Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 196 of 356
Found at i:63853820 original size:29 final size:27
Alignment explanation
Indices: 63853760--63853821 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
63853750 ATGCCTTATT
* *
63853760 GGTGTGTTTGGGAGGATATGTTATACC
1 GGTGTGTTTGGGAGGACATATTATACC
* *
63853787 GGTGTGTTTGGGAGGCCATATTATACT
1 GGTGTGTTTGGGAGGACATATTATACC
63853814 GGTGTGTT
1 GGTGTGTT
63853822 ATAGAGGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.16, C:0.08, G:0.37, T:0.39
Consensus pattern (27 bp):
GGTGTGTTTGGGAGGACATATTATACC
Found at i:63857481 original size:44 final size:46
Alignment explanation
Indices: 63857416--63857623 Score: 176
Period size: 47 Copynumber: 4.5 Consensus size: 46
63857406 ATGTATGCCT
63857416 ATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-A-GCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGC-CAACTCTGTAAGGCCG
* * * *
63857460 ATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGTCAAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGT-AAGGCCG
* * * * * *
63857507 ATACATGTCCCAGACATGTCTTACTCT-GGC-ACTCATAATATGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCCAACTC-T-GTAAGGCCG
* ** * *
63857553 AAGCATGTCCCAGACATGTCTTACACTAGCCTTCGTCTG-GATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCCAAC-TCTGTAAGGCCG
63857599 ATGCCATGTCCCAGACATGGTCTTA
1 ATG-CATGTCCCAGACAT-GTCTTA
63857624 TACTGGCGCA
Statistics
Matches: 129, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
43 5 0.04
44 29 0.22
45 3 0.02
46 37 0.29
47 45 0.35
48 8 0.06
49 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTAAGGCCG
Found at i:63864316 original size:55 final size:54
Alignment explanation
Indices: 63864229--63864383 Score: 152
Period size: 55 Copynumber: 2.8 Consensus size: 54
63864219 ATTAGGGTTT
* * * *
63864229 AAGGATACTATGTAAGACTATGCCAGGGCATGGCAATTGGTAAGGTT-TCTAAGGC-
1 AAGGA-ACCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAA-GTTATATAAGGCA
* * * *
63864284 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCA
1 AAGG-AACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTA-TATAAGGCA
** *
63864340 AAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT
1 AAGGAACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT
63864384 CATAAATAAG
Statistics
Matches: 81, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
53 3 0.04
54 7 0.09
55 66 0.81
56 5 0.06
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (54 bp):
AAGGAACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTATATAAGGCA
Found at i:63867048 original size:27 final size:27
Alignment explanation
Indices: 63867012--63867105 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
63867002 TAGGCCAAAT
63867012 TAGTCATTTTACCTTACAGGGGTATTA
1 TAGTCATTTTACCTTACAGGGGTATTA
* * **
63867039 TAGTCCTTTTACCCTACAAAGGTATTA
1 TAGTCATTTTACCTTACAGGGGTATTA
* *
63867066 TAGTTATTTTACCTTATAGGGGTATT-
1 TAGTCATTTTACCTTACAGGGGTATTA
*
63867092 TCGGTCATTTTACC
1 T-AGTCATTTTACC
63867106 CTATGGGAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (27 bp):
TAGTCATTTTACCTTACAGGGGTATTA
Found at i:63867117 original size:27 final size:27
Alignment explanation
Indices: 63867014--63867130 Score: 78
Period size: 27 Copynumber: 4.3 Consensus size: 27
63867004 GGCCAAATTA
* * *
63867014 GTCATTTTACCTTACAGGGGTATTAT-A
1 GTCATTTTACCCTATAGGGGTATT-TCG
* * ** *
63867041 GTCCTTTTACCCTACAAAGGTATTAT-A
1 GTCATTTTACCCTATAGGGGTATT-TCG
* *
63867068 GTTATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
63867095 GTCATTTTACCCTAT-GGGAGTATTTTG
1 GTCATTTTACCCTATAGGG-GTATTTCG
*
63867122 GTTATTTTA
1 GTCATTTTA
63867131 TCTCATAAGG
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
26 4 0.05
27 69 0.95
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:63867182 original size:27 final size:27
Alignment explanation
Indices: 63867125--63867210 Score: 106
Period size: 26 Copynumber: 3.2 Consensus size: 27
63867115 TATTTTGGTT
*
63867125 ATTTTATCTC-ATAAGGGCTAAAATTGTC
1 ATTTTATC-CAATAAGGGC-AAAATAGTC
63867153 ATTTTATCCAATAAGGGCAAAATAGTC
1 ATTTTATCCAATAAGGGCAAAATAGTC
*
63867180 A-TTTA-CCATATAAGGGCAAAACAGTC
1 ATTTTATCCA-ATAAGGGCAAAATAGTC
63867206 ATTTT
1 ATTTT
63867211 GTCTCAAAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
25 3 0.06
26 21 0.40
27 13 0.25
28 16 0.30
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (27 bp):
ATTTTATCCAATAAGGGCAAAATAGTC
Found at i:63877288 original size:19 final size:18
Alignment explanation
Indices: 63877251--63877294 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
63877241 ATACATACAG
63877251 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
63877268 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
63877287 TACTAATT
1 TAATAATT
63877295 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:63888864 original size:59 final size:59
Alignment explanation
Indices: 63888783--63888975 Score: 192
Period size: 60 Copynumber: 3.2 Consensus size: 59
63888773 TTAATATAAC
* * *
63888783 ATTTAGTACCTAAACTTGACACTTTTTCTTAATTTAGTACTTAAACTCTTTTTGGCCCA
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTCTTTTTGGCCCA
* * * *
63888842 ATTTGGTACCTGAATTTGACACTTTATCCTAATTTGGTACCTAAAC-CTTTTTGTAGCCCA
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTCTTTTTG--GCCCA
* * * * * * * **
63888902 ATTTGGAATCTGAACTT-AGCATTTTTTATTAATTTGGTACCTAAGCTATTTTTAGGTTCA
1 ATTTGGTACCTAAACTTGA-CACTTTTTCTTAATTTGGTACCTAAACTCTTTTT-GGCCCA
63888962 ATTTGGTACCTAAA
1 ATTTGGTACCTAAA
63888976 TTTATTAAAT
Statistics
Matches: 108, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
58 7 0.06
59 40 0.37
60 55 0.51
61 5 0.05
62 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (59 bp):
ATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTCTTTTTGGCCCA
Found at i:63889435 original size:31 final size:32
Alignment explanation
Indices: 63889400--63889468 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
63889390 GACCCCCCAA
*
63889400 AAGTTTAAGTACCAACTTAAG-AAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAAGTGTC
* * *
63889431 AAGTTTAGGTACCAAATTAGGAAAAAAGTGTT
1 AAGTTTAAGTACCAAATTAAGAAAAAAGTGTC
63889463 AAGTTT
1 AAGTTT
63889469 GGGAGCCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 18 0.55
32 15 0.45
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (32 bp):
AAGTTTAAGTACCAAATTAAGAAAAAAGTGTC
Found at i:63893056 original size:42 final size:42
Alignment explanation
Indices: 63892991--63893094 Score: 174
Period size: 42 Copynumber: 2.5 Consensus size: 42
63892981 ACACGCCCAG
*
63892991 GACACATGCCTGTGCCT-GAGGCCGTGTCATCCACATGGCTGA
1 GACACATGCCTGTGTCTCG-GGCCGTGTCATCCACATGGCTGA
63893033 GACACATGCCTGTGTCTCGGGCCGTGTCATCCACATGGCTGA
1 GACACATGCCTGTGTCTCGGGCCGTGTCATCCACATGGCTGA
*
63893075 GACACACGCCTGTGTCTCGG
1 GACACATGCCTGTGTCTCGG
63893095 CCCATGTGCT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
42 58 0.98
43 1 0.02
ACGTcount: A:0.17, C:0.32, G:0.29, T:0.22
Consensus pattern (42 bp):
GACACATGCCTGTGTCTCGGGCCGTGTCATCCACATGGCTGA
Found at i:63894089 original size:41 final size:41
Alignment explanation
Indices: 63894042--63894138 Score: 167
Period size: 41 Copynumber: 2.4 Consensus size: 41
63894032 ACGGGCCAAT
*
63894042 TCACACAAGCTGTCAATCAAGACGTAGCTATTCAGTGCTAC
1 TCACACAAGCTGTCAATCAAGACGTAGCTACTCAGTGCTAC
* *
63894083 TCACACAAGTTGTCAATCAAGACGTAGCTACTCAGTGCTGC
1 TCACACAAGCTGTCAATCAAGACGTAGCTACTCAGTGCTAC
63894124 TCACACAAGCTGTCA
1 TCACACAAGCTGTCA
63894139 GGTATCCACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
TCACACAAGCTGTCAATCAAGACGTAGCTACTCAGTGCTAC
Found at i:63906404 original size:15 final size:16
Alignment explanation
Indices: 63906372--63906405 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
63906362 ATTCGGGGAA
*
63906372 TAAAAAAAATTACTTT
1 TAAAAAAAATTACATT
63906388 TAAAAAAAATTA-ATT
1 TAAAAAAAATTACATT
63906403 TAA
1 TAA
63906406 TCACATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAAAAAATTACATT
Found at i:63906783 original size:19 final size:20
Alignment explanation
Indices: 63906745--63906783 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
63906735 AGACTTGACC
*
63906745 TCTCTTCACTAAAAATAAAT
1 TCTCTTCACTAAAAAGAAAT
*
63906765 TCTC-TCACTATAAAGAAAT
1 TCTCTTCACTAAAAAGAAAT
63906784 CAGATAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (20 bp):
TCTCTTCACTAAAAAGAAAT
Found at i:63907652 original size:53 final size:53
Alignment explanation
Indices: 63907589--63907795 Score: 162
Period size: 53 Copynumber: 3.8 Consensus size: 53
63907579 TTCCTTTTTA
* * ** * *
63907589 AACTTACCATTTCCATTTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
63907642 AACTCACCATTGCCATGCCTTGCCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
** * * * * *** * *
63907696 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
* * * * * *
63907751 AACTTACCAATGCCATGCCTTGGCATCGTCTTACTTGGTATCCTT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTT
63907796 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 44 0.36
54 37 0.30
55 41 0.34
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.38
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:63907728 original size:55 final size:53
Alignment explanation
Indices: 63907601--63907795 Score: 165
Period size: 55 Copynumber: 3.6 Consensus size: 53
63907591 CTTACCATTT
* * * *
63907601 CCATTTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
* * * ** * *
63907654 CCATGCCTTGCCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G-AACTCACCAATG
*** * * *
63907709 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-GAACTCACCAATG
* * * * *
63907763 CCATGCCTTGGCATCGTCTTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
63907796 AAACCCTAAT
Statistics
Matches: 112, Mismatches: 28, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 34 0.30
54 37 0.33
55 41 0.37
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.38
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
Found at i:63909576 original size:35 final size:35
Alignment explanation
Indices: 63909530--63909601 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
63909520 TCAACTGGGG
*
63909530 TATGTTGGCTTGCATTTCTTGGTGTGGTCGAGTGC
1 TATGTTGGCTTGCATTTCTTGGTGTGGTCGAATGC
*
63909565 TATGTTGGCTTGCATTTCTTGGTGTTGTCGAATGC
1 TATGTTGGCTTGCATTTCTTGGTGTGGTCGAATGC
63909600 TA
1 TA
63909602 CTTTCCCTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.11, C:0.14, G:0.31, T:0.44
Consensus pattern (35 bp):
TATGTTGGCTTGCATTTCTTGGTGTGGTCGAATGC
Found at i:63915034 original size:27 final size:27
