Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 116 of 187
Found at i:34261710 original size:21 final size:23
Alignment explanation
Indices: 34261668--34261724 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 23
34261658 ATTTTTTCAA
* *
34261668 TCATCCCTCATCAATCATCCCT-
1 TCATCCCTCATCCATCAACCCTC
*
34261690 T-ATCCCTCATCCCTCAACCCTC
1 TCATCCCTCATCCATCAACCCTC
*
34261712 TCATCTCTCATCC
1 TCATCCCTCATCC
34261725 TCTCTCTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 17 0.59
22 2 0.07
23 10 0.34
ACGTcount: A:0.19, C:0.49, G:0.00, T:0.32
Consensus pattern (23 bp):
TCATCCCTCATCCATCAACCCTC
Found at i:34264528 original size:49 final size:48
Alignment explanation
Indices: 34264451--34264638 Score: 184
Period size: 48 Copynumber: 3.9 Consensus size: 48
34264441 GATTTCTCAG
* * * * *
34264451 TGGCCTGCACACAGTTCGTACCACCTTTGTGTAATAACAGATTCTCGA
1 TGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTATCGA
* * * * * *
34264499 TGGCCTGCACATAGTCCGTGCCACCCTTTGTATCTTAA-AAAGTTATTGG
1 TGGCCTGCACACAGTCCGTGCCACCC-TTGTGTCATAACAGA-TTATCGA
* * * * *
34264548 TGGCCTGTACGCAGTCCGTGCCACCC-T-TGTCAGAACAGAATATCGG
1 TGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTATCGA
*
34264594 TGGCCTGCACACAGTCTGTGCCACCCTTGTGTCATAACAGATTAT
1 TGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTAT
34264639 TGATACGCAT
Statistics
Matches: 110, Mismatches: 25, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
46 33 0.30
47 4 0.04
48 38 0.35
49 35 0.32
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
TGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTATCGA
Found at i:34269642 original size:20 final size:20
Alignment explanation
Indices: 34269617--34269658 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
34269607 CCGCAATTGG
* * *
34269617 CAGGATATACTAGATTAAGA
1 CAGGATACACTAAATAAAGA
34269637 CAGGATACACTAAATAAAGA
1 CAGGATACACTAAATAAAGA
34269657 CA
1 CA
34269659 ACTGTCTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (20 bp):
CAGGATACACTAAATAAAGA
Found at i:34275126 original size:51 final size:51
Alignment explanation
Indices: 34275053--34275150 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
34275043 AGGTTGCAAA
34275053 AATATGCTACAAAAGTCATAACATCAAGGAAAATCACCATAAAGTTGCGAC
1 AATATGCTACAAAAGTCATAACATCAAGGAAAATCACCATAAAGTTGCGAC
** * * *
34275104 AATATGCTACAAAAGTTGTAACATCAAGGACAATCACCGTAAGGTTG
1 AATATGCTACAAAAGTCATAACATCAAGGAAAATCACCATAAAGTTG
34275151 AAGGAGTCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.21
Consensus pattern (51 bp):
AATATGCTACAAAAGTCATAACATCAAGGAAAATCACCATAAAGTTGCGAC
Found at i:34280466 original size:20 final size:20
Alignment explanation
Indices: 34280441--34280478 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34280431 ATTAACCTAT
34280441 TAAATTTTAATTAATTTTCA
1 TAAATTTTAATTAATTTTCA
* *
34280461 TAAATTTTGATTTATTTT
1 TAAATTTTAATTAATTTT
34280479 TGACATGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TAAATTTTAATTAATTTTCA
Found at i:34283217 original size:14 final size:14
Alignment explanation
Indices: 34283198--34283228 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
34283188 CACAGGTTGT
34283198 AACAAACCTGATGG
1 AACAAACCTGATGG
34283212 AACAAACCTGATGG
1 AACAAACCTGATGG
34283226 AAC
1 AAC
34283229 CTAATGTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (14 bp):
AACAAACCTGATGG
Found at i:34294131 original size:68 final size:67
Alignment explanation
Indices: 34294010--34294188 Score: 232
Period size: 68 Copynumber: 2.6 Consensus size: 67
34294000 ATCGAAAGTC
* ** * *
34294010 CGCCAGGACCTTAAACATTAGCCCATAATGTTTAAGACCAAAGCCAGGCTATGGCAACATATGGA
1 CGCCAGGACATTAAACA-TAGTTCATAATGTCTAAGACCATAGCCAGGCTATGGCAACATATGGA
34294075 GTT
65 GTT
* * *
34294078 CGCCAGGACATTAAACATGAGTTCATAATGTGTAAGACCATAGCTAGGTTATGGCAACATATGGA
1 CGCCAGGACATTAAACAT-AGTTCATAATGTCTAAGACCATAGCCAGGCTATGGCAACATATGGA
34294143 GTT
65 GTT
* * *
34294146 CGCCAAGACATTAAACATAGGTTTATAATGTCTAAGATCATAG
1 CGCCAGGACATTAAACATA-GTTCATAATGTCTAAGACCATAG
34294189 TTAGTGTAAC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
67 2 0.02
68 96 0.98
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (67 bp):
CGCCAGGACATTAAACATAGTTCATAATGTCTAAGACCATAGCCAGGCTATGGCAACATATGGAG
TT
Found at i:34300936 original size:121 final size:121
Alignment explanation
Indices: 34300789--34301029 Score: 473
Period size: 121 Copynumber: 2.0 Consensus size: 121
34300779 TTCTTGAACA
34300789 GAGTAATTTATCACAATCATTTGTTGACAGTGATTATATTAATCATTAAGAAGACACAATGGTGA
1 GAGTAATTTATCACAATCATTTGTTGACAGTGATTATATTAATCATTAAGAAGACACAATGGTGA
34300854 TAATGAGATAAAATAGGATTGTATTGAGTGAACAAATTTAACTCAAAGGAATCAAC
66 TAATGAGATAAAATAGGATTGTATTGAGTGAACAAATTTAACTCAAAGGAATCAAC
*
34300910 GAGTAATTTATCACAATCATTTGTTGATAGTGATTATATTAATCATTAAGAAGACACAATGGTGA
1 GAGTAATTTATCACAATCATTTGTTGACAGTGATTATATTAATCATTAAGAAGACACAATGGTGA
34300975 TAATGAGATAAAATAGGATTGTATTGAGTGAACAAATTTAACTCAAAGGAATCAA
66 TAATGAGATAAAATAGGATTGTATTGAGTGAACAAATTTAACTCAAAGGAATCAA
34301030 GGATATCATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.31
Consensus pattern (121 bp):
GAGTAATTTATCACAATCATTTGTTGACAGTGATTATATTAATCATTAAGAAGACACAATGGTGA
TAATGAGATAAAATAGGATTGTATTGAGTGAACAAATTTAACTCAAAGGAATCAAC
Found at i:34306649 original size:477 final size:477
Alignment explanation
Indices: 34305749--34306706 Score: 1790
Period size: 477 Copynumber: 2.0 Consensus size: 477
34305739 AAACACTTGA
*
34305749 ATATCAAGGATTTGAACACTCCATACAATTCGAACTTCAAGTTAAGTGAGAATAATGGCAGGGCT
1 ATATCAAGGATTCGAACACTCCATACAATTCGAACTTCAAGTTAAGTGAGAATAATGGCAGGGCT
*
34305814 ATATCGCAACTTGAGTACGCCAGTGCAATCGGAAGTCTAATGTATGCAATGCATTGTACTAAACC
66 ATATCGCAACTTGAGTACGCCAGCGCAATCGGAAGTCTAATGTATGCAATGCATTGTACTAAACC
* * * *
34305879 TGATATCGCATTTGTTGTGTGCAAATTGGCGAGATTTACAAATTGTCCTTGTACCGATCATTGGA
131 TAATATCGCATTTGCTGTGTGCAAATTAGCGAGATTTACAAATTGTCCTTGTACCAATCATTGGA
34305944 AAGGCATTTGTAGAATTTTTGGCTATCTTAAGAAAATAAATAATTTTGGATTATTCTATAGTGAT
196 AAGGCATTTGTAGAATTTTTGGCTATCTTAAGAAAATAAATAATTTTGGATTATTCTATAGTGAT
*
34306009 TATCCCGCAGTTCTAGAAGGTTACTCGGATGCAAGTTGGATTACAAGTCTAAGTGACAATAAGTT
261 TATCCCGCAGTACTAGAAGGTTACTCGGATGCAAGTTGGATTACAAGTCTAAGTGACAATAAGTT
34306074 CACATCGGGATGAATTTTTACAATTGGAGGTGGAGTCATTAGTTGGGCCTCCAAGAAACAAACAT
326 CACATCGGGATGAATTTTTACAATTGGAGGTGGAGTCATTAGTTGGGCCTCCAAGAAACAAACAT
34306139 GCATATCACATTCAACTATGGAGGCTAAATTTATAGCCTTAGCAGCTACTGGCAAGGAAGCGGAA
391 GCATATCACATTCAACTATGGAGGCTAAATTTATAGCCTTAGCAGCTACTGGCAAGGAAGCGGAA
34306204 TGGCTAAGAGATCTCTTGTTAG
456 TGGCTAAGAGATCTCTTGTTAG
*
34306226 ATATCAAGGATTCGAACACTCCATACGATTCGAACTTCAAGTTAAGTGAGAATAATGGCAGGGCT
1 ATATCAAGGATTCGAACACTCCATACAATTCGAACTTCAAGTTAAGTGAGAATAATGGCAGGGCT
* * * *
34306291 ATATCGTAACTTGAGTACGCCAGCGTAATCGGAAGTCTAATGTATGCAATGCGTTGTACTAGACC
66 ATATCGCAACTTGAGTACGCCAGCGCAATCGGAAGTCTAATGTATGCAATGCATTGTACTAAACC
*
34306356 TAATATCGCATTTGCTGTGTGCAAATTAGCGAGATTTACAAATTGTCCTTGTACCAATCTTTGGA
131 TAATATCGCATTTGCTGTGTGCAAATTAGCGAGATTTACAAATTGTCCTTGTACCAATCATTGGA
34306421 AAGGCATTTGTAGAATTTTTGGCTATCTTAAGAAAATAAATAATTTTGGATTATTCTATAGTGAT
196 AAGGCATTTGTAGAATTTTTGGCTATCTTAAGAAAATAAATAATTTTGGATTATTCTATAGTGAT
34306486 TATCCCGCAGTACTAGAAGGTTACTCGGATGCAAGTTGGATTACAAGTCTAAGTGACAATAAGTT
261 TATCCCGCAGTACTAGAAGGTTACTCGGATGCAAGTTGGATTACAAGTCTAAGTGACAATAAGTT
34306551 CACATCGGGATGAATTTTTACAATTGGAGGTGGAGTCATTAGTTGGGCCTCCAAGAAACAAACAT
326 CACATCGGGATGAATTTTTACAATTGGAGGTGGAGTCATTAGTTGGGCCTCCAAGAAACAAACAT
*
34306616 GCATATCACATTCAACTATGGAGGCTGAATTTATAGCCTTAGCAGCTACTGGCAAGGAAGCGGAA
391 GCATATCACATTCAACTATGGAGGCTAAATTTATAGCCTTAGCAGCTACTGGCAAGGAAGCGGAA
34306681 TGGCTAAGAGATCTCTTGTTAG
456 TGGCTAAGAGATCTCTTGTTAG
34306703 ATAT
1 ATAT
34306707 AAAGTTGTGG
Statistics
Matches: 467, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
477 467 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (477 bp):
ATATCAAGGATTCGAACACTCCATACAATTCGAACTTCAAGTTAAGTGAGAATAATGGCAGGGCT
ATATCGCAACTTGAGTACGCCAGCGCAATCGGAAGTCTAATGTATGCAATGCATTGTACTAAACC
TAATATCGCATTTGCTGTGTGCAAATTAGCGAGATTTACAAATTGTCCTTGTACCAATCATTGGA
AAGGCATTTGTAGAATTTTTGGCTATCTTAAGAAAATAAATAATTTTGGATTATTCTATAGTGAT
TATCCCGCAGTACTAGAAGGTTACTCGGATGCAAGTTGGATTACAAGTCTAAGTGACAATAAGTT
CACATCGGGATGAATTTTTACAATTGGAGGTGGAGTCATTAGTTGGGCCTCCAAGAAACAAACAT
GCATATCACATTCAACTATGGAGGCTAAATTTATAGCCTTAGCAGCTACTGGCAAGGAAGCGGAA
TGGCTAAGAGATCTCTTGTTAG
Found at i:34307548 original size:56 final size:55
Alignment explanation
Indices: 34307483--34307590 Score: 191
Period size: 56 Copynumber: 1.9 Consensus size: 55
34307473 TTATAGATTG
34307483 CAAATTAATTATTCAT-GAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
1 CAAATTAATTATTCATAG-GCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
34307538 CAAATTTAATTATTCATAGGCACTATTCAAATTAAAAGTGATGATTTATCATC
1 CAAA-TTAATTATTCATAGGCACTATTCAAATTAAAAGTGATGATTTATCATC
34307591 CAATGGATAC
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
55 4 0.08
56 46 0.90
57 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (55 bp):
CAAATTAATTATTCATAGGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
Found at i:34308691 original size:16 final size:16
Alignment explanation
Indices: 34308670--34308701 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34308660 AAAAAATATC
34308670 ATAAAAATTTGAAAAA
1 ATAAAAATTTGAAAAA
34308686 ATAAAAATTTGAAAAA
1 ATAAAAATTTGAAAAA
34308702 CCCTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (16 bp):
ATAAAAATTTGAAAAA
Found at i:34314893 original size:16 final size:16
Alignment explanation
Indices: 34314854--34314885 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34314844 CGTTTGGTTC
34314854 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
34314870 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
34314886 GGCGTAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:34314939 original size:45 final size:44
Alignment explanation
Indices: 34314870--34314967 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 44
34314860 ATGGAATAGA
* **
34314870 ACTGTAATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTG
1 ACTGGAATGGAATAGAAACGTAATAGT-ATTC-ATGTGTTTGGTTG
* *
34314915 ACTGGAATGGAATAGAAATGTAATAGTATTCTTGTGTTTGGTTG
1 ACTGGAATGGAATAGAAACGTAATAGTATTCATGTGTTTGGTTG
*
34314959 AATGGAATG
1 ACTGGAATG
34314968 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.36
Consensus pattern (44 bp):
ACTGGAATGGAATAGAAACGTAATAGTATTCATGTGTTTGGTTG
Found at i:34315242 original size:120 final size:120
Alignment explanation
Indices: 34315105--34315380 Score: 516
Period size: 120 Copynumber: 2.3 Consensus size: 120
34315095 TTAATCATAT
*
34315105 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * *
34315170 AAGTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATAATAATATATAATAATATAAAATATAA
34315225 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
34315290 AAATATTCTTATATGAATTTACTAAAATAATAATATATAATAATATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATAATAATATATAATAATATAAAATATAA
34315345 TTTAAAATAATTATTATTAAATATAATTTAATAAAA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAA
34315381 TTCTTAATAT
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 152 1.00
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATAATAATATATAATAATATAAAATATAA
Found at i:34315247 original size:26 final size:26
Alignment explanation
Indices: 34315217--34315375 Score: 87
Period size: 26 Copynumber: 6.5 Consensus size: 26
34315207 TAATACTATA
34315217 AAATATAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
*
