Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 155 of 292
Found at i:46180513 original size:31 final size:30
Alignment explanation
Indices: 46180478--46180549 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
46180468 ATTATTAAAG
* *
46180478 TAAAATTATACTTTGATCTTTTT-TAAAATTA
1 TAAAATTATAATTTAAT-TTTTTAT-AAATTA
46180509 TAAAAATT-TAATTTAATTTTTTATAAATTA
1 T-AAAATTATAATTTAATTTTTTATAAATTA
*
46180539 TAAAAATATAA
1 TAAAATTATAA
46180550 ACTATAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
29 5 0.14
30 15 0.43
31 9 0.26
32 6 0.17
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (30 bp):
TAAAATTATAATTTAATTTTTTATAAATTA
Found at i:46180550 original size:15 final size:15
Alignment explanation
Indices: 46180530--46180559 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46180520 TTTAATTTTT
*
46180530 TATAAATTATAAAAA
1 TATAAACTATAAAAA
46180545 TATAAACTATAAAAA
1 TATAAACTATAAAAA
46180560 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:46185630 original size:37 final size:37
Alignment explanation
Indices: 46185589--46185664 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
46185579 CAAGAATGCA
46185589 TTATCAATTGTGCCTTTCAACTCTTGCCATTTCCATC
1 TTATCAATTGTGCCTTTCAACTCTTGCCATTTCCATC
46185626 TTATCAATTGTGCCTTTCAACTCTTGCCATTTCCATC
1 TTATCAATTGTGCCTTTCAACTCTTGCCATTTCCATC
46185663 TT
1 TT
46185665 CACCTTCTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.18, C:0.29, G:0.08, T:0.45
Consensus pattern (37 bp):
TTATCAATTGTGCCTTTCAACTCTTGCCATTTCCATC
Found at i:46193837 original size:29 final size:29
Alignment explanation
Indices: 46193805--46193899 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 29
46193795 TTGAGATACT
46193805 AAATTGAACTTAAAAAAAGTTTAGGTACC
1 AAATTGAACTTAAAAAAAGTTTAGGTACC
* *
46193834 AAATTAAGAA--AAAAATACCAAGTTAAGGTACC
1 AAATT--GAACTTAAAA-A--AAGTTTAGGTACC
**
46193866 AAATTGGGCTTAAAAAAAGTTTAGGTACC
1 AAATTGAACTTAAAAAAAGTTTAGGTACC
46193895 AAATT
1 AAATT
46193900 AAGAAAAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
29 26 0.49
30 2 0.04
31 4 0.08
32 21 0.40
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (29 bp):
AAATTGAACTTAAAAAAAGTTTAGGTACC
Found at i:46193887 original size:61 final size:61
Alignment explanation
Indices: 46193813--46193968 Score: 221
Period size: 58 Copynumber: 2.6 Consensus size: 61
46193803 CTAAATTGAA
* *
46193813 CTTAAAAAAAGTTTAGGTACCAAATTAAGAAAAAAATACCAAGTTAAGGTACCAAATTGGG
1 CTTAAAAAAAGTTTAGGTACCAAATTAAGAAAAAAATACCAAGTTAAGATACCAAATTAGG
** *
46193874 CTTAAAAAAAGTTTAGGTACCAAATTAAG-AAAAAATGTCAAGTTCAGATACCAAATTAGG
1 CTTAAAAAAAGTTTAGGTACCAAATTAAGAAAAAAATACCAAGTTAAGATACCAAATTAGG
* *
46193934 --TAAAAAAAGTTTAGGTACTAAATT-AGAACAAAATA
1 CTTAAAAAAAGTTTAGGTACCAAATTAAGAAAAAAATA
46193969 GTAAGTTGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
57 2 0.02
58 29 0.34
60 26 0.30
61 29 0.34
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (61 bp):
CTTAAAAAAAGTTTAGGTACCAAATTAAGAAAAAAATACCAAGTTAAGATACCAAATTAGG
Found at i:46193966 original size:27 final size:26
Alignment explanation
Indices: 46193816--46193966 Score: 95
Period size: 31 Copynumber: 5.2 Consensus size: 26
46193806 AATTGAACTT
46193816 AAAAAAAGTTTAGGTACCAAATTAAGAAA
1 AAAAAAAGTTTAGGTACCAAATT-AG--A
* * *
46193845 AAAATACCAAGTTAAGGTACCAAATTGGGCTT
1 AAAA-A--AAGTTTAGGTACCAAATT-AG--A
46193877 AAAAAAAGTTTAGGTACCAAATTAAGA
1 AAAAAAAGTTTAGGTACCAAATT-AGA
* * *
46193904 AAAAATGTCAAGTTCAGATACCAAATTAGGT
1 AAAAA----AAGTTTAGGTACCAAATTA-GA
*
46193935 AAAAAAAGTTTAGGTACTAAATTAGA
1 AAAAAAAGTTTAGGTACCAAATTAGA
*
46193961 ACAAAA
1 AAAAAA
46193967 TAGTAAGTTG
Statistics
Matches: 96, Mismatches: 18, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
26 6 0.06
27 21 0.22
29 22 0.23
30 2 0.02
31 23 0.24
32 22 0.23
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAAAAGTTTAGGTACCAAATTAGA
Found at i:46194215 original size:57 final size:57
Alignment explanation
Indices: 46194127--46194244 Score: 227
Period size: 57 Copynumber: 2.1 Consensus size: 57
46194117 TACCTCTCCT
*
46194127 TTTAACTCGATATTTATATATTTGTGTTTGTAATTACTTTTTTTATATCGCATAAAC
1 TTTAACTCGATATTCATATATTTGTGTTTGTAATTACTTTTTTTATATCGCATAAAC
46194184 TTTAACTCGATATTCATATATTTGTGTTTGTAATTACTTTTTTTATATCGCATAAAC
1 TTTAACTCGATATTCATATATTTGTGTTTGTAATTACTTTTTTTATATCGCATAAAC
46194241 TTTA
1 TTTA
46194245 CGTAAACAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (57 bp):
TTTAACTCGATATTCATATATTTGTGTTTGTAATTACTTTTTTTATATCGCATAAAC
Found at i:46194723 original size:3 final size:3
Alignment explanation
Indices: 46194715--46194754 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
46194705 CCTTTATTTT
46194715 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
46194755 GATGTCAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:46197163 original size:22 final size:22
Alignment explanation
Indices: 46197135--46197179 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
46197125 TTCAAATGAC
46197135 TATTTTAATGTATTGCTAAGCA
1 TATTTTAATGTATTGCTAAGCA
46197157 TATTTTAATGTATTGCTAAGCA
1 TATTTTAATGTATTGCTAAGCA
46197179 T
1 T
46197180 TTATACCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (22 bp):
TATTTTAATGTATTGCTAAGCA
Found at i:46205544 original size:26 final size:26
Alignment explanation
Indices: 46205515--46205573 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
46205505 TACCCCTAGC
* * *
46205515 AAAATTTTAATGATTTTACCTTTGGT
1 AAAATTTTAACGATGTTACCTTTAGT
* *
46205541 AAAATTTTGACGATGTTGCCTTTAGT
1 AAAATTTTAACGATGTTACCTTTAGT
46205567 AAAATTT
1 AAAATTT
46205574 CAAGAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (26 bp):
AAAATTTTAACGATGTTACCTTTAGT
Found at i:46205732 original size:6 final size:6
Alignment explanation
Indices: 46205721--46205751 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
46205711 TGCAAATGGA
46205721 TCATTT TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT T
46205752 TGGAAACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:46213200 original size:29 final size:29
Alignment explanation
Indices: 46213161--46213240 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
46213151 CTTAATAATC
*
46213161 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
46213191 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
46213220 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
46213241 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:46221103 original size:29 final size:29
Alignment explanation
Indices: 46221064--46221143 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
46221054 CTTAATAATC
*
46221064 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
46221094 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