Alignment explanation
Indices: 63914962--63915041 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
63914952 GGCAAAACAA
* * * *
63914962 TCATTTTACCCTACAGGGGTATGTCGG
1 TCATTTTACACTACAAGGTTATTTCGG
*
63914989 TCATTTTACACTACAAGGTTATTTGGG
1 TCATTTTACACTACAAGGTTATTTCGG
63915016 TCATTTTACACTACAAGGTTATTTCG
1 TCATTTTACACTACAAGGTTATTTCG
63915042 ATAAATTTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (27 bp):
TCATTTTACACTACAAGGTTATTTCGG
Found at i:63915083 original size:27 final size:26
Alignment explanation
Indices: 63915035--63915367 Score: 244
Period size: 27 Copynumber: 12.5 Consensus size: 26
63915025 ACTACAAGGT
*
63915035 TATTTCGATAAATTTT-CAAATCAGGGG
1 TATTTCGGT-AATTTTACAAATC-GGGG
* *
63915062 TGTTTTGGTAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCG-GGG
*
63915089 TATTTCGGTAATTTTATAAATCGGGAG
1 TATTTCGGTAATTTTACAAATCGGG-G
* *
63915116 TATTTTGATAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCG-GGG
* * *
63915143 TGTTTCAGTAATTTCACAAATCGGGGG
1 TATTTCGGTAATTTTACAAATC-GGGG
* * **
63915170 TATTTCAGTAATTTCACAAATCGAGCA
1 TATTTCGGTAATTTTACAAATCG-GGG
* * *
63915197 AATTTCGATAA-TTT-CAGAATCGATGG
1 TATTTCGGTAATTTTACA-AATCG-GGG
** *
63915223 TATTTCAATAATTTTACAAATCAAGGG
1 TATTTCGGTAATTTTACAAATC-GGGG
* *
63915250 TATTTCAGTAATTTCAC-AATCGAGGG
1 TATTTCGGTAATTTTACAAATCG-GGG
**
63915276 TATTTTAGTAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCG-GGG
* **
63915303 TGTTTCAATAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCG-GGG
* * *
63915330 TATTTCAGTAATTTCAC-AATCAAGGG
1 TATTTCGGTAATTTTACAAATC-GGGG
63915356 TATTTCGGTAAT
1 TATTTCGGTAAT
63915368 GTGACAGCCC
Statistics
Matches: 252, Mismatches: 41, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
25 2 0.01
26 67 0.27
27 178 0.71
28 5 0.02
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (26 bp):
TATTTCGGTAATTTTACAAATCGGGG
Found at i:63915093 original size:54 final size:53
Alignment explanation
Indices: 63915035--63915367 Score: 313
Period size: 54 Copynumber: 6.2 Consensus size: 53
63915025 ACTACAAGGT
* **
63915035 TATTTCGATAAATTTTCAAATC-AGGGGTGTTTTGGTAATTTTACAAATCGAGGG
1 TATTTCGAT-AATTTTCAAATCGA-GGGTATTTCAGTAATTTTACAAATCGAGGG
* * *
63915089 TATTTCGGTAATTTTATAAATCG-GGAGTATTT-TGATAATTTTACAAATCGAGGG
1 TATTTCGATAATTTT-CAAATCGAGG-GTATTTCAG-TAATTTTACAAATCGAGGG
* * * * **
63915143 TGTTTC-AGTAATTTCACAAATCGGGGGTATTTCAGTAATTTCACAAATCGAGCA
1 TATTTCGA-TAATTT-TCAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGG
* * * *
63915197 AATTTCGATAA-TTTCAGAATCGATGGTATTTCAATAATTTTACAAATCAAGGG
1 TATTTCGATAATTTTCA-AATCGAGGGTATTTCAGTAATTTTACAAATCGAGGG
*
63915250 TATTTC-AGTAA-TTTCACAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGG
1 TATTTCGA-TAATTTTCA-AATCGAGGGTATTTCAGTAATTTTACAAATCGAGGG
* * * *
63915303 TGTTTCAATAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-AATCAAGGG
1 TATTTCGATAATTTT-CAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGG
*
63915356 TATTTCGGTAAT
1 TATTTCGATAAT
63915368 GTGACAGCCC
Statistics
Matches: 230, Mismatches: 35, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
52 3 0.01
53 110 0.48
54 111 0.48
55 6 0.03
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (53 bp):
TATTTCGATAATTTTCAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGG
Found at i:63915242 original size:53 final size:54
Alignment explanation
Indices: 63915070--63915367 Score: 327
Period size: 53 Copynumber: 5.6 Consensus size: 54
63915060 GGTGTTTTGG
* * * **
63915070 TAATTTTACAAATCGAGGGTATTTCGGTAATTTTATAAATCG-GGAGTATTTTGA
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGG-GTATTTCAA
* * *
63915124 TAATTTTACAAATCGAGGGTGTTTCAGTAATTTCACAAATCGGGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAA
* *** * *
63915178 TAATTTCACAAATCGAGCAAATTTC-GATAATTTCA-GAATCGATGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTCAG-TAATTTCACAAATCGAGGGTATTTCAA
* * *
63915231 TAATTTTACAAATCAAGGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAA
* * * *
63915284 TAATTTTACAAATCGAGGGTGTTTCAATAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAA
* * *
63915338 TAATTTCAC-AATCAAGGGTATTTCGGTAAT
1 TAATTTTACAAATCGAGGGTATTTCAGTAAT
63915368 GTGACAGCCC
Statistics
Matches: 205, Mismatches: 34, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
53 106 0.52
54 97 0.47
55 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAA
Found at i:63915349 original size:80 final size:79
Alignment explanation
Indices: 63915035--63915360 Score: 381
Period size: 80 Copynumber: 4.1 Consensus size: 79
63915025 ACTACAAGGT
* *** *
63915035 TATTTCGATAAATTTTCAAATC-AGGGGTGTTTTGGTAATTTTACAAATCGAGGGTATTTCGGTA
1 TATTTTGAT-AATTTTCAAATCGA-GGGTGTTTCAATAATTTTACAAATCGAGGGTATTTCAGTA
* *
63915099 ATTTTATAAATCG-GGAG
64 ATTTCA-CAATCGAGG-G
* * *
63915116 TATTTTGATAATTTTACAAATCGAGGGTGTTTCAGTAATTTCACAAATCGGGGGTATTTCAGTAA
1 TATTTTGATAATTTT-CAAATCGAGGGTGTTTCAATAATTTTACAAATCGAGGGTATTTCAGTAA
**
63915181 TTTCACAAATCGAGCA
65 TTTCAC-AATCGAGGG
* * * * *
63915197 AATTTCGATAA-TTTCAGAATCGATGGTATTTCAATAATTTTACAAATCAAGGGTATTTCAGTAA
1 TATTTTGATAATTTTCA-AATCGAGGGTGTTTCAATAATTTTACAAATCGAGGGTATTTCAGTAA
63915261 TTTCACAATCGAGGG
65 TTTCACAATCGAGGG
63915276 TATTTT-AGTAATTTTACAAATCGAGGGTGTTTCAATAATTTTACAAATCGAGGGTATTTCAGTA
1 TATTTTGA-TAATTTT-CAAATCGAGGGTGTTTCAATAATTTTACAAATCGAGGGTATTTCAGTA
*
63915340 ATTTCACAATCAAGGG
64 ATTTCACAATCGAGGG
63915356 TATTT
1 TATTT
63915361 CGGTAATGTG
Statistics
Matches: 211, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.00
79 16 0.08
80 122 0.58
81 70 0.33
82 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (79 bp):
TATTTTGATAATTTTCAAATCGAGGGTGTTTCAATAATTTTACAAATCGAGGGTATTTCAGTAAT
TTCACAATCGAGGG
Found at i:63917070 original size:39 final size:40
Alignment explanation
Indices: 63916967--63917189 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
63916957 TTGAATGATG
*
63916967 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
63917005 ATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
63917046 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
63917085 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
63917124 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
63917163 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
63917190 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 91 0.56
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:63917153 original size:79 final size:81
Alignment explanation
Indices: 63916967--63917189 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
63916957 TTGAATGATG
* * * *
63916967 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCAAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
63917029 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
63917046 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
63917107 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
63917124 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
63917188 TG
66 TG
63917190 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 45 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:63917211 original size:79 final size:79
Alignment explanation
Indices: 63916967--63917222 Score: 208
Period size: 79 Copynumber: 3.3 Consensus size: 79
63916957 TTGAATGATG
* * * * *
63916967 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCAAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
63917028 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
63917046 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
63917110 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
63917124 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
63917187 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
63917204 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
63917223 TACGTGATTT
Statistics
Matches: 152, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
77 1 0.01
78 45 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:63924968 original size:39 final size:40
Alignment explanation
Indices: 63924873--63925095 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
63924863 TTGAATGATG
*
63924873 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
63924911 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
63924952 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
63924991 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
63925030 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
63925069 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
63925096 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:63925059 original size:79 final size:81
Alignment explanation
Indices: 63924873--63925095 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
63924863 TTGAATGATG
* * *
63924873 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
63924935 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
63924952 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
63925013 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
63925030 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
63925094 TG
66 TG
63925096 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:63925117 original size:79 final size:79
Alignment explanation
Indices: 63924873--63925128 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
63924863 TTGAATGATG
* * * *
63924873 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
63924934 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
63924952 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
63925016 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
63925030 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
63925093 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
63925110 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
63925129 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:63926562 original size:26 final size:27
Alignment explanation
Indices: 63926439--63926590 Score: 162
Period size: 27 Copynumber: 5.6 Consensus size: 27
63926429 CTCGGGTTCG
* * *
63926439 GGGTGTTACAGGTAATTTTAAAAATCAA
1 GGGTGTTTCA-GTAATTTTACAAATCGA
* *
63926467 GAGTGTTTCGGTAATTTTACAAATCGA
1 GGGTGTTTCAGTAATTTTACAAATCGA
* * * *
63926494 GGGTGTTTTAGTAATTTCACAAATTGG
1 GGGTGTTTCAGTAATTTTACAAATCGA
*
63926521 GGGTGTTTCGGTAATTTTACAAATCGA
1 GGGTGTTTCAGTAATTTTACAAATCGA
* *
63926548 GGGT-TTTCACTAATTTTACAAATTGA
1 GGGTGTTTCAGTAATTTTACAAATCGA
* *
63926574 GGGTATTTTAGTAATTT
1 GGGTGTTTCAGTAATTT
63926591 CTTTTTATTA
Statistics
