Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 150 of 221
Found at i:45534255 original size:113 final size:113
Alignment explanation
Indices: 45534124--45534328 Score: 313
Period size: 113 Copynumber: 1.8 Consensus size: 113
45534114 AAAATGACCA
* * *
45534124 TTAGCGGTGTTTTTCAAAAAGCACCACAAAAAACTTAAGCACAACGACGTCG-TTTTCTGAGTTT
1 TTAGCGGCGTTTTCCAAAAAGCACCACAAAAAACCTAAGCACAACGACGTCGCTTTT-TGAGTTT
*
45534188 TTGGGGCTTTAGTGGCGTTTTTGAAAAACCGCCGCTAATGCCCAGGATT
65 TAGGGGCTTTAGTGGCGTTTTTGAAAAACCGCCGCTAATGCCCAGGATT
* * * *
45534237 TTAGCGGCGTTTTCCAAAAAGCGCCGCAAAAAACCTAAGCCCAACGAGGTCGCTTTTTGAGTTTT
1 TTAGCGGCGTTTTCCAAAAAGCACCACAAAAAACCTAAGCACAACGACGTCGCTTTTTGAGTTTT
*
45534302 AGGGGCTTTAGTGGCGTTTTTTAAAAA
66 AGGGGCTTTAGTGGCGTTTTTGAAAAA
45534329 AGCGTCGTTA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
113 78 0.95
114 4 0.05
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (113 bp):
TTAGCGGCGTTTTCCAAAAAGCACCACAAAAAACCTAAGCACAACGACGTCGCTTTTTGAGTTTT
AGGGGCTTTAGTGGCGTTTTTGAAAAACCGCCGCTAATGCCCAGGATT
Found at i:45534427 original size:16 final size:16
Alignment explanation
Indices: 45534406--45534452 Score: 76
Period size: 16 Copynumber: 2.8 Consensus size: 16
45534396 GCGGTATTTA
45534406 TTATTATTTAATTGGT
1 TTATTATTTAATTGGT
45534422 TTATTATTTAATTGGT
1 TTATTATTTAATTGGT
45534438 TTATTTATATTAATT
1 TTA-TTAT-TTAATT
45534453 AAAATTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 19 0.66
17 4 0.14
18 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (16 bp):
TTATTATTTAATTGGT
Found at i:45534639 original size:7 final size:7
Alignment explanation
Indices: 45534629--45534882 Score: 54
Period size: 7 Copynumber: 35.7 Consensus size: 7
45534619 TATTATTATT
45534629 GTTTAGG
1 GTTTAGG
45534636 GTTTAGG
1 GTTTAGG
* *
45534643 GTTAAGA
1 GTTTAGG
* *
45534650 GTATATG
1 GTTTAGG
45534657 GTTTAGG
1 GTTTAGG
**
45534664 GTTTAAA
1 GTTTAGG
45534671 GTTTAGG
1 GTTTAGG
45534678 AGTTACTA--
1 -GTT--TAGG
* *
45534686 TTTTAAG
1 GTTTAGG
**
45534693 GTTTATA
1 GTTTAGG
* *
45534700 GATTATG
1 GTTTAGG
**
45534707 GTTTATA
1 GTTTAGG
*
45534714 GTTTATGC
1 GTTTA-GG
*
45534722 GTTTAAG
1 GTTTAGG
45534729 GTTTAAGG
1 GTTT-AGG
*
45534737 G-TTACG
1 GTTTAGG
*
45534743 GTTTATG
1 GTTTAGG
45534750 GTTTAAGG
1 GTTT-AGG
45534758 GTTATA--
1 GTT-TAGG
* *
45534764 GATTAAG
1 GTTTAGG
45534771 GTTTAGG
1 GTTTAGG
*
45534778 GGTTAGG
1 GTTTAGG
*
45534785 GGTTAGG
1 GTTTAGG
*
45534792 AGTTGAGG
1 -GTTTAGG
* *
45534800 GTTAAGA
1 GTTTAGG
*
45534807 GTTAAGG
1 GTTTAGG
*
45534814 G-TTATG
1 GTTTAGG
*
45534820 GTTTATG
1 GTTTAGG
*
45534827 GTTTATG
1 GTTTAGG
45534834 GTTTAAGG
1 GTTT-AGG
*
45534842 G-TTGGG
1 GTTTAGG
**
45534848 GTTTAAT
1 GTTTAGG
45534855 GTTTAGGG
1 GTTTA-GG
*
45534863 GGTTAGGG
1 GTTTA-GG
*
45534871 GTTTAAG
1 GTTTAGG
45534878 GTTTA
1 GTTTA
45534883 TGTTTTATGA
Statistics
Matches: 181, Mismatches: 49, Indels: 34
0.69 0.19 0.13
Matches are distributed among these distances:
5 4 0.02
6 12 0.07
7 126 0.70
8 36 0.20
9 1 0.01
10 2 0.01
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:45534752 original size:21 final size:21
Alignment explanation
Indices: 45534722--45534882 Score: 92
Period size: 21 Copynumber: 7.6 Consensus size: 21
45534712 TAGTTTATGC
45534722 GTTTAAGGTTTAAGGGTTACG
1 GTTTAAGGTTTAAGGGTTACG
* **
45534743 GTTTATGGTTTAAGGGTTATA
1 GTTTAAGGTTTAAGGGTTACG
* * *
45534764 GATTAAGGTTTAGGGGTTAGG
1 GTTTAAGGTTTAAGGGTTACG
* * * *
45534785 GGTT-AGGAGTTGAGGGTTAAG
1 GTTTAAGG-TTTAAGGGTTACG
* * * *
45534806 AG-TTAAGGGTTATGGTTTATG
1 -GTTTAAGGTTTAAGGGTTACG
* **
45534827 GTTTATGGTTTAAGGGTTGGG
1 GTTTAAGGTTTAAGGGTTACG
* * *
45534848 GTTTAATGTTTAGGGGGTTAGGG
1 GTTTAAGGTTTA-AGGGTTA-CG
45534871 GTTTAAGGTTTA
1 GTTTAAGGTTTA
45534883 TGTTTTATGA
Statistics
Matches: 106, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
20 4 0.04
21 80 0.75
22 9 0.08
23 13 0.12
ACGTcount: A:0.22, C:0.01, G:0.38, T:0.40
Consensus pattern (21 bp):
GTTTAAGGTTTAAGGGTTACG
Found at i:45534762 original size:14 final size:14
Alignment explanation
Indices: 45534702--45534844 Score: 76
Period size: 14 Copynumber: 10.1 Consensus size: 14
45534692 GGTTTATAGA
*
45534702 TTATGGTTTATA-GT
1 TTATGGTTTA-AGGG
*
45534716 TTATGCGTTTAAGGT
1 TTATG-GTTTAAGGG
* * * *
45534731 TTAAGGGTTACGGT
1 TTATGGTTTAAGGG
45534745 TTATGGTTTAAGGG
1 TTATGGTTTAAGGG
* * *
45534759 TTATAGATTAAGGT
1 TTATGGTTTAAGGG
* * *
45534773 TTAGGGGTTAGGGG
1 TTATGGTTTAAGGG
* *
45534787 TTA-GGAGTTGAGGG
1 TTATGG-TTTAAGGG
*
45534801 TTAAGAG-TTAAGGG
1 TTATG-GTTTAAGGG
* *
45534815 TTATGGTTTATGGT
1 TTATGGTTTAAGGG
45534829 TTATGGTTTAAGGG
1 TTATGGTTTAAGGG
45534843 TT
1 TT
45534845 GGGGTTTAAT
Statistics
Matches: 100, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
13 3 0.03
14 84 0.84
15 12 0.12
16 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAAGGG
Found at i:45534872 original size:23 final size:22
Alignment explanation
Indices: 45534826--45534882 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
45534816 TATGGTTTAT
* *
45534826 GGTTTATGGTTTA-AGGGTTGG
1 GGTTTAAGGTTTAGGGGGTTGG
*
45534847 GGTTTAATGTTTAGGGGGTTAGG
1 GGTTTAAGGTTTAGGGGGTT-GG
45534870 GGTTTAAGGTTTA
1 GGTTTAAGGTTTA
45534883 TGTTTTATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 11 0.37
22 5 0.17
23 14 0.47
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.42
Consensus pattern (22 bp):
GGTTTAAGGTTTAGGGGGTTGG
Found at i:45535945 original size:6 final size:6
Alignment explanation
Indices: 45535928--45535977 Score: 82
Period size: 6 Copynumber: 8.2 Consensus size: 6
45535918 TACCTTCTTC
*
45535928 TCCCCTT TCCCCT TCCCCT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT
45535977 T
1 T
45535978 GGGTTGCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 36 0.88
7 5 0.12
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TCCCCT
Found at i:45536065 original size:25 final size:25
Alignment explanation
Indices: 45536037--45536086 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
45536027 CAGGTAAGGC
45536037 TCCTTCTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
* *
45536062 TCCTTTTTCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
45536087 CTTCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.36, G:0.04, T:0.56
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTCTTCAT
Found at i:45538932 original size:21 final size:21
Alignment explanation
Indices: 45538908--45538957 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
45538898 CACCGCTGTT
*
45538908 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
45538929 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
45538950 ACTAATCT
1 TCTAATCT
45538958 TACCACCACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:45542817 original size:72 final size:73
Alignment explanation
Indices: 45542696--45542836 Score: 230
Period size: 72 Copynumber: 1.9 Consensus size: 73
45542686 TAAAATAAAA
* * *
45542696 TATTTGATTAAAATAATTTTTTTAAAGGTTATGTTTTTAGTGGCGTTTTTGTGAGAAGCGCCGCT
1 TATTTGATTAAAATAATTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGCCACT
45542761 AAAGATAT
66 AAAGATAT
* *
45542769 TATTTGATTAAAATAA-TTTTTTAAAGGTTATGTTTTTAGCGGCTTTTTTGCGAGGAGCGCCACT
1 TATTTGATTAAAATAATTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGCCACT
45542833 AAAG
66 AAAG
45542837 GTTTGTTCTT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 47 0.75
73 16 0.25
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (73 bp):
TATTTGATTAAAATAATTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGCCACT
AAAGATAT
Found at i:45542899 original size:43 final size:42
Alignment explanation
Indices: 45542824--45542921 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
45542814 TTTTGCGAGG
* * * *
45542824 AGCGCCACTAAAGGTTTGTTCTTTAGCGGCGTTTGT-GATAAA
1 AGCGCCGCTAAAGGTGTGGTCTTTAGCGGCGTTTGTCG-GAAA
45542866 AGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTCGGAAA
1 AGCGCCGCTAAAGGT-GTGGTCTTTAGCGGCGTTTGTCGGAAA
*
45542909 AGTGCCGCTAAAG
1 AGCGCCGCTAAAG
45542922 TTAGCGACGC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 14 0.29
43 34 0.69
44 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (42 bp):
AGCGCCGCTAAAGGTGTGGTCTTTAGCGGCGTTTGTCGGAAA
Found at i:45547276 original size:3 final size:3
Alignment explanation
Indices: 45547268--45547296 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
45547258 ATCACATGTT
45547268 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
45547297 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:45547416 original size:73 final size:73
Alignment explanation
Indices: 45547297--45547482 Score: 345
Period size: 73 Copynumber: 2.5 Consensus size: 73
45547287 TATTATTATT
* *
45547297 TGGATGTAATGATGTAACTTAGTTGTATTCCAACAAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
45547362 ATTTTAAG
66 ATTTTAAG
*
45547370 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTGGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
45547435 ATTTTAAG
66 ATTTTAAG
45547443 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
45547483 GTCAAGTTGT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 110 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.40
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:45551799 original size:73 final size:73
Alignment explanation
Indices: 45551717--45551902 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
45551707 TATTATTATT
* *
45551717 TGGATGTAATGATGTAACTTAGTTGTATTCCAACAAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
45551782 ATTTTAAG
66 ATTTTAAG
45551790 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
45551855 ATTTTAAG
66 ATTTTAAG
45551863 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
45551903 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.40
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:45566449 original size:31 final size:29
Alignment explanation
Indices: 45566413--45566486 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