46221123 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
46221144 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:46226810 original size:100 final size:101
Alignment explanation
Indices: 46226688--46226873 Score: 311
Period size: 101 Copynumber: 1.9 Consensus size: 101
46226678 AGCTATCTGA
* *
46226688 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATCCGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACTCAACAATACGGTACACGTAGTAGCCT
46226752 GCACTTAGTACTACACACGTGATCGAAGTCATTGAG
66 GCACTTAGTACTACACACGTGATCGAAGTCATTGAG
* * * *
46226788 TACGCATAGTAGCCTGCACTTAGTACTACAAATGTGACTTAACAGTATGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACTCAACAATACGGTACACGTAGTAGCCT
46226853 GCACTTAGTACTACACACGTG
66 GCACTTAGTACTACACACGTG
46226874 TACTCACAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 36 0.46
101 43 0.54
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (101 bp):
TACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACTCAACAATACGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATCGAAGTCATTGAG
Found at i:46230529 original size:2 final size:2
Alignment explanation
Indices: 46230522--46230551 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
46230512 CATACAACTT
*
46230522 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46230552 AGTATCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:46232473 original size:22 final size:22
Alignment explanation
Indices: 46232447--46232492 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
46232437 TCGATCCAAC
46232447 ACAAAGGAGTTCTGCATTTGCA
1 ACAAAGGAGTTCTGCATTTGCA
46232469 ACAAAGGAGTTCTGCATTTGCA
1 ACAAAGGAGTTCTGCATTTGCA
46232491 AC
1 AC
46232493 CATATTGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (22 bp):
ACAAAGGAGTTCTGCATTTGCA
Found at i:46237040 original size:16 final size:17
Alignment explanation
Indices: 46237007--46237041 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46236997 AGAAATAATA
*
46237007 ATATGTAAAATTTAAAT
1 ATATGTAAAATATAAAT
46237024 ATATGTAAAA-ATAAAT
1 ATATGTAAAATATAAAT
46237040 AT
1 AT
46237042 TAAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (17 bp):
ATATGTAAAATATAAAT
Found at i:46240756 original size:21 final size:21
Alignment explanation
Indices: 46240722--46240799 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
46240712 ATGTGGAGGG
**
46240722 GGCACACGGTCGTGTGGCTGA
1 GGCACACGCCCGTGTGGCTGA
*
46240743 GGCACACGCCCGTGTGAGC-CA
1 GGCACACGCCCGTGTG-GCTGA
* ** *
46240764 GGGACACATCTGTGTGGCTGA
1 GGCACACGCCCGTGTGGCTGA
* *
46240785 GACACATGCCCGTGT
1 GGCACACGCCCGTGT
46240800 AAGCTAGGAA
Statistics
Matches: 41, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
20 2 0.05
21 37 0.90
22 2 0.05
ACGTcount: A:0.18, C:0.28, G:0.36, T:0.18
Consensus pattern (21 bp):
GGCACACGCCCGTGTGGCTGA
Found at i:46241514 original size:15 final size:15
Alignment explanation
Indices: 46241489--46241521 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
46241479 AATTGTTTTC
46241489 AAAAATAAAAATAATA
1 AAAAATAAAAATAA-A
46241505 AAAAAT-AAAATAAA
1 AAAAATAAAAATAAA
46241519 AAA
1 AAA
46241522 CAAAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 7 0.41
16 6 0.35
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAATAAAAATAAA
Found at i:46244317 original size:56 final size:56
Alignment explanation
Indices: 46244247--46244359 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
46244237 GAAGAATCCC
* * *
46244247 TATAATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATCTCATCAAAT
1 TATAATCAAAGATTGACCCAATCCTAAAGAAAAAAAGAAATAAAATCTCATCAAAT
* *
46244303 TATAATTAAAGATTGACCCCATCCTAAAGAAAAAAAGAAATAAAATCTCATCAAAT
1 TATAATCAAAGATTGACCCAATCCTAAAGAAAAAAAGAAATAAAATCTCATCAAAT
46244359 T
1 T
46244360 TGTCTCAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (56 bp):
TATAATCAAAGATTGACCCAATCCTAAAGAAAAAAAGAAATAAAATCTCATCAAAT
Found at i:46245733 original size:13 final size:15
Alignment explanation
Indices: 46245715--46245746 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
46245705 TTATATACTA
46245715 TTTTATTA-A-TAGT
1 TTTTATTATATTAGT
46245728 TTTTATTATATTAGT
1 TTTTATTATATTAGT
46245743 TTTT
1 TTTT
46245747 GAATTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTTATTATATTAGT
Found at i:46245822 original size:13 final size:13
Alignment explanation
Indices: 46245804--46245829 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46245794 TTCGTTAATC
46245804 GCCTAAATCATTT
1 GCCTAAATCATTT
46245817 GCCTAAATCATTT
1 GCCTAAATCATTT
46245830 CTATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
GCCTAAATCATTT
Found at i:46246276 original size:13 final size:13
Alignment explanation
Indices: 46246258--46246294 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
46246248 ATTTTTAAAT
46246258 AAATAATATTTAA
1 AAATAATATTTAA
46246271 AAATAATATTTAA
1 AAATAATATTTAA
46246284 AAATAATATTT
1 AAATAATATTT
46246295 TTTTAACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATAATATTTAA
Found at i:46251172 original size:47 final size:48
Alignment explanation
Indices: 46251086--46251208 Score: 128
Period size: 47 Copynumber: 2.6 Consensus size: 48
46251076 GAGATGTAAG
***
46251086 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTATGAGATGAT-AA
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAACTATGAGAT-ATGAA
* *
46251132 TCAGTGTAAGACCATGTCTGGGACATGGCATCAACT-TGAGATATGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAACTATGAGATATGAA
** * *
46251179 CCAGCATAAGACCGTGTCTAGGACATGGCA
1 CCAGTGTAAGACCATGTCTGGGACATGGCA
46251209 CCGATACCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 12 0.19
47 46 0.72
48 6 0.09
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCAACTATGAGATATGAA
Found at i:46253962 original size:94 final size:92
Alignment explanation
Indices: 46253813--46254116 Score: 306
Period size: 94 Copynumber: 3.2 Consensus size: 92
46253803 TATGTGTGCT
*
46253813 AGTGTAAGACATGTCTGGGACATGTAT-TAGCCATAGCATGAGAGCCAGTGTAAGACATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCT-G-CATAG-ATGAGAGCCAGTGTAAGACATGTTTGG
* * **
46253877 GGCATGCATGGGCCTCGAGATATTTAAGCC
63 GACATGCATCGGCCTCGAGATATAAAAGCC
* *
46253907 AGTGTAAGACATGTCTGGGACATGCATCTGCATTGAGACGAGAGCTAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCTGCA-T-AGATGAGAGCCAGTGTAAGACATGTTTGGG
* *
46253972 ACATGCATCGGCCTC-ATGATATACAAGCT
64 ACATGCATCGGCCTCGA-GATATAAAAGCC
* * * * ** *
46254001 AGTGTAAGACCTGTTTGAGTCATGGCATCAACACCAATAGATGAGAGCCAGTGTAAGACCTGTTT
1 AGTGTAAGACATGTCTGGGACAT-GCAT---CTGC-ATAGATGAGAGCCAGTGTAAGACATGTTT
** *
46254066 GGGACATGGCATCGGCCTCGCTATATGAAAGCC
61 GGGACAT-GCATCGGCCTCGAGATATAAAAGCC
46254099 AGTGTAAGATCATGTCTG
1 AGTGTAAGA-CATGTCTG
46254117 AGGCATGGCG
Statistics