Matches: 102, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
26 23 0.23
27 72 0.71
28 7 0.07
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTGTTTCAGTAATTTTACAAATCGA
Found at i:63926576 original size:80 final size:82
Alignment explanation
Indices: 63926438--63926591 Score: 222
Period size: 80 Copynumber: 1.9 Consensus size: 82
63926428 TCTCGGGTTC
** *
63926438 GGGGTGTTACAGGTAATTTTAAAAATCAAGAGTGTTTCGGTAATTTTACAAATCGAGGGTGTTTT
1 GGGGTGTTACAGGTAATTTTAAAAATCAAGAGTGTTTCACTAATTTTACAAATCGAGGGTATTTT
63926503 AGTAATTTCACAAATTG
66 AGTAATTTCACAAATTG
* * * * *
63926520 GGGGTGTTTC-GGTAATTTTACAAATCGAGGGT-TTTCACTAATTTTACAAATTGAGGGTATTTT
1 GGGGTGTTACAGGTAATTTTAAAAATCAAGAGTGTTTCACTAATTTTACAAATCGAGGGTATTTT
63926583 AGTAATTTC
66 AGTAATTTC
63926592 TTTTTATTAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 36 0.56
81 19 0.30
82 9 0.14
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (82 bp):
GGGGTGTTACAGGTAATTTTAAAAATCAAGAGTGTTTCACTAATTTTACAAATCGAGGGTATTTT
AGTAATTTCACAAATTG
Found at i:63926951 original size:28 final size:28
Alignment explanation
Indices: 63926910--63926998 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
63926900 CCCTTTTAGG
* * *
63926910 CCCAATCTCGTTCACATGGCCCATCAGA
1 CCCAATCACATTCATATGGCCCATCAGA
63926938 CCCAATCACATTCATATGGCCCATCA-A
1 CCCAATCACATTCATATGGCCCATCAGA
* * * *
63926965 GCCCTATCATATTCATATTGCCCATCAGG
1 -CCCAATCACATTCATATGGCCCATCAGA
63926994 CCCAA
1 CCCAA
63926999 GTACTTCCCA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
27 1 0.02
28 50 0.98
ACGTcount: A:0.28, C:0.37, G:0.11, T:0.24
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCATCAGA
Found at i:63928773 original size:20 final size:19
Alignment explanation
Indices: 63928741--63928806 Score: 54
Period size: 20 Copynumber: 3.7 Consensus size: 19
63928731 AAATGAGATA
*
63928741 TTTTGAAATCCATTTGTTG
1 TTTTGAAAACCATTTGTTG
63928760 TTTTGGAAAACCA-----TG
1 TTTT-GAAAACCATTTGTTG
*
63928775 -TTTGAAATCCATTTGTTG
1 TTTTGAAAACCATTTGTTG
63928793 TTTTGGAAAACCAT
1 TTTT-GAAAACCAT
63928807 GCCTTACTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 15
0.67 0.06 0.28
Matches are distributed among these distances:
13 7 0.19
14 3 0.08
15 2 0.06
18 2 0.06
19 7 0.19
20 15 0.42
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (19 bp):
TTTTGAAAACCATTTGTTG
Found at i:63928784 original size:33 final size:33
Alignment explanation
Indices: 63928742--63928807 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
63928732 AATGAGATAT
63928742 TTTGAAATCCATTTGTTGTTTTGGAAAACCATG
1 TTTGAAATCCATTTGTTGTTTTGGAAAACCATG
63928775 TTTGAAATCCATTTGTTGTTTTGGAAAACCATG
1 TTTGAAATCCATTTGTTGTTTTGGAAAACCATG
63928808 CCTTACTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (33 bp):
TTTGAAATCCATTTGTTGTTTTGGAAAACCATG
Found at i:63929767 original size:27 final size:27
Alignment explanation
Indices: 63929724--63929798 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
63929714 AAGGGCAAAA
* *
63929724 TAGTCATTTTACCCTACAGGGGTATGT
1 TAGTCATTTTACACTACAAGGGTATGT
* *
63929751 TGGTCATTTTACACTACAAGGGTATTT
1 TAGTCATTTTACACTACAAGGGTATGT
** *
63929778 TAGAAATTTTACACTATAAGG
1 TAGTCATTTTACACTACAAGG
63929799 TTATTTCGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (27 bp):
TAGTCATTTTACACTACAAGGGTATGT
Found at i:63929840 original size:54 final size:55
Alignment explanation
Indices: 63929772--63930256 Score: 267
Period size: 54 Copynumber: 9.0 Consensus size: 55
63929762 CACTACAAGG
* * *
63929772 GTATTTTAGA-AATTTTACACTAT-AAGGTTATTTC-GATAAATTTT-TAAATCGGGG
1 GTATTTT-GATAATTTTACACAATCAAGGGTATTTCAG-T-AATTTTATAAATCGGGA
* * *
63929826 GTGTTTTGGTAATTTTAC-CAATCGAGGGTATTTCAGTAATTTTATAAATCGGGA
1 GTATTTTGATAATTTTACACAATCAAGGGTATTTCAGTAATTTTATAAATCGGGA
* * * * * *
63929880 GTATTTTGATAATTTTACA-AGTCGAGGGTGTTTCAGTAATTTCACAAATCGGGG
1 GTATTTTGATAATTTTACACAATCAAGGGTATTTCAGTAATTTTATAAATCGGGA
** * * * *
63929934 GTATTTCAATAATTTTACA-AATCGAGCGTATTTCAGTAATTTCA-CAATCGAGG-
1 GTATTTTGATAATTTTACACAATCAAGGGTATTTCAGTAATTTTATAAATCG-GGA
* * * * * * *
63929987 GTATTTCGATAATTTTACA-ATTCGAGGGTATTTCAATAATTTCA-CAATTGAGG-
1 GTATTTTGATAATTTTACACAATCAAGGGTATTTCAGTAATTTTATAAATCG-GGA
* * * * * *
63930040 GTATTTT-AGTAATTTTACA-AATCGAGGTTGTTTCAATAATTTTAAAAATCAAGG-
1 GTATTTTGA-TAATTTTACACAATCAAGGGTATTTCAGTAATTTTATAAATC-GGGA
* * ***
63930094 GTATTTT-AGTAA-TTT-CACAATCAAGGGTATTTCGGTAATTTTACAAATTAATG-
1 GTATTTTGA-TAATTTTACACAATCAAGGGTATTTCAGTAATTTTATAAA-TCGGGA
* * * ** * * * * * *
63930147 GTGTTTCGGTAATTTTACA-AATTGAGGGTGTTTTAGTAATTTCACAAATTGGGG
1 GTATTTTGATAATTTTACACAATCAAGGGTATTTCAGTAATTTTATAAATCGGGA
* * * *
63930201 GTA-TTTCAGTAATTTTACA-AATCGAGGGTATTTCAGTAATTTTACAAATCGAGA
1 GTATTTTGA-TAATTTTACACAATCAAGGGTATTTCAGTAATTTTATAAATCGGGA
63930255 GT
1 GT
63930257 GTTTCAGTAA
Statistics
Matches: 352, Mismatches: 63, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
52 3 0.01
53 140 0.40
54 206 0.59
55 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (55 bp):
GTATTTTGATAATTTTACACAATCAAGGGTATTTCAGTAATTTTATAAATCGGGA
Found at i:63929854 original size:27 final size:27
Alignment explanation
Indices: 63929834--63930269 Score: 470
Period size: 27 Copynumber: 16.3 Consensus size: 27
63929824 GGGTGTTTTG
*
63929834 GTAATTTTACCAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* *
63929861 GTAATTTTATAAATCG-GGAGTATTT-T
1 GTAATTTTACAAATCGAGG-GTATTTCA
* *
63929887 GATAATTTTACAAGTCGAGGGTGTTTCA
1 G-TAATTTTACAAATCGAGGGTATTTCA
* *
63929915 GTAATTTCACAAATCGGGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* *
63929942 ATAATTTTACAAATCGAGCGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
*
63929969 GTAATTTCAC-AATCGAGGGTATTTC-
1 GTAATTTTACAAATCGAGGGTATTTCA
*
63929994 GATAATTTTACAATTCGAGGGTATTTCA
1 G-TAATTTTACAAATCGAGGGTATTTCA
* * * *
63930022 ATAATTTCAC-AATTGAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
* *
63930048 GTAATTTTACAAATCGAGGTTGTTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * * *
63930075 ATAATTTTAAAAATCAAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * *
63930102 GTAATTTCAC-AATCAAGGGTATTTCG
1 GTAATTTTACAAATCGAGGGTATTTCA
** * * *
63930128 GTAATTTTACAAATTAATGGTGTTTCG
1 GTAATTTTACAAATCGAGGGTATTTCA
* * *
63930155 GTAATTTTACAAATTGAGGGTGTTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * *
63930182 GTAATTTCACAAATTGGGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
63930209 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* *
63930236 GTAATTTTACAAATCGAGAGTGTTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
63930263 GTAATTT
1 GTAATTT
63930270 ATCTTTATTA
Statistics
Matches: 341, Mismatches: 59, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.00
26 69 0.20
27 268 0.79
28 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTCA
Found at i:63930023 original size:80 final size:80
Alignment explanation
Indices: 63929817--63930269 Score: 466
Period size: 80 Copynumber: 5.6 Consensus size: 80
63929807 ATAAATTTTT
* ** * * *
63929817 AAATCGGGGGTGTTTTGGTAATTTTACCAATCGAGGGTATTTCAGTAATTTTATAAATCG-GGAG
1 AAATCGAGGGTG-TTTCATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGG-G
*
63929881 TATTT-TGATAATTTTAC
64 TATTTCAG-TAATTTTAC
* * * * * *
63929898 AAGTCGAGGGTGTTTCAGTAATTTCACAAATCGGGGGTATTTCAATAATTTTACAAATCGAGCGT
1 AAATCGAGGGTGTTTCA-TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGT
*
63929963 ATTTCAGTAATTTCAC
65 ATTTCAGTAATTTTAC
* * * *
63929979 -AATCGAGGGTATTTCGATAATTTTACAATTCGAGGGTATTTCAATAATTTCAC-AATTGAGGGT
1 AAATCGAGGGTGTTTC-ATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGT
*
63930042 ATTTTAGTAATTTTAC
65 ATTTCAGTAATTTTAC
* * * * *
63930058 AAATCGAGGTTGTTTCAATAATTTTAAAAATCAAGGGTATTTTAGTAATTTCAC-AATCAAGGGT
1 AAATCGAGGGTGTTTC-ATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGT
*
63930122 ATTTCGGTAATTTTAC
65 ATTTCAGTAATTTTAC
** * * * * * * *
63930138 AAATTAATGGTGTTTCGGTAATTTTACAAATTGAGGGTGTTTTAGTAATTTCACAAATTGGGGGT
1 AAATCGAGGGTGTTTC-ATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGT
63930203 ATTTCAGTAATTTTAC
65 ATTTCAGTAATTTTAC
* * *
63930219 AAATCGAGGGTATTTCAGTAATTTTACAAATCGAGAGTGTTTCAGTAATTT
1 AAATCGAGGGTGTTTCA-TAATTTTACAAATCGAGGGTATTTCAGTAATTT
63930270 ATCTTTATTA
Statistics
Matches: 309, Mismatches: 56, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
79 22 0.07
80 159 0.51
81 126 0.41
82 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (80 bp):
AAATCGAGGGTGTTTCATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTA
TTTCAGTAATTTTAC
Found at i:63930629 original size:28 final size:28
Alignment explanation
Indices: 63930568--63930677 Score: 123
Period size: 28 Copynumber: 3.9 Consensus size: 28
63930558 GATGCACACT
* * *
63930568 TATTCATTTGGCCCCTTTAGGCCCAATC-
1 TATTCATATGG-CCCATCAGGCCCAATCA
* * *
63930596 TCATTCACATGGCCTATCAAGCCCAATCA
1 T-ATTCATATGGCCCATCAGGCCCAATCA
*
63930625 TATTCATATGGCCCATCAGGCCCTATCA
1 TATTCATATGGCCCATCAGGCCCAATCA
*
63930653 CATTCATATGGCCCATCAGGCCCAA
1 TATTCATATGGCCCATCAGGCCCAA
63930678 CTACTTCCCA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 59 0.87
29 9 0.13
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.27
Consensus pattern (28 bp):
TATTCATATGGCCCATCAGGCCCAATCA
Found at i:63930664 original size:56 final size:57
Alignment explanation
Indices: 63930568--63930677 Score: 141
Period size: 56 Copynumber: 1.9 Consensus size: 57
63930558 GATGCACACT
* * * * *
63930568 TATTCATTTGGCCCCTTTAGGCCCAATCTCATTCACATGGCCTATCAAGCCCAATCA
1 TATTCATATGGCCCCATCAGGCCCAATCACATTCACATGGCCCATCAAGCCCAATCA
* * *
63930625 TATTCATATGG-CCCATCAGGCCCTATCACATTCATATGGCCCATCAGGCCCAA
1 TATTCATATGGCCCCATCAGGCCCAATCACATTCACATGGCCCATCAAGCCCAA
63930678 CTACTTCCCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
56 35 0.78
57 10 0.22
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.27
Consensus pattern (57 bp):
TATTCATATGGCCCCATCAGGCCCAATCACATTCACATGGCCCATCAAGCCCAATCA
Found at i:63934115 original size:47 final size:47
Alignment explanation
Indices: 63934046--63934201 Score: 174
Period size: 47 Copynumber: 3.3 Consensus size: 47
63934036 AGCTTAAGAT
63934046 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
*** *
63934093 CGAATGGCCAATGTGATGAATGTGAAAGTACATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * * *
63934140 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGGGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
* *
63934185 TGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
63934202 AAAGTGTGCA
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