34315243 AAATATAATTTAATAA-AAATA-TA-T
1 AAATATAATTTAA-AATAATTATTATT
* ** *
34315267 -AATTTAA--TAAAATTCTTAATATT
1 AAATATAATTTAAAATAATTATTATT
* *
34315290 AAATAT--TCTT-ATATGAA-T-TTACT
1 AAATATAAT-TTAAAAT-AATTATTATT
* *
34315313 AAA-ATAA--TAATATATAA-TAATATA
1 AAATATAATTTAA-A-ATAATTATTATT
34315337 AAATATAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
34315363 AAATATAATTTAA
1 AAATATAATTTAA
34315376 TAAAATTCTT
Statistics
Matches: 97, Mismatches: 17, Indels: 38
0.64 0.11 0.25
Matches are distributed among these distances:
20 2 0.02
21 6 0.06
22 5 0.05
23 16 0.16
24 16 0.16
25 11 0.11
26 36 0.37
27 5 0.05
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.43
Consensus pattern (26 bp):
AAATATAATTTAAAATAATTATTATT
Found at i:34315257 original size:102 final size:102
Alignment explanation
Indices: 34315143--34315435 Score: 297
Period size: 120 Copynumber: 2.7 Consensus size: 102
34315133 TAATAAAAAT
34315143 ATATAATTTAATAAAATTCTTAATATTAAGTATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAA-TATTCTTATATGAATTTACTAAAATCATAATATAT
34315208 AATACTAT-AAAATATAATTTAAAATAATTATTATTAA
65 AATACTATAAAAATATAATTTAAAATAATTATTATTAA
* * *
34315245 ATATAATTTAATAAAAATATATAAT-TTAATAAAATTCTTAATATTAAATATT-CTTATATGAAT
1 ATATAATTTAATAAAATTCT-TAATATTAAT---ATTCTT-ATA-TGAAT-TTAC-TA-A--AA-
* * *
34315308 TTACTAAAATAATAATATATAATAATATAAAATATAATTTAAAATAATTATTATTAA
54 -T-C-ATAAT-AT-ATA-ATACT-ATAAA-AATATAATTTAAAATAATTATTATTAA
*
34315365 ATATAATTTAATAAAATTCTTAATATTAAATATTTTTATATGAATTTA-TAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATT-AATATTCTTATATGAATTTACTAAAATCATAATATAT
34315429 AATACTA
65 AATACTA
34315436 AAATCATAAT
Statistics
Matches: 155, Mismatches: 12, Indels: 47
0.72 0.06 0.22
Matches are distributed among these distances:
101 1 0.01
102 22 0.14
103 5 0.03
104 10 0.06
105 6 0.04
106 7 0.05
107 8 0.05
108 2 0.01
109 1 0.01
110 2 0.01
111 2 0.01
112 1 0.01
113 2 0.01
114 6 0.04
115 4 0.03
116 7 0.05
117 7 0.05
118 7 0.05
119 5 0.03
120 47 0.30
121 3 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAATATTCTTATATGAATTTACTAAAATCATAATATATA
ATACTATAAAAATATAATTTAAAATAATTATTATTAA
Found at i:34315340 original size:61 final size:61
Alignment explanation
Indices: 34315134--34315330 Score: 224
Period size: 61 Copynumber: 3.3 Consensus size: 61
34315124 AATATAATTT
*
34315134 AATAAAAATATATAATTTAATAAAATTCTTAATATTAAGTATTCTTATATGAATTTACTAA
1 AATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
* * * * * * * * **
34315195 AATCATAATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTT
1 AATAAAAATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAA
34315254 AATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
1 AATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
*
34315315 AATAATAATATATAAT
1 AATAAAAATATATAAT
34315331 AATATAAAAT
Statistics
Matches: 106, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
58 3 0.03
59 34 0.32
60 16 0.15
61 50 0.47
62 3 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (61 bp):
AATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
Found at i:34317474 original size:34 final size:34
Alignment explanation
Indices: 34317435--34317503 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
34317425 ATCACAAACT
34317435 TTAGACAGTAATCAAAATACCATGATCAAATATA
1 TTAGACAGTAATCAAAATACCATGATCAAATATA
*
34317469 TTAGACAGTAATTAAAATACCATGATCAAATATA
1 TTAGACAGTAATCAAAATACCATGATCAAATATA
34317503 T
1 T
34317504 CTTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (34 bp):
TTAGACAGTAATCAAAATACCATGATCAAATATA
Found at i:34319485 original size:20 final size:19
Alignment explanation
Indices: 34319470--34319508 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
34319460 ACTAAAAATT
34319470 TATTTTAAAAATTAAAAAAAG
1 TATTTT-AAAATT-AAAAAAG
34319491 TATTTTAAAATTAAAAAA
1 TATTTTAAAATTAAAAAA
34319509 AAATTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 6 0.33
21 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
TATTTTAAAATTAAAAAAG
Found at i:34319510 original size:21 final size:21
Alignment explanation
Indices: 34319470--34319509 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
34319460 ACTAAAAATT
34319470 TATTTTAAAAATTAAAAAAAG
1 TATTTTAAAAATTAAAAAAAG
34319491 TATTTT-AAAATTAAAAAAA
1 TATTTTAAAAATTAAAAAAA
34319510 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
TATTTTAAAAATTAAAAAAAG
Found at i:34319520 original size:20 final size:20
Alignment explanation
Indices: 34319473--34319519 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
34319463 AAAAATTTAT
*
34319473 TTTAAAAATTAAAAAAAGTA
1 TTTAAAAATTAAAAAAAGAA
*
34319493 TTTTAAAATTAAAAAAA-AA
1 TTTAAAAATTAAAAAAAGAA
34319512 TTTAAAAA
1 TTTAAAAA
34319520 AAGTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
TTTAAAAATTAAAAAAAGAA
Found at i:34319544 original size:32 final size:31
Alignment explanation
Indices: 34319470--34319552 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 31
34319460 ACTAAAAATT
*
34319470 TATTTTAAAAATTAAAAAAAGTATTTTAAAAT
1 TATTTT-AAAATTAAAAAAAGTATTTTAAAAA
****
34319502 TAAAAAAAAATTTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAA-TTAAAAAAAGTATTTTAAAAA
34319534 TATTTTAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAA
34319553 TAAATATATT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
31 13 0.32
32 28 0.68
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (31 bp):
TATTTTAAAATTAAAAAAAGTATTTTAAAAA
Found at i:34319913 original size:19 final size:18
Alignment explanation
Indices: 34319889--34319932 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
34319879 TTTAATTTTT
*
34319889 ATATTTTTATTAAAATTTA
1 ATATTTTT-CTAAAATTTA
34319908 ATATTTTTCTAAAATTTA
1 ATATTTTTCTAAAATTTA
34319926 ATATTTT
1 ATATTTT
34319933 AATATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTTTTCTAAAATTTA
Found at i:34319935 original size:8 final size:8
Alignment explanation
Indices: 34319922--34319948 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
34319912 TTTTCTAAAA
34319922 TTTAATAT
1 TTTAATAT
34319930 TTTAATAT
1 TTTAATAT
34319938 TTTAATAT
1 TTTAATAT
34319946 TTT
1 TTT
34319949 TTTCTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTAATAT
Found at i:34319950 original size:18 final size:17
Alignment explanation
Indices: 34319893--34319950 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
34319883 ATTTTTATAT
34319893 TTTTATTAAAATTTAATA
1 TTTT-TTAAAATTTAATA
34319911 TTTTTCTAAAATTTAATA
1 TTTTT-TAAAATTTAATA
*
34319929 --TTTTAATATTTTAATA
1 TTTTTTAA-AATTTAATA
34319945 TTTTTT
1 TTTTTT
34319951 TCTAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 3 0.09
16 11 0.31
17 1 0.03
18 20 0.57
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTAAAATTTAATA
Found at i:34321342 original size:6 final size:6
Alignment explanation
Indices: 34321333--34321377 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
34321323 TTTTTTAAAC
* *
34321333 AATTGA AATTGA AATTGA AATTGA AATTGA AATTAA AATTAA AAT
1 AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AAT
34321378 AATTATTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (6 bp):
AATTGA
Found at i:34321424 original size:20 final size:18
Alignment explanation
Indices: 34321396--34321434 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
34321386 ATTTTATTTT
*
34321396 AAACTTTATCTGAGATGTCA
1 AAACCTTATCT-AGAT-TCA
34321416 AAACCTTATCTAGATTCA
1 AAACCTTATCTAGATTCA
34321434 A
1 A
34321435 TGGATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (18 bp):
AAACCTTATCTAGATTCA
Found at i:34321667 original size:14 final size:14
Alignment explanation
Indices: 34321630--34321667 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
34321620 TTTTACTCAT
34321630 TTAATCCCAAAAAA
1 TTAATCCCAAAAAA
*
34321644 TTAAT--AAAAAAA
1 TTAATCCCAAAAAA
34321656 TTAATCCCAAAA
1 TTAATCCCAAAA
34321668 TAAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
12 11 0.55
14 9 0.45
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.24
Consensus pattern (14 bp):
TTAATCCCAAAAAA
Found at i:34321842 original size:27 final size:27
Alignment explanation
Indices: 34321804--34321868 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
34321794 CGGATGCCAC
**
34321804 AGGCGGCACCAAAGGTG-CTTGTGGCAG
1 AGGCGGCACCAAAGGTGCCTT-TCCCAG
34321831 AGGCGGCACCAAAGGTGCCTTTCCCAG
1 AGGCGGCACCAAAGGTGCCTTTCCCAG
34321858 AGGCGGCACCA
1 AGGCGGCACCA
34321869 CTCGTGTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 32 0.91
28 3 0.09
ACGTcount: A:0.23, C:0.29, G:0.35, T:0.12
Consensus pattern (27 bp):
AGGCGGCACCAAAGGTGCCTTTCCCAG
Found at i:34321966 original size:10 final size:10
Alignment explanation
Indices: 34321951--34321987 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
34321941 GGTGCTACCG
34321951 GAAAAAGAGA
1 GAAAAAGAGA
34321961 GAAAAAGAGA
1 GAAAAAGAGA
*
34321971 GAAAGAGAAGA
1 GAAAAAG-AGA
34321982 GAAAAA
1 GAAAAA
34321988 AAAGATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAAGAGA
Found at i:34324142 original size:12 final size:12
Alignment explanation
Indices: 34324125--34324150 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34324115 TTGTTCGGGA
34324125 TCTGGCTGGGGC
1 TCTGGCTGGGGC
34324137 TCTGGCTGGGGC
1 TCTGGCTGGGGC
34324149 TC
1 TC
34324151 CAGCTCGGGA
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:0.00, C:0.27, G:0.46, T:0.27
Consensus pattern (12 bp):
TCTGGCTGGGGC
Found at i:34326010 original size:156 final size:156
Alignment explanation
Indices: 34325800--34326270 Score: 518
Period size: 156 Copynumber: 3.0 Consensus size: 156
34325790 AGTTCAAAAA
* * * * ** * *
34325800 AAATTTAGTAAAAAACCCTTATTTTGGCCATTTATTCCTACTATTTT-CTCGAATTTTATTACTT
1 AAATTTAGTAAAAAACCCTTACTTCGACCCTTTGCTCGTATTATTTTCCT-GAATTTTATTACTT
34325864 TCAATAAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAA
65 TCAATAAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAA
34325929 TTTATTAATTTAGTGTG-TTTTTAAAT
130 TTTATTAATTTAGTGTGATTTTTAAAT
* *
34325955 AAATTT-TTAAAAAAACCCCTTA-TTCCTACCCTTTGCTCGTATTATTTTCCTGAATTTTATTAC
1 AAATTTAGT-AAAAAA-CCCTTACTT-CGACCCTTTGCTCGTATTATTTTCCTGAATTTTATTAC
* *
34326018 TTTCAATAAAAATAT-AT-TATTT-TAATATATTATTATTTTATATTATTTCAGTACATTTTGTT
63 TTTCAATAAAAATATCATAT-TTTCTAAT-T-TTATTATTTTACATTATTTCAGTACATTATGTT
* *
34326080 TGAAATATTTGTATTAA-TTATTTCTGAATTTTTAAA-
125 TG-AA-A-TT-TATTAATTTA-GTGTG-ATTTTTAAAT
* * * * **
34326116 AAATTTAGTAAAAAACTCTTACTTCGGCCCTTTGTTCGTATT-TTGTTCTTTGCGTTTTATTACT
1 AAATTTAGTAAAAAACCCTTACTTCGACCCTTTGCTCGTATTATT-TTC-CTGAATTTTATTACT
*
34326180 TT--A-AAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATATTTGAA
64 TTCAATAAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAA
*
34326242 ATTTATTAATTTAGTGTGTTTTTTAAAT
129 ATTTATTAATTTAGTGTGATTTTTAAAT
34326270 A
1 A
34326271 TACCATTTTT
Statistics
Matches: 266, Mismatches: 27, Indels: 47
0.78 0.08 0.14
Matches are distributed among these distances:
153 8 0.03
154 16 0.06
155 25 0.09
156 82 0.31
157 6 0.02
158 41 0.15
159 14 0.05
160 37 0.14
161 28 0.11
162 9 0.03
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.51
Consensus pattern (156 bp):
AAATTTAGTAAAAAACCCTTACTTCGACCCTTTGCTCGTATTATTTTCCTGAATTTTATTACTTT
CAATAAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAAT
TTATTAATTTAGTGTGATTTTTAAAT
Found at i:34326046 original size:13 final size:13
Alignment explanation
Indices: 34326028--34326065 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
34326018 TTTCAATAAA
34326028 AATATATTATTTT
1 AATATATTATTTT
34326041 AATATATTATTATT