Matches: 174, Mismatches: 24, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
93 3 0.02
94 95 0.55
95 7 0.04
97 31 0.18
98 31 0.18
99 7 0.04
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCTGCATAGATGAGAGCCAGTGTAAGACATGTTTGGGAC
ATGCATCGGCCTCGAGATATAAAAGCC
Found at i:46253972 original size:46 final size:45
Alignment explanation
Indices: 46253813--46253980 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 45
46253803 TATGTGTGCT
*
46253813 AGTGTAAGACATGTCTGGGACATGTAT-TAGCCA-T-AGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCT-G-CATTGAG-A-GAGAGCC
* * ** * * * *
46253859 AGTGTAAGACATGTTTGGGGCATGCATGGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCTGCATTGAGAGA---GAGCC
*
46253907 AGTGTAAGACATGTCTGGGACATGCATCTGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCTGCATTGAGA-GAGAGCC
*
46253953 AGTGTAAGACATGTTTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
46253981 GGCCTCATGA
Statistics
Matches: 97, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.02
46 56 0.58
47 2 0.02
48 36 0.37
49 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCTGCATTGAGAGAGAGCC
Found at i:46254099 original size:49 final size:48
Alignment explanation
Indices: 46253850--46254113 Score: 214
Period size: 48 Copynumber: 5.5 Consensus size: 48
46253840 TAGCCATAGC
* * * *
46253850 ATGAGAGCCAGTGTAAGACATGTTTGGGGCATGCATGGGCCTCGAGAT
1 ATGAAAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGATAT
** * * * * *
46253898 ATTTAAGCCAGTGTAAGACATGTCTGGGACATGCATCTGCATTG--AG
1 ATGAAAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGATAT
* * *
46253944 ACGAGAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTC-ATGAT
1 ATGAAAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAT-AT
* * * * ** * *
46253992 AT-ACAAGCTAGTGTAAGACCTGTTTGAGTCATGGCATCAACAC-CAATAG
1 ATGA-AAGCCAGTGTAAGACATGTTTGGGACAT-GCATCGGC-CTCGATAT
* * *
46254041 ATGAGAGCCAGTGTAAGACCTGTTTGGGACATGGCATCGGCCTCGCTAT
1 ATGAAAGCCAGTGTAAGACATGTTTGGGACAT-GCATCGGCCTCGATAT
46254090 ATGAAAGCCAGTGTAAGATCATGT
1 ATGAAAGCCAGTGTAAGA-CATGT
46254114 CTGAGGCATG
Statistics
Matches: 167, Mismatches: 39, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
46 35 0.21
47 1 0.01
48 62 0.37
49 61 0.37
50 8 0.05
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
ATGAAAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGATAT
Found at i:46261230 original size:30 final size:30
Alignment explanation
Indices: 46261191--46261247 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
46261181 ATCGATTTTC
**
46261191 AAGTATAGGGTTAAAATGGTCATTTTGTGA
1 AAGTATAGGGGCAAAATGGTCATTTTGTGA
*
46261221 AAGTCTAGGGGCAAAATGGTCATTTTG
1 AAGTATAGGGGCAAAATGGTCATTTTG
46261248 CCCAATTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.33
Consensus pattern (30 bp):
AAGTATAGGGGCAAAATGGTCATTTTGTGA
Found at i:46261656 original size:46 final size:46
Alignment explanation
Indices: 46261589--46261798 Score: 167
Period size: 48 Copynumber: 4.5 Consensus size: 46
46261579 TGTGTGCTAA
*
46261589 TGTAAGACATGTCTGGGACATGCATCAACCACAGCATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAACCACAGAATGAGAGCCAG
** * *
46261635 TGTAAGACATGTCTGGGACATGCATGGGACTC-GAGATATTTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCAT-CAAC-CACAGA-A-TGAGAGCCAG
* * ** ** * *
46261683 TGTAAGACATGTCTAGGAAATGCATC-TGCATTGAGACGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAACCACAGA-ATGAGAGCCAG
* * * *
46261729 TGTAAGACATGTCTGGGACATGCATCAACCTCGTGATAT-ACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAACCAC-AGA-ATGA-GAGCCAG
46261777 TGTAAGACATGTCTGGGACATG
1 TGTAAGACATGTCTGGGACATG
46261799 GCGTTAGCTT
Statistics
Matches: 130, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
45 2 0.02
46 57 0.44
47 6 0.05
48 63 0.48
49 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCAACCACAGAATGAGAGCCAG
Found at i:46261788 original size:48 final size:48
Alignment explanation
Indices: 46261584--46261798 Score: 176
Period size: 46 Copynumber: 4.6 Consensus size: 48
46261574 TGATATGTGT
* * * *
46261584 GCTAATGTAAGACATGTCTGGGACATGCATCAACCACAG-CAT-GA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCTC-GTGATAGACAA
* ** * ***
46261630 GCCAGTGTAAGACATGTCTGGGACATGCATGGGA-CTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCAT-CAACCTCGTGATAGACAA
* * * ** *
46261678 GCCAGTGTAAGACATGTCTAGGAAATGCATCTGCAT--TG--AGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGTGATAGAC-A-A
*
46261724 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGTGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGTGATAGACAA
46261772 GCTAGTGTAAGACATGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
46261799 GCGTTAGCTT
Statistics
Matches: 132, Mismatches: 26, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 64 0.48
47 1 0.01
48 60 0.45
49 1 0.01
50 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGTGATAGACAA
Found at i:46266269 original size:21 final size:21
Alignment explanation
Indices: 46266244--46266284 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46266234 CTGCTCTGTT
46266244 CTGCCTCCCT-TGCTGCTGCCG
1 CTGCCTCCCTCT-CTGCTGCCG
46266265 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCTCTGCTGCC
46266285 TCCGCTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.51, G:0.20, T:0.29
Consensus pattern (21 bp):
CTGCCTCCCTCTCTGCTGCCG
Found at i:46271825 original size:9 final size:9
Alignment explanation
Indices: 46271813--46271845 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
46271803 TATATTTATG
46271813 TATGTAAGT
1 TATGTAAGT
*
46271822 TATGTAAAT
1 TATGTAAGT
46271831 TATGTAAGT
1 TATGTAAGT
46271840 TATGTA
1 TATGTA
46271846 TTATGTACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:46271843 original size:31 final size:31
Alignment explanation
Indices: 46271782--46271846 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
46271772 ACAATTAAGT
* *
46271782 TATGTAAGTTATGATATGATATATATTTATG
1 TATGTAAGTTATGAAATGATATATAGTTATG
* *
46271813 TATGTAAGTTATGTAAATTATGTA-AGTTATG
1 TATGTAAGTTATG-AAATGATATATAGTTATG
46271844 TAT
1 TAT
46271847 TATGTACGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 22 0.76
32 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (31 bp):
TATGTAAGTTATGAAATGATATATAGTTATG
Found at i:46271850 original size:16 final size:17
Alignment explanation
Indices: 46271813--46271852 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
46271803 TATATTTATG
46271813 TATGTAAGTTATGTAAAT
1 TATGTAAGTTATGT-AAT
46271831 TATGTAAGTTATGT-AT
1 TATGTAAGTTATGTAAT
46271847 TATGTA
1 TATGTA
46271853 CGACATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.36
18 14 0.64
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (17 bp):
TATGTAAGTTATGTAAT
Found at i:46271992 original size:9 final size:9