45 19 0.21
46 6 0.07
47 65 0.72
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:63934327 original size:39 final size:40
Alignment explanation
Indices: 63934272--63934356 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
63934262 AAATGAATTG
* * * *
63934272 TGCTGAGATTGCATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
* *
63934311 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
63934351 TGCTGG
1 TGCTGG
63934357 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (40 bp):
TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:63936913 original size:40 final size:40
Alignment explanation
Indices: 63936858--63937213 Score: 577
Period size: 40 Copynumber: 8.9 Consensus size: 40
63936848 CTCGCTGATG
*
63936858 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
63936898 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
63936938 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
63936978 ATCCGGGCTAAGTCTCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
63937018 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
63937058 ATCTGGGCTAATTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
63937098 ATCTGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
63937138 ATCAGGGTTAAGTTCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
63937178 ATCCGGGCTAGGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
63937214 ATCTGTATTC
Statistics
Matches: 292, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 292 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:63937427 original size:25 final size:25
Alignment explanation
Indices: 63937377--63937427 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
63937367 TGTGTAACAA
* *
63937377 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
63937402 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
63937427 C
1 C
63937428 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:63941101 original size:47 final size:47
Alignment explanation
Indices: 63941032--63941187 Score: 174
Period size: 47 Copynumber: 3.3 Consensus size: 47
63941022 AGCTTAAGAT
63941032 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
*** *
63941079 CGAATGGCCAATGTGATGAATGTGAAAGTACATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * * *
63941126 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGGGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
* *
63941171 TGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
63941188 AAAGTGTGCA
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
45 19 0.21
46 6 0.07
47 65 0.72
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:63948161 original size:47 final size:49
Alignment explanation
Indices: 63948087--63948357 Score: 212
Period size: 46 Copynumber: 5.8 Consensus size: 49
63948077 TGGGTAAGGT
* * *
63948087 GCCAATGCCAT-TCTCAGACACGATCTTACACTGGCTCAT-ATCTC-AA
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA
* * * * *
63948133 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-TTCATCTCGTA
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA
* * * *
63948181 GCCAATG-CATGTCCCAAACAT-GTCTTACACTGGCTTA-CGTCTCGAG
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA
* * *
63948227 GCCAATG-CATGTCCCAGAGAT-GTCTTACACTAGCTC-TCGTCTC-AA
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA
* * * **
63948272 TGCCAATGCCATGTCCCAGACATGGTCATATACTGGCTC-TCATAAT-GTG
1 -GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCGAA
* * *
63948321 GCCGATG-CATGTCCCAGGCAT-GCCTTACACTGGCTCA
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
63948358 CGCAAGTGAC
Statistics
Matches: 180, Mismatches: 34, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 86 0.48
47 65 0.36
48 27 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA
Found at i:63950884 original size:47 final size:47
Alignment explanation
Indices: 63950818--63951246 Score: 696
Period size: 47 Copynumber: 9.1 Consensus size: 47
63950808 GAAATGATAG
63950818 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
63950865 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
63950914 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
63950961 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
63951008 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
63951055 TAAGGCCTAATAGCCGATGTGATGAATGTTAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
63951102 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
63951149 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
63951196 CAGGGCCGAGTGGCCGACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
63951243 TAAG
1 TAAG
63951247 TCCCGAAGGG
Statistics
Matches: 360, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 314 0.87
49 46 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:63951421 original size:37 final size:37
Alignment explanation
Indices: 63951365--63951443 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
63951355 CCGAGCTCTA
* * *
63951365 AAGACCCGATGACTACGTGTGG-GAATTTTTTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
63951402 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
63951439 AAGAC
1 AAGAC
63951444 TTCGTAACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:63956172 original size:22 final size:22
Alignment explanation
Indices: 63956144--63956190 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
63956134 AAGGTTGTAG
* *
63956144 ATCATTGGAGCATTGTCTCACT
1 ATCATTGGAGCATCGTCACACT
63956166 ATCATTGGAGCATCGTCACACT
1 ATCATTGGAGCATCGTCACACT
63956188 ATC
1 ATC
63956191 TACTAGCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (22 bp):
ATCATTGGAGCATCGTCACACT
Found at i:63958181 original size:24 final size:24
Alignment explanation
Indices: 63958101--63958232 Score: 97
Period size: 24 Copynumber: 5.4 Consensus size: 24
63958091 AAACTCCTTC
63958101 TGAGCTGATGAACAGTAAGCTC-TA
1 TGAGCTGA-GAACAGTAAGCTCTTA
* *
63958125 TTGAGTTTGA-AACAGTAAGCTCTAA
1 -TGAG-CTGAGAACAGTAAGCTCTTA
** *
63958150 CAAACTGAGAACAGTAAGCTCTTA
1 TGAGCTGAGAACAGTAAGCTCTTA
* *
63958174 TGAGCTGAAAACAATAAGCTCTTA
1 TGAGCTGAGAACAGTAAGCTCTTA
* * * *
63958198 TGAACTGATATATCAATAAGCTCATA
1 TGAGCTGAGA-A-CAGTAAGCTCTTA
*
63958224 CGAGCTGAG
1 TGAGCTGAG
63958233 GTGAGTCTGC
Statistics
Matches: 84, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
23 3 0.04
24 54 0.64
25 6 0.07
26 21 0.25
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (24 bp):
TGAGCTGAGAACAGTAAGCTCTTA
Found at i:63964113 original size:27 final size:27
Alignment explanation
Indices: 63964083--63964172 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
63964073 TACTGAAATG
* * *
63964083 CCCTTGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTCA
* *
63964110 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTCA
* * * * *
63964137 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTCA
63964164 CCCTCGATT
1 CCCTCGATT
63964173 GTGAAATTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTCA
Found at i:63964268 original size:27 final size:28
Alignment explanation
Indices: 63964228--63964331 Score: 99
Period size: 27 Copynumber: 3.8 Consensus size: 28
63964218 ACTAGTTTGT
63964228 AAAATTACCA-AAATACCCTTGA-TTTAC
1 AAAATTA-CAGAAATACCCTTGACTTTAC
*
63964255 AAAATTACAGAAATACCGTTGACTTT-C
1 AAAATTACAGAAATACCCTTGACTTTAC
* * * *
63964282 GAAAAATTATAAAAATACCATT-AGTTTAC
1 --AAAATTACAGAAATACCCTTGACTTTAC
*
63964311 AAAATTACTGAAATACCCTTG
1 AAAATTACAGAAATACCCTTG
63964332 GTTTGTAGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.03
27 35 0.56
28 7 0.11
29 18 0.29
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (28 bp):
AAAATTACAGAAATACCCTTGACTTTAC
Found at i:63964419 original size:27 final size:27
Alignment explanation
Indices: 63964376--63964449 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
63964366 AAATAACTAA
*
63964376 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
63964403 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
63964430 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
63964450 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:63964453 original size:27 final size:27
Alignment explanation
Indices: 63964389--63964453 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
63964379 ACCCCTAATA
*
63964389 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
63964416 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
63964443 GGTAAAATGAC
1 GGTAAAATGAC
63964454 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:63965285 original size:25 final size:24
Alignment explanation
Indices: 63965247--63965316 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
63965237 AGGAAGTGCT
*
63965247 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
63965271 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
63965296 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
63965317 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:63965329 original size:24 final size:24
Alignment explanation
Indices: 63965246--63965329 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
63965236 GAGGAAGTGC
* *
63965246 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
63965271 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
63965295 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
63965319 TAAAAGAGGCT
1 TAAAAG-GGCT
63965330 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:63965523 original size:42 final size:42
Alignment explanation
Indices: 63965464--63965597 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
63965454 TAGTCTTCCC
63965464 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
63965506 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
63965548 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
63965590 AAATGGGC
1 AAATGGGC
63965598 CTAAGGGCCA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:63965656 original size:31 final size:31
Alignment explanation
Indices: 63965621--63965704 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
63965611 CGTTTACAGT
*
63965621 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATAG
* *
63965652 AAAGGCTTTGGCCTAGTGATATGATTTATAG
1 AAAGGCTTCGGCCCAGTGATATGATTTATAG
63965683 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
63965705 TCAAGACTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATAG
Found at i:63970514 original size:37 final size:37
Alignment explanation
Indices: 63970454--63970531 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
63970444 TATTACGAAG