1 AATATATTATT-TT
*
34326055 -TTATATTATTT
1 AATATATTATTT
34326066 CAGTACATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 1 0.04
13 20 0.87
14 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
AATATATTATTTT
Found at i:34326616 original size:10 final size:10
Alignment explanation
Indices: 34326601--34326775 Score: 99
Period size: 10 Copynumber: 17.3 Consensus size: 10
34326591 AAATCACCTT
34326601 TTTTTCTTTC
1 TTTTTCTTTC
*
34326611 TTTTTCCTTC
1 TTTTTCTTTC
* *
34326621 CTTTCCTCTTC
1 TTTTTCT-TTC
*
34326632 TTCTTC-TTC
1 TTTTTCTTTC
34326641 TTCTTTCTTTC
1 TT-TTTCTTTC
34326652 TTTTTTCTTCTC
1 -TTTTTCTT-TC
* *
34326664 ATTTCCTTT-
1 TTTTTCTTTC
* *
34326673 TCTTTCCTTC
1 TTTTTCTTTC
34326683 TTTTTCTTTC
1 TTTTTCTTTC
34326693 TTTTTTCTTCTC
1 -TTTTTCTT-TC
* *
34326705 CTTTCCTTT-
1 TTTTTCTTTC
* *
34326714 TCTTTCCTTC
1 TTTTTCTTTC
34326724 TTTTTCTTTC
1 TTTTTCTTTC
* *
34326734 -TTTCCTCTC
1 TTTTTCTTTC
* *
34326743 -CTCTCATTTC
1 TTTTTC-TTTC
*
34326753 CTTTTCTTTC
1 TTTTTCTTTC
34326763 TTTTTCTTTC
1 TTTTTCTTTC
34326773 TTT
1 TTT
34326776 CTTTCTTCTC
Statistics
Matches: 121, Mismatches: 33, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
9 24 0.20
10 53 0.44
11 38 0.31
12 6 0.05
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:34326658 original size:7 final size:8
Alignment explanation
Indices: 34326598--34326782 Score: 81
Period size: 8 Copynumber: 22.9 Consensus size: 8
34326588 AAGAAATCAC
*
34326598 CTTTTTTT
1 CTTTCTTT
34326606 CTTTCTTT
1 CTTTCTTT
* *
34326614 -TTCCTTC
1 CTTTCTTT
34326621 CTTTCCTCTT
1 CTTT-CT-TT
34326631 C-TTC-TT
1 CTTTCTTT
34326637 C-TTC-TT
1 CTTTCTTT
34326643 CTTTCTTT
1 CTTTCTTT
34326651 CTTT-TTT
1 CTTTCTTT
34326658 CTTCTCATTT
1 CTT-TC-TTT
34326668 CCTTTTCTTT
1 -C-TTTCTTT
*
34326678 CCTTC-TT
1 CTTTCTTT
34326685 -TTTCTTT
1 CTTTCTTT
34326692 CTTT-TTT
1 CTTTCTTT
34326699 CTTCTCCTTT
1 CTT-T-CTTT
34326709 CCTTTTCTTT
1 -C-TTTCTTT
*
34326719 CCTTC-TT
1 CTTTCTTT
34326726 -TTTCTTT
1 CTTTCTTT
*
34326733 CTTTCCTCTC
1 CTTT-CT-TT
*
34326743 CTCTCATTT
1 CTTTC-TTT
34326752 CCTTTTCTTT
1 -C-TTTCTTT
34326762 C-TT-TTT
1 CTTTCTTT
34326768 CTTTCTTT
1 CTTTCTTT
34326776 CTTTCTT
1 CTTTCTT
34326783 CTCCTTTCCC
Statistics
Matches: 138, Mismatches: 13, Indels: 52
0.68 0.06 0.26
Matches are distributed among these distances:
6 19 0.14
7 32 0.23
8 40 0.29
9 11 0.08
10 24 0.17
11 8 0.06
12 4 0.03
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (8 bp):
CTTTCTTT
Found at i:34326689 original size:41 final size:41
Alignment explanation
Indices: 34326597--34326791 Score: 233
Period size: 41 Copynumber: 4.8 Consensus size: 41
34326587 AAAGAAATCA
* *
34326597 CCTT-TTTTTCTTTCTTTTTCCTTC-C-TTTCCTCTTCTTCT
1 CCTTCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTT-T
*
34326636 TCTTCTTCTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTT
1 CCTTCTT-TTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTT
*
34326678 CCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTT
1 CCTTCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTT
* *
34326719 CCTTCTTTTTCTTTCTTTCCTCTCCTCTCATTTCCTTTTC--T
1 CCTTCTTTTTCTTTCTTT--TTTCTTCTCATTTCCTTTTCTTT
*
34326760 --TTCTTTTTCTTTCTTTCTTTCTTCTCCTTTCC
1 CCTTCTTTTTCTTTCTTT-TTTCTTCTCATTTCC
34326792 CTCTCCTTCT
Statistics
Matches: 139, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
38 13 0.09
39 19 0.14
40 2 0.01
41 69 0.50
42 8 0.06
43 28 0.20
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (41 bp):
CCTTCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTT
Found at i:34326749 original size:84 final size:82
Alignment explanation
Indices: 34326597--34326802 Score: 255
Period size: 84 Copynumber: 2.5 Consensus size: 82
34326587 AAAGAAATCA
* * *
34326597 CCTT-TTTTTCTTTC-TTTTTCCT-TCCTTTCCTCTTCTTCTTCTTCTTCTTTCTTTCTTTTTTC
1 CCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTCTTCTTCTCCTTCTTCTTTCTTTCTTTTCTC
*
34326659 TTCTCATTTCCTTTTCTTT
66 CTCTCATTTCCTTTTC--T
*
34326678 CCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTT-TCCTTCTT-TTTCTTTCTTTCCTC
1 CCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTCTTCTTCTCCTTCTTCTTTCTTTCTTT--TC
34326741 TCCTCTCATTTCCTTTTCT
64 TCCTCTCATTTCCTTTTCT
*
34326760 --TTCTTTTTCTTTCTTTCTTTCTTCTCCTTTCCCTCTCCTTCTC
1 CCTTCTTTTTCTTTCTTT-TTTCTTCTCCTTT-CCTCTTCTTCTC
34326803 TTCCCCCCAC
Statistics
Matches: 110, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
80 16 0.15
81 17 0.15
82 29 0.26
83 16 0.15
84 32 0.29
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.67
Consensus pattern (82 bp):
CCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTCTTCTTCTCCTTCTTCTTTCTTTCTTTTCTC
CTCTCATTTCCTTTTCT
Found at i:34327516 original size:54 final size:54
Alignment explanation
Indices: 34327384--34327518 Score: 155
Period size: 54 Copynumber: 2.5 Consensus size: 54
34327374 AGCAACACAC
** * *
34327384 TTTTCGGGTTTCGAGAATTTTTTTTTGTTTTGGGACATTGATGGCCGACACCATCT
1 TTTTCGGGTTTC--GAATTTTTTTTTGTTTTAAGACACTGATGGCCGACACCACCT
* * * *
34327440 TTTTTGGG-TCCCAATTTTTTTTTTGTTTTAAGACACTGATGGCCGGCACCACCT
1 TTTTCGGGTTTCGAA-TTTTTTTTTGTTTTAAGACACTGATGGCCGACACCACCT
*
34327494 TTTTCGGGTTTCGAATTCTTTTTTG
1 TTTTCGGGTTTCGAATTTTTTTTTG
34327519 GGCCACTGAT
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
53 2 0.03
54 50 0.77
55 6 0.09
56 7 0.11
ACGTcount: A:0.15, C:0.18, G:0.21, T:0.47
Consensus pattern (54 bp):
TTTTCGGGTTTCGAATTTTTTTTTGTTTTAAGACACTGATGGCCGACACCACCT
Found at i:34327802 original size:31 final size:31
Alignment explanation
Indices: 34327764--34327847 Score: 168
Period size: 31 Copynumber: 2.7 Consensus size: 31
34327754 GAATTCCGTG
34327764 GTTGAATTATATATTGTCATGTTTTAACGGA
1 GTTGAATTATATATTGTCATGTTTTAACGGA
34327795 GTTGAATTATATATTGTCATGTTTTAACGGA
1 GTTGAATTATATATTGTCATGTTTTAACGGA
34327826 GTTGAATTATATATTGTCATGT
1 GTTGAATTATATATTGTCATGT
34327848 CAACCGTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.46
Consensus pattern (31 bp):
GTTGAATTATATATTGTCATGTTTTAACGGA
Found at i:34328272 original size:89 final size:89
Alignment explanation
Indices: 34328044--34328355 Score: 450
Period size: 89 Copynumber: 3.5 Consensus size: 89
34328034 ATTCAAAATT
** * *
34328044 TTTGTATTATTTTTGTATCTGTAAATCAAATTTAGTCTGTATTATTTGTTGTTCGAATTTTATAT
1 TTTGTATT-TTTTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTGTTGTTTGAATTTTATAT
*
34328109 TTTAGTGTATTAATTTTTTAGAATG
65 TTTCGTGTATTAATTTTTTAGAATG
34328134 TTTGTATTTTTTT-TATCTGTAAATTTAATTTAGTCCGTATTATTTGTTGTTTGAATTTTATATT
1 TTTGTATTTTTTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTGTTGTTTGAATTTTATATT
*
34328198 TTCGTGTATTAATTTTTTAAAATG
66 TTCGTGTATTAATTTTTTAGAATG
* **
34328222 GTTGTATTTTTTTGGGTCTGTAAATTTAATTTAG-CTCGTATTATTTGTTGTTTGAATTTTATAT
1 TTTGTATTTTTTTGTATCTGTAAATTTAATTTAGTC-CGTATTATTTGTTGTTTGAATTTTATAT
* * *
34328286 TTTCATGTATTAATATTCTAGAATG
65 TTTCGTGTATTAATTTTTTAGAATG
* *
34328311 TTTGTATTTTCTTGTATCTGTAAATTTAATTT-GTTGCGTATTATT
1 TTTGTATTTTTTTGTATCTGTAAATTTAATTTAG-TCCGTATTATT
34328356 AATTTTCCGA
Statistics
Matches: 200, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
88 83 0.41
89 109 0.55
90 8 0.04
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.58
Consensus pattern (89 bp):
TTTGTATTTTTTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTGTTGTTTGAATTTTATATT
TTCGTGTATTAATTTTTTAGAATG
Found at i:34330211 original size:20 final size:21
Alignment explanation
Indices: 34330188--34330254 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 21
34330178 TAATCGACGT
**
34330188 TGATCGGA-GGTGATTGGCAG
1 TGATCGGACGGTGAACGGCAG
*
34330208 TGAT-TGACGGTGAACGGCAG
1 TGATCGGACGGTGAACGGCAG
* *
34330228 TGATC-GATGGTGAACGGTAG
1 TGATCGGACGGTGAACGGCAG
*
34330248 TTATCGG
1 TGATCGG
34330255 TGATGATGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.05
20 35 0.92
21 1 0.03
ACGTcount: A:0.22, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGATCGGACGGTGAACGGCAG
Found at i:34345853 original size:6 final size:7
Alignment explanation
Indices: 34345836--34345860 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34345826 AAATTTATGA
34345836 AAAAAAT
1 AAAAAAT
34345843 AAAAAAT
1 AAAAAAT
34345850 AAAAAAT
1 AAAAAAT
34345857 AAAA
1 AAAA
34345861 TTAATTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:34351447 original size:13 final size:13
Alignment explanation
Indices: 34351429--34351457 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34351419 CCATTAATTT
34351429 TTGTCCATTGACA
1 TTGTCCATTGACA
34351442 TTGTCCATTGACA
1 TTGTCCATTGACA
34351455 TTG
1 TTG
34351458 ATACTCAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTCCATTGACA
Found at i:34354363 original size:45 final size:44
Alignment explanation
Indices: 34354300--34354475 Score: 203
Period size: 45 Copynumber: 4.0 Consensus size: 44
34354290 GCTATACACG
* * *
34354300 TAAAATGAGTAAGACCATAGCTAAAAGATGCTATGGCCTCACGA
1 TAAAATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGA
*
34354344 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTAT--CATGTCATGA
1 T-AAAATGAGTAAGACCATAGCTAAAAGATGTTATGGCA--TCATGA
** * * * * *
34354389 TAAAATGAGTAAGACCATAATTGAAGGAAGATACGGCATCATGA
1 TAAAATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGA
34354433 TTAAAATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCAT
1 -TAAAATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCAT
34354476 ATGAAAGCAT
Statistics
Matches: 109, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
43 1 0.01
44 34 0.31
45 72 0.66
46 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGA
Found at i:34354451 original size:89 final size:89
Alignment explanation
Indices: 34354300--34354467 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 89
34354290 GCTATACACG
* * * * *
34354300 TAAAATGAGTAAGACCATAGCTAAAAGATGCTATGGCCTCACGATAAAAATGAGTAAGACCATAG
1 TAAAATGAGTAAGACCATAACTAAAAGAAGATACGGCATCACGATAAAAATGAGTAAGACCATAG
*
34354365 CTGAAAGATGTTATCATGTCATGA
66 CTAAAAGATGTTATCATGTCATGA
* * * * *
34354389 TAAAATGAGTAAGACCATAATTGAAGGAAGATACGGCATCATGATTAAAATGAGTAAGACCATAG
1 TAAAATGAGTAAGACCATAACTAAAAGAAGATACGGCATCACGATAAAAATGAGTAAGACCATAG
34354454 CTAAAAGATGTTAT
66 CTAAAAGATGTTAT
34354468 GGCATCATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.24
Consensus pattern (89 bp):
TAAAATGAGTAAGACCATAACTAAAAGAAGATACGGCATCACGATAAAAATGAGTAAGACCATAG
CTAAAAGATGTTATCATGTCATGA
Found at i:34355390 original size:39 final size:40
Alignment explanation
Indices: 34355345--34355512 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
34355335 CGGGGTTTAG
* * *
34355345 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
34355384 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
34355424 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
34355464 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
34355505 CCGGATAT
1 CCGGATAT
34355513 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:34355495 original size:41 final size:40
Alignment explanation
Indices: 34355368--34355512 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
34355358 CTCGCACAAG
* * * * *
34355368 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
34355408 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
34355448 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
34355489 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
34355513 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:34365663 original size:25 final size:25
Alignment explanation
Indices: 34365645--34365697 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