45566403 ACTACAAAAA
* *
45566413 TAGTCACTTTTGTTTGACTTAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
* *
45566444 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
45566473 TAGTCACTTATGTT
1 TAGTCACTTATGTT
45566487 ATTATTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 23 0.59
31 16 0.41
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:45568484 original size:19 final size:19
Alignment explanation
Indices: 45568460--45568497 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
45568450 CTATAGTGCA
*
45568460 TTTCTCCAATACATGAGCC
1 TTTCTCCAACACATGAGCC
45568479 TTTCTCCAACACATGAGCC
1 TTTCTCCAACACATGAGCC
45568498 ACATGTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.29
Consensus pattern (19 bp):
TTTCTCCAACACATGAGCC
Found at i:45573615 original size:50 final size:50
Alignment explanation
Indices: 45573554--45573751 Score: 279
Period size: 50 Copynumber: 3.8 Consensus size: 50
45573544 CATCATAACA
* **
45573554 TGCCAAAGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
45573604 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
45573654 TGCCAACGCCATGTCCCAGACATGGCCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* *
45573709 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
45573752 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
50 87 0.65
53 5 0.04
55 2 0.02
56 39 0.29
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:45581064 original size:100 final size:100
Alignment explanation
Indices: 45580891--45581092 Score: 404
Period size: 100 Copynumber: 2.0 Consensus size: 100
45580881 TATAGATCCT
45580891 TGACAATCTAGCTTAAGGAAAGCTAGATTGCTCAGATGACTTCCCTAAAGGGAAGGCGCAGGAAA
1 TGACAATCTAGCTTAAGGAAAGCTAGATTGCTCAGATGACTTCCCTAAAGGGAAGGCGCAGGAAA
45580956 GCCTAGCACTGACTTTGTGTCTAGTTTAATCAGGC
66 GCCTAGCACTGACTTTGTGTCTAGTTTAATCAGGC
45580991 TGACAATCTAGCTTAAGGAAAGCTAGATTGCTCAGATGACTTCCCTAAAGGGAAGGCGCAGGAAA
1 TGACAATCTAGCTTAAGGAAAGCTAGATTGCTCAGATGACTTCCCTAAAGGGAAGGCGCAGGAAA
45581056 GCCTAGCACTGACTTTGTGTCTAGTTTAATCAGGC
66 GCCTAGCACTGACTTTGTGTCTAGTTTAATCAGGC
45581091 TG
1 TG
45581093 GTAGAACAGA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (100 bp):
TGACAATCTAGCTTAAGGAAAGCTAGATTGCTCAGATGACTTCCCTAAAGGGAAGGCGCAGGAAA
GCCTAGCACTGACTTTGTGTCTAGTTTAATCAGGC
Found at i:45582940 original size:102 final size:102
Alignment explanation
Indices: 45582764--45582968 Score: 401
Period size: 102 Copynumber: 2.0 Consensus size: 102
45582754 ATTTAGCCTC
*
45582764 ACTGATATATGATCCAACCCAGAAAATGGACATGAAGCTGGACTAGCACAGTGTGCACACTTAGA
1 ACTGATATATGATCCAACCCAGAAAATGGACATGAAGCTGGACTAGCACAGTGTGCACACTTAAA
45582829 GAAAATCTAACACAATTTTCATAAGAAAAAAATGGGA
66 GAAAATCTAACACAATTTTCATAAGAAAAAAATGGGA
45582866 ACTGATATATGATCCAACCCAGAAAATGGACATGAAGCTGGACTAGCACAGTGTGCACACTTAAA
1 ACTGATATATGATCCAACCCAGAAAATGGACATGAAGCTGGACTAGCACAGTGTGCACACTTAAA
45582931 GAAAATCTAACACAATTTTCATAAGAAAAAAATGGGA
66 GAAAATCTAACACAATTTTCATAAGAAAAAAATGGGA
45582968 A
1 A
45582969 GGACTTTCAA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (102 bp):
ACTGATATATGATCCAACCCAGAAAATGGACATGAAGCTGGACTAGCACAGTGTGCACACTTAAA
GAAAATCTAACACAATTTTCATAAGAAAAAAATGGGA
Found at i:45590260 original size:56 final size:51
Alignment explanation
Indices: 45590169--45590416 Score: 234
Period size: 50 Copynumber: 4.8 Consensus size: 51
45590159 ATTTGGGTAA
* *
45590169 AGAGATCCCATGTAAGATCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA--ATG
* * * *
45590225 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGCATTGACACTGAG-ACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAATG
* * **
45590275 AGAAGTCCTATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAATG
*** * *
45590325 AGAGGTCCCCCATAAGACTATGTCTGGGACATGGCATAGGCACC-A-ATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA-ATG
** * * *
45590375 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45590417 GTACAAGAAA
Statistics
Matches: 159, Mismatches: 31, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
49 1 0.01
50 114 0.72
53 3 0.02
55 1 0.01
56 40 0.25
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAATG
Found at i:45590357 original size:100 final size:103
Alignment explanation
Indices: 45590174--45590416 Score: 269
Period size: 100 Copynumber: 2.4 Consensus size: 103
45590164 GGTAAAGAGA
* **
45590174 TCCCATGTAAGATCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCCACATA
* ** *
45590239 AGATCATGTCTGGGACATGGCATTGACACTGAGACGAGAAG
63 AGATCATGTCTGGGACATGGCATAGACACCAAGACGAGAAC
* ** *
45590280 TCCTATGTAAGACCATGTCTGGGACATGGTGTTGGCA-CC-GAG-ATGAGAGGTCCCCCATAAGA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACATAAGA
* * *
45590342 -CTATGTCTGGGACATGGCATAGGCACCAATATGAGAAC
66 TC-ATGTCTGGGACATGGCATAGACACCAAGACGAGAAC
* * *
45590380 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45590417 GTACAAGAAA
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
99 1 0.01
100 77 0.66
103 3 0.03
105 2 0.02
106 33 0.28
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (103 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACATAAGA
TCATGTCTGGGACATGGCATAGACACCAAGACGAGAAC
Found at i:45590413 original size:150 final size:153
Alignment explanation
Indices: 45590188--45590465 Score: 341
Period size: 150 Copynumber: 1.8 Consensus size: 153
45590178 ATGTAAGATC
* ** * *
45590188 ATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCCATGTAAGATCATGTCTGGG
1 ATGTCTGGGACATGGCATAGGCATCC-T-AGATCATGAGAACTCCCATGTAAGACCATATCTGGG
* * * * * *
45590253 ACATGGCATTGACACTGAGACGAGA-AGTCCTATGTAAGACCATGTCTGGGACATGGTGTTGGCA
64 ACATGACATTGACACT-ACAAGAAACAGTCC-ATGTAAAACCATGCCTGGGACATGGTGTTGGCA
45590317 CCGAGATGAGAGGTCCCCCATAAGACT
127 CCGAGATGAGAGGTCCCCCATAAGACT
*
45590344 ATGTCTGGGACATGGCATAGGCA-CC-A-AT-ATGAGAACTCCCATGTAAGACCATATCTGGGAT
1 ATGTCTGGGACATGGCATAGGCATCCTAGATCATGAGAACTCCCATGTAAGACCATATCTGGGAC
* * * *
45590405 ATGACATTGGCAGTACAAGAAACATTCCATGTAAAACCATGCCTGGGACATGGTTTTGGCA
66 ATGACATTGACACTACAAGAAACAGTCCATGTAAAACCATGCCTGGGACATGGTGTTGGCA
45590466 TGTTATTATC
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
149 35 0.33
150 43 0.41
151 2 0.02
152 1 0.01
155 2 0.02
156 22 0.21
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (153 bp):
ATGTCTGGGACATGGCATAGGCATCCTAGATCATGAGAACTCCCATGTAAGACCATATCTGGGAC
ATGACATTGACACTACAAGAAACAGTCCATGTAAAACCATGCCTGGGACATGGTGTTGGCACCGA
GATGAGAGGTCCCCCATAAGACT
Found at i:45593126 original size:24 final size:22
Alignment explanation
Indices: 45593080--45593126 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
45593070 TAAATTCGGT
*
45593080 AGCAGCTTCTTTAATGCATTCC
1 AGCAGCTTCTTTAATGCAGTCC
*
45593102 AGCATGCTTCCTTTAATGCCGTCC
1 AGCA-GCTT-CTTTAATGCAGTCC
45593126 A
1 A
45593127 AGGGAATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 4 0.19
24 13 0.62
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (22 bp):
AGCAGCTTCTTTAATGCAGTCC
Found at i:45595981 original size:20 final size:20
Alignment explanation
Indices: 45595956--45595994 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
45595946 AATGTATTTG
45595956 TTTGCACTTCAGTGCCTCTA
1 TTTGCACTTCAGTGCCTCTA
*
45595976 TTTGCACTTCGGTGCCTCT
1 TTTGCACTTCAGTGCCTCT
45595995 GTATGAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.31, G:0.18, T:0.41
Consensus pattern (20 bp):
TTTGCACTTCAGTGCCTCTA
Found at i:45600212 original size:6 final size:6
Alignment explanation
Indices: 45600201--45600244 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
45600191 TAGGCAATAA
* * *
45600201 GAAATG GAAATG GAATTG GAATTG GAATTG GAAATG GAAATG GA
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GA
45600245 GAAGTTTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.34, T:0.23
Consensus pattern (6 bp):
GAAATG
Found at i:45601610 original size:3 final size:3
Alignment explanation
Indices: 45601602--45601632 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
45601592 TTTTATAGTC
*
45601602 TCT TCT TCT TCT TCA TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
45601633 TGTTATTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:45602336 original size:30 final size:29
Alignment explanation
Indices: 45602300--45602363 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
45602290 AAAAGGCCGT
45602300 TTTTTTTCAA-AATTTACCGAAATGGGCCAA
1 TTTTTTT-AATAATTTACCGAAATGGGCC-A
* *
45602330 TTTTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTTTAATAATTTACCGAAATGGGCCA
45602359 TTTTT
1 TTTTT
45602364 CGCGAAATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (29 bp):
TTTTTTTAATAATTTACCGAAATGGGCCA
Found at i:45603223 original size:40 final size:41
Alignment explanation
Indices: 45603179--45603268 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
45603169 TCCTAGAGGG
*
45603179 CGCGATTTCCTTCCACGT-CAGCT-A-ATCGCGCTGACGTGGA
1 CGCGATTTCC-TCCACGTAC-CCTGACATCGCGCTGACGTGGA
* *
45603219 CGCGATTTCCTGCGCGTACCCTGACATCGCGCTGACGTGGA
1 CGCGATTTCCTCCACGTACCCTGACATCGCGCTGACGTGGA
*
45603260 TGCGATTTC
1 CGCGATTTC
45603269 GCGGAAAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
39 7 0.16
40 12 0.28
41 24 0.56
ACGTcount: A:0.16, C:0.32, G:0.27, T:0.26
Consensus pattern (41 bp):
CGCGATTTCCTCCACGTACCCTGACATCGCGCTGACGTGGA
Found at i:45614329 original size:28 final size:27
Alignment explanation
Indices: 45614279--45614331 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
45614269 TAGGTTTATT
* * *
45614279 AAAATTAAAAATTTTAAATTTAAATTC
1 AAAAATAAAAATTTAAAAATTAAATTC
45614306 AAAAATAAAAATATTAAAAATTAAAT
1 AAAAATAAAAAT-TTAAAAATTAAAT
45614332 ATTTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAAATAAAAATTTAAAAATTAAATTC
Found at i:45628432 original size:16 final size:15
Alignment explanation
Indices: 45628411--45628444 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
45628401 AAAGTTGATA
45628411 ATAATTAATATATATT
1 ATAATTAATATA-ATT
45628427 ATAATTAATATAATT
1 ATAATTAATATAATT
45628442 ATA
1 ATA