Alignment explanation
Indices: 46271978--46272118 Score: 66
Period size: 9 Copynumber: 15.7 Consensus size: 9
46271968 TGTGTTAATT
46271978 TTATGTAAA
1 TTATGTAAA
*
46271987 TTATGTAAG
1 TTATGTAAA
46271996 TTATG-AAA
1 TTATGTAAA
*
46272004 TTTGATCTTTAAA
1 -TT-A--TGTAAA
*
46272017 TTATGTAAG
1 TTATGTAAA
*
46272026 TCATGT--A
1 TTATGTAAA
46272033 TTATGTAAGA
1 TTATGTAA-A
46272043 -TATGT--A
1 TTATGTAAA
*
46272049 TTATGTAAG
1 TTATGTAAA
46272058 TTATG-AAA
1 TTATGTAAA
*
46272066 TTCAAACTTTAAA
1 TT---A-TGTAAA
*
46272079 TTATGTAAG
1 TTATGTAAA
46272088 TTATGT--A
1 TTATGTAAA
46272095 TTATGTAAA
1 TTATGTAAA
*
46272104 TTAAGTAAA
1 TTATGTAAA
46272113 TTATGT
1 TTATGT
46272119 GAGTTGCTGG
Statistics
Matches: 98, Mismatches: 16, Indels: 36
0.65 0.11 0.24
Matches are distributed among these distances:
6 1 0.01
7 16 0.16
8 6 0.06
9 58 0.59
10 3 0.03
11 2 0.02
12 4 0.04
13 8 0.08
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.45
Consensus pattern (9 bp):
TTATGTAAA
Found at i:46272017 original size:30 final size:30
Alignment explanation
Indices: 46271983--46272092 Score: 100
Period size: 30 Copynumber: 3.6 Consensus size: 30
46271973 TAATTTTATG
*
46271983 TAAATTATGTAAGTTATGAAATTTGATCTT
1 TAAATTATGTAAGTTATGAAATTAGATCTT
* * * *
46272013 TAAATTATGTAAGTCATGTATTATGTAAGATATG
1 TAAATTATGTAAGTTATG-A-AAT-T-AGATCTT
*
46272047 T--ATTATGTAAGTTATGAAATTCA-AACTT
1 TAAATTATGTAAGTTATGAAATT-AGATCTT
46272075 TAAATTATGTAAGTTATG
1 TAAATTATGTAAGTTATG
46272093 TATTATGTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
28 3 0.05
29 2 0.03
30 34 0.54
31 2 0.03
32 16 0.25
33 1 0.02
34 5 0.08
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.44
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAAATTAGATCTT
Found at i:46272062 original size:16 final size:16
Alignment explanation
Indices: 46272016--46272102 Score: 79
Period size: 16 Copynumber: 5.6 Consensus size: 16
46272006 TGATCTTTAA
*
46272016 ATTATGTAAGTCATGT
1 ATTATGTAAGTTATGT
*
46272032 ATTATGTAAGATATGT
1 ATTATGTAAGTTATGT
*
46272048 ATTATGTAAGTTATGA
1 ATTATGTAAGTTATGT
* ** * **
46272064 AAT-TCAAACTT-TAA
1 ATTATGTAAGTTATGT
46272078 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
46272094 ATTATGTAA
1 ATTATGTAA
46272103 ATTAAGTAAA
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
14 4 0.07
15 10 0.19
16 40 0.74
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:46272062 original size:62 final size:62
Alignment explanation
Indices: 46271986--46272102 Score: 198
Period size: 62 Copynumber: 1.9 Consensus size: 62
46271976 TTTTATGTAA
** *
46271986 ATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTATTATGTAAGATATGT
1 ATTATGTAAGTTATGAAATTCAAACTTTAAATTATGTAAGTCATGTATTATGTAAGATATGT
*
46272048 ATTATGTAAGTTATGAAATTCAAACTTTAAATTATGTAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGAAATTCAAACTTTAAATTATGTAAGTCATGTATTATGTAA
46272103 ATTAAGTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (62 bp):
ATTATGTAAGTTATGAAATTCAAACTTTAAATTATGTAAGTCATGTATTATGTAAGATATGT
Found at i:46272330 original size:98 final size:99
Alignment explanation
Indices: 46272217--46272700 Score: 787
Period size: 99 Copynumber: 4.9 Consensus size: 99
46272207 AATTAAAGTG
46272217 AAATAAAAT-AGAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAA
1 AAATAAAATGA-AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAA
*
46272281 ATAAAATAAAATATTGAAAATATTTTTTGTGATTC
65 ATAAAATAAAATATTGAAAATATTTTTCGTGATTC
* *
46272316 AAA-AAAATGAAATATTTACAATAAAACTTTAAATATAATTTAATTTAATTAGGTAATGTTAAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
46272380 TAAAATAAAATATTGAAAATATTTTTCGTGATTC
66 TAAAATAAAATATTGAAAATATTTTTCGTGATTC
*
46272414 -AA-AAAATGAAATATTTACAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATG-T----
*
46272477 TAAAATAAAATAAAATATTGAAATTATTTTTCGTGATTC
61 TAAAATAAAATAAAATATTGAAAATATTTTTCGTGATTC
*
46272516 AAATTAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
* *
46272581 TAAAATAAAACATTGAAATTATTTTTCGTGATTC
66 TAAAATAAAATATTGAAAATATTTTTCGTGATTC
* *
46272615 AAATTAAATGAAATATTTAAAATAAAACTTTAAATACGATTTAATTTAATTAGGTAATGTTAAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
*
46272680 TAAAATAAAATATTTAAAATA
66 TAAAATAAAATATTGAAAATA
46272701 AAATAAAATA
Statistics
Matches: 365, Mismatches: 12, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
97 56 0.15
98 91 0.25
99 124 0.34
102 38 0.10
103 3 0.01
104 53 0.15
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.38
Consensus pattern (99 bp):
AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
TAAAATAAAATATTGAAAATATTTTTCGTGATTC
Found at i:46272691 original size:62 final size:60
Alignment explanation
Indices: 46272615--46272805 Score: 196
Period size: 62 Copynumber: 3.2 Consensus size: 60
46272605 TTCGTGATTC
* * *
46272615 AAATTAAATGAAATATTTAAAATAAAACTTTAAATACGATTTAATTTAATTAGGTAATGTTA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATA-AATTTAATTTAATTAGGTAAT-TTA
* * * * ** * *
46272677 AAATAAAATAAAATATTTAAAATAAAA---TAAA-ATATTAAAATTATTTTTGTGA-TTC
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATAAATTTAATTTAATTAGGTAATTTA
*
46272732 AAA-AAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAATTTGA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATA-AATTTAATTTAATTAGGTAATTT-A
46272793 AAATAAAATAAAA
1 AAATAAAATAAAA
46272806 GATAACAAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
54 22 0.22
55 5 0.05
57 17 0.17
58 2 0.02
59 17 0.17
60 2 0.02
61 3 0.03
62 34 0.33
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (60 bp):
AAATAAAATAAAATATTTAAAATAAAACTTTAAATAAATTTAATTTAATTAGGTAATTTA
Found at i:46272716 original size:18 final size:19
Alignment explanation
Indices: 46272674--46272717 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
46272664 TTAGGTAATG
46272674 TTAAAATAAAATAAAATAT
1 TTAAAATAAAATAAAATAT
46272693 TTAAAATAAAATAAAATA-
1 TTAAAATAAAATAAAATAT
46272711 TTAAAAT
1 TTAAAAT
46272718 TATTTTTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TTAAAATAAAATAAAATAT
Found at i:46272773 original size:116 final size:118
Alignment explanation
Indices: 46272575--46272805 Score: 369
Period size: 116 Copynumber: 2.0 Consensus size: 118
46272565 TTAGGTAATG
* * *
46272575 TTAAAATAAAATAAAACATTGAAATTATTTTTCGTGATTCAAATTAAATGAAATATTTAAAATAA
1 TTAAAATAAAATAAAACATTAAAATTATTTTTCGTGATTCAAATAAAATAAAATATTTAAAATAA
*
46272640 AACTTTAAATACGATTTAATTTAATTAGGTAATGTT-AAAATAAAATAAAATAT
66 AACTTTAAATACAATTTAATTTAATTAGGTAAT-TTGAAAATAAAATAAAATAT
* *
46272693 TTAAAATAAAATAAAATATTAAAATTATTTTT-GTGATTCAAA-AAAATAAAATATTTAAAATGA
1 TTAAAATAAAATAAAACATTAAAATTATTTTTCGTGATTCAAATAAAATAAAATATTTAAAATAA
*
46272756 AACTTTAAATATAATTTAATTTAATTAGGTAATTTGAAAATAAAATAAAA
