTTTGT
196 TAACCCTGGAGTTGACAATCAACAATGTAAAACATAAACCTGCCATGACGTCTAGACTCCTTTGT
* **
123330476 GGAATTTGCTTGGCTGTCAATTGTTGTACTCCCTCGGCGTGGCTTCACGTAGG
261 GGAATTTGCTTGGCTCTCAATTGCAGTACTCCCTCGGCGTGGCTTCACGTAGG
*
123330529 TATTTTTTGGATCCTTGCTGCAAAA-CAACATTACC-AA-GTGTGTGTGTGTGTGTGTGTTGAAA
1 TATTTTTTGAATCCTTGCTG-AAAACCAACATTACCAAATGTGTGTGTGTGTGTGTGTGTTGAAA
* * *
123330591 CATGTTATAGTAATAGAGCTTGAACTTCCATAATCAAGTTGTTATGCATGGTGAAACACGAATCA
65 AATG-T-TA-TAATAGAGCTTGAACTTCCATAATCAAGTTATTATGCATGGAGAAACACGAATCA
* * *
123330656 CCATATAGAATAAATGGGTTCACAATGGTGATATGATTCCTAGAACCAAACATGGCATGCAGTGC
127 CCATATAGAATAAATGGATCCACAATGGTGATATGATTCCAAGAACCAAACATGGCATGCAGTGC
*
123330721 ATAATAACCCTGGAGTTGACAATCAACAATGTAAAACATAAACCTGCCATGACGTTTAGACTCCT
192 ATAATAACCCTGGAGTTGACAATCAACAATGTAAAACATAAACCTGCCATGACGTCTAGACTCCT
*
123330786 TTGTGGAATTTGCTTGGCTCTCACTTGCAGTACTCCCTCGGCGTGGCTTCACGTAGG
257 TTGTGGAATTTGCTTGGCTCTCAATTGCAGTACTCCCTCGGCGTGGCTTCACGTAGG
123330843 TAT
1 TAT
123330846 CTTTATCAAA
Statistics
Matches: 296, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
311 27 0.09
312 3 0.01
313 31 0.10
314 235 0.79
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (313 bp):
TATTTTTTGAATCCTTGCTGAAAACCAACATTACCAAATGTGTGTGTGTGTGTGTGTGTTGAAAA
ATGTTATAATAGAGCTTGAACTTCCATAATCAAGTTATTATGCATGGAGAAACACGAATCACCAT
ATAGAATAAATGGATCCACAATGGTGATATGATTCCAAGAACCAAACATGGCATGCAGTGCATAA
TAACCCTGGAGTTGACAATCAACAATGTAAAACATAAACCTGCCATGACGTCTAGACTCCTTTGT
GGAATTTGCTTGGCTCTCAATTGCAGTACTCCCTCGGCGTGGCTTCACGTAGG
Found at i:123336804 original size:21 final size:22
Alignment explanation
Indices: 123336780--123336823 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
123336770 TTATATTTTT
*
123336780 TAAAATATTTAAATA-TCAATA
1 TAAAATATTAAAATATTCAATA
123336801 TAAAATATTAAAATATTCAATA
1 TAAAATATTAAAATATTCAATA
123336823 T
1 T
123336824 TATTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAAATATTAAAATATTCAATA
Found at i:123339464 original size:29 final size:29
Alignment explanation
Indices: 123339432--123339489 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
123339422 CAGTCAAGTC
123339432 TATAACAAAAAATGATAAAACTGTTAACG
1 TATAACAAAAAATGATAAAACTGTTAACG
* *
123339461 TATAACAAAAAATGGTAAATCTGTTAACG
1 TATAACAAAAAATGATAAAACTGTTAACG
123339490 AAAAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (29 bp):
TATAACAAAAAATGATAAAACTGTTAACG
Found at i:123342809 original size:18 final size:19
Alignment explanation
Indices: 123342786--123342825 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
123342776 TTTAAAAACG
123342786 ATAC-AATTTTAAATTT-AT
1 ATACAAATTTT-AATTTAAT
123342804 ATACAAATTTTAATTTAAT
1 ATACAAATTTTAATTTAAT
123342823 ATA
1 ATA
123342826 TAATATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
ATACAAATTTTAATTTAAT
Found at i:123342870 original size:23 final size:23
Alignment explanation
Indices: 123342844--123342887 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
123342834 TAGATGCAAT
*
123342844 ATTATATTATATATAAATAAACA
1 ATTATATTATATAAAAATAAACA
* *
123342867 ATTATTTTGTATAAAAATAAA
1 ATTATATTATATAAAAATAAA
123342888 TTATATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTATATTATATAAAAATAAACA
Found at i:123342996 original size:15 final size:15
Alignment explanation
Indices: 123342959--123342997 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
123342949 TTAAATCAAA
*
123342959 ATCAAATTTTTATAT
1 ATCAAATTATTATAT
123342974 AT-ATAATTATTATAT
1 ATCA-AATTATTATAT
123342989 ATCAAATTA
1 ATCAAATTA
123342998 CACATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (15 bp):
ATCAAATTATTATAT
Found at i:123349020 original size:41 final size:41
Alignment explanation
Indices: 123348963--123349054 Score: 166
Period size: 41 Copynumber: 2.2 Consensus size: 41
123348953 TTCAAGCAAA
*
123348963 TAAAAAAAAGGTAATTGCAAAAGAAAAAGATATAATAAAAT
1 TAAAAATAAGGTAATTGCAAAAGAAAAAGATATAATAAAAT
*
123349004 TAAAAATAAGGTAATTGCAAAAGAACAAGATATAATAAAAT
1 TAAAAATAAGGTAATTGCAAAAGAAAAAGATATAATAAAAT
123349045 TAAAAATAAG
1 TAAAAATAAG
123349055 TAGAAATCTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.64, C:0.03, G:0.12, T:0.21
Consensus pattern (41 bp):
TAAAAATAAGGTAATTGCAAAAGAAAAAGATATAATAAAAT
Found at i:123349233 original size:11 final size:12
Alignment explanation
Indices: 123349214--123349260 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
123349204 AATAAAATTG
123349214 AAATATTTATAT
1 AAATATTTATAT