45628445 TACTAGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:45644107 original size:52 final size:46
Alignment explanation
Indices: 45644088--45644290 Score: 280
Period size: 46 Copynumber: 4.3 Consensus size: 46
45644078 TGACAAGTGG
* *
45644088 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
45644134 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
45644180 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
** **
45644232 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
45644278 AAAGTGATAAGTG
1 AAAGTGATAAGTG
45644291 GCTACACTTA
Statistics
Matches: 143, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
46 99 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
Found at i:45644142 original size:98 final size:98
Alignment explanation
Indices: 45644022--45644273 Score: 450
Period size: 98 Copynumber: 2.6 Consensus size: 98
45644012 TTTGAGTACT
*
45644022 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
45644087 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
45644120 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
45644185 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
45644218 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
45644274 AAACAAAGTG
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 146 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:45644298 original size:37 final size:37
Alignment explanation
Indices: 45644254--45644436 Score: 325
Period size: 37 Copynumber: 5.0 Consensus size: 37
45644244 GATAGCTTTA
45644254 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
45644291 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
45644328 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
45644365 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
45644402 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
45644437 ATCATACGTA
Statistics
Matches: 142, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 127 0.89
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:45645925 original size:17 final size:17
Alignment explanation
Indices: 45645903--45645976 Score: 68
Period size: 17 Copynumber: 4.5 Consensus size: 17
45645893 TATCAAGATA
*
45645903 AATATTAGATTAAATTT
1 AATATTAAATTAAATTT
**
45645920 AATATTAAATT-AATAA
1 AATATTAAATTAAATTT
45645936 AATATT--ATTAAGA--T
1 AATATTAAATTAA-ATTT
45645950 AAGTATTAAATTAAATTT
1 AA-TATTAAATTAAATTT
45645968 AATATTAAA
1 AATATTAAA
45645977 CTATTAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
14 5 0.11
15 5 0.11
16 11 0.24
17 22 0.48
18 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:45645934 original size:11 final size:11
Alignment explanation
Indices: 45645911--45645993 Score: 50
Period size: 12 Copynumber: 7.4 Consensus size: 11
45645901 TAAATATTAG
45645911 ATTAAATTTAAT
1 ATTAAA-TTAAT
45645923 ATTAAATTAAT
1 ATTAAATTAAT
*
45645934 A--AAA-TATT
1 ATTAAATTAAT
45645942 ATTAAGA-TAAGT
1 ATTAA-ATTAA-T
45645954 ATTAAATTAA-
1 ATTAAATTAAT
45645964 ATTTAATATTAAACT
1 A-TTAA-ATT-AA-T
*
45645979 ATTAAAATAAT
1 ATTAAATTAAT
45645990 ATTA
1 ATTA
45645994 TTTTTTGAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 21
0.71 0.04 0.26
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 3 0.05
11 19 0.33
12 20 0.34
13 4 0.07
14 4 0.07
15 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (11 bp):
ATTAAATTAAT
Found at i:45645949 original size:48 final size:48
Alignment explanation
Indices: 45645872--45645993 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
45645862 TAATCACTTA
** * *
45645872 AATATTAAATTTAATTTAAT-TTATCAAGATAAATATTAGATTAAATTT
1 AATATTAAA-TTAATAAAATATTATTAAGATAAATATTAAATTAAATTT
*
45645920 AATATTAAATTAATAAAATATTATTAAGATAAGTATTAAATTAAATTT
1 AATATTAAATTAATAAAATATTATTAAGATAAATATTAAATTAAATTT
* * *
45645968 AATATTAAACTATTAAAATAATATTA
1 AATATTAAATTAATAAAATATTATTA
45645994 TTTTTTGAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
47 8 0.12
48 57 0.88
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (48 bp):
AATATTAAATTAATAAAATATTATTAAGATAAATATTAAATTAAATTT
Found at i:45649694 original size:19 final size:21
Alignment explanation
Indices: 45649672--45649713 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
45649662 ATAGTTAAAA
45649672 TTAATTAATTA-AC-TTAATC
1 TTAATTAATTATACATTAATC
45649691 TTAATTAATTATACATTAATC
1 TTAATTAATTATACATTAATC
45649712 TT
1 TT
45649714 CAAGTAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATTAATTATACATTAATC
Found at i:45654341 original size:29 final size:27
Alignment explanation
Indices: 45654283--45654353 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 27
45654273 AATAAAATTG
45654283 AAATATTAAATAATTTATTAAAATGATA
1 AAATA-TAAATAATTTATTAAAATGATA
* *
45654311 AATTATAGTAATAATTTATT-ATATGACTA
1 AAATATA--AATAATTTATTAAAATGA-TA
45654340 AAATATAAATAATT
1 AAATATAAATAATT
45654354 AAATATGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 9 0.24
28 9 0.24
29 19 0.51
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (27 bp):
AAATATAAATAATTTATTAAAATGATA
Found at i:45655096 original size:26 final size:27
Alignment explanation
Indices: 45655054--45655124 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
45655044 CTAGAATCTC
* *
45655054 AAACCCTAAACA-AAAAATAA-AAGCAT
1 AAACCCTAAA-ATCAAAATAATAACCAT
*
45655080 AAACCCTAAAATCAAAACAATAACCAT
1 AAACCCTAAAATCAAAATAATAACCAT
45655107 AAACCC-AAAATCATAAAT
1 AAACCCTAAAATCA-AAAT
45655125 CTAAAATCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 1 0.03
26 23 0.61
27 14 0.37
ACGTcount: A:0.62, C:0.23, G:0.01, T:0.14
Consensus pattern (27 bp):
AAACCCTAAAATCAAAATAATAACCAT
Found at i:45655253 original size:7 final size:7
Alignment explanation
Indices: 45655243--45655331 Score: 67
Period size: 7 Copynumber: 12.9 Consensus size: 7
45655233 AACCACGAAC
*
45655243 CCTTGAA
1 CCTTAAA
45655250 CCTTAAA
1 CCTTAAA
*
45655257 CCCT-AA
1 CCTTAAA
*
45655263 TCTTAAA
1 CCTTAAA
*
45655270 CCCTAAA
1 CCTTAAA
45655277 CC-TAAA
1 CCTTAAA
45655283 CCTTAAA
1 CCTTAAA
*
45655290 CC-AAAA
1 CCTTAAA
45655296 GCCTTAAA
1 -CCTTAAA
45655304 CCTTAAA
1 CCTTAAA
* *
45655311 TCTCAAAA
1 CCT-TAAA
45655319 CCTTAAA
1 CCTTAAA
*
45655326 TCTTAA
1 CCTTAA
45655332 TGTTTGGGGT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
6 13 0.20
7 43 0.67
8 8 0.12
ACGTcount: A:0.43, C:0.29, G:0.02, T:0.26
Consensus pattern (7 bp):
CCTTAAA
Found at i:45655282 original size:13 final size:13
Alignment explanation
Indices: 45655248--45655306 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
45655238 CGAACCCTTG
45655248 AACCTTAAACCCTA
1 AACC-TAAACCCTA
* *
45655262 ATCTTAAACCCTA
1 AACCTAAACCCTA
*
45655275 AACCTAAACCTTA
1 AACCTAAACCCTA
* *
45655288 AACCAAAAGCCTTA
1 AACCTAAA-CCCTA
45655302 AACCT
1 AACCT
45655307 TAAATCTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
13 26 0.70
14 11 0.30
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.22
Consensus pattern (13 bp):
AACCTAAACCCTA
Found at i:45664966 original size:37 final size:37
Alignment explanation
Indices: 45664907--45665008 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
45664897 AGCTCAGACG
* *
45664907 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
45664944 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
45664981 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
45665009 TAGAGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:45665205 original size:47 final size:47
Alignment explanation
Indices: 45665127--45665533 Score: 643
Period size: 47 Copynumber: 8.6 Consensus size: 47
45665117 CCCTTCGGGA
* * * * * *
45665127 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45665174 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45665221 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45665268 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45665315 CTTATCACATATATATACTTTCACATTCATCATATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45665362 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45665411 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45665458 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45665507 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
45665534 TATTCAAATA
Statistics
Matches: 335, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 245 0.73
49 90 0.27
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45665288 original size:94 final size:95
Alignment explanation
Indices: 45665127--45665533 Score: 647
Period size: 96 Copynumber: 4.3 Consensus size: 95
45665117 CCCTTCGGGA
* * * * * * * *
45665127 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
45665191 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
45665221 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
45665285 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
* * *
45665315 CTTATCACATATATATACTTTCACATTCATCATATCGGCCATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
* *
45665380 ACTTTCACATTCATCACATTGGCCATTCGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
45665411 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
*
45665476 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
45665507 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
45665534 TATTCAAATA
Statistics
Matches: 290, Mismatches: 21, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
94 136 0.47
96 154 0.53
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45669116 original size:40 final size:40
Alignment explanation
Indices: 45669090--45669435 Score: 566
Period size: 40 Copynumber: 8.7 Consensus size: 40
45669080 TGATTACTCT
* * * *
45669090 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* ** * * *
45669130 TTGGGGTTTAGCACAGATATATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* * *
45669170 TCGGAACTTAGCCCAGATACATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
45669210 TCGGGACTTAGCCCAGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