66 AACTTTAAATACAATTTAATTTAATTAGGTAATTTGAAAATAAAATAAAA
46272806 GATAACAAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
115 2 0.02
116 63 0.60
117 10 0.10
118 30 0.29
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (118 bp):
TTAAAATAAAATAAAACATTAAAATTATTTTTCGTGATTCAAATAAAATAAAATATTTAAAATAA
AACTTTAAATACAATTTAATTTAATTAGGTAATTTGAAAATAAAATAAAATAT
Found at i:46275757 original size:12 final size:12
Alignment explanation
Indices: 46275740--46275765 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46275730 CAAGTTAAAT
46275740 TAAGTCACCAAA
1 TAAGTCACCAAA
46275752 TAAGTCACCAAA
1 TAAGTCACCAAA
46275764 TA
1 TA
46275766 TGCAAATCAT
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:0.50, C:0.23, G:0.08, T:0.19
Consensus pattern (12 bp):
TAAGTCACCAAA
Found at i:46278735 original size:40 final size:40
Alignment explanation
Indices: 46278650--46278735 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
46278640 CTTTTGAGGT
* * * * * *
46278650 GATCTTTAGCGGCATTTTTTAGAAAGCGCTGCTAATGCTC
1 GATCTTTAGCGGCATTTTTCAAAAAACGCCGCTAAAGATC
* *
46278690 CATCTTTAGCGGCGTTTTTCAAAAAACGCCGCTAAAGATC
1 GATCTTTAGCGGCATTTTTCAAAAAACGCCGCTAAAGATC
46278730 GATCTT
1 GATCTT
46278736 CTAAATAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (40 bp):
GATCTTTAGCGGCATTTTTCAAAAAACGCCGCTAAAGATC
Found at i:46278949 original size:40 final size:40
Alignment explanation
Indices: 46278891--46279011 Score: 170
Period size: 40 Copynumber: 3.0 Consensus size: 40
46278881 AACTTTTATT
** *
46278891 GCGGCGCTTTTTAAAAAACGCCACTAATGCTTGATCTTTA
1 GCGGCGCTTTTGGAAAAACGCCACTAATGCTTTATCTTTA
* * *
46278931 GCGGCGCTTTTGGGAAAACGCCGCTACTGCTTTATCTTTA
1 GCGGCGCTTTTGGAAAAACGCCACTAATGCTTTATCTTTA
* *
46278971 GCGGCACTTTTGGTAAAACGCCACTAATGCTTTATCTTTA
1 GCGGCGCTTTTGGAAAAACGCCACTAATGCTTTATCTTTA
46279011 G
1 G
46279012 AGGCATTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (40 bp):
GCGGCGCTTTTGGAAAAACGCCACTAATGCTTTATCTTTA
Found at i:46278968 original size:116 final size:116
Alignment explanation
Indices: 46278681--46278956 Score: 365
Period size: 117 Copynumber: 2.4 Consensus size: 116
46278671 GAAAGCGCTG
* * * *
46278681 CTAATGCTCCATCTTTAGCGGCGTTTTTCAAAAAACGCCGCTAAAGATCGATCTTCTAAATAAAT
1 CTAATGCT-TATCTTTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGATCGATCTTCTAAACAAAA
* * *
46278746 GGCGACGTCGTTTTGGTCAACTATTTTTTGCGGCGCTTTTCAGAAAACGCCG
65 GGCGACGTCGTTTTGGTCAACTATTTATTGCGGCGCTTTTCAAAAAACGCCA
* * **
46278798 CTAATGCTTAACATTTAGCGGTGCTTTTTTAAAAACGCCGCTAAAGATCGATCTTCTAAACAAAA
1 CTAATGCTTATC-TTTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGATCGATCTTCTAAACAAAA
* * *
46278863 GGCGATGTCGTTTTGTTCAACT-TTTATTGCGGCGCTTTTTAAAAAACGCCA
65 GGCGACGTCGTTTTGGTCAACTATTTATTGCGGCGCTTTTCAAAAAACGCCA
***
46278914 CTAATGCTTGATCTTTAGCGGCGCTTTTGGGAAAACGCCGCTA
1 CTAATGCTT-ATCTTTAGCGGCGCTTTTCAAAAAACGCCGCTA
46278957 CTGCTTTATC
Statistics
Matches: 138, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
116 62 0.45
117 76 0.55
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (116 bp):
CTAATGCTTATCTTTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGATCGATCTTCTAAACAAAAG
GCGACGTCGTTTTGGTCAACTATTTATTGCGGCGCTTTTCAAAAAACGCCA
Found at i:46279022 original size:40 final size:40
Alignment explanation
Indices: 46278905--46279022 Score: 173
Period size: 40 Copynumber: 3.0 Consensus size: 40
46278895 CGCTTTTTAA
* *
46278905 AAAACGCCACTAATGCTTGATCTTTAGCGGCGCTTTTGGG
1 AAAACGCCACTAATGCTTTATCTTTAGCGGCACTTTTGGG
* * *
46278945 AAAACGCCGCTACTGCTTTATCTTTAGCGGCACTTTTGGT
1 AAAACGCCACTAATGCTTTATCTTTAGCGGCACTTTTGGG
* *
46278985 AAAACGCCACTAATGCTTTATCTTTAGAGGCATTTTTG
1 AAAACGCCACTAATGCTTTATCTTTAGCGGCACTTTTG
46279023 AAAAAGCGCT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (40 bp):
AAAACGCCACTAATGCTTTATCTTTAGCGGCACTTTTGGG
Found at i:46279038 original size:40 final size:39
Alignment explanation
Indices: 46278904--46279038 Score: 153
Period size: 40 Copynumber: 3.4 Consensus size: 39
46278894 GCGCTTTTTA
* * *
46278904 AAAAACGCCACTAATGCTTGATCTTTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAATGCTTTATCTTTAGCGGC-ATTTTGG
* *
46278944 GAAAACGCCGCTACTGCTTTATCTTTAGCGGCACTTTTGG
1 AAAAACGCCGCTAATGCTTTATCTTTAGCGGCA-TTTTGG
* * * *
46278984 TAAAACGCCACTAATGCTTTATCTTTAGAGGCATTTTTG
1 AAAAACGCCGCTAATGCTTTATCTTTAGCGGCATTTTGG
*
46279023 AAAAAGCGCTGCTAAT
1 AAAAA-CGCCGCTAAT
46279039 TCTCGATCTA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
39 9 0.11
40 71 0.89
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (39 bp):
AAAAACGCCGCTAATGCTTTATCTTTAGCGGCATTTTGG
Found at i:46279055 original size:80 final size:80
Alignment explanation
Indices: 46278887--46279055 Score: 180
Period size: 80 Copynumber: 2.1 Consensus size: 80
46278877 GTTCAACTTT
* * * * *
46278887 TATTGCGGCGCTTTTTAAAAAACGCCACTAATGCTTGATCTTTAGCGGCGCTTTTGGGAAAACGC
1 TATTGCGGCACTTTTGAAAAAACGCCACTAATGCTTGATCTTTAGAGGCGATTTTGGAAAAACGC
* **
46278952 CGCTACTGCTTTATC
66 CGCTAATGCTCGATC
** * *
46278967 T-TTAGCGGCACTTTTGGTAAAACGCCACTAATGCTTTATCTTTAGAGGC-ATTTTTGAAAAAGC
1 TATT-GCGGCACTTTTGAAAAAACGCCACTAATGCTTGATCTTTAGAGGCGATTTTGGAAAAA-C
* *
46279030 GCTGCTAATTCTCGATC
64 GCCGCTAATGCTCGATC
46279047 TATTGCGGC
1 TATTGCGGC
46279056 GTTTGTTTCA
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
79 11 0.15
80 59 0.82
81 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (80 bp):
TATTGCGGCACTTTTGAAAAAACGCCACTAATGCTTGATCTTTAGAGGCGATTTTGGAAAAACGC
CGCTAATGCTCGATC
Found at i:46279094 original size:41 final size:41
Alignment explanation
Indices: 46279033--46279114 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
46279023 AAAAAGCGCT
* *
46279033 GCTAATTCTCGATCTATTGCGGCGTTTGTT-TCATAAACGCC
1 GCTAATTCTCGACCTATTGCGGCGTTT-TTGTCACAAACGCC
* *
46279074 GCTAATTCTTGACCTTTTGCGGCGTTTTTGTCACAAACGCC
1 GCTAATTCTCGACCTATTGCGGCGTTTTTGTCACAAACGCC
46279115 ACTATAACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 34 0.94
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.37
Consensus pattern (41 bp):
GCTAATTCTCGACCTATTGCGGCGTTTTTGTCACAAACGCC
Found at i:46288888 original size:22 final size:22
Alignment explanation
Indices: 46288835--46288889 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
46288825 GAATAGTACC
46288835 ACACGCCCGTGTGGCTTGTGTG
1 ACACGCCCGTGTGGCTTGTGTG
* *
46288857 ACATGTCCGTGTGGC-TGATGTG
1 ACACGCCCGTGTGGCTTG-TGTG
46288879 ACACGCCCGTG
1 ACACGCCCGTG
46288890 AAGGGCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.13, C:0.27, G:0.35, T:0.25
Consensus pattern (22 bp):
ACACGCCCGTGTGGCTTGTGTG
Found at i:46293699 original size:21 final size:21
Alignment explanation
Indices: 46293673--46293723 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
46293663 ACTAGTTTGA
*