* * *
63970454 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGA
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
* *
63970491 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
63970528 TCTT
1 TCTT
63970532 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
Found at i:63970825 original size:47 final size:47
Alignment explanation
Indices: 63970650--63970970 Score: 554
Period size: 47 Copynumber: 6.7 Consensus size: 47
63970640 CCCTTCGGGA
*
63970650 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63970697 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63970746 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63970795 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63970842 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63970889 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
63970936 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
63970971 AGAATCCTAA
Statistics
Matches: 267, Mismatches: 4, Indels: 6
0.96 0.01 0.02
Matches are distributed among these distances:
46 1 0.00
47 171 0.64
49 95 0.36
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63973278 original size:85 final size:86
Alignment explanation
Indices: 63973149--63973327 Score: 344
Period size: 85 Copynumber: 2.1 Consensus size: 86
63973139 TATTTTATTG
63973149 CCCATGC-CTTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTT
1 CCCATGCTCTTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTT
63973213 TTAGCCATAACATCTTGTCCA
66 TTAGCCATAACATCTTGTCCA
63973234 CCCATGCTC-TTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTT
1 CCCATGCTCTTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTT
63973298 TTAGCCATAACATCTTGTCCA
66 TTAGCCATAACATCTTGTCCA
63973319 CCCATGCTC
1 CCCATGCTC
63973328 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
85 92 0.99
86 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (86 bp):
CCCATGCTCTTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTT
TTAGCCATAACATCTTGTCCA
Found at i:63976144 original size:39 final size:39
Alignment explanation
Indices: 63976030--63976214 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 39
63976020 GCTACTCATT
* *
63976030 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCG-GGCTTAGCCCGGATT-TAGTAACTCGCA
*
63976070 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTCGCA
* *
63976110 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
63976149 CAAATGCCTTCGGATCTTA-CTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGC-CCGGATTTAGTAAC-TCGCA
63976190 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
63976215 CATCATTCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:63976175 original size:79 final size:80
Alignment explanation
Indices: 63976032--63976214 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 80
63976022 TACTCATTCA
* * *
63976032 AATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCG-GGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
63976096 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
*
63976112 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTT-ACTTCGG
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAAC-CCGG
* *
63976174 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
63976191 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
63976215 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 5 0.06
79 58 0.65
80 26 0.29
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:63979279 original size:47 final size:47
Alignment explanation
Indices: 63979221--63979323 Score: 206
Period size: 47 Copynumber: 2.2 Consensus size: 47
63979211 CAGCCAAGAC
63979221 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
63979268 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
63979315 AGTGTATAT
1 AGTGTATAT
63979324 GTGATGAATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:63979342 original size:70 final size:70
Alignment explanation
Indices: 63979252--63979393 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
63979242 CTAATGGCCG
*
63979252 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAG
63979317 TGTAT
66 TGTAT
63979322 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAG
63979387 TGTAT
66 TGTAT
63979392 AT
1 AT
63979394 CTGTGATAAG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (70 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAG
TGTAT
Found at i:63979353 original size:25 final size:23
Alignment explanation
Indices: 63979299--63979346 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
63979289 CTAATGGCCG
63979299 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
63979322 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
63979345 AT
1 AT
63979347 ATGTGATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:63979375 original size:47 final size:47
Alignment explanation
Indices: 63979322--63979873 Score: 906
Period size: 47 Copynumber: 11.7 Consensus size: 47
63979312 GAAAGTGTAT
*
63979322 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
63979369 ATGTGATGAATGTGAAAGTGTATATCTGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
63979416 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
63979463 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
63979510 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
63979557 ATGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
63979604 ATGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
63979651 ATGTGATGAATGTGAAAGTGTATATCTGTGATAAGGCCTAATCGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
63979698 ATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
63979745 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
63979792 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
63979839 ACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
63979874 TCCCGAAGGG
Statistics
Matches: 480, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 480 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:63979427 original size:117 final size:117
Alignment explanation
Indices: 63979221--63979440 Score: 422
Period size: 117 Copynumber: 1.9 Consensus size: 117
63979211 CAGCCAAGAC
*
63979221 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
63979286 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATGAATGTGAA
*
63979338 AGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATCTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
63979403 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
63979441 ATGTGATAAG
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 101 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (117 bp):
AGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATGAATGTGAA
Found at i:63980067 original size:37 final size:37
Alignment explanation
Indices: 63979992--63980070 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
63979982 CCGAGCTCTA
* * *
63979992 AAGACCCGATGACTACGTGTGGGAATTTTGTCTAGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCAGGT
* *
63980029 AAGACCCGATAACTTCGTGT-GGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGA-ATTATGTCCAGGT
63980066 AAGAC
1 AAGAC
63980071 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 3 0.08
37 33 0.92
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGGAATTATGTCCAGGT
Found at i:63997912 original size:18 final size:18
Alignment explanation
Indices: 63997889--63997954 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
63997879 GAAATGTGAG
* *
63997889 AAATGATGTTCGCATTTT
1 AAATGATGTTCACATTTC
63997907 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
63997925 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
63997943 AAATGATGTTCA
1 AAATGATGTTCA
63997955 AATTGATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:63998478 original size:72 final size:71
Alignment explanation
Indices: 63998378--63998549 Score: 229
Period size: 72 Copynumber: 2.4 Consensus size: 71
63998368 AATAAAAATC
* * * *
63998378 CTAAACTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
1 CTAAATTACTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTA
63998443 TCTAT-
66 TCTATA
* * * *
63998448 GTGTAATCTACTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGTTATTGAATTTATGTTCTACT
1 CT-AAAT-TACTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
*
63998513 TATTTATA
64 TATCTATA
*
63998521 CTAAATTAGTTTTATCAATAGTTGTTTAT
1 CTAAATTACTTTTATCAATAGTTGTTTAT
63998550 ATATGATTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
70 1 0.01
71 23 0.27
72 61 0.71
73 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.13, T:0.54
Consensus pattern (71 bp):
CTAAATTACTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTA
TCTATA
Found at i:64000591 original size:13 final size:13
Alignment explanation
Indices: 64000567--64000601 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
64000557 CTTAAAATTT
*
64000567 TCAAAAGTACTTC
1 TCAAAAGCACTTC
*
64000580 TTAAAAGCACTTC
1 TCAAAAGCACTTC
64000593 TCAAAAGCA
1 TCAAAAGCA
64000602 TTTCCAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:64003883 original size:46 final size:48
Alignment explanation
Indices: 64003811--64003913 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
64003801 GACATGACAG
* * * * *
64003811 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGACATTGGA
*
64003857 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGACATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGACATTGGA
64003905 GACAGGAAT
1 GACAGGAAT
64003914 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 27 0.55
47 1 0.02
48 21 0.43
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGACATTGGA
Found at i:64005234 original size:30 final size:30
Alignment explanation
Indices: 64005198--64005259 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
64005188 CACATAGGAT
64005198 AGGAAGAGTTCAAGGATTTCTTCGACTTCG
1 AGGAAGAGTTCAAGGATTTCTTCGACTTCG
*
64005228 AGGAAGAGTTCAGGGATTTCTTCGACTTCG
1 AGGAAGAGTTCAAGGATTTCTTCGACTTCG
64005258 AG
1 AG
64005260 TCGTTGAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (30 bp):
AGGAAGAGTTCAAGGATTTCTTCGACTTCG
Found at i:64012630 original size:27 final size:27
Alignment explanation
Indices: 64012592--64012645 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
64012582 CTATTTATAG
*
64012592 GCATAAGAAGTATGAATGAAGTAGAGA
1 GCATAAGAAGTATAAATGAAGTAGAGA
64012619 GCATAAGAAGTATAAATGAAGTAGAGA
1 GCATAAGAAGTATAAATGAAGTAGAGA
64012646 TCTACTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.28, T:0.19