45669250 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
45669290 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
45669330 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
45669370 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
45669410 TCGGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
45669436 CTCAATTCTC
Statistics
Matches: 288, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 288 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:45670761 original size:37 final size:37
Alignment explanation
Indices: 45670702--45670803 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
45670692 AGCTCAGACG
* *
45670702 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
45670739 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
45670776 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
45670804 TAGAGCTCGA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:45670999 original size:47 final size:47
Alignment explanation
Indices: 45670921--45671423 Score: 792
Period size: 47 Copynumber: 10.6 Consensus size: 47
45670911 CCCTTCGGGA
* * * * * *
45670921 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45670968 CCTGTCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45671015 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45671062 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45671109 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45671156 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45671205 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45671252 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45671301 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45671348 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTC-TTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGC-CATTAGGC
45671397 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
45671424 TATTCAAATA
Statistics
Matches: 429, Mismatches: 20, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
47 293 0.68
49 135 0.31
50 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45671206 original size:96 final size:96
Alignment explanation
Indices: 45670921--45671423 Score: 818
Period size: 96 Copynumber: 5.3 Consensus size: 96
45670911 CCCTTCGGGA
* * * * * * * *
45670921 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
45670984 ACTTTCACATTCATCACATCGACCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
45671015 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
45671078 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
45671109 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
45671174 ACTTTCACATTCATCACATCGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
45671205 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
45671270 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
45671301 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
45671366 ACTTTCACATTCATCACATCGGCTC-TTAGGC
66 ACTTTCACATTCATCACATCGGC-CATTAGGC
45671397 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
45671424 TATTCAAATA
Statistics
Matches: 385, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
94 138 0.36
96 246 0.64
97 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45671228 original size:143 final size:141
Alignment explanation
Indices: 45670921--45671423 Score: 792
Period size: 143 Copynumber: 3.5 Consensus size: 141
45670911 CCCTTCGGGA
* * * * * * * *
45670921 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
45670986 TTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
45671051 GGCCATTAGGC
131 GGCCATTAGGC
*
45671062 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
45671127 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
45671192 TCGGCCATTCGGC
129 TCGGCCATTAGGC
* *
45671205 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
45671270 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
45671335 TCGGCCATTAGGC
129 TCGGCCATTAGGC
45671348 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTC-TTAGGCCTTATCACATATATA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGC-CATTAGGCCTTATCACATATATA
45671412 CACTTTCACATT
63 CACTTTCACATT
45671424 TATTCAAATA
Statistics
Matches: 334, Mismatches: 21, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
141 91 0.27
143 155 0.46
145 87 0.26
146 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:45674463 original size:18 final size:18
Alignment explanation
Indices: 45674442--45674478 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45674432 TTCATTTAGT
*
45674442 TTGAGAGCCCAACTTAAA
1 TTGAAAGCCCAACTTAAA
*
45674460 TTGAAAGCCCAATTTAAA
1 TTGAAAGCCCAACTTAAA
45674478 T
1 T
45674479 CAAAAGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (18 bp):
TTGAAAGCCCAACTTAAA
Found at i:45674484 original size:18 final size:18
Alignment explanation
Indices: 45674447--45674485 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
45674437 TTAGTTTGAG
**
45674447 AGCCCAACTTAAATTGAA
1 AGCCCAACTTAAATCAAA
*
45674465 AGCCCAATTTAAATCAAA
1 AGCCCAACTTAAATCAAA
45674483 AGC
1 AGC
45674486 AAACATGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.21
Consensus pattern (18 bp):
AGCCCAACTTAAATCAAA
Found at i:45675084 original size:23 final size:25
Alignment explanation
Indices: 45675038--45675084 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
45675028 GGGAATTTCT
*
45675038 TTTTCTTTAGTATTACTTTTAAGAC
1 TTTTATTTAGTATTACTTTTAAGAC
45675063 TTTTATTTA-TATTA-TTTTAAGA
1 TTTTATTTAGTATTACTTTTAAGA
45675085 ATATTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 5 0.24
25 8 0.38
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (25 bp):
TTTTATTTAGTATTACTTTTAAGAC
Found at i:45685050 original size:12 final size:13
Alignment explanation
Indices: 45685028--45685067 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
45685018 ATCAAAGATT
45685028 AGAATAATAAAGA
1 AGAATAATAAAGA
45685041 AGAA-AATAAAGA
1 AGAATAATAAAGA
*
45685053 A-AATAATAAGGA
1 AGAATAATAAAGA
45685065 AGA
1 AGA
45685068 TAGGTGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 2 0.08
12 17 0.71
13 5 0.21
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (13 bp):
AGAATAATAAAGA
Found at i:45685259 original size:27 final size:27
Alignment explanation
Indices: 45685219--45685273 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
45685209 GTTAAAACCT
45685219 AAAAGAAAACTC-AAGAAAATTTATTA
1 AAAAGAAAACTCAAAGAAAATTTATTA
*
45685245 AAAAGAACAACTCAAAGAGAATTTATTA
1 AAAAGAA-AACTCAAAGAAAATTTATTA
45685273 A
1 A
45685274 CTCAAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 7 0.27
27 5 0.19
28 14 0.54
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.22
Consensus pattern (27 bp):
AAAAGAAAACTCAAAGAAAATTTATTA
Found at i:45687932 original size:32 final size:32
Alignment explanation
Indices: 45687891--45687962 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
45687881 CTATAGTTAG
45687891 TATCGATATTCAATTACTAGGCATCGATACTA
1 TATCGATATTCAATTACTAGGCATCGATACTA
* *
45687923 TATCGATATTTAATTACTAGGCATTGATACTA
1 TATCGATATTCAATTACTAGGCATCGATACTA
45687955 TATCGATA
1 TATCGATA
45687963 CCATATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (32 bp):
TATCGATATTCAATTACTAGGCATCGATACTA
Found at i:45690158 original size:19 final size:19
Alignment explanation
Indices: 45690121--45690158 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
45690111 CTAATTAAGT
*
45690121 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
45690140 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
45690159 GAAAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:45690538 original size:18 final size:18
Alignment explanation
Indices: 45690502--45690564 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
45690492 ATTAAGTAAT
45690502 TAAAA-AAA-TAAAGTAAA
1 TAAAAGAAACTAAA-TAAA
45690519 TAAAAGAAACTAAATAAA
1 TAAAAGAAACTAAATAAA
** * *
45690537 TAAAAGAAAGAAAAGAAG
1 TAAAAGAAACTAAATAAA
45690555 TAAAAGAAAC
1 TAAAAGAAAC
45690565 AAAAAGAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
17 5 0.13
18 30 0.77
19 4 0.10
ACGTcount: A:0.73, C:0.03, G:0.11, T:0.13
Consensus pattern (18 bp):
TAAAAGAAACTAAATAAA
Found at i:45690568 original size:18 final size:18
Alignment explanation
Indices: 45690511--45690568 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
45690501 TTAAAAAAAT
*
45690511 AAAGTAAATAAAAGAAACT
1 AAAG-AAATAAAAGAAACA
* *
45690530 AAATAAATAAAAGAAAGA
1 AAAGAAATAAAAGAAACA
*
45690548 AAAGAAGTAAAAGAAACA
1 AAAGAAATAAAAGAAACA
45690566 AAA
1 AAA
45690569 AGAACAGCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 30 0.91
19 3 0.09
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.10
Consensus pattern (18 bp):
AAAGAAATAAAAGAAACA
Found at i:45691545 original size:21 final size:20
Alignment explanation
Indices: 45691521--45691561 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45691511 GTCTTATTTC
*
45691521 AGGCACCTCGTGTGTCGTTTA
1 AGGCA-CTCATGTGTCGTTTA
*
45691542 AGGCACTTATGTGTCGTTTA
1 AGGCACTCATGTGTCGTTTA
45691562 CTGATCAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.37
Consensus pattern (20 bp):
AGGCACTCATGTGTCGTTTA
Found at i:45693552 original size:41 final size:41
Alignment explanation
Indices: 45693481--45693581 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 41
45693471 GAGCGTAAAT
* * *
45693481 AGGGGCACAAAAGTGC-ATTTAGGGGTACCGAAGTACAAAC
1 AGGGGCACGAATGTGCAATTTAGGGGCACCGAAGTACAAAC
* * *
45693521 AGGGGTACGTATGTGCAATTTAGGGGCACCGAAGTACAAAT
1 AGGGGCACGAATGTGCAATTTAGGGGCACCGAAGTACAAAC
45693562 AGGGGCACGAATGTGCAATT
1 AGGGGCACGAATGTGCAATT
45693582 CAACAATATT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 12 0.23
41 40 0.77
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.19
Consensus pattern (41 bp):
AGGGGCACGAATGTGCAATTTAGGGGCACCGAAGTACAAAC
Found at i:45693566 original size:20 final size:20
Alignment explanation
Indices: 45693477--45693569 Score: 62
Period size: 20 Copynumber: 4.6 Consensus size: 20