34365635 CCACTAAGGT
*
34365645 TTTCCAAATAATACTCCACGTAGGC
1 TTTCCAAATAATACACCACGTAGGC
*
34365670 TTTCCAAATAATACACCACATAGGC
1 TTTCCAAATAATACACCACGTAGGC
34365695 TTT
1 TTT
34365698 TCAGGCAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.30
Consensus pattern (25 bp):
TTTCCAAATAATACACCACGTAGGC
Found at i:34367793 original size:269 final size:269
Alignment explanation
Indices: 34367314--34367846 Score: 967
Period size: 269 Copynumber: 2.0 Consensus size: 269
34367304 AGTTTAGGGG
34367314 CAAAATCATAATTTTGCCAAAGTTAGAGTCGAGGGTTGTTTTGATAAATGTGAGTGTTAAATAAA
1 CAAAATCATAATTTTGCCAAAGTTAGAGTCGAGGGTTGTTTTGATAAATGTGAGTGTTAAATAAA
34367379 CTAAATTTGCTATTGTAGATCAAGAAGAATGAAATTCGGGGTTAGACTGAGGAAAGAAAAAGGTT
66 CTAAATTTGCTATTGTAGATCAAGAAGAATGAAATTCGGGGTTAGACTGAGGAAAGAAAAAGGTT
* *
34367444 GAAGACTAAGTTGATAGATTTGGCCATATTTTGTACCAAGGTAAGTTTACGTTAAATAAATATAA
131 GAAGACTAAGTTGATAGATTTGGCCATATTTTGTACCAAGGTAAGTTTACGGTAAATAAATACAA
* *
34367509 TATTTCAATAATTATTATTAATGCTGCTATTTTCTAGAAATTATGTATATATTTCATGAAATTAT
196 TATTTCAATAATTATTATTAATGCTGATATTTTCCAGAAATTATGTATATATTTCATGAAATTAT
34367574 TTAACGTTT
261 TTAACGTTT
34367583 CAAAATCATAATTTTGCCAAAGTTAGAGTCGAGGGTTGTTTTGATAAATGTGAGTGTTAAATAAA
1 CAAAATCATAATTTTGCCAAAGTTAGAGTCGAGGGTTGTTTTGATAAATGTGAGTGTTAAATAAA
34367648 CTAAATTTGCTATTGTAGATCAAGAAGAATGAAATTCGGGGTTAGACTGAGGAAAGAAAAAGGTT
66 CTAAATTTGCTATTGTAGATCAAGAAGAATGAAATTCGGGGTTAGACTGAGGAAAGAAAAAGGTT
*
34367713 GAAGACTAAGTTGATAGATTTGGCCATATTTTGTACCAAGGTAAGTTTACGGTAAATAAATCCAA
131 GAAGACTAAGTTGATAGATTTGGCCATATTTTGTACCAAGGTAAGTTTACGGTAAATAAATACAA
* ** * * *
34367778 TATTTTAATAATTATTATTAATTTTGATATTTTCCAGCAATTATGTATTTATTTTATGAAATTAT
196 TATTTCAATAATTATTATTAATGCTGATATTTTCCAGAAATTATGTATATATTTCATGAAATTAT
34367843 TTAA
261 TTAA
34367847 TGTTGACTCA
Statistics
Matches: 253, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
269 253 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (269 bp):
CAAAATCATAATTTTGCCAAAGTTAGAGTCGAGGGTTGTTTTGATAAATGTGAGTGTTAAATAAA
CTAAATTTGCTATTGTAGATCAAGAAGAATGAAATTCGGGGTTAGACTGAGGAAAGAAAAAGGTT
GAAGACTAAGTTGATAGATTTGGCCATATTTTGTACCAAGGTAAGTTTACGGTAAATAAATACAA
TATTTCAATAATTATTATTAATGCTGATATTTTCCAGAAATTATGTATATATTTCATGAAATTAT
TTAACGTTT
Found at i:34368072 original size:50 final size:50
Alignment explanation
Indices: 34367944--34368190 Score: 246
Period size: 50 Copynumber: 4.8 Consensus size: 50
34367934 ATTTGGGTAA
*
34367944 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CT-AG---ATG
* * * *
34368000 AGAGGTCCTATGTAAGACCATGTTTGGGACATGGCGTTGGCACCTAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATG
* * * * *
34368050 AGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATTGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATG
* * * * * *
34368100 AGA-ACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATG
* * *
34368149 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34368191 TGTTATTATA
Statistics
Matches: 162, Mismatches: 27, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
49 38 0.23
50 82 0.51
53 2 0.01
54 1 0.01
55 1 0.01
56 38 0.23
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATG
Found at i:34369299 original size:442 final size:442
Alignment explanation
Indices: 34368475--34369358 Score: 1768
Period size: 442 Copynumber: 2.0 Consensus size: 442
34368465 TATTTATTTG
34368475 TGTTAAATGTTGTTATTTATTTGCTTGTAAACTTACTAAGCTTTATCCTTACTTCCTTTATTTTC
1 TGTTAAATGTTGTTATTTATTTGCTTGTAAACTTACTAAGCTTTATCCTTACTTCCTTTATTTTC
34368540 TTTCTTTTATAGTATTACAAGCAAAGTCGGGAATCTTAATGACGTCGGAGAGCGCTCACACTATC
66 TTTCTTTTATAGTATTACAAGCAAAGTCGGGAATCTTAATGACGTCGGAGAGCGCTCACACTATC
34368605 AACAACAATAACTCGGTATTTTATGATGATCAATGTTTGAGCTATGGCATGTATAGGGACTTAGT
131 AACAACAATAACTCGGTATTTTATGATGATCAATGTTTGAGCTATGGCATGTATAGGGACTTAGT
34368670 CATATTGAATGTATGTCCTTATAATATTGCTAAAGGATGATGTGTAAATATGTGATAATTTTTAG
196 CATATTGAATGTATGTCCTTATAATATTGCTAAAGGATGATGTGTAAATATGTGATAATTTTTAG
34368735 TTATTAAAATGGATAAGTAAGAATATGTTTGGTATTATAAATGCCTAGGTGATAGTTTATACTTA
261 TTATTAAAATGGATAAGTAAGAATATGTTTGGTATTATAAATGCCTAGGTGATAGTTTATACTTA
34368800 GAAATTATGAAAGAGCAAAAATTTGCAATGAAACAGTTTTGGGACAGCAGCAGTGACATGACTTT
326 GAAATTATGAAAGAGCAAAAATTTGCAATGAAACAGTTTTGGGACAGCAGCAGTGACATGACTTT
34368865 GAAAAATCACCAAGGATAGTATAAAATGAATTAGGGAGTGTACTATATATAA
391 GAAAAATCACCAAGGATAGTATAAAATGAATTAGGGAGTGTACTATATATAA
34368917 TGTTAAATGTTGTTATTTATTTGCTTGTAAACTTACTAAGCTTTATCCTTACTTCCTTTATTTTC
1 TGTTAAATGTTGTTATTTATTTGCTTGTAAACTTACTAAGCTTTATCCTTACTTCCTTTATTTTC
34368982 TTTCTTTTATAGTATTACAAGCAAAGTCGGGAATCTTAATGACGTCGGAGAGCGCTCACACTATC
66 TTTCTTTTATAGTATTACAAGCAAAGTCGGGAATCTTAATGACGTCGGAGAGCGCTCACACTATC
34369047 AACAACAATAACTCGGTATTTTATGATGATCAATGTTTGAGCTATGGCATGTATAGGGACTTAGT
131 AACAACAATAACTCGGTATTTTATGATGATCAATGTTTGAGCTATGGCATGTATAGGGACTTAGT
34369112 CATATTGAATGTATGTCCTTATAATATTGCTAAAGGATGATGTGTAAATATGTGATAATTTTTAG
196 CATATTGAATGTATGTCCTTATAATATTGCTAAAGGATGATGTGTAAATATGTGATAATTTTTAG
34369177 TTATTAAAATGGATAAGTAAGAATATGTTTGGTATTATAAATGCCTAGGTGATAGTTTATACTTA
261 TTATTAAAATGGATAAGTAAGAATATGTTTGGTATTATAAATGCCTAGGTGATAGTTTATACTTA
34369242 GAAATTATGAAAGAGCAAAAATTTGCAATGAAACAGTTTTGGGACAGCAGCAGTGACATGACTTT
326 GAAATTATGAAAGAGCAAAAATTTGCAATGAAACAGTTTTGGGACAGCAGCAGTGACATGACTTT
34369307 GAAAAATCACCAAGGATAGTATAAAATGAATTAGGGAGTGTACTATATATAA
391 GAAAAATCACCAAGGATAGTATAAAATGAATTAGGGAGTGTACTATATATAA
34369359 AATTAGATCT
Statistics
Matches: 442, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
442 442 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (442 bp):
TGTTAAATGTTGTTATTTATTTGCTTGTAAACTTACTAAGCTTTATCCTTACTTCCTTTATTTTC
TTTCTTTTATAGTATTACAAGCAAAGTCGGGAATCTTAATGACGTCGGAGAGCGCTCACACTATC
AACAACAATAACTCGGTATTTTATGATGATCAATGTTTGAGCTATGGCATGTATAGGGACTTAGT
CATATTGAATGTATGTCCTTATAATATTGCTAAAGGATGATGTGTAAATATGTGATAATTTTTAG
TTATTAAAATGGATAAGTAAGAATATGTTTGGTATTATAAATGCCTAGGTGATAGTTTATACTTA
GAAATTATGAAAGAGCAAAAATTTGCAATGAAACAGTTTTGGGACAGCAGCAGTGACATGACTTT
GAAAAATCACCAAGGATAGTATAAAATGAATTAGGGAGTGTACTATATATAA
Found at i:34387713 original size:67 final size:68
Alignment explanation
Indices: 34387598--34387733 Score: 204
Period size: 67 Copynumber: 2.0 Consensus size: 68
34387588 ATACAATAGG
*
34387598 TAATTAGCTTATAGTAATAAATTATTGATTTAAGGTTACATGAAGTATTAGAGTG-TTAAATTGA
1 TAATTAGCTTATAGTAATAAAGTATTGATTTAAGGTTACATGAAGTATTAGAGTGCTTAAATTGA
34387662 TGT
66 TGT
* * *
34387665 TAATTAGCTTATAGTAATAAAGTATTGATTTAAGG-TAGGATGAGGTATTGGAGTGCTTAAATTG
1 TAATTAGCTTATAGTAATAAAGTATTGATTTAAGGTTA-CATGAAGTATTAGAGTGCTTAAATTG
*
34387729 TTGT
65 ATGT
34387733 T
1 T
34387734 GGCATGTTGT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
66 2 0.03
67 48 0.77
68 12 0.19
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (68 bp):
TAATTAGCTTATAGTAATAAAGTATTGATTTAAGGTTACATGAAGTATTAGAGTGCTTAAATTGA
TGT
Found at i:34390869 original size:13 final size:13
Alignment explanation
Indices: 34390851--34390894 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
34390841 CTGTTCTATT
*
34390851 TTATTTATCTTAG
1 TTATTTATCTTAA
*
34390864 TTATTTATTTTAA
1 TTATTTATCTTAA
*
34390877 TTACTT-TCTTAA
1 TTATTTATCTTAA
34390889 TTATTT
1 TTATTT
34390895 TTATTTGACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (13 bp):
TTATTTATCTTAA
Found at i:34396971 original size:23 final size:22
Alignment explanation
Indices: 34396941--34396985 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
34396931 TTTTTATATG
34396941 AAATTATTAAATAAAACAATTAA
1 AAATTATTAAATAAAA-AATTAA
**
34396964 AAATTATTACTTAAAAAATTAA
1 AAATTATTAAATAAAAAATTAA
34396986 TATCTAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTATTAAATAAAAAATTAA
Found at i:34397449 original size:21 final size:21
Alignment explanation
Indices: 34397423--34397468 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
34397413 AAACTATATT
*
34397423 TTAAATAT-TTAAATATAGCTA
1 TTAAATATCTTAAAT-TAGATA
*
34397444 TTAAATATCTTTAATTAGATA
1 TTAAATATCTTAAATTAGATA
34397465 TTAA
1 TTAA
34397469 CACATTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (21 bp):
TTAAATATCTTAAATTAGATA
Found at i:34398390 original size:18 final size:18
Alignment explanation
Indices: 34398369--34398403 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34398359 ATTATTATAT
34398369 TAAAT-TTAATTATAAAAA
1 TAAATATTAA-TATAAAAA
34398387 TAAATATTAATATAAAA
1 TAAATATTAATATAAAA
34398404 GTATTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAATATTAATATAAAAA
Found at i:34411399 original size:46 final size:46
Alignment explanation
Indices: 34411349--34411494 Score: 111
Period size: 51 Copynumber: 3.1 Consensus size: 46
34411339 TTTTTTAAGA
*
34411349 AAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAATAATTTAATT
1 AAAAATAAATTAAATTAGGGTTTAGGGTTACTTGAATAATTTAATT
* ** * **
34411395 AAAAAATTTAAAAATTAAATTAGGGTTTAGAGTTA-AAG-AT-TTTTAAGG
1 -AAAAA--T--AAATTAAATTAGGGTTTAGGGTTACTTGAATAATTTAATT
* * *
34411443 AAAAATTAAA-TAAATTAAGGTTTAGGGTTACTTGAGTAAATTAATT
1 AAAAA-TAAATTAAATTAGGGTTTAGGGTTACTTGAATAATTTAATT
*
34411489 ACAAAT
1 AAAAAT
34411495 TTATAATAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
43 18 0.24
44 4 0.05
45 2 0.03
46 10 0.13
47 10 0.13
48 5 0.07
49 3 0.04
50 1 0.01
51 22 0.29
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (46 bp):
AAAAATAAATTAAATTAGGGTTTAGGGTTACTTGAATAATTTAATT
Found at i:34411410 original size:94 final size:94
Alignment explanation
Indices: 34411340--34411575 Score: 265
Period size: 94 Copynumber: 2.4 Consensus size: 94
34411330 TGTTTATTAT
* *
34411340 TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAATAATTTAATTAAAAAATTTA
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAATAAATTAATTAAAAAATTTA
34411405 AAAATTAAATTAGGGTTTAGAGTTAAAGA
66 AAAATTAAATTAGGGTTTAGAGTTAAAGA
* * * * * *
34411434 TTTTTAAGGAAAAATTAAATAAATTAAGGTTTAGGGTTACTTGAGTAAATTAATTACAAATTTAT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAATAAATTAATTAAAAAATT-T
** *
34411499 AATAAATTAGTTTAGGGTTTAGTGTTTAGAGTTTAGA
65 AA-AAATTAAATTAGGGTTTAGAG-TTA-A----AGA
* *
34411536 GTTTTTAAGTAAAAACTTAAATAAATTAGGGTTTAGGGTT
1 -TTTTTAAG-AAAAAATCAAATAAATTAGGGTTTAGGGTT
34411576 TAGGGTTACT
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
94 55 0.47
95 3 0.03
96 18 0.15
97 3 0.03
98 1 0.01
102 3 0.03
103 8 0.07
104 27 0.23
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.39
Consensus pattern (94 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAATAAATTAATTAAAAAATTTA
AAAATTAAATTAGGGTTTAGAGTTAAAGA
Found at i:34411838 original size:126 final size:126
Alignment explanation
Indices: 34411612--34412035 Score: 695
Period size: 126 Copynumber: 3.4 Consensus size: 126
34411602 TAATTTAAAG
* * *
34411612 AAGCTCCCACGTGGACGCGCTTTTGGTACAGTGGCTCCTGAGAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* **
34411677 CTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATATTTTGTCAGCAGAAGTACTGAAAA
66 CTGAGCAAACAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTGAAAA
* *
34411738 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTTGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* *
34411803 CTGAGTAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
66 CTGAGCAAACAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTGAAAA
* * *
34411864 AAGCTTCCACGTGGACGCGCTTTTGCTACAGTATCTCCTGAAAAAATAATTTCAAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* * *
34411929 CTGAGCAAACAGTGTCAAAAACGCTTTAAGTATGATGCTTTGGCAGCAGAAGTACTGAAAG
66 CTGAGCAAACAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTGAAAA
*