46293673 GGGTGGTAAGGGGTAGCTGTT
1 GGGTGGTAAGGGGTAGCTCTT
46293694 GGGTGGTAAGGGGTAGCTCTT
1 GGGTGGTAAGGGGTAGCTCTT
*
46293715 TGGTGGTAA
1 GGGTGGTAA
46293724 ACTCCATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.06, G:0.49, T:0.29
Consensus pattern (21 bp):
GGGTGGTAAGGGGTAGCTCTT
Found at i:46295880 original size:43 final size:43
Alignment explanation
Indices: 46295833--46295919 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
46295823 TTTTCCAAAC
46295833 TATGGCCTTTTTATGTTCTTTTAATACCTGGATTAATTCCTCT
1 TATGGCCTTTTTATGTTCTTTTAATACCTGGATTAATTCCTCT
*
46295876 TATGGCTTTTTTATGTTCTTTTAATACCTGGATTAATTCCTCT
1 TATGGCCTTTTTATGTTCTTTTAATACCTGGATTAATTCCTCT
46295919 T
1 T
46295920 TCTCCTTGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.18, C:0.17, G:0.11, T:0.53
Consensus pattern (43 bp):
TATGGCCTTTTTATGTTCTTTTAATACCTGGATTAATTCCTCT
Found at i:46299314 original size:27 final size:27
Alignment explanation
Indices: 46299284--46299461 Score: 221
Period size: 27 Copynumber: 6.6 Consensus size: 27
46299274 CGACTTGTAA
* * *
46299284 AATTACCAAAATACCCCTATAGCGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46299311 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
46299338 AGTTACCGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
46299365 AAATACAGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
46299392 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
46299419 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46299446 AATTACCGAGATACCC
1 AATTACCGAAATACCC
46299462 TTGTGGGCAA
Statistics
Matches: 130, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 130 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:46299588 original size:16 final size:16
Alignment explanation
Indices: 46299567--46299597 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46299557 CAAATATGGG
*
46299567 CATGACATTTTGCATA
1 CATGACATGTTGCATA
46299583 CATGACATGTTGCAT
1 CATGACATGTTGCAT
46299598 GGGTGGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:46303040 original size:30 final size:29
Alignment explanation
Indices: 46302946--46303047 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
46302936 TATAGTGAAT
* * *
46302946 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
46302975 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
46303003 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
46303033 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
46303048 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:46310921 original size:30 final size:29
Alignment explanation
Indices: 46310827--46310928 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
46310817 TATAGTGAAT
* * *
46310827 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
46310856 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
46310884 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
46310914 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
46310929 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:46314646 original size:19 final size:20
Alignment explanation
Indices: 46314612--46314649 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
46314602 AGTCCTTACA
46314612 CTAAATTAACCTTAATTAAG
1 CTAAATTAACCTTAATTAAG
*
46314632 CTAAATTTA-CTTAATTAA
1 CTAAATTAACCTTAATTAA
46314650 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
CTAAATTAACCTTAATTAAG
Found at i:46322032 original size:20 final size:21
Alignment explanation
Indices: 46322007--46322057 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
46321997 GTCCTTACAT
46322007 TAAATTAACCTTAATT-AATC
1 TAAATTAACCTTAATTAAATC
*
46322027 TAAATTTA-CTTAATTAAAATC
1 TAAATTAACCTTAATT-AAATC
46322048 T-AATTAACCT
1 TAAATTAACCT
46322058 CTCACTTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 7 0.27
20 12 0.46
21 7 0.27
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATTAACCTTAATTAAATC
Found at i:46327634 original size:15 final size:15
Alignment explanation
Indices: 46327595--46327672 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
46327585 GTATCTTGGG
*
46327595 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
46327610 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
46327625 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
*
46327638 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
46327653 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
46327667 TTTCTT
1 TTTCTT
46327673 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
12 2 0.04
13 7 0.13
14 12 0.23
15 30 0.57
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:46327661 original size:28 final size:28
Alignment explanation
Indices: 46327586--46327668 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
46327576 CATAGTATCG
* * * *
46327586 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GG-TTTCTC
46327616 TAT-TCTGGATTTCTTTATTCGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGTTTCTC
46327644 TATCTTGGATTTCTTTATTCGGTTT
1 TATCTTGGATTTCTTTATTCGGTTT
46327669 TCTTGTTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 27 0.57
29 4 0.09
30 16 0.34
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.57
Consensus pattern (28 bp):
TATCTTGGATTTCTTTATTCGGTTTCTC
Found at i:46330190 original size:36 final size:36
Alignment explanation
Indices: 46330143--46330214 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
46330133 CCGACTCGTT
46330143 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
46330179 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
46330215 CGAGCTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (36 bp):
GAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
Found at i:46338532 original size:9 final size:9
Alignment explanation
Indices: 46338515--46338661 Score: 103
Period size: 10 Copynumber: 16.0 Consensus size: 9
46338505 CTTATTAATT
46338515 TTATAAAAA
1 TTATAAAAA
46338524 CTTATAAAAA
1 -TTATAAAAA
46338534 TTATAAACAA
1 TTATAAA-AA
*
46338544 TCTA-ATAAA
1 T-TATAAAAA
46338553 TTATAAAAAAAA
1 TTAT---AAAAA
46338565 TT-TAAAAA
1 TTATAAAAA
46338573 TTCATAAAAA
1 TT-ATAAAAA
* *
46338583 TTGTAAATA
1 TTATAAAAA
46338592 TTATAATAAA
1 TTATAA-AAA
*
46338602 TTATAAAAG
1 TTATAAAAA
46338611 TTATAATAAA
1 TTATAA-AAA
46338621 TTAT----A
1 TTATAAAAA
46338626 TTATGAAAAA
1 TTAT-AAAAA
46338636 TT-T-AAAA
1 TTATAAAAA
46338643 TATATAAAAA
1 T-TATAAAAA
46338653 TTATAAAAA
1 TTATAAAAA
46338662 AGTCATTTAT
Statistics
Matches: 111, Mismatches: 8, Indels: 37
0.71 0.05 0.24
Matches are distributed among these distances:
5 5 0.05
7 5 0.05
8 10 0.09
9 38 0.34
10 44 0.40
11 3 0.03
12 6 0.05
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:46338537 original size:19 final size:18
Alignment explanation