Consensus pattern (27 bp):
GCATAAGAAGTATAAATGAAGTAGAGA
Found at i:64018640 original size:23 final size:23
Alignment explanation
Indices: 64018576--64018651 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 23
64018566 AGATTTAAGG
*
64018576 TTTATTAAATTAGGGTTTA--GA
1 TTTATTAAATTAGGGTTTAGTGT
*
64018597 ATT-TT-AATTAGGGTTTAGTG-
1 TTTATTAAATTAGGGTTTAGTGT
*
64018617 TTTATTAAATTAGTGTTTTAGTGT
1 TTTATTAAATTAG-GGTTTAGTGT
*
64018641 TTTATTTAATT
1 TTTATTAAATT
64018652 TTTATGTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
19 12 0.27
20 4 0.09
21 5 0.11
22 6 0.13
23 8 0.18
24 10 0.22
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (23 bp):
TTTATTAAATTAGGGTTTAGTGT
Found at i:64018667 original size:18 final size:19
Alignment explanation
Indices: 64018632--64018670 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
64018622 TAAATTAGTG
64018632 TTTTAGTGTTTTATTTAAT
1 TTTTAGTGTTTTATTTAAT
64018651 TTTTA-TGTGTTTA-TTAAT
1 TTTTAGTGT-TTTATTTAAT
64018669 TT
1 TT
64018671 GTGTTTTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (19 bp):
TTTTAGTGTTTTATTTAAT
Found at i:64022645 original size:22 final size:22
Alignment explanation
Indices: 64022620--64022661 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
64022610 ACCCTAAACT
*
64022620 ATAAACCCTAAACTCTTAAATC
1 ATAAACCCTAAAATCTTAAATC
64022642 ATAAACCCTAAAATCTTAAA
1 ATAAACCCTAAAATCTTAAA
64022662 AATAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAACCCTAAAATCTTAAATC
Found at i:64031953 original size:29 final size:28
Alignment explanation
Indices: 64031917--64031994 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
64031907 TCATGAGATT
64031917 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
64031947 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
64031974 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
64031995 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:64032218 original size:174 final size:174
Alignment explanation
Indices: 64031947--64032274 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
64031937 AAATTGTACA
64031947 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
64032012 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
64032077 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
64032121 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
64032186 TGTGCGAACCCAATATATATTTTCTGTAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
64032251 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
64032275 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:64034885 original size:13 final size:13
Alignment explanation
Indices: 64034867--64034893 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64034857 GAAGTAATCG
64034867 CACACGGGCGTGT
1 CACACGGGCGTGT
64034880 CACACGGGCGTGT
1 CACACGGGCGTGT
64034893 C
1 C
64034894 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:64036039 original size:14 final size:15
Alignment explanation
Indices: 64036022--64036085 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 15
64036012 TATTTTATAA
64036022 GGTTTAGGGTATT-G
1 GGTTTAGGGTATTAG
* *
64036036 GGTTTTGAGT-TTAG
1 GGTTTAGGGTATTAG
* **
64036050 AGTTTAGTTTA-TAG
1 GGTTTAGGGTATTAG
*
64036064 GGTTTAGGGTATTGG
1 GGTTTAGGGTATTAG
64036079 GGTTTAG
1 GGTTTAG
64036086 TCTTTTGGTT
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
13 2 0.05
14 26 0.70
15 9 0.24
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (15 bp):
GGTTTAGGGTATTAG
Found at i:64036402 original size:84 final size:83
Alignment explanation
Indices: 64036287--64036479 Score: 228
Period size: 84 Copynumber: 2.3 Consensus size: 83
64036277 AAAATGCCAC
*
64036287 AAAATATGATAAATTGAATGAAAACAGCGTCGTTCTACTTGG-AGGGATAGTGGAGTTAGTGGCA
1 AAAATATGAGAAATTGAATGAAAACAGCGTCGTTCTACTTGGCAGGG-TAGTGGAGTTAGTGGCA
*
64036351 CTAAGTCATAAACGCTGCT
65 CTAACTCATAAACGCTGCT
* * * * * *
64036370 AAAAGTATGAGAAATTGTATGGAAAC-GTCGTCGTTTTATTTGGCATGGTAGTGGATTTAGTGGC
1 AAAA-TATGAGAAATTGAATGAAAACAG-CGTCGTTCTACTTGGCAGGGTAGTGGAGTTAGTGGC
* * *
64036434 GCTATCTTATAAACGCTGCT
64 ACTAACTCATAAACGCTGCT
*
64036454 AAAAATATGAGAAACTGAATGAAAAC
1 -AAAATATGAGAAATTGAATGAAAAC
64036480 TACATTAATT
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
83 5 0.05
84 80 0.87
85 7 0.08
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (83 bp):
AAAATATGAGAAATTGAATGAAAACAGCGTCGTTCTACTTGGCAGGGTAGTGGAGTTAGTGGCAC
TAACTCATAAACGCTGCT
Found at i:64036492 original size:84 final size:84
Alignment explanation
Indices: 64036334--64036542 Score: 197
Period size: 84 Copynumber: 2.5 Consensus size: 84
64036324 CTTGGAGGGA
* * ** * * * * *
64036334 TAGTGGAGTTAGTGGCACTAAGTCATAAACGCTGCTAAAAGTATGAGAAATTGTATGGAAACGTC
1 TAGTGGAATTAGTGGCGCTATCTTATAAACGCTGCTAAAAATATGAGAAACTGAATGAAAACGTC
* ** * *
64036399 GTCGTTTTATTTGGCATGG
66 ATCAATTTATGTGGCACGG
*
64036418 TAGTGGATTTAGTGGCGCTATCTTATAAACGCTGCTAAAAATATGAGAAACTGAATGAAAAC-TA
1 TAGTGGAATTAGTGGCGCTATCTTATAAACGCTGCTAAAAATATGAGAAACTGAATGAAAACGT-
* *
64036482 CATTAATTTATGTGGTACGG
65 CATCAATTTATGTGGCACGG
* * * *
64036502 T-TTAGGAATTAGTGGCGCTATCTTAGAAATGCTGCAAAAAA
1 TAGT-GGAATTAGTGGCGCTATCTTATAAACGCTGCTAAAAA
64036543 AGTGAATTAC
Statistics
Matches: 102, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
83 2 0.02
84 100 0.98
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (84 bp):
TAGTGGAATTAGTGGCGCTATCTTATAAACGCTGCTAAAAATATGAGAAACTGAATGAAAACGTC
ATCAATTTATGTGGCACGG
Found at i:64039186 original size:50 final size:49
Alignment explanation
Indices: 64039102--64039207 Score: 117
Period size: 50 Copynumber: 2.2 Consensus size: 49
64039092 GTTTACACAA
* * * * *
64039102 AACAAA-TAGATCTTAAGTTTATATATTCTATCAATTT-GATCTTGATTT
1 AACAAATTAAATCGTAAGTTTATATATTATATCAATTTAG-TCATAATTT
* *
64039150 AACAAATTAAATCGTAATGTTTATATCTTATGTCAATTTAGTCATAATTT
1 AACAAATTAAATCGTAA-GTTTATATATTATATCAATTTAGTCATAATTT
64039200 AACAAATT
1 AACAAATT
64039208 TAGCTCATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 6 0.12
49 8 0.17
50 33 0.69
51 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (49 bp):
AACAAATTAAATCGTAAGTTTATATATTATATCAATTTAGTCATAATTT
Found at i:64040086 original size:13 final size:13
Alignment explanation
Indices: 64040068--64040097 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
64040058 CCACATAATA
64040068 CATAAATATATAT
1 CATAAATATATAT
64040081 CATAAATATATAT
1 CATAAATATATAT
64040094 CATA
1 CATA
64040098 TCATAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:64045211 original size:13 final size:14
Alignment explanation
Indices: 64045195--64045223 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64045185 TTATAAATAT
64045195 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
64045208 TTATAATGGTTTAA
1 TTATAATGGTTTAA
64045222 TT
1 TT
64045224 CGTTATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:64045655 original size:15 final size:15
Alignment explanation
Indices: 64045627--64045670 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
64045617 GCAACAACTT
64045627 AGAGCGGAGGCAGCAG
1 AGAG-GGAGGCAGCAG
*
64045643 AGAGGGAGACAGCAG
1 AGAGGGAGGCAGCAG
64045658 AGAGGGAGGCAGC
1 AGAGGGAGGCAGC
64045671 GGTAGCAGCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.34, C:0.16, G:0.50, T:0.00
Consensus pattern (15 bp):
AGAGGGAGGCAGCAG
Found at i:64046087 original size:43 final size:43
Alignment explanation
Indices: 64046040--64046171 Score: 111
Period size: 43 Copynumber: 3.1 Consensus size: 43
64046030 AAAATTAGTT
* * * *
64046040 GCGTTTATTAAAAAAGCGACGCTAAAAGTCATGGCTTTTAGCA
1 GCGTTTATGAAAAAAACGACGCTAAAAGCCATGACTTTTAGCA
* * * **
64046083 GCGTTTGTGAAAAAAATGCCGCTAAAAGCCATGACTTTTAGTG
1 GCGTTTATGAAAAAAACGACGCTAAAAGCCATGACTTTTAGCA
* * **** * *
64046126 GAGCTTCCCTAACAAACGCCGCTAAAAGCCATGACTTTTAGCA
1 GCGTTTATGAAAAAAACGACGCTAAAAGCCATGACTTTTAGCA
64046169 GCG
1 GCG
64046172 CTTTTCTTAC
Statistics
Matches: 69, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (43 bp):
GCGTTTATGAAAAAAACGACGCTAAAAGCCATGACTTTTAGCA
Found at i:64046184 original size:43 final size:43
Alignment explanation
Indices: 64046059--64046185 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 43
64046049 AAAAAAGCGA
* * ** * *
64046059 CGCTAAAAGTCATGGCTTTTAGCAGCG-TTTGTGAAAAAAATGC
1 CGCTAAAAGCCATGACTTTTAGCAGCGCTTT-TCTAACAAACGC
** * **
64046102 CGCTAAAAGCCATGACTTTTAGTGGAGCTTCCCTAACAAACGC
1 CGCTAAAAGCCATGACTTTTAGCAGCGCTTTTCTAACAAACGC
*
64046145 CGCTAAAAGCCATGACTTTTAGCAGCGCTTTTCTTACAAAC
1 CGCTAAAAGCCATGACTTTTAGCAGCGCTTTTCTAACAAAC
64046186 TCCATGCCGC
Statistics
Matches: 66, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 64 0.97
44 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
CGCTAAAAGCCATGACTTTTAGCAGCGCTTTTCTAACAAACGC
Found at i:64048547 original size:15 final size:15
Alignment explanation
Indices: 64048524--64048579 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
64048514 CATAGGGTTT
64048524 TTAAGGTTTTATTAA
1 TTAAGGTTTTATTAA
*
64048539 TTAAAGTTTTATTAA
1 TTAAGGTTTTATTAA
64048554 -TAAGGGTTTTATTAA
1 TTAA-GGTTTTATTAA
*
64048569 TTAGGGTTTTA
1 TTAAGGTTTTA
64048580 CATACTCGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 3 0.08
15 31 0.86
16 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (15 bp):
TTAAGGTTTTATTAA
Found at i:64049363 original size:17 final size:17
Alignment explanation
Indices: 64049341--64049393 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
64049331 TATCATCACC
64049341 AATATTTTTTGGTTTGT
1 AATATTTTTTGGTTTGT
64049358 AATATTCTGTTT--TTT-T
1 AATATT-T-TTTGGTTTGT
*
64049374 TATATTTTTTGGTTTGT
1 AATATTTTTTGGTTTGT
64049391 AAT
1 AAT
64049394 CGTCACTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 1 0.03
16 9 0.31
17 12 0.41
18 1 0.03
19 3 0.10
ACGTcount: A:0.19, C:0.02, G:0.13, T:0.66
Consensus pattern (17 bp):
AATATTTTTTGGTTTGT
Found at i:64052315 original size:18 final size:18
Alignment explanation
Indices: 64052294--64052343 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
64052284 TTTCAATCTC
*
64052294 ATTTTTCTTCTTTTCATT
1 ATTTTTCTTCTTTTCATA
64052312 ATTTTT-TTCTTTTTCATA
1 ATTTTTCTTC-TTTTCATA
64052330 ATCTTTCTCTTCTT
1 AT-TTT-TCTTCTT
64052344 CTTTCTTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 3 0.11
18 15 0.56
19 3 0.11
20 3 0.11
21 3 0.11
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTCTTCTTTTCATA
Found at i:64052333 original size:41 final size:39
Alignment explanation
Indices: 64052276--64052364 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 39
64052266 GATCAAGTTC