34411990 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACTCCTGAAAAAA
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAA
34412036 GCTCTCATGT
Statistics
Matches: 276, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 276 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
CTGAGCAAACAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTGAAAA
Found at i:34414210 original size:18 final size:18
Alignment explanation
Indices: 34414184--34414226 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
34414174 GACTCGAAAA
* * *
34414184 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
34414202 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
34414220 AGGATAC
1 AGGATAC
34414227 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:34414886 original size:7 final size:7
Alignment explanation
Indices: 34414876--34414901 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34414866 CATAATACAT
34414876 AATACTA
1 AATACTA
34414883 AATACTA
1 AATACTA
34414890 AATACTA
1 AATACTA
34414897 AATAC
1 AATAC
34414902 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:34415365 original size:11 final size:10
Alignment explanation
Indices: 34415351--34415427 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 10
34415341 AAATAGGGAT
34415351 TTGAGAGAAA
1 TTGAGAGAAA
*
34415361 TTTGAAAGGAAA
1 -TTGAGA-GAAA
34415373 TTGAGAGCAAA
1 TTGAGAG-AAA
34415384 TTGAGAGGAAA
1 TTGAGA-GAAA
*
34415395 TTGAGAGAATC
1 TTGAGAGAA-A
34415406 TTAGAGAGAATA
1 TT-GAGAGAA-A
34415418 TT-AGAGAAA
1 TTGAGAGAAA
34415427 T
1 T
34415428 GATTTATTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
9 2 0.04
10 10 0.18
11 30 0.53
12 15 0.26
ACGTcount: A:0.47, C:0.03, G:0.27, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:34415376 original size:22 final size:21
Alignment explanation
Indices: 34415351--34415403 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
34415341 AAATAGGGAT
34415351 TTGAGAGAAATTTGAAAGGAAA
1 TTGAGAGAAA-TTGAAAGGAAA
*
34415373 TTGAGAGCAAATTGAGAGGAAA
1 TTGAGAG-AAATTGAAAGGAAA
34415395 TTGAGAGAA
1 TTGAGAGAA
34415404 TCTTAGAGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 2 0.07
22 24 0.83
23 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.30, T:0.21
Consensus pattern (21 bp):
TTGAGAGAAATTGAAAGGAAA
Found at i:34417989 original size:47 final size:47
Alignment explanation
Indices: 34417911--34419073 Score: 2193
Period size: 47 Copynumber: 24.7 Consensus size: 47
34417901 CCCTTCGGGA
* * * * * *
34417911 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34417958 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418005 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34418052 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34418099 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34418146 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418193 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418240 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418287 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418334 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418381 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418428 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418475 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418522 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418569 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418616 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418663 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418710 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418757 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418804 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418851 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418898 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34418945 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34418992 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34419039 CTTATCACATATATACA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
34419074 AGAATCCTAA
Statistics
Matches: 1098, Mismatches: 17, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
46 1 0.00
47 1097 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34437344 original size:27 final size:27
Alignment explanation
Indices: 34437295--34437528 Score: 258
Period size: 27 Copynumber: 8.7 Consensus size: 27
34437285 GTGAACACGC
*
34437295 TATGAAAGGAATGCCTATGTGGCAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
*
34437322 TAT-AGAAGGAATGCCTTTATGGCAATA
1 TATGA-AAGGAATGCCTTTGTGGCAATA
* *
34437349 TATGAAATGAATGCCTTTGTTGCAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
*
34437376 TATGAAAGGAATGCCTTTGTGACAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
* * *
34437403 TATGGAAGGAATGCCTTTATGACAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
* * * * *
34437430 CATGAAAGGAATTCTTTTATGGAAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
* *
34437457 TAT-AGAAGGAA-GACTTTTGTGGAAATA
1 TATGA-AAGGAATG-CCTTTGTGGCAATA
*
34437484 TATGAAAGGAATGCCTTTTTGGCAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
* *
34437511 TATTAAAGGAATTCCTTT
1 TATGAAAGGAATGCCTTT
34437529 TTTACGGACT
Statistics
Matches: 177, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.01
27 172 0.97
28 3 0.02
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (27 bp):
TATGAAAGGAATGCCTTTGTGGCAATA
Found at i:34437435 original size:81 final size:81
Alignment explanation
Indices: 34437295--34437528 Score: 285
Period size: 81 Copynumber: 2.9 Consensus size: 81
34437285 GTGAACACGC
* * * *
34437295 TATGAAAGGAATGCCTATGTGGCAATATATAGAAGGAATGCCTTTATGGCAATATATGAAATGAA
1 TATGAAAGGAATGCCTTTGTGACAATATATGGAAGGAATGCCTTTATGGCAATATATGAAAGGAA
* * * *
34437360 TGCCTTTGTTGCAATA
66 TTCCTTTATGGAAATA
* *
34437376 TATGAAAGGAATGCCTTTGTGACAATATATGGAAGGAATGCCTTTATGACAATACATGAAAGGAA
1 TATGAAAGGAATGCCTTTGTGACAATATATGGAAGGAATGCCTTTATGGCAATATATGAAAGGAA
*
34437441 TTCTTTTATGGAAATA
66 TTCCTTTATGGAAATA
* * * *
34437457 TAT-AGAAGGAA-GACTTTTGTGGA-AATATATGAAAGGAATGCCTTTTTGGCAATATATTAAAG
1 TATGA-AAGGAATG-CCTTTGT-GACAATATATGGAAGGAATGCCTTTATGGCAATATATGAAAG
34437519 GAATTCCTTT
63 GAATTCCTTT
34437529 TTTACGGACT
Statistics
Matches: 132, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
80 2 0.02
81 128 0.97
82 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (81 bp):
TATGAAAGGAATGCCTTTGTGACAATATATGGAAGGAATGCCTTTATGGCAATATATGAAAGGAA
TTCCTTTATGGAAATA
Found at i:34439829 original size:24 final size:24
Alignment explanation
Indices: 34439797--34439844 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
34439787 ATTCTACCTG
34439797 ATTTAAGTTCATTGGGCTAGCGTC
1 ATTTAAGTTCATTGGGCTAGCGTC
34439821 ATTTAAGTTCATTGGGCTAGCGTC
1 ATTTAAGTTCATTGGGCTAGCGTC
34439845 TACTTGAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.38
Consensus pattern (24 bp):
ATTTAAGTTCATTGGGCTAGCGTC
Found at i:34442263 original size:27 final size:27
Alignment explanation
Indices: 34442233--34442364 Score: 194
Period size: 27 Copynumber: 4.9 Consensus size: 27
34442223 ATAAACATGT
*
34442233 TATGAAAGGAATGCCTTTGTGGAAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
*
34442260 TATGGAAGGAATGCCTTTGTGGCAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
* *
34442287 TATGGAAA-CAATGCCTTTTTGGCAATA
1 TAT-GAAAGGAATGCCTTTGTGGCAATA
*
34442314 TATGAAAGGAATGCCTTTGTAGCAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
*
34442341 TACGAAAGGAATGCCTTTGTGGCA
1 TATGAAAGGAATGCCTTTGTGGCA
34442365 GACTCTGAAG
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 4 0.04
27 86 0.92
28 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (27 bp):
TATGAAAGGAATGCCTTTGTGGCAATA
Found at i:34442378 original size:27 final size:27
Alignment explanation
Indices: 34442348--34442411 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
34442338 ATATACGAAA
* * *
34442348 GGAATGCCTTTGTGGCAGACTCTGAAG
1 GGAATGCCTTCGTGGCAAACTCTAAAG
* * *
34442375 GGAAAGCCTTCGTGGCAAATTCTAAAT
1 GGAATGCCTTCGTGGCAAACTCTAAAG
34442402 GGAATGCCTT
1 GGAATGCCTT
34442412 GACAACGTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (27 bp):
GGAATGCCTTCGTGGCAAACTCTAAAG
Found at i:34445434 original size:13 final size:13
Alignment explanation
Indices: 34445416--34445445 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34445406 GACACAGGCG
*
34445416 TGTGTCTCAGCCT
1 TGTGTCTCAGCCA
34445429 TGTGTCTCAGCCA
1 TGTGTCTCAGCCA
34445442 TGTG
1 TGTG
34445446 ACCCATGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.27, G:0.27, T:0.37
Consensus pattern (13 bp):
TGTGTCTCAGCCA
Found at i:34463414 original size:12 final size:12
Alignment explanation
Indices: 34463397--34463421 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34463387 GGTGTTCATT
34463397 CGGTTAACCGAC
1 CGGTTAACCGAC
34463409 CGGTTAACCGAC
1 CGGTTAACCGAC
34463421 C
1 C
34463422 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:34463666 original size:9 final size:9
Alignment explanation
Indices: 34463581--34463650 Score: 104
Period size: 9 Copynumber: 7.8 Consensus size: 9
34463571 TTTGGTTAAA
34463581 AATTACCCG
1 AATTACCCG
34463590 AATTACCCG
1 AATTACCCG
34463599 AATTACCCG
1 AATTACCCG
*
34463608 GATTACCCG
1 AATTACCCG
*
34463617 AATTAACCG
1 AATTACCCG
*
34463626 AATTAACCG
1 AATTACCCG
*
34463635 AATTAACCG
1 AATTACCCG
34463644 AATTACC
1 AATTACC
34463651 GAAAAATACC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:34465714 original size:28 final size:28
Alignment explanation
Indices: 34465683--34465764 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
34465673 AAAAGTGAGC
*
34465683 CTTTGTGGCAATCTCTATTAAAGGAA-T
1 CTTTGTGGCAATCTCTGTTAAAGGAAGT
** *
34465710 GCTTTGTGGTGATCTTTGTTAAAGGAAGT
1 -CTTTGTGGCAATCTCTGTTAAAGGAAGT
* *
34465739 CTTTGTTGCAACCTCTGTTAAAGGAA
1 CTTTGTGGCAATCTCTGTTAAAGGAA
34465765 AACTTTATTG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 43 0.98
29 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (28 bp):
CTTTGTGGCAATCTCTGTTAAAGGAAGT
Found at i:34468929 original size:187 final size:186
Alignment explanation
Indices: 34468602--34468971 Score: 587
Period size: 187 Copynumber: 2.0 Consensus size: 186
34468592 TTTAATGTAA
34468602 CTAAGTCTTCTTAGACACATCCAAAACCCCCCGAAGTTGATGAGTAGTATTTAGATTAAGTTTTC
1 CTAAGTCTTCTTAGACACATCCAAAACCCCCCGAAGTTGATGAGTAGTATTTAGATTAAGTTTTC
* *
34468667 CTTTGTTTTCCAAAAATCCTTCTTTCCTATTGGCATCGATTTTGATCCAAGAGTTATTTTATAAT
66 CTTTGTTTTCCAAAAATCCTTCTTTCCTATTGGAATCGATTTCGATCCAAGAGTTATTTTATAAT
34468732 ATCAAAGTATTCAATTTATTTCTCTTTCGCAAGTCATAAGATTTGATTATTCCGAT
131 ATCAAAGTATTCAATTTATTTCTCTTTCGCAAGTCATAAGATTTGATTATTCCGAT
* * **
34468788 CTAAGTTTTCTTAGACGCATCCAAAACCCCCTCGAAGTTTTTGAGTAGTATTTAGATTAAGTTTT
1 CTAAGTCTTCTTAGACACATCCAAAACCCCC-CGAAGTTGATGAGTAGTATTTAGATTAAGTTTT
* * * * * *
34468853 CCTTTGTTTTCCAAAAATGCTTCTTTCCTTTTGGAATTGATTTCGATCTAATAGTTCTTTTATAA
65 CCTTTGTTTTCCAAAAATCCTTCTTTCCTATTGGAATCGATTTCGATCCAAGAGTTATTTTATAA
* * * *
34468918 TATCGAAGTATTCATTTTATTTCTCTTTCGCAAGTGATAAGATTTGGTTATTCC
130 TATCAAAGTATTCAATTTATTTCTCTTTCGCAAGTCATAAGATTTGATTATTCC
34468972 AATTGAGAGA
Statistics
Matches: 167, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
186 29 0.17
187 138 0.83
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (186 bp):
CTAAGTCTTCTTAGACACATCCAAAACCCCCCGAAGTTGATGAGTAGTATTTAGATTAAGTTTTC
CTTTGTTTTCCAAAAATCCTTCTTTCCTATTGGAATCGATTTCGATCCAAGAGTTATTTTATAAT
ATCAAAGTATTCAATTTATTTCTCTTTCGCAAGTCATAAGATTTGATTATTCCGAT
Found at i:34476007 original size:17 final size:17