45693467 ACCAGAGCGT
** *
45693477 AAATAGGGGCACAAAAGTGC
1 AAATAGGGGCACCGAAGTAC
** *
45693497 ATTTAGGGGTACCGAAGTAC
1 AAATAGGGGCACCGAAGTAC
* * * *
45693517 AAACAGGGGTA-CGTATGTGC
1 AAATAGGGGCACCG-AAGTAC
*
45693537 AATTTAGGGGCACCGAAGTAC
1 AA-ATAGGGGCACCGAAGTAC
45693558 AAATAGGGGCAC
1 AAATAGGGGCAC
45693570 GAATGTGCAA
Statistics
Matches: 53, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
19 2 0.04
20 37 0.70
21 12 0.23
22 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.17
Consensus pattern (20 bp):
AAATAGGGGCACCGAAGTAC
Found at i:45698681 original size:30 final size:30
Alignment explanation
Indices: 45698647--45698706 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
45698637 GTATGATTCA
45698647 AATCACCAAATTAACATGATAGATGAAAGT
1 AATCACCAAATTAACATGATAGATGAAAGT
45698677 AATCACCAAATTAACATGATAGATGAAAGT
1 AATCACCAAATTAACATGATAGATGAAAGT
45698707 TAAAACCAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (30 bp):
AATCACCAAATTAACATGATAGATGAAAGT
Found at i:45698715 original size:30 final size:30
Alignment explanation
Indices: 45698651--45698715 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
45698641 GATTCAAATC
*
45698651 ACCAAATTAACATGATAGATGAAAGTAATC
1 ACCAAATTAACATGATAGATGAAAGTAATA
45698681 ACCAAATTAACATGATAGATGAAAGTTAA-A
1 ACCAAATTAACATGATAGATGAAAG-TAATA
45698711 ACCAA
1 ACCAA
45698716 CTTGTCATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 30 0.91
31 3 0.09
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.22
Consensus pattern (30 bp):
ACCAAATTAACATGATAGATGAAAGTAATA
Found at i:45701319 original size:17 final size:17
Alignment explanation
Indices: 45701300--45701331 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45701290 CTTCTATTTT
45701300 TTTTC-ATTTTTTTATC
1 TTTTCAATTTTTTTATC
45701316 TTTTCAATTTTTTTAT
1 TTTTCAATTTTTTTAT
45701332 ATTACGGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTCAATTTTTTTATC
Found at i:45704835 original size:120 final size:120
Alignment explanation
Indices: 45704715--45705116 Score: 644
Period size: 120 Copynumber: 3.4 Consensus size: 120
45704705 TAAGTAATTG
* * * *
45704715 AAATTATATATATT-ATTAAATTATATTTAATAATAATTATGTGAAATTATATTTCATAGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCAAATTATATTTTATAGTATTA
45704779 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
* * * *
45704834 GAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCAAATTATATTTTATAGTATTA
45704899 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
** * * *
45704954 AAATCGTATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATCA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCAAATTATATTTTATAGTATTA
* * * *
45705019 TATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
45705074 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGT
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGT
45705117 TAAAATATGA
Statistics
Matches: 261, Mismatches: 21, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
119 12 0.05
120 249 0.95
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCAAATTATATTTTATAGTATTA
TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
Found at i:45705094 original size:18 final size:17
Alignment explanation
Indices: 45705066--45705100 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45705056 ATTATTAAGA
*
45705066 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45705083 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45705101 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45705320 original size:44 final size:45
Alignment explanation
Indices: 45705257--45705353 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
45705247 CTATTACACC
*
45705257 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * * *
45705301 TCCATTACATTCAACCAAACAATTGATTTGCTATTATGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
45705346 TCCATTAC
1 TCCATTAC
45705354 GCCTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:45705357 original size:16 final size:16
Alignment explanation
Indices: 45705333--45705381 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
45705323 TTGATTTGCT
*
45705333 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
45705349 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
45705365 ATTACACCTCTAATCC
1 ATTACGCCTCTATTCC
45705381 A
1 A
45705382 ATACACTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.24, C:0.35, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:45705386 original size:16 final size:16
Alignment explanation
Indices: 45705339--45705402 Score: 74
Period size: 16 Copynumber: 4.0 Consensus size: 16
45705329 TGCTATTATG
* * *
45705339 CCTCTATTCCATTACG
1 CCTCTAATCCAATACA
* *
45705355 CCTCTATTCCATTACA
1 CCTCTAATCCAATACA
45705371 CCTCTAATCCAATACA
1 CCTCTAATCCAATACA
*
45705387 CTTCTAATCCAATACA
1 CCTCTAATCCAATACA
45705403 GCGAACCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.30, C:0.36, G:0.02, T:0.33
Consensus pattern (16 bp):
CCTCTAATCCAATACA
Found at i:45726067 original size:17 final size:17
Alignment explanation
Indices: 45726019--45726069 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
45726009 ATATGAGACA
* *
45726019 TAATCTTCGAAGATATG
1 TAATCTTAGAAGATTTG
* *
45726036 CAATCTTAGAGGATTTG
1 TAATCTTAGAAGATTTG
45726053 TAATCTTAGAAGATTTG
1 TAATCTTAGAAGATTTG
45726070 ATTCTGTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (17 bp):
TAATCTTAGAAGATTTG
Found at i:45728090 original size:24 final size:24
Alignment explanation
Indices: 45728049--45728108 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
45728039 GATGAGATAC
* *
45728049 CGACTTTTTCGTTGATATTC-TTTT
1 CGACCTTTTCATTGATA-TCATTTT
*
45728073 CGACCTTTTCATTTATATCATTTT
1 CGACCTTTTCATTGATATCATTTT
*
45728097 CAACCTTCTTCA
1 CGACCTT-TTCA
45728109 ATAGATCGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 2 0.07
24 24 0.80
25 4 0.13
ACGTcount: A:0.18, C:0.23, G:0.07, T:0.52
Consensus pattern (24 bp):
CGACCTTTTCATTGATATCATTTT
Found at i:45728281 original size:36 final size:36
Alignment explanation
Indices: 45728235--45728441 Score: 135
Period size: 36 Copynumber: 5.6 Consensus size: 36
45728225 GTGCCCTGCA
*
45728235 CTAGTCGGATAAACCGACAATGTTTTGCGTCCAACG
1 CTAGTCGGATAAACCGACAATGTTTTGCGTCCAGCG
* ** * ** * *
45728271 CTAGTTGGATAAATTGACAATATCAAATGTGTGCCAGCA
1 CTAGTCGGATAAACCGACAATGT--TTTGCGT-CCAGCG
* *
45728310 CTAGTCGGATAAACTGACAATGTTTTGCGCCCAGCG
1 CTAGTCGGATAAACCGACAATGTTTTGCGTCCAGCG
* * ** * **
45728346 CTAGTCAGATAAACCGACAATATCAAATGTGTACCCAGTA
1 CTAGTCGGATAAACCGACAATGT--TTTGCGT--CCAGCG
* * * * * *
45728386 CTAATTGGATAAATCGACAATGATTTGCGCCCAGCA
1 CTAGTCGGATAAACCGACAATGTTTTGCGTCCAGCG
45728422 CTAGTCGGATAAACCGACAA
1 CTAGTCGGATAAACCGACAA
45728442 ATACATATGT
Statistics
Matches: 124, Mismatches: 40, Indels: 14
0.70 0.22 0.08
Matches are distributed among these distances:
36 66 0.53
37 3 0.02
38 10 0.08
39 24 0.19
40 21 0.17
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (36 bp):
CTAGTCGGATAAACCGACAATGTTTTGCGTCCAGCG
Found at i:45728320 original size:75 final size:75
Alignment explanation
Indices: 45728223--45728441 Score: 285
Period size: 75 Copynumber: 2.9 Consensus size: 75
45728213 CCGATGATAG
* * * * **
45728223 GTGTGCCCTGCACTAGTCGGATAAACCGACAATGTTTTGCGTCCAACGCTAGTTGGATAAATTGA
1 GTGTG-CCAGCACTAGTCGGATAAACCGACAATGTTTTGCGCCCAGCGCTAGTCGGATAAACCGA
45728288 CAATATCAAAT
65 CAATATCAAAT
* *
45728299 GTGTGCCAGCACTAGTCGGATAAACTGACAATGTTTTGCGCCCAGCGCTAGTCAGATAAACCGAC
1 GTGTGCCAGCACTAGTCGGATAAACCGACAATGTTTTGCGCCCAGCGCTAGTCGGATAAACCGAC
45728364 AATATCAAAT
66 AATATCAAAT
* * * * * * *
45728374 GTGTACCCAGTACTAATTGGATAAATCGACAATGATTTGCGCCCAGCACTAGTCGGATAAACCGA
1 GTGT-GCCAGCACTAGTCGGATAAACCGACAATGTTTTGCGCCCAGCGCTAGTCGGATAAACCGA
45728439 CAA
65 CAA
45728442 ATACATATGT
Statistics
Matches: 125, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
75 66 0.53
76 59 0.47
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (75 bp):
GTGTGCCAGCACTAGTCGGATAAACCGACAATGTTTTGCGCCCAGCGCTAGTCGGATAAACCGAC
AATATCAAAT
Found at i:45729867 original size:17 final size:18
Alignment explanation
Indices: 45729845--45729880 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45729835 AGGATTTCGT
45729845 TCAAAT-AATATAAATTA
1 TCAAATAAATATAAATTA
*
45729862 TCAAATAAATATATATTA
1 TCAAATAAATATAAATTA
45729880 T
1 T
45729881 GATGCTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
TCAAATAAATATAAATTA
Found at i:45732148 original size:19 final size:19
Alignment explanation
Indices: 45732124--45732162 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
45732114 AAAAAAGAAG
45732124 GTAGAAACCTTATTT-AATT
1 GTAGAAA-CTTATTTCAATT
*
45732143 GTAGAAATTTATTTCAATT
1 GTAGAAACTTATTTCAATT
45732162 G
1 G
45732163 GAAAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (19 bp):
GTAGAAACTTATTTCAATT
Found at i:45739228 original size:11 final size:11
Alignment explanation
Indices: 45739208--45739249 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
45739198 GCGATAAACT
*
45739208 CAAAAGCAAAA
1 CAAAAACAAAA
45739219 CAAAAACAAAA
1 CAAAAACAAAA
45739230 CAAAAATC-AAA
1 CAAAAA-CAAAA
*
45739241 GAAAAACAA
1 CAAAAACAA
45739250 GATTATCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 1 0.04
11 25 0.93
12 1 0.04
ACGTcount: A:0.76, C:0.17, G:0.05, T:0.02
Consensus pattern (11 bp):
CAAAAACAAAA
Found at i:45740840 original size:34 final size:34
Alignment explanation
Indices: 45740801--45740867 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
45740791 AATATATGAA
45740801 TGTTTTATTTTCAGTTTAAAAATGGCACCAACTT
1 TGTTTTATTTTCAGTTTAAAAATGGCACCAACTT
45740835 TGTTTTATTTTCAGTTTAAAAATGGCACCAACT
1 TGTTTTATTTTCAGTTTAAAAATGGCACCAACT
45740868 CTTTTATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (34 bp):
TGTTTTATTTTCAGTTTAAAAATGGCACCAACTT
Found at i:45748449 original size:13 final size:14
Alignment explanation
Indices: 45748414--45748494 Score: 60
Period size: 13 Copynumber: 5.7 Consensus size: 14