Indices: 46338515--46338661 Score: 103
Period size: 19 Copynumber: 8.0 Consensus size: 18
46338505 CTTATTAATT
46338515 TTATAAAAACTTATAAAAA
1 TTATAAAAA-TTATAAAAA
*
46338534 TTATAAACAATCTA-ATAAA
1 TTATAAA-AAT-TATAAAAA
46338553 TTATAAAAAAAATT-TAAAAA
1 TTAT---AAAAATTATAAAAA
* *
46338573 TTCATAAAAATTGTAAATA
1 TT-ATAAAAATTATAAAAA
*
46338592 TTATAATAAATTATAAAAG
1 TTATAA-AAATTATAAAAA
46338611 TTATAATAAATTAT----A
1 TTATAA-AAATTATAAAAA
46338626 TTATGAAAAATT-T-AAAA
1 TTAT-AAAAATTATAAAAA
46338643 TATATAAAAATTATAAAAA
1 T-TATAAAAATTATAAAAA
46338662 AGTCATTTAT
Statistics
Matches: 105, Mismatches: 7, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
14 1 0.01
15 9 0.09
16 2 0.02
17 9 0.09
18 15 0.14
19 50 0.48
20 11 0.10
21 5 0.05
22 3 0.03
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.35
Consensus pattern (18 bp):
TTATAAAAATTATAAAAA
Found at i:46338637 original size:34 final size:32
Alignment explanation
Indices: 46338589--46338657 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 32
46338579 AAAATTGTAA
46338589 ATATTATAATAAATTATAAAAGT-TATAATAAATT
1 ATATTATAATAAATT-TAAAA-TATATAA-AAATT
46338623 ATATTATGAA-AAATTTAAAATATATAAAAATT
1 ATATTAT-AATAAATTTAAAATATATAAAAATT
46338655 ATA
1 ATA
46338658 AAAAAGTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
32 9 0.27
33 10 0.30
34 12 0.36
35 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (32 bp):
ATATTATAATAAATTTAAAATATATAAAAATT
Found at i:46340910 original size:31 final size:31
Alignment explanation
Indices: 46340864--46340932 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
46340854 AAAAAAATAC
* *
46340864 TCAATAACTTAAATAAAAACTTTTGAATCAT
1 TCAATGACTTAAATAAAAACTTTTGAATAAT
* *
46340895 TCAATGACTTTAATAAAAATTTTTGAATAAT
1 TCAATGACTTAAATAAAAACTTTTGAATAAT
*
46340926 TCGATGA
1 TCAATGA
46340933 AATTATAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (31 bp):
TCAATGACTTAAATAAAAACTTTTGAATAAT
Found at i:46347124 original size:38 final size:38
Alignment explanation
Indices: 46347077--46347157 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
46347067 CAAGTGTTTT
46347077 TCATATTCAACAATATGAACACACATTATTATAATCTA
1 TCATATTCAACAATATGAACACACATTATTATAATCTA
*
46347115 TCATGTTCAACAATATGAACACACATTATTATAATCTA
1 TCATATTCAACAATATGAACACACATTATTATAATCTA
46347153 TCATA
1 TCATA
46347158 ATTTCATGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.35
Consensus pattern (38 bp):
TCATATTCAACAATATGAACACACATTATTATAATCTA
Found at i:46347899 original size:42 final size:42
Alignment explanation
Indices: 46347777--46347932 Score: 215
Period size: 42 Copynumber: 3.7 Consensus size: 42
46347767 TACCAAACCA
* *
46347777 ATGCCATATCCCAGATATGGTCTTACATGTAAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAATCTCATATCG
* * *
46347820 ATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
46347863 ATGCCATATCTCAGATATTGTCTTACACGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCG
46347905 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
46347933 ATAGTCTCGA
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
42 55 0.56
43 24 0.24
44 20 0.20
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:46353407 original size:126 final size:125
Alignment explanation
Indices: 46353162--46353397 Score: 348
Period size: 126 Copynumber: 1.9 Consensus size: 125
46353152 ACACACGCTA
* * *
46353162 GTGTGCTCAATTTTGGACATTCTGTTTTGCCTAAACTAAGGTGTAAGGGACACACGATCAGATAA
1 GTGTGCTCAATTCTGGACATTCTGTTTTGCCTAAACTAAGGTGCAAGGGACACACGACCAGATAA
* *
46353227 CATGCCCATGGGGCTGACCGTGTGTCACACATGGCCTAGATACACGCCCTTGTCTCTGCCC
66 CACGCCCATGGGGCTGACCGTGTGTCACACA-GGCCTAGACACACGCCCTTGTCTCTGCCC
* * * *
46353288 GTGTGCTCAATTCTGGACATTCTGTTTTGCCTAAATTAAGGTGCAGGGGACACATGACCGGATAA
1 GTGTGCTCAATTCTGGACATTCTGTTTTGCCTAAACTAAGGTGCAAGGGACACACGACCAGATAA
* **
46353353 GACGCCCATGGGGCTGATTGTGTGTCACACA-GCCTAGACACACGC
66 CACGCCCATGGGGCTGACCGTGTGTCACACAGGCCTAGACACACGC
46353398 TCGTGTGTCT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
124 13 0.13
126 85 0.87
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (125 bp):
GTGTGCTCAATTCTGGACATTCTGTTTTGCCTAAACTAAGGTGCAAGGGACACACGACCAGATAA
CACGCCCATGGGGCTGACCGTGTGTCACACAGGCCTAGACACACGCCCTTGTCTCTGCCC
Found at i:46355207 original size:20 final size:21
Alignment explanation
Indices: 46355184--46355230 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 21
46355174 ATTTAGATGC
46355184 AATTTTAATTATTTT-ATAAA
1 AATTTTAATTATTTTAATAAA
*
46355204 AA--TTAATTATTTTCAATAAG
1 AATTTTAATTATTTT-AATAAA
46355224 AATTTTA
1 AATTTTA
46355231 TCAAAACTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 11 0.50
20 8 0.36
22 3 0.14
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTTAATTATTTTAATAAA
Found at i:46358756 original size:25 final size:24
Alignment explanation
Indices: 46358728--46358779 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
46358718 ATTCTAACAT
46358728 TATATTAAATT-GATAATAATTAATA
1 TATATTAAATTGGAT-ATAATT-ATA
*
46358753 TATATTATATTGGATATAATTATA
1 TATATTAAATTGGATATAATTATA
46358777 TAT
1 TAT
46358780 TAATAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 6 0.24
25 16 0.64
26 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (24 bp):
TATATTAAATTGGATATAATTATA
Found at i:46376470 original size:29 final size:29
Alignment explanation
Indices: 46376435--46376567 Score: 151
Period size: 29 Copynumber: 4.6 Consensus size: 29
46376425 TAGCATAAAA
*
46376435 ACTTGGTGGACTCATACATGTC-GATTCAT
1 ACTTGGTGAACTCATACATG-CGGATTCAT
* * *
46376464 GCTTGGTGAAATCACACATGCGGATTCAT
1 ACTTGGTGAACTCATACATGCGGATTCAT
* *
46376493 ACTTGGTGAACTCATACATGAGGATCCAT
1 ACTTGGTGAACTCATACATGCGGATTCAT
** *
46376522 ACTTGGTGGGCTCATACTTGCGGATTCAT
1 ACTTGGTGAACTCATACATGCGGATTCAT
* *
46376551 ACTTGGTTAACTTATAC
1 ACTTGGTGAACTCATAC
46376568 TTAGTGAACT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 1 0.01
29 84 0.99
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (29 bp):
ACTTGGTGAACTCATACATGCGGATTCAT
Found at i:46376552 original size:14 final size:14
Alignment explanation
Indices: 46376482--46376555 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 14
46376472 AAATCACACA
46376482 TGCGGATTCATACT
1 TGCGGATTCATACT
* *
46376496 TG-GTGAACTCATACA
1 TGCG-G-ATTCATACT
* *
46376511 TGAGGATCCATACT
1 TGCGGATTCATACT
* **
46376525 TGGTGGGCTCATACT
1 T-GCGGATTCATACT
46376540 TGCGGATTCATACT
1 TGCGGATTCATACT
46376554 TG
1 TG
46376556 GTTAACTTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
13 1 0.02
14 22 0.50
15 20 0.45
16 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (14 bp):
TGCGGATTCATACT
Found at i:46376568 original size:44 final size:43
Alignment explanation
Indices: 46376520--46376628 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 43