Alignment explanation
Indices: 34475972--34476004 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34475962 ACATAGTGAA
34475972 AATTAATATATAAATTT
1 AATTAATATATAAATTT
*
34475989 AATTCATATA-AAATTT
1 AATTAATATATAAATTT
34476005 TAACAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTAATATATAAATTT
Found at i:34476151 original size:49 final size:49
Alignment explanation
Indices: 34476079--34476179 Score: 148
Period size: 49 Copynumber: 2.1 Consensus size: 49
34476069 AAACATGGTA
* *
34476079 GTTATAATTCTTTTTGAAAAGAATATAACATTTTTAATACTGTCAATAT
1 GTTATAATTATTTTTGAAAAGAATATAACATGTTTAATACTGTCAATAT
* * * *
34476128 GTTATAATTATTTTTGGAAAGAATATAACATGTTTAATGCTTTCCATAT
1 GTTATAATTATTTTTGAAAAGAATATAACATGTTTAATACTGTCAATAT
34476177 GTT
1 GTT
34476180 CCTTATAAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.46
Consensus pattern (49 bp):
GTTATAATTATTTTTGAAAAGAATATAACATGTTTAATACTGTCAATAT
Found at i:34505929 original size:27 final size:27
Alignment explanation
Indices: 34505899--34506804 Score: 1758
Period size: 27 Copynumber: 33.6 Consensus size: 27
34505889 ATATTAAGTC
* * *
34505899 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34505926 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34505953 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34505980 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506007 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506034 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506061 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506088 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506115 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506142 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506169 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506196 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506223 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506250 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506277 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506304 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506331 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506358 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506385 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506412 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506439 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506466 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506493 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506520 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506547 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506574 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506601 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506628 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506655 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506682 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506709 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
34506736 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
34506763 TGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
34506790 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34506805 GCACAATTTA
Statistics
Matches: 872, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 872 1.00
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:34522589 original size:17 final size:17
Alignment explanation
Indices: 34522564--34522597 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34522554 GATAAGTATA
* *
34522564 CATTTTCATTGCATTTT
1 CATTGTCATTACATTTT
34522581 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
34522598 AGTGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.56
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:34525560 original size:43 final size:44
Alignment explanation
Indices: 34525506--34525616 Score: 165
Period size: 43 Copynumber: 2.6 Consensus size: 44
34525496 AAAATATCGC
* *
34525506 TAAAGATCATGACCTTTAGCGGCGCTTTTGTCACAAACACCG-A
1 TAAAGAACATGACCTTTAGCGACGCTTTTGTCACAAACACCGCA
*
34525549 TAAAGAACATGACCTTTAGCGACGCTTTTGTCACAAACGCCGCA
1 TAAAGAACATGACCTTTAGCGACGCTTTTGTCACAAACACCGCA
*
34525593 -AAAGAACA-AACCTTTAGCGACGCT
1 TAAAGAACATGACCTTTAGCGACGCT
34525617 GCTCATAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
42 15 0.24
43 47 0.75
44 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (44 bp):
TAAAGAACATGACCTTTAGCGACGCTTTTGTCACAAACACCGCA
Found at i:34526306 original size:278 final size:278
Alignment explanation
Indices: 34525809--34526365 Score: 1114
Period size: 278 Copynumber: 2.0 Consensus size: 278
34525799 AAACTAAATA
34525809 TAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAATAACACAATTAAAAAATTAG
1 TAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAATAACACAATTAAAAAATTAG
34525874 AAAATTTAGATTCCTAGAGTCAAGCCATAATGATTTTCTCGTATAAGTAAGAAACTAAAAAGAAA
66 AAAATTTAGATTCCTAGAGTCAAGCCATAATGATTTTCTCGTATAAGTAAGAAACTAAAAAGAAA
34525939 AAGAAAACTATGAATGAAGTAGATATCATAAAAAGAAATCCGCAGATGATATTTTAGCAAAAAAA
131 AAGAAAACTATGAATGAAGTAGATATCATAAAAAGAAATCCGCAGATGATATTTTAGCAAAAAAA
34526004 TTTTACATGATTAGTTCATAAAATCCACATCTTCATTACACAAGAGAAAGGACGTTACATCTCTA
196 TTTTACATGATTAGTTCATAAAATCCACATCTTCATTACACAAGAGAAAGGACGTTACATCTCTA
34526069 AAAGAACATAAAAGGCTT
261 AAAGAACATAAAAGGCTT
34526087 TAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAATAACACAATTAAAAAATTAG
1 TAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAATAACACAATTAAAAAATTAG
34526152 AAAATTTAGATTCCTAGAGTCAAGCCATAATGATTTTCTCGTATAAGTAAGAAACTAAAAAGAAA
66 AAAATTTAGATTCCTAGAGTCAAGCCATAATGATTTTCTCGTATAAGTAAGAAACTAAAAAGAAA
34526217 AAGAAAACTATGAATGAAGTAGATATCATAAAAAGAAATCCGCAGATGATATTTTAGCAAAAAAA
131 AAGAAAACTATGAATGAAGTAGATATCATAAAAAGAAATCCGCAGATGATATTTTAGCAAAAAAA
34526282 TTTTACATGATTAGTTCATAAAATCCACATCTTCATTACACAAGAGAAAGGACGTTACATCTCTA
196 TTTTACATGATTAGTTCATAAAATCCACATCTTCATTACACAAGAGAAAGGACGTTACATCTCTA
34526347 AAAGAACATAAAAGGCTT
261 AAAGAACATAAAAGGCTT
34526365 T
1 T
34526366 GCACAAATAG
Statistics
Matches: 279, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 279 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (278 bp):
TAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAATAACACAATTAAAAAATTAG
AAAATTTAGATTCCTAGAGTCAAGCCATAATGATTTTCTCGTATAAGTAAGAAACTAAAAAGAAA
AAGAAAACTATGAATGAAGTAGATATCATAAAAAGAAATCCGCAGATGATATTTTAGCAAAAAAA
TTTTACATGATTAGTTCATAAAATCCACATCTTCATTACACAAGAGAAAGGACGTTACATCTCTA
AAAGAACATAAAAGGCTT
Found at i:34528131 original size:88 final size:88
Alignment explanation
Indices: 34528032--34528207 Score: 307
Period size: 88 Copynumber: 2.0 Consensus size: 88
34528022 AAACATTCAT
*
34528032 TTCATGGGGTAACTCTTTCCTTACAGAGACAAATAACTTGCCTTCATAAATTTGCTTCTTCTCTC
1 TTCATGGGGTAACTCTTTCCTTACACAGACAAATAACTTGCCTTCATAAATTTGCTTCTTCTCTC
*
34528097 TTACACTTGAATAGAATCTTTTA
66 TCACACTTGAATAGAATCTTTTA
* * *
34528120 TTCATGGGGTAACTCTTTCCTTACACAGGCTAATAGCTTGCCTTCATAAATTTGCTTCTTCTCTC
1 TTCATGGGGTAACTCTTTCCTTACACAGACAAATAACTTGCCTTCATAAATTTGCTTCTTCTCTC
34528185 TCACACTTGAATAGAATCTTTTA
66 TCACACTTGAATAGAATCTTTTA
34528208 AACCTCTCAA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.40
Consensus pattern (88 bp):
TTCATGGGGTAACTCTTTCCTTACACAGACAAATAACTTGCCTTCATAAATTTGCTTCTTCTCTC
TCACACTTGAATAGAATCTTTTA
Found at i:34530593 original size:7 final size:7
Alignment explanation
Indices: 34530581--34530651 Score: 79
Period size: 7 Copynumber: 10.1 Consensus size: 7
34530571 TACCTATCCA
34530581 TAACCCC
1 TAACCCC
34530588 TAACCCC
1 TAACCCC
*
34530595 TAATCCC
1 TAACCCC
** *
34530602 TAATTCT
1 TAACCCC
*
34530609 TAACCTC
1 TAACCCC
*
34530616 TAACCTC
1 TAACCCC
*
34530623 TAACCTC
1 TAACCCC
34530630 TAACCCC
1 TAACCCC
34530637 TAACCCC
1 TAACCCC
34530644 TAACCCC
1 TAACCCC
34530651 T
1 T
34530652 CTTTTACAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 56 1.00
ACGTcount: A:0.28, C:0.46, G:0.00, T:0.25
Consensus pattern (7 bp):
TAACCCC
Found at i:34530866 original size:20 final size:20
Alignment explanation
Indices: 34530843--34530885 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
34530833 AATTAACCTA
34530843 AACCTTAAA-CCCTAAACCCT
1 AACC-TAAATCCCTAAACCCT
*
34530863 AACCTAAATCCCTAACCCCT
1 AACCTAAATCCCTAAACCCT
34530883 AAC
1 AAC
34530886 TCCTAAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.40, C:0.42, G:0.00, T:0.19
Consensus pattern (20 bp):
AACCTAAATCCCTAAACCCT
Found at i:34530875 original size:13 final size:12
Alignment explanation
Indices: 34530836--34530879 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
34530826 AAACACTAAT
*
34530836 TAACCTAAACCT
1 TAACCTAAACCC
34530848 TAAACCCTAAACCC
1 T-AA-CCTAAACCC
34530862 TAACCTAAATCCC
1 TAACCTAAA-CCC
34530875 TAACC
1 TAACC
34530880 CCTAACTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.25
13 12 0.43
14 9 0.32
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (12 bp):
TAACCTAAACCC
Found at i:34530933 original size:88 final size:90
Alignment explanation
Indices: 34530782--34530945 Score: 219
Period size: 88 Copynumber: 1.8 Consensus size: 90
34530772 AATCCCTAAC
* *
34530782 CCCTAACTACTAACCCATAAACCTTATTTAATATATAAATTTAAAAACACTAATTAACCTAAACC
1 CCCTAACCACTAACCCATAAACCTTATTTAATATATAAATTTAAAAACACTAATTAACATAAACC
*
34530847 TTAAACCCTAAACCCTAACCTAAAT
66 CTAAACCCTAAACCCTAACCTAAAT
* * *
34530872 CCCTAACCCCTAACTCC-TAAATCTTATTT-A-ATATAAA-TTAAAACACACTAATTAATATAAA
1 CCCTAACCACTAAC-CCATAAACCTTATTTAATATATAAATTTAAAA-ACACTAATTAACATAAA
*
34530933 CCCTAAAGCCTAA
64 CCCTAAACCCTAA
34530946 CCTGACACTG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
87 6 0.09
88 33 0.51
89 1 0.02
90 23 0.35
91 2 0.03
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (90 bp):
CCCTAACCACTAACCCATAAACCTTATTTAATATATAAATTTAAAAACACTAATTAACATAAACC
CTAAACCCTAAACCCTAACCTAAAT
Found at i:34531046 original size:14 final size:15
Alignment explanation
Indices: 34531027--34531059 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
34531017 CTTAAACCAG
34531027 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
34531041 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
34531056 AATC
1 AATC
34531060 TATAAACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:34531603 original size:41 final size:41
Alignment explanation
Indices: 34531443--34531603 Score: 180
Period size: 41 Copynumber: 3.9 Consensus size: 41
34531433 ATAAAATGTT
* * ***
34531443 TTAGCGGCGCTTTCTCAAAAACGCTGCTAAAGTTTCGAGCA
1 TTAGCGACGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGCA
* *
34531484 TTAGCGACGCTTTCTCAAAAACGCCGCTAAAGCTCCGAGCC
1 TTAGCGACGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGCA
* * * *
34531525 TTAGCTACGCTTTTTCAAAAACGCCACTAAAAG-CCCGATCA
1 TTAGCGACGCTTTCTCAAAAACGCCGCT-AAAGCCCCGAGCA
* * *
34531566 TTAGCGGCGCTTTTTCAAAAACGCTGCTAAAGCCCCGA
1 TTAGCGACGCTTTCTCAAAAACGCCGCTAAAGCCCCGA
34531604 AAGGTCAGAT
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
40 4 0.04
41 95 0.92
42 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (41 bp):
TTAGCGACGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGCA
Found at i:34531721 original size:40 final size:39
Alignment explanation
Indices: 34531676--34531763 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 39
34531666 TAATGATCAT
* *
34531676 TTTTAGCGGCGCTTTCCT-AAAAGCGCCGCTAATTCTCGA
1 TTTTAGCGG-GATTTCATGAAAAGCGCCGCTAATTCTCGA
* * *
34531715 TCTTTAGCGGTATTTTATGTAAAGCGCCGCTAATTCTCGA
1 T-TTTAGCGGGATTTCATGAAAAGCGCCGCTAATTCTCGA
34531755 TTATTAGCG