45748404 GTGTTTGTGG
45748414 TTATGAGTTTAGGGT
1 TTATG-GTTTAGGGT
*
45748429 TTAAGGTTT-GGGT
1 TTATGGTTTAGGGT
*
45748442 TTATGGTTTTAAGTGT
1 TTATGG-TTT-AGGGT
* *
45748458 TCATGGTTTAAGG-
1 TTATGGTTTAGGGT
45748471 TT-TGAGTTTAGGGT
1 TTATG-GTTTAGGGT
*
45748485 TTAGGGTTTA
1 TTATGGTTTA
45748495 ATATTTAGGG
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
12 2 0.04
13 17 0.33
14 16 0.31
15 8 0.16
16 8 0.16
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:45748543 original size:20 final size:20
Alignment explanation
Indices: 45748520--45748561 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
45748510 GATTTTAGAT
*
45748520 TTATGATTTTGGGTTTATGG
1 TTATGATTTTGAGTTTATGG
*
45748540 TTATGGTTTTGAGTTTATGG
1 TTATGATTTTGAGTTTATGG
45748560 TT
1 TT
45748562 TGGGCTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (20 bp):
TTATGATTTTGAGTTTATGG
Found at i:45748576 original size:69 final size:69
Alignment explanation
Indices: 45748503--45748631 Score: 152
Period size: 69 Copynumber: 1.9 Consensus size: 69
45748493 TAATATTTAG
* * * *
45748503 GGTTTGAGATTTTAGATTTATGATTT-TGGGTTTATGGTTATGGTTTTGAGTTTATGGTTTGGGC
1 GGTTTGAGATTTAAGATTTATGATTTGT-GGTTTAGGGTTATGGGTTTGAGTTTAAGGTTTGGGC
45748567 TTCTA
65 TTCTA
** * * * *
45748572 GGTTTTTGGTTTAAGATTTTTTATTTGTGGTTTAGGGTTATGGGTTTGATTTTAAGGTTT
1 GGTTTGAGATTTAAGATTTATGATTTGTGGTTTAGGGTTATGGGTTTGAGTTTAAGGTTT
45748632 AGGGTTATGT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
69 48 0.98
70 1 0.02
ACGTcount: A:0.16, C:0.02, G:0.29, T:0.54
Consensus pattern (69 bp):
GGTTTGAGATTTAAGATTTATGATTTGTGGTTTAGGGTTATGGGTTTGAGTTTAAGGTTTGGGCT
TCTA
Found at i:45748632 original size:27 final size:27
Alignment explanation
Indices: 45748600--45748660 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
45748590 TTTTATTTGT
*
45748600 GGTTTAGGGTTATGGGTTTGATTTTAA
1 GGTTTAGGGTTATGGGTCTGATTTTAA
* *
45748627 GGTTTAGGGTTATGTGTCTGATTTTAG
1 GGTTTAGGGTTATGGGTCTGATTTTAA
45748654 GGTTTAG
1 GGTTTAG
45748661 TGTTCAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.16, C:0.02, G:0.34, T:0.48
Consensus pattern (27 bp):
GGTTTAGGGTTATGGGTCTGATTTTAA
Found at i:45748794 original size:6 final size:7
Alignment explanation
Indices: 45748758--45748813 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
45748748 TGGAGTTTGA
*
45748758 GGTTTAA
1 GGTTTAT
*
45748765 GGTTTTAG
1 GG-TTTAT
45748773 GGTTTAT
1 GGTTTAT
*
45748780 AGTTTTAT
1 -GGTTTAT
45748788 -GTTTAT
1 GGTTTAT
45748794 GGTTTAT
1 GGTTTAT
45748801 GGTTTAT
1 GGTTTAT
45748808 GGTTTA
1 GGTTTA
45748814 GGATTTGTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
6 5 0.12
7 25 0.60
8 12 0.29
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (7 bp):
GGTTTAT
Found at i:45748797 original size:21 final size:21
Alignment explanation
Indices: 45748758--45748825 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
45748748 TGGAGTTTGA
*
45748758 GGTTTAAGGTTTTAGGGTTTAT
1 GGTTTATGG-TTTAGGGTTTAT
* *
45748780 AGTTTTAT-GTTTATGGTTTAT
1 -GGTTTATGGTTTAGGGTTTAT
* *
45748801 GGTTTATGGTTTAGGATTTGT
1 GGTTTATGGTTTAGGGTTTAT
45748822 GGTT
1 GGTT
45748826 ATAAGTTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 6 0.16
21 25 0.68
22 1 0.03
23 5 0.14
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.54
Consensus pattern (21 bp):
GGTTTATGGTTTAGGGTTTAT
Found at i:45748891 original size:15 final size:15
Alignment explanation
Indices: 45748860--45748905 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
45748850 TGATTATTAA
*
45748860 TTTTAGGGTT-TGTG
1 TTTTAGGGTTAAGTG
*
45748874 TTTTAGGTTTAAGTG
1 TTTTAGGGTTAAGTG
*
45748889 -TTTAGGGTTACGTG
1 TTTTAGGGTTAAGTG
45748903 TTT
1 TTT
45748906 GAGTTTATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 21 0.81
15 5 0.19
ACGTcount: A:0.13, C:0.02, G:0.30, T:0.54
Consensus pattern (15 bp):
TTTTAGGGTTAAGTG
Found at i:45748923 original size:20 final size:20
Alignment explanation
Indices: 45748900--45748939 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45748890 TTAGGGTTAC
*
45748900 GTGTTTGAGTTTATGATTTA
1 GTGTTTGAGTTTAGGATTTA
*
45748920 GTGTTTGTGTTTAGGATTTA
1 GTGTTTGAGTTTAGGATTTA
45748940 AGATTACGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (20 bp):
GTGTTTGAGTTTAGGATTTA
Found at i:45749032 original size:20 final size:20
Alignment explanation
Indices: 45749007--45749056 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
45748997 GTGTTTAAGG
* *
45749007 GTTTAGTGTTATGTGTTTGA
1 GTTTAGGGTTATGTATTTGA
45749027 GTTTAGGGTTATGTATTTGA
1 GTTTAGGGTTATGTATTTGA
*
45749047 GTTTAAGGTT
1 GTTTAGGGTT
45749057 TAGTGTAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (20 bp):
GTTTAGGGTTATGTATTTGA
Found at i:45749057 original size:27 final size:27
Alignment explanation
Indices: 45749027--45749083 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
45749017 ATGTGTTTGA
*
45749027 GTTTAGGGTTATGTATTTGAGTTTAAG
1 GTTTAGGGTAATGTATTTGAGTTTAAG
* * * *
45749054 GTTTAGTGTAATGTGTTTGGGTTTAGG
1 GTTTAGGGTAATGTATTTGAGTTTAAG
45749081 GTT
1 GTT
45749084 CGAGATTCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (27 bp):
GTTTAGGGTAATGTATTTGAGTTTAAG
Found at i:45752851 original size:13 final size:13
Alignment explanation
Indices: 45752833--45752857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45752823 TTTATTAGTG
45752833 AAAGAGTACATAT
1 AAAGAGTACATAT
45752846 AAAGAGTACATA
1 AAAGAGTACATA
45752858 CAAATTTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (13 bp):
AAAGAGTACATAT
Found at i:45753510 original size:15 final size:15
Alignment explanation
Indices: 45753490--45753520 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45753480 CCAACCTTCA
45753490 AATTTTAGGTCAATT
1 AATTTTAGGTCAATT
*
45753505 AATTTTAGGTCTATT
1 AATTTTAGGTCAATT
45753520 A
1 A
45753521 TACATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (15 bp):
AATTTTAGGTCAATT
Found at i:45755124 original size:11 final size:12
Alignment explanation
Indices: 45755097--45755122 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45755087 TAGAAATTAG
45755097 TTTGTGAAACTT
1 TTTGTGAAACTT
45755109 TTTGTGAAACTT
1 TTTGTGAAACTT
45755121 TT
1 TT
45755123 GTATTGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTTGTGAAACTT
Found at i:45756661 original size:91 final size:91
Alignment explanation
Indices: 45756532--45756739 Score: 353
Period size: 91 Copynumber: 2.3 Consensus size: 91
45756522 TTGATTTTAG
* * *
45756532 TAAATTCATATAAGAATATTTTATAATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
45756597 ATTTAATATTAATTATTTTAAATTGTA
65 ATTTAATATTAATTATTTTAAATTGTA
45756624 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
45756689 TTTAATATTAATTATTTTAAATTGTA
66 TTTAATATTAATTATTTTAAATTGTA
* * *
45756715 TAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
45756740 GTTATAATTA
Statistics
Matches: 110, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 94 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTGTA
Found at i:45756706 original size:47 final size:47
Alignment explanation
Indices: 45756564--45756707 Score: 156
Period size: 47 Copynumber: 3.1 Consensus size: 47
45756554 ATAATTAAGA
45756564 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
* * * * * **
45756611 A-TTT-T-AAATTGTATA-AATTCATATAAGA--AAATTTATTATCAAGA
1 ATTTTATGAAATTATATATCATT-AT-TAA-ATTATATTTAATATTAATT
45756655 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
45756702 ATTTTA
1 ATTTTA
45756708 AATTGTATAA
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
43 3 0.04
44 23 0.31
45 8 0.11
46 8 0.11
47 29 0.39
48 3 0.04
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (47 bp):
ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
Found at i:45756748 original size:47 final size:46
Alignment explanation
Indices: 45756606--45756771 Score: 137
Period size: 47 Copynumber: 3.6 Consensus size: 46
45756596 TATTTAATAT
* * * *
45756606 TAATTATTTTAAATTGTATAAATTCATATAAGAAAATTTATTATCAA
1 TAATTATTTTAAATTGTATAAATTCATAAAATATAATTTATTAT-TA
* * * * * *
45756653 GAATT-TTATGAAATTATATATCATT-ATTAAAT-TATATTTAATA-T-
1 TAATTATT-TTAAATTGTATA-AATTCATAAAATATA-ATTTATTATTA
45756697 TAATTATTTTAAATTGTATAAATTCATAAAATATAATTTATTAGTTA
1 TAATTATTTTAAATTGTATAAATTCATAAAATATAATTTATTA-TTA
*
45756744 TAATTATTTTAAATTTTATTAAA-TCATA
1 TAATTATTTTAAATTGTA-TAAATTCATA
45756772 TATTTTAATT
Statistics
Matches: 92, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
43 3 0.03
44 27 0.29
45 4 0.04
46 4 0.04
47 47 0.51
48 7 0.08
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (46 bp):
TAATTATTTTAAATTGTATAAATTCATAAAATATAATTTATTATTA
Found at i:45756778 original size:17 final size:18
Alignment explanation
Indices: 45756756--45756790 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45756746 ATTATTTTAA
*
45756756 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAAACATAT
45756773 ATTTTAATTAAAACATAT
1 ATTTTAATTAAAACATAT
45756791 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTTAATTAAAACATAT
Found at i:45756971 original size:119 final size:121
Alignment explanation
Indices: 45756755--45757051 Score: 501
Period size: 119 Copynumber: 2.5 Consensus size: 121
45756745 AATTATTTTA
* * * * *
45756755 AATTTTATTAAATCATATATTTTAATTAAAACATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTT
*
45756819 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
45756875 AATTTTATTAAATTATATATTTTAATTATAATATATTTAA-AATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTT
45756938 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
45756994 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAAT
45757052 ATGATTAAAT
Statistics
Matches: 166, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
119 112 0.67
120 51 0.31
121 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (121 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTT
TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:45757029 original size:16 final size:16
Alignment explanation