64052276 TTTTTCTTTTTCAATCTCATT-T-TTCTTCTTTTCATTA-TT
1 TTTTTCTTTTTCAATCT--TTCTCTTCTTC-TTTCATTACTT
*
64052315 TTTTTCTTTTTCATAATCTTTCTCTTCTTCTTTCTTTACTT
1 TTTTTCTTTTTC--AATCTTTCTCTTCTTCTTTCATTACTT
64052356 TTTTTCTTT
1 TTTTTCTTT
64052365 CACACACTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
39 14 0.32
40 8 0.18
41 22 0.50
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (39 bp):
TTTTTCTTTTTCAATCTTTCTCTTCTTCTTTCATTACTT
Found at i:64056373 original size:47 final size:47
Alignment explanation
Indices: 64056266--64056391 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 47
64056256 TAGGGTAAGG
* *
64056266 TGTCGATGCCATGTCCCAGACGTGGTCTTACACTAACTATCATCTTA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACAATAACTATCATCTTA
* * *
64056313 TAGTCGACG-CATGTCCCAGACAT-GTCTTACAATAGC-ACTCGT-TTCAA
1 T-GTCGATGCCATGTCCCAGACATGGTCTTACAATAACTA-TCATCTT--A
64056360 TGTCGATGCCATGTCCCAGACATGGTCTTACA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACA
64056392 CTGGCTTTCT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
45 3 0.04
46 20 0.30
47 30 0.45
48 14 0.21
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACAATAACTATCATCTTA
Found at i:64060399 original size:39 final size:39
Alignment explanation
Indices: 64060355--64060469 Score: 178
Period size: 39 Copynumber: 3.0 Consensus size: 39
64060345 TTTGAGATTG
*
64060355 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
*
64060394 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
* * *
64060433 AATATATCTGGACTTGAGGTCCGCAGGCT-TATGCTAG
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAG
64060470 TAATGTATTC
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 8 0.11
39 62 0.89
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
Found at i:64065558 original size:39 final size:39
Alignment explanation
Indices: 64065514--64065641 Score: 159
Period size: 39 Copynumber: 3.3 Consensus size: 39
64065504 TTTGAGATTG
* *
64065514 AAAATATCCAGACATGACG-TCCACAGGCTATATGCTGGA
1 AAAATATCCGGACATGA-GATCCGCAGGCTATATGCTGGA
*
64065553 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTGGA
* * * * *
64065592 AATATATCTGGACTTGAGTTCCGCAGGCTACATGCTGGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTGGA
*
64065631 AAAATAACCGG
1 AAAATATCCGG
64065642 GTTAAAGACC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
38 1 0.01
39 75 0.99
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGATCCGCAGGCTATATGCTGGA
Found at i:64070125 original size:8 final size:8
Alignment explanation
Indices: 64070114--64070160 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
64070104 AAAATTAGAA
64070114 AAAAATAT
1 AAAAATAT
*
64070122 AAAAAACAT
1 -AAAAATAT
64070131 AAAAATTAT
1 AAAAA-TAT
64070140 AAAAATAT
1 AAAAATAT
*
64070148 AGAAATAT
1 AAAAATAT
64070156 AAAAA
1 AAAAA
64070161 AATTATACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 19 0.58
9 14 0.42
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:64070125 original size:9 final size:9
Alignment explanation
Indices: 64070113--64070161 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
64070103 AAAAATTAGA
64070113 AAAAAATAT
1 AAAAAATAT
*
64070122 AAAAAACAT
1 AAAAAATAT
*
64070131 AAAAATTAT
1 AAAAAATAT
64070140 -AAAAATAT
1 AAAAAATAT
*
64070148 -AGAAATAT
1 AAAAAATAT
64070156 AAAAAA
1 AAAAAA
64070162 ATTATACAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
8 14 0.42
9 19 0.58
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (9 bp):
AAAAAATAT
Found at i:64070162 original size:18 final size:16
Alignment explanation
Indices: 64070114--64070163 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
64070104 AAAATTAGAA
64070114 AAAAATATAAAAAACAT
1 AAAAATATAAAAAA-AT
*
64070131 AAAAATTATAAAAATAT
1 AAAAA-TATAAAAAAAT
*
64070148 AGAAATATAAAAAAAT
1 AAAAATATAAAAAAAT
64070164 TATACAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 10 0.34
17 11 0.38
18 8 0.28
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAAATATAAAAAAAT
Found at i:64070237 original size:20 final size:20
Alignment explanation
Indices: 64070181--64070240 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
64070171 TTTTATAAAG
*
64070181 TCGTAAGAAAATTATACAAAA
1 TCGTAAAAAAATTATA-AAAA
* **
64070202 T-GTAAAGAAA-TATAAATT
1 TCGTAAAAAAATTATAAAAA
64070220 TCGTAAAAAAATTATAAAAA
1 TCGTAAAAAAATTATAAAAA
64070240 T
1 T
64070241 TATCGTATCA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
18 3 0.10
19 12 0.40
20 14 0.47
21 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.28
Consensus pattern (20 bp):
TCGTAAAAAAATTATAAAAA
Found at i:64070500 original size:19 final size:20
Alignment explanation
Indices: 64070478--64070529 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
64070468 TTAATAAATT
64070478 TTAAATTTTTAT-ATTTTTA
1 TTAAATTTTTATAATTTTTA
* * *
64070497 TTAAAATGTAATAATTTTTA
1 TTAAATTTTTATAATTTTTA
*
64070517 TAAAATTTATTAT
1 TTAAATTT-TTAT
64070530 TTATTATTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTAAATTTTTATAATTTTTA
Found at i:64070669 original size:86 final size:86
Alignment explanation
Indices: 64070578--64070738 Score: 243
Period size: 86 Copynumber: 1.9 Consensus size: 86
64070568 TTAATTGTAA
* * *
64070578 TTTTTTGAAAAATTTTAAGGGTCTTTTTGATGTATTTTGAAAGTTCAAAT-ATCCAATTAAGTGA
1 TTTTTTGAAAAAGTTTAAGGGTCTTTTTGATGCATTTTGAAAGTTCAAATGCT-CAATTAAGTGA
64070642 AAAAAAAAGAGCTTAGTTGCTT
65 AAAAAAAAGAGCTTAGTTGCTT
* * *
64070664 TTTTTTGAACAAGTTTAAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTGCTCAATTAAGTGTA
1 TTTTTTGAAAAAGTTTAAGGGTCTTTTTGATGCATTTTGAAAGTTCAAATGCTCAATTAAGTGAA
*
64070729 AAAAAGAGAG
66 AAAAAAAGAG
64070739 GAGGGGCTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
86 66 0.99
87 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (86 bp):
TTTTTTGAAAAAGTTTAAGGGTCTTTTTGATGCATTTTGAAAGTTCAAATGCTCAATTAAGTGAA
AAAAAAAGAGCTTAGTTGCTT
Found at i:64074821 original size:46 final size:45
Alignment explanation
Indices: 64074608--64074824 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 45
64074598 TGTGTGAGCT
* * * * *
64074608 AGTGTAAGACATGCCTGGGGCATGCATCGGCCACATTATGA-G-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-TATGA-GACGTAGTC
64074654 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGACG-AGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-TGAGACGTAGT-C
* *
64074701 TAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGACGT-AGTC
* *
64074748 AGTGTAAGAAATGTCTGGGACATGCATCGGCTATGAGATGTA-TC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGACGTAGTC
* *
64074792 AGTTTAAGACCATGTCTGGGATATAGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
64074825 ACAGAAATGC
Statistics
Matches: 145, Mismatches: 13, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
44 9 0.06
45 18 0.12
46 70 0.48
47 30 0.21
48 18 0.12
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGACGTAGTC
Found at i:64081693 original size:28 final size:28
Alignment explanation
Indices: 64081630--64081752 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
64081620 ATATTAAGTC
*
64081630 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
64081657 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
64081685 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
64081713 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
64081742 CGCACACTTAG
1 CGCACACTTAG
64081753 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:64085588 original size:46 final size:46
Alignment explanation
Indices: 64085456--64085626 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
64085446 ACTAGTCGCT
* * * * *
64085456 AGTGTAGGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGAGCC
* ** * * *
64085502 AGTGTAAGACCATGTCTAGGACATGGCATCGGTATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGAGCC
*
64085550 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGAGCC
*
64085596 AGTGTAAGAGATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
64085627 TATGAGATGT
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 53 0.52
47 26 0.26
48 21 0.21
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGCC
Found at i:64090094 original size:39 final size:39
Alignment explanation
Indices: 64090040--64090164 Score: 196
Period size: 39 Copynumber: 3.2 Consensus size: 39
64090030 GAAATGTGTA
64090040 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
*
64090079 TGGAAATATATCCGGGCTAAAGACCTGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
* * * *
64090118 TGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
*
64090157 TGGTAATA
1 TGGAAATA
64090165 AAATTTCGGG
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
Found at i:64091829 original size:47 final size:47
Alignment explanation
Indices: 64091751--64092444 Score: 1118
Period size: 47 Copynumber: 14.6 Consensus size: 47
64091741 CCCTTCGGGA
* * * * * *
64091751 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64091798 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64091845 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64091892 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64091939 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64091988 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64092037 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64092086 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64092133 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64092180 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64092227 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
64092276 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64092325 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64092372 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64092419 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
64092445 CACAATTATC
Statistics
Matches: 611, Mismatches: 32, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
47 376 0.62
49 235 0.38
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:64092234 original size:239 final size:239
Alignment explanation
Indices: 64091751--64092444 Score: 1189
Period size: 239 Copynumber: 2.9 Consensus size: 239
64091741 CCCTTCGGGA
* * * * * * *
64091751 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* * *
64091812 ACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
* *
64091877 CATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGCCTT
131 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
64091942 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64091988 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