1 TT-TTAGCG
34531764 ATGTTTTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
39 6 0.15
40 35 0.85
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (39 bp):
TTTTAGCGGGATTTCATGAAAAGCGCCGCTAATTCTCGA
Found at i:34537262 original size:257 final size:257
Alignment explanation
Indices: 34536806--34537319 Score: 1001
Period size: 257 Copynumber: 2.0 Consensus size: 257
34536796 CATGATCGGC
*
34536806 TGAAGTAATCCTGAAGGCACTTGATGTTCTGCTTTCACTTGTTGACATATTAAACATCTCGAAAC
1 TGAAGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAAC
*
34536871 AAAGTCGGAGATGTCTCGTTTCATACCATGCCACCAAAACCAACGTTTCAAATCGTTGTACATTT
66 AAAGTCAGAGATGTCTCGTTTCATACCATGCCACCAAAACCAACGTTTCAAATCGTTGTACATTT
34536936 TCGTACTCCCCGGGTGAATTGACATTCGGCTACAATGGGCTTCGTTCAGAATCATCGAAATGAGT
131 TCGTACTCCCCGGGTGAATTGACATTCGGCTACAATGGGCTTCGTTCAGAATCATCGAAATGAGT
34537001 TCTGAATTTCTTGGAACACACAACTGACTTCTGAACATCAAACAATCGTCATCACCAATTTG
196 TCTGAATTTCTTGGAACACACAACTGACTTCTGAACATCAAACAATCGTCATCACCAATTTG
*
34537063 TGAAGTAATCCTGATGGCACTTGATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAAC
1 TGAAGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAAC
34537128 AAAGTCAGAGATGTCTCGTTTCATACCATGCCACCAAAACCAACGTTTCAAATCGTTGTACATTT
66 AAAGTCAGAGATGTCTCGTTTCATACCATGCCACCAAAACCAACGTTTCAAATCGTTGTACATTT
34537193 TCGTACTCCCCGGGTGAATTGACATTCGGCTACAATGGGCTTCGTTCAGAATCATCGAAATGAGT
131 TCGTACTCCCCGGGTGAATTGACATTCGGCTACAATGGGCTTCGTTCAGAATCATCGAAATGAGT
34537258 TCTGAATTTCTTGGAACACACAACTGACTTCTGAACATCAAACAATCGTCATCACCAATTTG
196 TCTGAATTTCTTGGAACACACAACTGACTTCTGAACATCAAACAATCGTCATCACCAATTTG
34537320 AAATTCGGAT
Statistics
Matches: 254, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
257 254 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (257 bp):
TGAAGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAAC
AAAGTCAGAGATGTCTCGTTTCATACCATGCCACCAAAACCAACGTTTCAAATCGTTGTACATTT
TCGTACTCCCCGGGTGAATTGACATTCGGCTACAATGGGCTTCGTTCAGAATCATCGAAATGAGT
TCTGAATTTCTTGGAACACACAACTGACTTCTGAACATCAAACAATCGTCATCACCAATTTG
Found at i:34537588 original size:77 final size:77
Alignment explanation
Indices: 34537503--34537658 Score: 294
Period size: 77 Copynumber: 2.0 Consensus size: 77
34537493 GTGATTTCCG
34537503 GCTTAAGGCGTCCGCAACCACATTAGCCTTTCCCGGGTGGTAATCAATGACAAACTCGTAATCTT
1 GCTTAAGGCGTCCGCAACCACATTAGCCTTTCCCGGGTGGTAATCAATGACAAACTCGTAATCTT
34537568 TCAACAACTCAA
66 TCAACAACTCAA
* *
34537580 GCTTAAGGCGTCCGCAACCATATTAGCCTTTCCCGGGTGGTAATCAATGACAAGCTCGTAATCTT
1 GCTTAAGGCGTCCGCAACCACATTAGCCTTTCCCGGGTGGTAATCAATGACAAACTCGTAATCTT
34537645 TCAACAACTCAA
66 TCAACAACTCAA
34537657 GC
1 GC
34537659 CAACGTCTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (77 bp):
GCTTAAGGCGTCCGCAACCACATTAGCCTTTCCCGGGTGGTAATCAATGACAAACTCGTAATCTT
TCAACAACTCAA
Found at i:34538247 original size:54 final size:54
Alignment explanation
Indices: 34538161--34538269 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
34538151 AGTATGGCTG
* * *
34538161 AAATTTTGTTCGGGTCAACTCGTATACTCGATGCGGATACCACATGACCCAAGA
1 AAATTTTGCTCGGGTCAACTCGAATACCCGATGCGGATACCACATGACCCAAGA
*
34538215 AAATTTTGCTCGGGTCAGCTCGAATACCCGATGCGGATACCACATGACCCAAGA
1 AAATTTTGCTCGGGTCAACTCGAATACCCGATGCGGATACCACATGACCCAAGA
34538269 A
1 A
34538270 GCTAACCTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (54 bp):
AAATTTTGCTCGGGTCAACTCGAATACCCGATGCGGATACCACATGACCCAAGA
Found at i:34539509 original size:92 final size:92
Alignment explanation
Indices: 34539352--34539535 Score: 341
Period size: 92 Copynumber: 2.0 Consensus size: 92
34539342 ACTCAATAGG
* *
34539352 TAAAGTCTTATTGGATGCTAAGGTTTCACATATGTAAGAATGAGTAGAATCGGGGTCAATCAAAG
1 TAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAG
34539417 CAATTACATTAGTATCAAAGAGAGTAA
66 CAATTACATTAGTATCAAAGAGAGTAA
*
34539444 TAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAGGAATGAGTAGAACCGGGGTCAATCAAAG
1 TAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAG
34539509 CAATTACATTAGTATCAAAGAGAGTAA
66 CAATTACATTAGTATCAAAGAGAGTAA
34539536 AAGTACCGGT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (92 bp):
TAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAG
CAATTACATTAGTATCAAAGAGAGTAA
Found at i:34542463 original size:79 final size:82
Alignment explanation
Indices: 34542352--34542536 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
34542342 GCTACTCGTT
* *
34542352 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
34542415 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
34542432 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
34542495 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
34542512 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34542537 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:34542536 original size:40 final size:40
Alignment explanation
Indices: 34542333--34542536 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
34542323 CGGAATTTAA
** *
34542333 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34542373 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
34542413 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34542452 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34542492 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34542532 CCGGA
1 CCGGA
34542537 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34555150 original size:6 final size:6
Alignment explanation
Indices: 34555139--34555176 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
34555129 TAAAACTTTG
* *
34555139 ATTTTA ATTTTA ATTTTA ACTTTG ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
34555177 ATTCATAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (6 bp):
ATTTTA
Found at i:34555294 original size:3 final size:3
Alignment explanation
Indices: 34555286--34555319 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
34555276 TTGGATTGAT
*
34555286 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
34555320 GCAATTGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:34560405 original size:19 final size:19
Alignment explanation
Indices: 34560374--34560435 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
34560364 AATTTAAAAT
*
34560374 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
34560392 TTTTAAAAATTATTTTCAAA
1 TTTTAAAAATTATTTT-GAA
* * *
34560412 TTTTGAAATTTACTTTGATA
1 TTTTAAAAATTATTTTGA-A
34560432 TTTT
1 TTTT
34560436 TGCAATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 20 0.57
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:34562332 original size:18 final size:18
Alignment explanation
Indices: 34562309--34562353 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
34562299 TAAAGTCCAT
34562309 AAAAGTTCAAAACATAAG
1 AAAAGTTCAAAACATAAG
34562327 AAAAGTTCAAAACATAAG
1 AAAAGTTCAAAACATAAG
*
34562345 AAAAATTCA
1 AAAAGTTCA
34562354 TAATCGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.62, C:0.11, G:0.09, T:0.18
Consensus pattern (18 bp):
AAAAGTTCAAAACATAAG
Found at i:34562819 original size:50 final size:50
Alignment explanation
Indices: 34562685--34562821 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 50
34562675 CCATTTGTGC
* * *
34562685 ACAAGCCACCACTGATTTGCAGATAAACTGCCACTAATAACACTTTGAGG
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTGAGG
* * *
34562735 ACAAGCCACCACTGATATGCAAATGTACTACCACTTATAACACTTTGTA-G
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTG-AGG
* * *
34562785 ACTAGCCACCACTGATATGTAGATATATTGCCACTTA
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTA
34562822 CTTCGACCTT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 73 0.99
51 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (50 bp):
ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTGAGG
Found at i:34567349 original size:50 final size:50
Alignment explanation
Indices: 34567294--34567580 Score: 282
Period size: 50 Copynumber: 5.8 Consensus size: 50
34567284 CGTGCAATGG
*
34567294 GAAGCT-TCGGAGAGCCATTTATCGGGAAGCTCATTAGAGCCAATTATCGA
1 GAAGCTCT-GGAGAGCCATTAATCGGGAAGCTCATTAGAGCCAATTATCGA
* * * * *
34567344 AAAGCTCTGGAGAGTCATTTATTGTGAAGCTCATTAGAGCCAATTATCGA
1 GAAGCTCTGGAGAGCCATTAATCGGGAAGCTCATTAGAGCCAATTATCGA
* * * * *
34567394 GAAGCTCTAGAGAGCCATTAATTGGGAAGCTC-TAGAGAGCC-ATTGATTGG
1 GAAGCTCTGGAGAGCCATTAATCGGGAAGCTCAT-TAGAGCCAATT-ATCGA
* * ** * ** *
34567444 GAAGCTCAT-AAGAGCTA-TAATTAGGAAGCTTATGGGAGCCAA-TATCGG
1 GAAGCTC-TGGAGAGCCATTAATCGGGAAGCTCATTAGAGCCAATTATCGA
* * *
34567492 GAAGCT-TCGGAGAGCCATTTATCAGGAAGCACATTAGAGCCAATTATCGA
1 GAAGCTCT-GGAGAGCCATTAATCGGGAAGCTCATTAGAGCCAATTATCGA
34567542 GAAGCTCTGGAGAGCCATTAATCGGGAAGCTCATTAGAG
1 GAAGCTCTGGAGAGCCATTAATCGGGAAGCTCATTAGAG
34567581 TTGTTGTAAC
Statistics
Matches: 196, Mismatches: 30, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
46 1 0.01
48 16 0.08
49 42 0.21
50 134 0.68
51 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (50 bp):
GAAGCTCTGGAGAGCCATTAATCGGGAAGCTCATTAGAGCCAATTATCGA
Found at i:34567398 original size:75 final size:74
Alignment explanation
Indices: 34567304--34567573 Score: 252
Period size: 75 Copynumber: 3.6 Consensus size: 74
34567294 GAAGCTTCGG
* * * ** *
34567304 AGAGCCATTTATCGGGAAGCTCATTAGAGCCAATTATCGAAAAGCTCTGGAGAGTCATTTATTGT
1 AGAGCCAATTATCGAGAAGCTCATGAGAGCCAATTATCGGGAAGCTCTGGAGAGCCATTTATTG-
34567369 GAAGCTCATT
65 GAAGCTCATT
* * *
34567379 AGAGCCAATTATCGAGAAGCTC-TAGAGAGCC-ATTAATTGGGAAGCTCTAGAGAGCCATTGATT
1 AGAGCCAATTATCGAGAAGCTCAT-GAGAGCCAATT-ATCGGGAAGCTCTGGAGAGCCATTTATT
*
34567442 GGGAAGCTCATA
64 -GGAAGCTCATT
* * *
34567454 AGAGCTATAATTA--G-GAAGCTTATGGGAGCCAA-TATCGGGAAGCT-TCGGAGAGCCATTTAT
1 AGAGC--CAATTATCGAGAAGCTCATGAGAGCCAATTATCGGGAAGCTCT-GGAGAGCCATTTAT
* *
34567514 CAGGAAGCACATT
63 -TGGAAGCTCATT
34567527 AGAGCCAATTATCGAGAAGCTC-TGGAGAGCC-ATTAATCGGGAAGCTC
1 AGAGCCAATTATCGAGAAGCTCAT-GAGAGCCAATT-ATCGGGAAGCTC
34567574 ATTAGAGTTG
Statistics
Matches: 157, Mismatches: 22, Indels: 31
0.75 0.10 0.15
Matches are distributed among these distances:
71 5 0.03
72 1 0.01
73 39 0.25
74 30 0.19
75 76 0.48
76 1 0.01
77 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (74 bp):
AGAGCCAATTATCGAGAAGCTCATGAGAGCCAATTATCGGGAAGCTCTGGAGAGCCATTTATTGG
AAGCTCATT
Found at i:34567580 original size:25 final size:24
Alignment explanation
Indices: 34567303--34567580 Score: 179
Period size: 25 Copynumber: 11.2 Consensus size: 24
34567293 GGAAGCTTCG
34567303 GAGAGCCATTTATCGGGAAGCTCAT
1 GAGAGCCA-TTATCGGGAAGCTCAT
* **
34567328 TAGAGCCAATTATCGAAAAGCTC-T
1 GAGAGCC-ATTATCGGGAAGCTCAT
* * *
34567352 GGAGAGTCATTTATTGTGAAGCTCAT
1 -GAGAGCCA-TTATCGGGAAGCTCAT
* *
34567378 TAGAGCCAATTATCGAGAAGCTC-T
1 GAGAGCC-ATTATCGGGAAGCTCAT
*
34567402 AGAGAGCCATTAATTGGGAAGCTC-T
1 -GAGAGCCATT-ATCGGGAAGCTCAT
*
34567427 AGAGAGCCATTGATTGGGAAGCTCAT
1 -GAGAGCCATT-ATCGGGAAGCTCAT
* * * ** *
34567453 AAGAGCTATAATTAGGAAGCTTAT
1 GAGAGCCATTATCGGGAAGCTCAT
* * *
34567477 GGGAGCCAATATCGGGAAGCTTC-G
1 GAGAGCCATTATCGGGAAGC-TCAT
* *
34567501 GAGAGCCATTTATCAGGAAGCACAT
1 GAGAGCCA-TTATCGGGAAGCTCAT
* *
34567526 TAGAGCCAATTATCGAGAAGCTC-T
1 GAGAGCC-ATTATCGGGAAGCTCAT
34567550 GGAGAGCCATTAATCGGGAAGCTCAT
1 -GAGAGCCATT-ATCGGGAAGCTCAT
*
34567576 TAGAG
1 GAGAG
34567581 TTGTTGTAAC
Statistics
Matches: 196, Mismatches: 42, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
24 43 0.22
25 147 0.75
26 6 0.03
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (24 bp):
GAGAGCCATTATCGGGAAGCTCAT
Found at i:34569080 original size:79 final size:81
Alignment explanation
Indices: 34568978--34569162 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