Indices: 45757008--45757049 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45756998 TTATTAAATT
*
45757008 ATATATTTTAATTATA
1 ATATATTTTAATAATA
45757024 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
45757039 AT-TATGTTTAA
1 ATATAT-TTTAA
45757050 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:45757034 original size:15 final size:15
Alignment explanation
Indices: 45756999--45757040 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45756989 TTAAGAATTT
*
45756999 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45757013 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45757027 TATTTAATAATAAT
1 TATTTAATTATAAT
45757041 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45757276 original size:45 final size:44
Alignment explanation
Indices: 45757176--45757283 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 44
45757166 TTTTTCATTA
45757176 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
45757215 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
45757260 TGCTATTACACCTCTATTCCATTA
1 TGCTATTACACCTCTATTCCATTA
45757284 TGCCTCCATT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 16 0.29
40 1 0.02
44 16 0.29
45 23 0.41
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:45763657 original size:95 final size:95
Alignment explanation
Indices: 45763489--45763680 Score: 339
Period size: 95 Copynumber: 2.0 Consensus size: 95
45763479 CTATTTGATT
*
45763489 TATTAGTTGATTTGCATATAAATGTATGAGATGCCAAAGGGATTTCATGCTTAATTCCAATGTAT
1 TATTAGTTGATTTGCATATAAATGTATAAGATGCCAAAGGGATTTCATGCTTAATTCCAATGTAT
*
45763554 TTTAATTGCCTAATTATTGGTATGTTAAGG
66 TTTAATTGCCGAATTATTGGTATGTTAAGG
* *
45763584 TATTTGTTGATTTGCATATAAATGTATAAGATGCCAAAGGGATTTCTTGCTTAATTCCAATGTAT
1 TATTAGTTGATTTGCATATAAATGTATAAGATGCCAAAGGGATTTCATGCTTAATTCCAATGTAT
*
45763649 TTTAATTGCCGAATTGTTGGTATGTTAAGG
66 TTTAATTGCCGAATTATTGGTATGTTAAGG
45763679 TA
1 TA
45763681 AGTTAAGTAA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (95 bp):
TATTAGTTGATTTGCATATAAATGTATAAGATGCCAAAGGGATTTCATGCTTAATTCCAATGTAT
TTTAATTGCCGAATTATTGGTATGTTAAGG
Found at i:45769382 original size:21 final size:21
Alignment explanation
Indices: 45769340--45769382 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
45769330 CAAAAACAAA
**
45769340 ACATTAAAACATACATTTCAT
1 ACATTAAAACATACATAACAT
* *
45769361 ACATTAATATATACATAACAT
1 ACATTAAAACATACATAACAT
45769382 A
1 A
45769383 AACCATTCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (21 bp):
ACATTAAAACATACATAACAT
Found at i:45778866 original size:34 final size:34
Alignment explanation
Indices: 45778827--45778914 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 34
45778817 ATTATGATTA
* *
45778827 TGAAAATATAACATT-TGGATGTGTTATATGGTTC
1 TGAAAATATAACATTCT-GATCTGGTATATGGTTC
* * *
45778861 TGAAAAGATGACATTCTGATCTGGTATATGTTTC
1 TGAAAATATAACATTCTGATCTGGTATATGGTTC
* * *
45778895 TGGAAATGTGACATTCTGAT
1 TGAAAATATAACATTCTGAT
45778915 ATGATAATTG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
34 44 0.98
35 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.39
Consensus pattern (34 bp):
TGAAAATATAACATTCTGATCTGGTATATGGTTC
Found at i:45787899 original size:76 final size:76
Alignment explanation
Indices: 45787743--45788085 Score: 303
Period size: 76 Copynumber: 4.5 Consensus size: 76
45787733 TAGCGCTGGT
* * * **
45787743 GCAACTCATTGTTGGTACATCGAACTAGTACTAGGCACACA-TTGATATCGTCGGTTTACTTGAC
1 GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTACTAAAC
**
45787807 TAGCTTTGGGC
66 TAGCACTGGGC
* * * ***
45787818 ACAACTTATTGTTGGTACATCCAGCTAGTGCTGGGCACACATTTGATATCGTCGGTTTACCCCAC
1 GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTACTAAAC
45787883 TAGCACTGGGC
66 TAGCACTGGGC
* * * * *
45787894 GCAACTCATTGTTTGTATATCCAACTAGTGTTGGACACACATTTGATATCGCCGGTTTACTAAAC
1 GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTACTAAAC
**
45787959 TAGCACTTTGC
66 TAGCACTGGGC
* * * ** *** * * * **
45787970 TCAACTTATTATCAGTTTTTCCAACTAGTGCTGGGCATACATTTGATATCGTCAGTTTATTCGAC
1 GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTACTAAAC
*
45788035 TTA-CACCGGGC
66 -TAGCACTGGGC
* ** * * *
45788046 ACAAAACATTGTTGGTGCATCCGACTAGTGCAGGGCACAC
1 GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACAC
45788086 CTATCATCGG
Statistics
Matches: 211, Mismatches: 55, Indels: 3
0.78 0.20 0.01
Matches are distributed among these distances:
75 35 0.17
76 174 0.82
77 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (76 bp):
GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTACTAAAC
TAGCACTGGGC
Found at i:45788958 original size:23 final size:23
Alignment explanation
Indices: 45788916--45788962 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
45788906 TAATAGAAAG
* **
45788916 AACAAAAAAAAATAGCAGCAAAT
1 AACAAAAAAAAAGAAAAGCAAAT
45788939 AACAAAAAAAAAGAAAAGCAAAT
1 AACAAAAAAAAAGAAAAGCAAAT
45788962 A
1 A
45788963 GCGAAAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.74, C:0.11, G:0.09, T:0.06
Consensus pattern (23 bp):
AACAAAAAAAAAGAAAAGCAAAT
Found at i:45793654 original size:13 final size:13
Alignment explanation
Indices: 45793638--45793672 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
45793628 AATAAATATA
*
45793638 TATTTTTTATTTT
1 TATTTTTAATTTT
45793651 TATTTTTAATTTT
1 TATTTTTAATTTT
*
45793664 TAATTTTAA
1 TATTTTTAA
45793673 AATAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTTTTAATTTT
Found at i:45793680 original size:11 final size:11
Alignment explanation
Indices: 45793664--45793692 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
45793654 TTTTAATTTT
45793664 TAATTTTAAAA
1 TAATTTTAAAA
45793675 TAATTTTAAAA
1 TAATTTTAAAA
45793686 TAATTTT
1 TAATTTT
45793693 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:45793720 original size:27 final size:28
Alignment explanation
Indices: 45793678--45793733 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
45793668 TTTAAAATAA
* *
45793678 TTTTAAAATAATTTTTTTTATTTTTTAT
1 TTTTAAAATAATTTTTTTTAATGTTTAT
45793706 TTTTAAAATAA-TTTTTTTAATGTTTAT
1 TTTTAAAATAATTTTTTTTAATGTTTAT
45793733 T
1 T
45793734 AAAAAATGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (28 bp):
TTTTAAAATAATTTTTTTTAATGTTTAT
Found at i:45795552 original size:11 final size:10
Alignment explanation
Indices: 45795526--45795583 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
45795516 AGATCCAATC
45795526 CAAAAAAATAA
1 CAAAAAAA-AA
*
45795537 -AAAACAAAA
1 CAAAAAAAAA
45795546 CAAAAACAAAAA
1 C-AAAA-AAAAA
*
45795558 CAAAAAAAAT
1 CAAAAAAAAA
*
45795568 CAAAAAAAGA
1 CAAAAAAAAA
45795578 CAAAAA
1 CAAAAA
45795584 GAAGAAAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 2 0.05
10 24 0.62
11 8 0.21
12 5 0.13
ACGTcount: A:0.83, C:0.12, G:0.02, T:0.03
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:45795556 original size:17 final size:17
Alignment explanation
Indices: 45795536--45795583 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
45795526 CAAAAAAATA
45795536 AAAAACAAAACAAAAAC
1 AAAAACAAAACAAAAAC
*
45795553 AAAAACAAAA-AAAATC
1 AAAAACAAAACAAAAAC
*
45795569 AAAAA-AAGACAAAAA
1 AAAAACAAAACAAAAA
45795584 GAAGAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 3 0.11
16 14 0.52
17 10 0.37
ACGTcount: A:0.83, C:0.12, G:0.02, T:0.02
Consensus pattern (17 bp):
AAAAACAAAACAAAAAC
Found at i:45795564 original size:26 final size:24
Alignment explanation
Indices: 45795526--45795598 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 24
45795516 AGATCCAATC
45795526 CAAAAAAATAAAAAACAAAACAAAAA
1 CAAAAAAA-AAAAAACAAAA-AAAAA
*
45795552 CAAAAACAAAAAAAATCAAAAAAAGA
1 CAAAAA-AAAAAAAA-CAAAAAAAAA
* *
45795578 CAAAAAGAAGAAAAAGAAAAA
1 CAAAAA-AAAAAAAACAAAAA
45795599 TCAAAATCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.12
26 29 0.71
27 7 0.17
ACGTcount: A:0.82, C:0.10, G:0.05, T:0.03
Consensus pattern (24 bp):
CAAAAAAAAAAAAACAAAAAAAAA
Found at i:45797983 original size:44 final size:44
Alignment explanation
Indices: 45797917--45798174 Score: 175
Period size: 44 Copynumber: 5.6 Consensus size: 44
45797907 GGAAATGGTG
* *
45797917 AATCTTATCTCCTTGATG-TTACAGTGGAACAGATTGAAGCTAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCTAGA
* * *
45797961 AATCTTATCTCCCTGATATTACAGCGGAGCAGATTGAAG-TCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT-AGA
* * * **
45798005 AATCCTATTTCCCTAAGATTACAGTGGAGCAGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * *
45798047 AGGATCTTATCTCTCTGA-AGTTACAATAGAATAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTAC---AG--T-G---G-AGCAGATTGAAGCTAGA
* * *
45798103 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * *
45798147 AATCCTATTTCCCTGAGATTACGGTGGA
1 AATCTTATCTCCCTGAGATTACAGTGGA
45798175 ATAGACTGAA
Statistics
Matches: 167, Mismatches: 28, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 121 0.72
45 1 0.01
47 2 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 2 0.01
53 1 0.01
54 25 0.15
55 4 0.02
56 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
Found at i:45798185 original size:44 final size:44
Alignment explanation
Indices: 45798088--45798185 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
45798078 TAGATCGCAT
* * *
45798088 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGACTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAA
* * * * *
45798132 CAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACGGTGGAA
1 CAGACTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAA
*
45798176 TAGACTGAAG
1 CAGACTGAAG
45798186 AATTACAGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (44 bp):
CAGACTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAA
Found at i:45798282 original size:50 final size:50
Alignment explanation
Indices: 45798223--45798786 Score: 314
Period size: 50 Copynumber: 11.3 Consensus size: 50
45798213 GTAGTTCAAC
* * * *
45798223 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGCAGTGAAAA
* * * * * * *