64092053 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
* *
64092118 CATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
131 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
64092183 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64092227 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
64092292 ACACTTTCACATTCATCACATTGGTCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
64092357 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
131 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
64092422 ATCACATATATATACATTCACAT
196 ATCACATATATACACTTTCACAT
64092445 CACAATTATC
Statistics
Matches: 434, Mismatches: 19, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
237 10 0.02
238 1 0.00
239 289 0.67
241 134 0.31
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (239 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:64092278 original size:288 final size:288
Alignment explanation
Indices: 64091751--64092444 Score: 1234
Period size: 288 Copynumber: 2.4 Consensus size: 288
64091741 CCCTTCGGGA
* * * * *
64091751 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
64091814 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
64091879 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTAT
131 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTAT
64091944 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
196 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
64092009 TTCACATTCATCACATCGGCCATTAGGC
261 TTCACATTCATCACATCGGCCATTAGGC
64092037 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
64092102 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
*
64092167 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTAT
64092232 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
196 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
* * *
64092297 TTCACATTCATCACATTGGTCATTCGGC
261 TTCACATTCATCACATCGGCCATTAGGC
* *
64092325 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
64092388 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACAT
64092445 CACAATTATC
Statistics
Matches: 392, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
286 117 0.30
287 1 0.00
288 274 0.70
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (288 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTAT
CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
TTCACATTCATCACATCGGCCATTAGGC
Found at i:64101173 original size:46 final size:45
Alignment explanation
Indices: 64101065--64101239 Score: 149
Period size: 44 Copynumber: 3.9 Consensus size: 45
64101055 GCTATACACC
* ** * * *
64101065 TAAAA-TGAGTAAGACAATAACTGAAATATGCTATGACTTCA-GAA
1 TAAAAGTGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATG-A
* * * * *
64101109 TAAAA-TAAGTAAGACCATAGTTGGAAGATGCTATAGCATTATGG
1 TAAAAGTGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATGA
* **
64101153 TAAAAGATGAGTAAGACCATAGTTAAAAGACACTATGGCATCATGA
1 TAAAAG-TGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATGA
** * *
64101199 TGGAAGTGAGTAAGACCATGGCTGAAAGATGCTATGGCATC
1 TAAAAGTGAGTAAGACCATAGTTGAAAGATGCTATGGCATC
64101240 CTTCGAAAGT
Statistics
Matches: 102, Mismatches: 26, Indels: 5
0.77 0.20 0.04
Matches are distributed among these distances:
44 36 0.35
45 31 0.30
46 35 0.34
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (45 bp):
TAAAAGTGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATGA
Found at i:64104557 original size:27 final size:27
Alignment explanation
Indices: 64104519--64104571 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
64104509 TGGTAAGGAG
* *
64104519 GTTCGCTAGTGTGTTTAGTGAGCTAGT
1 GTTCACTAGTGTGTTTAGTGAACTAGT
*
64104546 GTTCACTAGTGTGTTTGGTGAACTAG
1 GTTCACTAGTGTGTTTAGTGAACTAG
64104572 GGGTTCGCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.17, C:0.11, G:0.32, T:0.40
Consensus pattern (27 bp):
GTTCACTAGTGTGTTTAGTGAACTAGT
Found at i:64128396 original size:46 final size:45
Alignment explanation
Indices: 64128288--64128462 Score: 149
Period size: 44 Copynumber: 3.9 Consensus size: 45
64128278 GCTATACACC
* ** * * *
64128288 TAAAA-TGAGTAAGACAATAACTGAAATATGCTATGACTTCA-GAA
1 TAAAAGTGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATG-A
* * * * *
64128332 TAAAA-TAAGTAAGACCATAGTTGGAAGATGCTATAGCATTATGG
1 TAAAAGTGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATGA
* **
64128376 TAAAAGATGAGTAAGACCATAGTTAAAAGACACTATGGCATCATGA
1 TAAAAG-TGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATGA
** * *
64128422 TGGAAGTGAGTAAGACCATGGCTGAAAGATGCTATGGCATC
1 TAAAAGTGAGTAAGACCATAGTTGAAAGATGCTATGGCATC
64128463 CTTCGAAAGT
Statistics
Matches: 102, Mismatches: 26, Indels: 5
0.77 0.20 0.04
Matches are distributed among these distances:
44 36 0.35
45 31 0.30
46 35 0.34
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (45 bp):
TAAAAGTGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATGA
Found at i:64131762 original size:25 final size:27
Alignment explanation
Indices: 64131734--64131789 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
64131724 ACAAAAGATG
* *
64131734 TGGTAAG-GAG-GTTCGCTAGTGTGTT
1 TGGTAAGCGAGTGTTCACTAGTGAGTT
* *
64131759 TGGTGAGCTAGTGTTCACTAGTGAGTT
1 TGGTAAGCGAGTGTTCACTAGTGAGTT
64131786 TGGT
1 TGGT
64131790 GTACTAGGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 6 0.24
26 2 0.08
27 17 0.68
ACGTcount: A:0.16, C:0.09, G:0.38, T:0.38
Consensus pattern (27 bp):
TGGTAAGCGAGTGTTCACTAGTGAGTT
Found at i:64131774 original size:27 final size:28
Alignment explanation
Indices: 64131743--64131808 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
64131733 GTGGTAAGGA
*
64131743 GGTTCGCTAGTGTGTTTGGTG-AGCTA-G
1 GGTTCGCTAGTGAGTTTGGTGTA-CTAGG
* *
64131770 TGTTCACTAGTGAGTTTGGTGTACTAGG
1 GGTTCGCTAGTGAGTTTGGTGTACTAGG
64131798 GGTTCGCTAGT
1 GGTTCGCTAGT
64131809 CAAAGATTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (28 bp):
GGTTCGCTAGTGAGTTTGGTGTACTAGG
Found at i:64152385 original size:12 final size:12
Alignment explanation
Indices: 64152368--64152399 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
64152358 TTATTAAAAC
64152368 TACTTTTATTTT
1 TACTTTTATTTT
64152380 TACTTTTATTTT
1 TACTTTTATTTT
*
64152392 TATTTTTA
1 TACTTTTA
64152400 GCAGATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (12 bp):
TACTTTTATTTT
Found at i:64156236 original size:42 final size:42
Alignment explanation
Indices: 64156123--64156279 Score: 217
Period size: 42 Copynumber: 3.7 Consensus size: 42
64156113 AGTACCGTAC
* * * *
64156123 CAATGCCATATCCTAGATATGGTATTACA-TATAATCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGA-AGTCTCATAT
* *
64156165 CAATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATAT
* *
64156208 CGATGCCATATCCCAGATATGGTCTTACACGAAGTCTTATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATAT
64156250 CAATGCCATATCCCAGATATGGTCTTACAC
1 CAATGCCATATCCCAGATATGGTCTTACAC
64156280 ATAATCTCAG
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
42 68 0.67
43 33 0.32
44 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATAT
Found at i:64156250 original size:85 final size:84
Alignment explanation
Indices: 64156125--64156279 Score: 222
Period size: 85 Copynumber: 1.8 Consensus size: 84
64156115 TACCGTACCA
* * *
64156125 ATGCCATATCCTAGATATGGTATTACATATAATCTCATATCAATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTATTACAGATAATCTCATATCAATGCC-ATAGCCCAGATATGGTC
64156190 TTACACGAAGTCTCATATCG
65 TTACACGAAGTCTCATATCG
* * * *
64156210 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTTATATCAATGCCATATCCCAGATATGGTC
1 ATGCCATATCCCAGATATGGTATTACA-GATAATCTCATATCAATGCCATAGCCCAGATATGGTC
64156274 TTACAC
65 TTACAC
64156280 ATAATCTCAG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 21 0.34
85 40 0.65
86 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTATTACAGATAATCTCATATCAATGCCATAGCCCAGATATGGTCT
TACACGAAGTCTCATATCG
Found at i:64163267 original size:25 final size:25
Alignment explanation
Indices: 64163239--64163289 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
64163229 TGTGTTTTAA
64163239 TGATTTATGAAGAAACATGAGAGTT
1 TGATTTATGAAGAAACATGAGAGTT
* *
64163264 TGATTTATGAAGGAATATGAGAGTT
1 TGATTTATGAAGAAACATGAGAGTT
64163289 T
1 T
64163290 AAAGGATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.35
Consensus pattern (25 bp):
TGATTTATGAAGAAACATGAGAGTT
Found at i:64174554 original size:23 final size:22
Alignment explanation
Indices: 64174503--64174554 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
64174493 AAAATTGAAA
64174503 TGAAAAAAAAAATAAAAATCAAAA
1 TGAAAAAAAAAAT-AAAAT-AAAA
64174527 -GAAAAACAAAAATAAAATAAAA
1 TGAAAAA-AAAAATAAAATAAAA
64174549 T-AAAAA
1 TGAAAAA
64174555 TAGGAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 9 0.35
23 11 0.42
24 6 0.23
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.12
Consensus pattern (22 bp):
TGAAAAAAAAAATAAAATAAAA
Found at i:64174555 original size:6 final size:6
Alignment explanation
Indices: 64174500--64174556 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
64174490 AATAAAATTG
* * *
64174500 AAATGAA AAA-AA AAATAA AAATCA AAAGAA AAACAA AAAT-A AAAT-A
1 AAAT-AA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
64174546 AAATAA AAATA
1 AAATAA AAATA
64174557 GGAATAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
5 15 0.35
6 25 0.58
7 3 0.07
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.12
Consensus pattern (6 bp):
AAATAA
Found at i:64184910 original size:49 final size:49
Alignment explanation
Indices: 64184838--64185169 Score: 416
Period size: 49 Copynumber: 6.7 Consensus size: 49
64184828 CTGGTACATA
* * *
64184838 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
**
64184887 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGATACACG
* * * ** *
64184937 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGATACACG
* * * *
64184988 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
* *
64185037 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCATGTATGCA--
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATC-TG-ATACACG
* *
64185088 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
64185137 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
64185170 TCACAATAGC
Statistics
Matches: 243, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
47 3 0.01
48 2 0.01
49 107 0.44
50 55 0.23
51 72 0.30
52 1 0.00
53 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
Done.