123349226 AAAT-TTTATAT
1 AAATATTTATAT
* *
123349237 ATTATATTTATTT
1 A-AATATTTATAT
*
123349250 AAATATATATA
1 AAATATTTATA
123349261 ATTAAATCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 8 0.29
12 13 0.46
13 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AAATATTTATAT
Found at i:123349264 original size:24 final size:24
Alignment explanation
Indices: 123349216--123349260 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
123349206 TAAAATTGAA
*
123349216 ATATTTATATAAATTTTATATATT
1 ATATTTATATAAATTATATATATT
*
123349240 ATATTTATTTAAA-TATATATA
1 ATATTTATATAAATTATATATA
123349261 ATTAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATTTATATAAATTATATATATT
Found at i:123354735 original size:3 final size:3
Alignment explanation
Indices: 123354722--123354761 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
123354712 CAGCAACAAT
*
123354722 TCA TGCA TCA TCA TCA TCA TCA TCA TCA TCA CCA TCA TCA
1 TCA T-CA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
123354762 AAACATGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.35, G:0.03, T:0.30
Consensus pattern (3 bp):
TCA
Found at i:123387922 original size:20 final size:20
Alignment explanation
Indices: 123387877--123387923 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
123387867 TCAAATAAAT
*
123387877 TATAAAAATTATTTTTAAAAA
1 TATAAAAATTA-TTTAAAAAA
123387898 T-TAAAAATTA-TTAAAAAA
1 TATAAAAATTATTTAAAAAA
123387916 GTATAAAA
1 -TATAAAA
123387924 CCTATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 7 0.30
19 1 0.04
20 14 0.61
21 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TATAAAAATTATTTAAAAAA
Found at i:123389879 original size:29 final size:28
Alignment explanation
Indices: 123389837--123389893 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
123389827 GCTAAATTGG
*
123389837 AATAGAATTAACATTTACGGTTTAGAAAA
1 AATAGAATTAACATTTACGATTTA-AAAA
*
123389866 AATAGAGTTAACATTTACGATTTAAAAA
1 AATAGAATTAACATTTACGATTTAAAAA
123389894 TGACATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (28 bp):
AATAGAATTAACATTTACGATTTAAAAA
Found at i:123395115 original size:11 final size:10
Alignment explanation
Indices: 123395087--123395122 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
123395077 AAAATTATTT
*
123395087 AAAATTAATA
1 AAAATAAATA
123395097 AAAATAAATA
1 AAAATAAATA
123395107 AAAACTAAATA
1 AAAA-TAAATA
123395118 AAAAT
1 AAAAT
123395123 CAAGAGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAATAAATA
Found at i:123397731 original size:16 final size:16
Alignment explanation
Indices: 123397683--123397734 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
123397673 TTTGGTTCGC
123397683 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
123397699 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
123397715 TGTATTGAATTAGAGG
1 TGTATTGGATTAGAGG
123397731 TGTA
1 TGTA
123397735 ATAGCTAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:123397993 original size:18 final size:17
Alignment explanation
Indices: 123397972--123398006 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
123397962 TTATTATTAA
*
123397972 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
123397990 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
123398007 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:123398113 original size:18 final size:17
Alignment explanation
Indices: 123398092--123398126 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
123398082 TTATTATTAA
*
123398092 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
123398110 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
123398127 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:123398353 original size:18 final size:17
Alignment explanation
Indices: 123398332--123398366 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
123398322 TTATTATTAA
*
123398332 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
123398350 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
123398367 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:123398473 original size:18 final size:17
Alignment explanation
Indices: 123398452--123398486 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
123398442 TTATTATTAA
*
123398452 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
123398470 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
123398487 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Done.