34568968 GCTCCTCGTT
* *
34568978 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
34569041 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
34569058 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
34569122 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
34569138 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34569163 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:34569162 original size:40 final size:40
Alignment explanation
Indices: 34568978--34569162 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
34568968 GCTCCTCGTT
* *
34568978 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34569018 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
34569058 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
34569097 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
34569138 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34569163 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:34571370 original size:65 final size:65
Alignment explanation
Indices: 34571166--34571371 Score: 172
Period size: 65 Copynumber: 3.2 Consensus size: 65
34571156 AAAAATGAAA
*
34571166 TTCATACAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTAT
1 TTCATAAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTAT
* ** * * * ** ** * ** *
34571231 TTCATAAAATTGAA-AATTTTTCTATGAATTTTCC-ATCTTTTCAATTTAGTCCCTA-AA--TCA
1 TTCATAAAATTTAATCCTTATTCCAAG-CCTAGCCGA--TTTTC-ATAT-GTCAATAGAAGCCCA
*
34571291 T-AAT
61 TGTAT
34571295 TTCATCAAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTA
1 TTCAT-AAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTA
34571360 T
65 T
34571361 TTCATAAAATT
1 TTCATAAAATT
34571372 GAAAATTTTT
Statistics
Matches: 98, Mismatches: 31, Indels: 24
0.64 0.20 0.16
Matches are distributed among these distances:
62 5 0.05
63 5 0.05
64 20 0.20
65 38 0.39
66 20 0.20
67 5 0.05
68 5 0.05
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (65 bp):
TTCATAAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTAT
Found at i:34571406 original size:130 final size:130
Alignment explanation
Indices: 34571173--34571436 Score: 519
Period size: 130 Copynumber: 2.0 Consensus size: 130
34571163 AAATTCATAC
34571173 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
1 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
34571238 AATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
66 AATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
34571303 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
1 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
*
34571368 AATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATAATTTCATCAA
66 AATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
34571433 AATT
1 AATT
34571437 CTCTTTACAA
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 133 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (130 bp):
AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
AATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
Found at i:34571435 original size:65 final size:64
Alignment explanation
Indices: 34571229--34571436 Score: 165
Period size: 65 Copynumber: 3.2 Consensus size: 64
34571219 AAGCCCATGT
*
34571229 ATTTCATAAAATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATA
1 ATTTCATAAAATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
* ** * * * ** ** * **
34571293 ATTTCATCAAAATTTAATCCTTATTCCAAG-CCTAGCCGA--TTTTC-ATAT-GTCAATAGAAGC
1 ATTTCAT-AAAATTGAA-AATTTTTCTATGAATTTTCC-ATCTTTTCAATTTAGTCCCT--AAG-
* *
34571353 CCATGT
60 TCAT-A
34571359 ATTTCATAAAATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
1 ATTTCATAAAATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
34571423 ATTTCATCAAAATT
1 ATTTCAT-AAAATT
34571437 CTCTTTACAA
Statistics
Matches: 100, Mismatches: 31, Indels: 25
0.64 0.20 0.16
Matches are distributed among these distances:
62 4 0.04
63 3 0.03
64 29 0.29
65 34 0.34
66 23 0.23
67 3 0.03
68 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.42
Consensus pattern (64 bp):
ATTTCATAAAATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
Found at i:34575337 original size:69 final size:70
Alignment explanation
Indices: 34575205--34575337 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
34575195 TAGTTTATTA
* * * * *
34575205 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
34575270 CTTAG
66 CTTAG
34575275 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
34575338 GTTATGTACT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:34576779 original size:47 final size:47
Alignment explanation
Indices: 34576725--34576884 Score: 293
Period size: 47 Copynumber: 3.4 Consensus size: 47
34576715 TATTTGAATA
34576725 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
34576772 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
* * *
34576819 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
34576866 AATGTGAAAGTGTATATAT
1 AATGTGAAAGTGTATATAT
34576885 NNNNNNNNNN
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 110 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
Found at i:34581576 original size:13 final size:13
Alignment explanation
Indices: 34581558--34581609 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 13
34581548 GGACACACGC
34581558 CCGTGTGTCCAGG
1 CCGTGTGTCCAGG
*
34581571 CCGTGTGTCTCACACGC
1 CCGTGTG--TC-CA-GG
34581588 CCGTGTGTCCAGG
1 CCGTGTGTCCAGG
34581601 CCGTGTGTC
1 CCGTGTGTC
34581610 TCACACGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 17 0.52
14 2 0.06
15 4 0.12
16 2 0.06
17 8 0.24
ACGTcount: A:0.08, C:0.35, G:0.33, T:0.25
Consensus pattern (13 bp):
CCGTGTGTCCAGG
Found at i:34581587 original size:30 final size:30
Alignment explanation
Indices: 34581551--34581616 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
34581541 GTGTAGGGGA
34581551 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
1 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
34581581 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
1 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
34581611 CACACG
1 CACACG
34581617 GTCAAGAGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.12, C:0.38, G:0.29, T:0.21
Consensus pattern (30 bp):
CACACGCCCGTGTGTCCAGGCCGTGTGTCT
Found at i:34582870 original size:25 final size:25
Alignment explanation
Indices: 34582842--34582957 Score: 96
Period size: 25 Copynumber: 4.6 Consensus size: 25
34582832 ATATAACGGA
34582842 AAGCTCTTGCA-AGCCAATTATCGAG
1 AAGCTCTTG-AGAGCCAATTATCGAG
* * * *
34582867 AAGCT-TCGAAGAGCCATTTCTCGGG
1 AAGCTCTTG-AGAGCCAATTATCGAG
34582892 AAGCTCATT-AGAGCCAATTATCGAG
1 AAGCTC-TTGAGAGCCAATTATCGAG
* *
34582917 AAGCTCTAGAGAGCC-ATTAATCGGG
1 AAGCTCTTGAGAGCCAATT-ATCGAG
* *
34582942 AAGCTCATAAGAGCCA
1 AAGCTCTTGAGAGCCA
34582958 TAATTAGGTA
Statistics
Matches: 71, Mismatches: 14, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
24 7 0.10
25 63 0.89
27 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (25 bp):
AAGCTCTTGAGAGCCAATTATCGAG
Found at i:34582896 original size:50 final size:50
Alignment explanation
Indices: 34582853--34582957 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 50
34582843 AGCTCTTGCA
**
34582853 AGCCAATTATCGAGAAGCTTCGA-AGAGCCATTTCTCGGGAAGCTCATTAG
1 AGCCAATTATCGAGAAGC-TCGAGAGAGCCATTAATCGGGAAGCTCATTAG
* *
34582903 AGCCAATTATCGAGAAGCTCTAGAGAGCCATTAATCGGGAAGCTCATAAG
1 AGCCAATTATCGAGAAGCTCGAGAGAGCCATTAATCGGGAAGCTCATTAG
34582953 AGCCA
1 AGCCA
34582958 TAATTAGGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 3 0.06
50 47 0.94
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (50 bp):
AGCCAATTATCGAGAAGCTCGAGAGAGCCATTAATCGGGAAGCTCATTAG
Found at i:34582958 original size:25 final size:25
Alignment explanation
Indices: 34582875--34583072 Score: 104
Period size: 25 Copynumber: 8.0 Consensus size: 25
34582865 AGAAGCTTCG
**
34582875 AAGAGCCATTTCTCGGGAAGCTCAT
1 AAGAGCCATTAATCGGGAAGCTCAT
* *
34582900 TAGAGCCAATT-ATCGAGAAGCTC-T
1 AAGAGCC-ATTAATCGGGAAGCTCAT
34582924 AGAGAGCCATTAATCGGGAAGCTCAT
1 A-AGAGCCATTAATCGGGAAGCTCAT
** * *
34582950 AAGAGCCA-TAATTAGGTAGCTTAT
1 AAGAGCCATTAATCGGGAAGCTCAT
** * * * **
34582974 GTGAGCCA-AAATTGGTAAGCTCCGG
1 AAGAGCCATTAATCGGGAAGCT-CAT
* * *
34582999 AA-AGCCATTTATCAGGAAGGTCAT
1 AAGAGCCATTAATCGGGAAGCTCAT
* *
34583023 TAGAGCCAATT-ATCGGGAAGGTC-T
1 AAGAGCC-ATTAATCGGGAAGCTCAT
* *
34583047 AGAAAACCATTAATCGGGAAGCTCAT
1 A-AGAGCCATTAATCGGGAAGCTCAT
34583073 TAAAGCCGTG
Statistics
Matches: 128, Mismatches: 34, Indels: 21
0.70 0.19 0.11
Matches are distributed among these distances:
24 42 0.33
25 77 0.60
26 9 0.07
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (25 bp):
AAGAGCCATTAATCGGGAAGCTCAT
Found at i:34592099 original size:7 final size:7
Alignment explanation
Indices: 34592087--34592114 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
34592077 CTATGGCTAC
34592087 AAGGTAT
1 AAGGTAT
34592094 AAGGTAT
1 AAGGTAT
34592101 AAGGTAT
1 AAGGTAT
34592108 AAGGTAT
1 AAGGTAT
34592115 GCGGTGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
AAGGTAT
Found at i:34592392 original size:33 final size:32
Alignment explanation
Indices: 34592311--34592396 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 32
34592301 AGTTTGTCAA
* *
34592311 GACAGTAAACAT-GAAATAGAGATAGTCCACCG
1 GACAATAAACATAG-AATAAAGATAGTCCACCG
* * *
34592343 G--AATAAACACAAAATAAAGATAGTCCAGCGG
1 GACAATAAACATAGAATAAAGATAGTCCA-CCG
34592374 GACAATAAACATAGAATAAAGAT
1 GACAATAAACATAGAATAAAGAT
34592397 GGCCCGTTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
30 21 0.49
31 3 0.07
32 1 0.02
33 18 0.42
ACGTcount: A:0.51, C:0.15, G:0.19, T:0.15
Consensus pattern (32 bp):
GACAATAAACATAGAATAAAGATAGTCCACCG
Found at i:34599844 original size:24 final size:24
Alignment explanation
Indices: 34599812--34599860 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
34599802 TTGAGGTAAG
34599812 TCAAATTCATGAAATACCCTGGTT
1 TCAAATTCATGAAATACCCTGGTT
*
34599836 TCAAATTCATGAAATACCTTGGTT
1 TCAAATTCATGAAATACCCTGGTT
34599860 T
1 T
34599861 GTTGATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (24 bp):
TCAAATTCATGAAATACCCTGGTT
Found at i:34601344 original size:14 final size:15
Alignment explanation
Indices: 34601315--34601348 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
34601305 TAGGTTTTAA
*
34601315 AATTTTTTTATGTTT
1 AATTTATTTATGTTT
34601330 AATTTATTT-TGTTT
1 AATTTATTTATGTTT
34601344 AATTT
1 AATTT
34601349 TAAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
AATTTATTTATGTTT
Found at i:34603905 original size:9 final size:9
Alignment explanation
Indices: 34603890--34603931 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
34603880 TTTTCAATCA
34603890 TCTCTCATC
1 TCTCTCATC
*
34603899 CCTCTCATC
1 TCTCTCATC
34603908 TCTCATCATC
1 TCTC-TCATC
*
34603918 TCTCTCAAC
1 TCTCTCATC
34603927 TCTCT
1 TCTCT
34603932 TAGCTCTCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 20 0.69
10 9 0.31
ACGTcount: A:0.14, C:0.45, G:0.00, T:0.40
Consensus pattern (9 bp):
TCTCTCATC
Found at i:34603929 original size:19 final size:18
Alignment explanation
Indices: 34603890--34603931 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
34603880 TTTTCAATCA
*
34603890 TCTCTCATCCCTCTCATC
1 TCTCTCATCCCTCTCAAC
*
34603908 TCTCATCATCTCTCTCAAC
1 TCTC-TCATCCCTCTCAAC
34603927 TCTCT
1 TCTCT
34603932 TAGCTCTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.14, C:0.45, G:0.00, T:0.40
Consensus pattern (18 bp):
TCTCTCATCCCTCTCAAC
Done.