45798273 AGATTAAAGCTACAACAGCAAATCCTACTT--CTCA-AGTGGTACAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACA-T--TGCAGTGAAAA
* * * * * * * ** * * *
45798323 AGATTAAAGCTACAGCAGTGAATCTTACCTCTCAGGCGGTGTAGTGCAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGCAGTGAAAA
* * * * * * * *
45798373 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTAACATTACAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGCAGTGAAAA
* * * * * ** * *
45798423 A-AGTTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAAT
1 AGA-TTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGCAGTGAAAA
* * * * *
45798473 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGCAGTGAAAA
* * * * * *
45798523 AGATTAAAGCTACAGCAGCGCATCTTACTTCCCTGGCGA-TG-ACGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGAC-ATTGCA-GTGAAAA
* * * * * *
45798573 AGATTAAAGCCACAGCGGCGAACCTTGCTTCCCTGACATTACAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGCAGTGAAAA
* * * * * *
45798623 AGATTAAAGCTACAACAACGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGCAGTGAAAA
* * * * * * *
45798673 AGATTAAAGCCACATCGGTGAATCTTGCTTCACTGACATTGTAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGCAGTGAAAA
* * * * * * *
45798723 AGATTAAAACTACAACAGCGAATCTTACTCCCCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGAC-ATTGCAGTGAAAA
*
45798773 TGATTAAAGCCACA
1 AGATTAAAGCCACA
45798787 TTGGTGAATC
Statistics
Matches: 375, Mismatches: 126, Indels: 26
0.71 0.24 0.05
Matches are distributed among these distances:
47 1 0.00
48 3 0.01
49 3 0.01
50 363 0.97
51 4 0.01
52 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGCAGTGAAAA
Found at i:45798416 original size:100 final size:100
Alignment explanation
Indices: 45798323--45798812 Score: 635
Period size: 100 Copynumber: 4.9 Consensus size: 100
45798313 ACAGTGGAAC
* * * *
45798323 AGATTAAAGCTACAGCAGTGAATCTTACCTCTCAGGCGGTGTAGTGCAACAGATTAAAGCCACAG
1 AGATTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAG
* *
45798388 CGGTGAATCTTGCCTCCCTAACATTACAGTTAAAA
66 CGGTGAATCTTGCTTCCCTGACATTACAGTTAAAA
*
45798423 A-AGTTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAATAGATTAAAGCCACA
1 AGA-TTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACA
* * *
45798487 ACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
65 GCGGTGAATCTTGCTTCCCTGACATTACAGTTAAAA
* * * *
45798523 AGATTAAAGCTACAGCAGCGCATCTTACTTCCCTGGCGATG-ACGTGGAACAGATTAAAGCCACA
1 AGATTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCA-GTGGAACAGATTAAAGCCACA
* *
45798587 GCGGCGAACCTTGCTTCCCTGACATTACAGTTAAAA
65 GCGGTGAATCTTGCTTCCCTGACATTACAGTTAAAA
* * * * * *
45798623 AGATTAAAGCTACAACAACGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAT
1 AGATTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAG
* **
45798688 CGGTGAATCTTGCTTCACTGACATTGTAGTTAAAA
66 CGGTGAATCTTGCTTCCCTGACATTACAGTTAAAA
* * * *
45798723 AGATTAAAACTACAACAGCGAATCTTA-CTCCCCAGGCGATGCAGTGGAACTGATTAAAGCCACA
1 AGATTAAAGCTACAGCAGCGAATCTTACCT-CCCAGGCGGTGCAGTGGAACAGATTAAAGCCACA
** * *
45798787 TTGGTGAATCCTGCTTCCCCGACATT
65 GCGGTGAATCTTGCTTCCCTGACATT
45798813 TATAACGGCG
Statistics
Matches: 345, Mismatches: 40, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
99 3 0.01
100 340 0.99
101 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (100 bp):
AGATTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAG
CGGTGAATCTTGCTTCCCTGACATTACAGTTAAAA
Found at i:45798576 original size:200 final size:198
Alignment explanation
Indices: 45798323--45799003 Score: 754
Period size: 200 Copynumber: 3.5 Consensus size: 198
45798313 ACAGTGGAAC
* * * * * * *
45798323 AGATTAAAGCTACAGCAGTGAATCTTACCTCTCAGGCGGTGTAGTGCAACAGATTAAAGCCACAG
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAG
* * *
45798388 CGGTGAATCTTGCCTCCCTAACATTACAGTTAAAAAAGTTAAAGCTACAGCAGCGAATCTTACCT
66 CGGCGAATCTTGCTTCCCTGACATTACAGTT-AAAAAGTTAAAGCTACA-CAGCGAATCTTACCT
* * *
45798453 CCCAGGCGGTGCAGTGGAATAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGT
129 CCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGT
45798518 TAAAA
194 TAAAA
* * *
45798523 AGATTAAAGCTACAGCAGCGCATCTTACTTCCCTGGCGATG-ACGTGGAACAGATTAAAGCCACA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCA-GTGGAACAGATTAAAGCCACA
* * *
45798587 GCGGCGAACCTTGCTTCCCTGACATTACAGTTAAAAAGATTAAAGCTACAACAACGAATCTTACT
65 GCGGCGAATCTTGCTTCCCTGACATTACAGTTAAAAAG-TTAAAGCTAC-ACAGCGAATCTTACC
* * * *
45798652 TCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCACTGACATTGTAG
128 TCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAG
45798717 TTAAAA
193 TTAAAA
* * * *
45798723 AGATTAAAACTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACTGATTAAAGCCACAT
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAG
* * * * * *
45798788 TGGTGAATCCTGCTTCCC---C--GACA--T------TT--A--TA-ACGGCGAATCTGA-CTCC
66 CGGCGAATCTTGCTTCCCTGACATTACAGTTAAAAAGTTAAAGCTACACAGCGAATCTTACCT-C
* * *
45798834 CCAGGCGGTGCAATGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTT
130 CCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTT
45798899 AAAA
195 AAAA
* * * * ** * *
45798903 AGATTAAAGCTATAACGGCGTATCTTATTTCCTTGGCGGTGCAGTGGAACAGATTAAAGCCACAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAG
* *
45798968 TGGCGAATCTTGCTTCCCCGACATTACAGTTAAAAA
66 CGGCGAATCTTGCTTCCCTGACATTACAGTTAAAAA
45799004 AACTGAAGTT
Statistics
Matches: 407, Mismatches: 57, Indels: 42
0.80 0.11 0.08
Matches are distributed among these distances:
179 1 0.00
180 143 0.35
182 2 0.00
183 1 0.00
184 1 0.00
185 3 0.01
186 2 0.00
187 1 0.00
193 1 0.00
195 3 0.01
197 1 0.00
199 7 0.02
200 239 0.59
201 2 0.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (198 bp):
AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAG
CGGCGAATCTTGCTTCCCTGACATTACAGTTAAAAAGTTAAAGCTACACAGCGAATCTTACCTCC
CAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTA
AAA
Found at i:45798874 original size:80 final size:80
Alignment explanation
Indices: 45798740--45798892 Score: 243
Period size: 80 Copynumber: 1.9 Consensus size: 80
45798730 AACTACAACA
* * * **
45798740 GCGAATCTTACTCCCCAGGCGATGCAGTGGAACTGATTAAAGCCACATTGGTGAATCCTGCTTCC
1 GCGAATCTGACTCCCCAGGCGATGCAATGGAACAGATTAAAGCCACATCAGTGAATCCTGCTTCC
45798805 CCGACATTTATAACG
66 CCGACATTTATAACG
* *
45798820 GCGAATCTGACTCCCCAGGCGGTGCAATGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCC
1 GCGAATCTGACTCCCCAGGCGATGCAATGGAACAGATTAAAGCCACATCAGTGAATCCTGCTTCC
45798885 CCGACATT
66 CCGACATT
45798893 GCAGTTAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
GCGAATCTGACTCCCCAGGCGATGCAATGGAACAGATTAAAGCCACATCAGTGAATCCTGCTTCC
CCGACATTTATAACG
Found at i:45798928 original size:50 final size:50
Alignment explanation
Indices: 45798853--45799003 Score: 140
Period size: 50 Copynumber: 3.0 Consensus size: 50
45798843 GCAATGGAAC
* * *
45798853 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * ** ** * ** ** *
45798903 AGATTAAAGCTATAACGGCGTATCTTATTTCCTTGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* *
45798953 AGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
45799003 A
1 A
45799004 AACTGAAGTT
Statistics
Matches: 70, Mismatches: 31, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:45798948 original size:180 final size:180
Alignment explanation
Indices: 45798641--45798992 Score: 506
Period size: 180 Copynumber: 2.0 Consensus size: 180
45798631 GCTACAACAA
* * * * *
45798641 CGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCAC
1 CGAATCTGACTCCCCAGGCAGTGCAATGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCAC
* *
45798706 TGACATTGTAGTTAAAAAGATTAAAACTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGA
66 CGACATTGCAGTTAAAAAGATTAAAACTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGA
* * *
45798771 ACTGATTAAAGCCACATTGGTGAATCCTGCTTCCCCGACATTTATAACGG
131 ACAGATTAAAGCCACAATGGCGAATCCTGCTTCCCCGACATTTATAACGG
* *
45798821 CGAATCTGACTCCCCAGGCGGTGCAATGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCC
1 CGAATCTGACTCCCCAGGCAGTGCAATGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCAC
* * * * * * ** *
45798886 CGACATTGCAGTTAAAAAGATTAAAGCTATAACGGCGTATCTTATTTCCTTGGCGGTGCAGTGGA
66 CGACATTGCAGTTAAAAAGATTAAAACTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGA
*
45798951 ACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATT
131 ACAGATTAAAGCCACAATGGCGAATCCTGCTTCCCCGACATT
45798993 ACAGTTAAAA
Statistics
Matches: 150, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
180 150 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (180 bp):
CGAATCTGACTCCCCAGGCAGTGCAATGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCAC
CGACATTGCAGTTAAAAAGATTAAAACTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGA
ACAGATTAAAGCCACAATGGCGAATCCTGCTTCCCCGACATTTATAACGG
Found at i:45804496 original size:17 final size:17
Alignment explanation
Indices: 45804474--45804507 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45804464 CTACTTTAAA
45804474 AGGAAAAATAATAAAAT
1 AGGAAAAATAATAAAAT
* *
45804491 AGGAAAATTAATTAAAT
1 AGGAAAAATAATAAAAT
45804508 TAACTAAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
AGGAAAAATAATAAAAT
Found at i:45804596 original size:3 final size:3
Alignment explanation
Indices: 45804588--45804639 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
45804578 TGACATAAAA
* * * * *
45804588 AAT AAT AAT AAT AAT AAT AAT AAC AAC AAC AAT AAT AAT AAC AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
45804636 AAT A
1 AAT A
45804640 TACTTTTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:45804606 original size:15 final size:15
Alignment explanation
Indices: 45804588--45804639 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
45804578 TGACATAAAA
* *
45804588 AATAATAATAATAAT
1 AATAATAATAACAAC
*
45804603 AATAATAACAACAAC
1 AATAATAATAACAAC
45804618 AATAATAATAACAAC
1 AATAATAATAACAAC
45804633 AATAATA
1 AATAATA
45804640 TACTTTTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAATAACAAC
Done.