46376510 ATGAGGATCC
* * *
46376520 ATACTTGGTGGGCTCATACTTGCGGATTCATACTTGGTTAACTT
1 ATACTT-GTGGACTCATACTTGAGGATTCATACTTGGTGAACTT
* * *
46376564 ATACTTAGTGAACTCATACATGAGGATTCATACTTGGTGGACTT
1 ATACTT-GTGGACTCATACTTGAGGATTCATACTTGGTGAACTT
* *
46376608 GTACTTGTGGATTCATACTTG
1 ATACTTGTGGACTCATACTTG
46376629 GTGAACCATA
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
43 12 0.22
44 42 0.78
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (43 bp):
ATACTTGTGGACTCATACTTGAGGATTCATACTTGGTGAACTT
Found at i:46376596 original size:29 final size:29
Alignment explanation
Indices: 46376564--46376648 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
46376554 TGGTTAACTT
*
46376564 ATACTTAGTGAACTCATACATGAGGATTC
1 ATACTTGGTGAACTCATACATGAGGATTC
* ** * *
46376593 ATACTTGGTGGACTTGTACTTGTGGATTC
1 ATACTTGGTGAACTCATACATGAGGATTC
46376622 ATACTTGGTGAAC-CATACA-GTAGGATT
1 ATACTTGGTGAACTCATACATG-AGGATT
46376649 TATTGTGGAT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
27 1 0.02
28 8 0.18
29 35 0.80
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (29 bp):
ATACTTGGTGAACTCATACATGAGGATTC
Found at i:46376613 original size:73 final size:73
Alignment explanation
Indices: 46376491--46376630 Score: 226
Period size: 73 Copynumber: 1.9 Consensus size: 73
46376481 ATGCGGATTC
* *
46376491 ATACTTGGTGAACTCATACATGAGGATCCATACTTGGTGGGCTCATACTTGCGGATTCATACTTG
1 ATACTTAGTGAACTCATACATGAGGATCCATACTTGGTGGACTCATACTTGCGGATTCATACTTG
46376556 GTTAACTT
66 GTTAACTT
* ** *
46376564 ATACTTAGTGAACTCATACATGAGGATTCATACTTGGTGGACTTGTACTTGTGGATTCATACTTG
1 ATACTTAGTGAACTCATACATGAGGATCCATACTTGGTGGACTCATACTTGCGGATTCATACTTG
46376629 GT
66 GT
46376631 GAACCATACA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (73 bp):
ATACTTAGTGAACTCATACATGAGGATCCATACTTGGTGGACTCATACTTGCGGATTCATACTTG
GTTAACTT
Found at i:46376826 original size:37 final size:37
Alignment explanation
Indices: 46376784--46376873 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
46376774 TTTGAAAATT
* *
46376784 TGAGGACACGTCCAACAGAATGGCATAACTTGAAACA
1 TGAGGACAAGTCCAACAGAATGGCATAACCTGAAACA
* * * **
46376821 TGAGGACAAGTCCAGCGGACTTTCATAACCTGAAACA
1 TGAGGACAAGTCCAACAGAATGGCATAACCTGAAACA
*
46376858 TGAGGCCAAGTCCAAC
1 TGAGGACAAGTCCAAC
46376874 GAACTATCGT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (37 bp):
TGAGGACAAGTCCAACAGAATGGCATAACCTGAAACA
Found at i:46381116 original size:40 final size:40
Alignment explanation
Indices: 46381072--46381259 Score: 290
Period size: 40 Copynumber: 4.7 Consensus size: 40
46381062 GCTACTTGCT
46381072 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46381112 CAAATGCCTTCGGGACTTAGCTCGGTTACAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46381152 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
46381192 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
46381231 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
46381260 CATCCGAATA
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.25
40 99 0.73
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:46381250 original size:119 final size:119
Alignment explanation
Indices: 46381039--46381258 Score: 329
Period size: 119 Copynumber: 1.8 Consensus size: 119
46381029 AAATCAAGTA
* * *
46381039 CCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGAACTTAGCCGGATATAGCTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* *
46381104 AACTCGCACAAATGCCTTCGGGACTTAGCTCGGTTACAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTACAGTAACTCGCACAAATG
*
46381158 CCTTCGGGACTTAGCCCGGATATAG-TAACTTGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAG-CCGGATATAGCT-ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
46381220 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTA
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTA
46381259 TCATCCGAAT
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 1 0.01
119 60 0.66
120 30 0.33
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (119 bp):
CCTTCGGAACTTAGCCGGATATAGCTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTACAGTAACTCGCACAAATG
Found at i:46385044 original size:39 final size:39
Alignment explanation
Indices: 46384988--46385164 Score: 196
Period size: 39 Copynumber: 4.5 Consensus size: 39
46384978 CCGGGCTAAG
* * * * *
46384988 TCCCGAAGGCTTTTGTGCTAAGTGA-CTAAATCGGGTCAA
1 TCCCGAAGGCATTTGTGC-GAGTTACCAAAACCGGGTCAA
*
46385027 TTCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAA
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAA
*
46385066 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAA
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAA
* * * * *
46385105 GTCCCGAAGGCATTCGTGTGAGTTACTAAATCCGGCT-AA
1 -TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAA
*
46385144 TTCCCGAAGGCAATTGTGCGA
1 -TCCCGAAGGCATTTGTGCGA
46385165 ATCACTATAA
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 4 0.03
39 84 0.71
40 31 0.26
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAA
Found at i:46385177 original size:79 final size:77
Alignment explanation
Indices: 46384981--46385206 Score: 213
Period size: 79 Copynumber: 2.9 Consensus size: 77
46384971 ATGGTGTCCG
* * * * * *
46384981 GGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCGGGTCAA-TTCCGAAGGCATTTGTGC
1 GGCTAA-TCCCGAAGGCATTTGTGCGAA-TCACTAAACCGGGTCAAGTCCCGAAGGCATTCGTGC
46385045 GAGTTACCAAAACC
64 GAGTTACCAAAACC
* * * * * *
46385059 GGGTCAATCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTCGTGT
1 GGCT-AATCCCGAAGGCATTTGTGCGAATCA-CTAAACCGGGTCAAGTCCCGAAGGCATTCGTGC
* *
46385124 GAGTTACTAAATCC
64 GAGTTACCAAAACC
* * * *
46385138 GGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAATCGAG
1 GGCTAA-TCCCGAAGGCATTTGTGCGAATCACTA-AACCGGGTCAA-GTCCCGAAGGCATTCGTG
46385202 CGAGT
63 CGAGT
46385207 CGCTATATCC
Statistics
Matches: 119, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
77 2 0.02
78 38 0.32
79 79 0.66
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (77 bp):
GGCTAATCCCGAAGGCATTTGTGCGAATCACTAAACCGGGTCAAGTCCCGAAGGCATTCGTGCGA
GTTACCAAAACC
Found at i:46385217 original size:79 final size:80
Alignment explanation
Indices: 46385066--46385232 Score: 178
Period size: 79 Copynumber: 2.1 Consensus size: 80
46385056 ACCGGGTCAA
* * * * * * * * *
46385066 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTAC
1 TCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGACAATCGAGCGAGTCAC
46385131 TAAATCCGGCT-AAT
66 TAAATCCGGCTAAAT
* * *
46385145 TCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAATCGAGCGAGTCG
1 TCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAA-GTCCCGAAGACAATCGAGCGAGTCA
* *
46385209 CTATATCCGGTTAAAT
65 CTAAATCCGGCTAAAT
46385225 T-CCGAAGG
1 TCCCGAAGG
46385233 TACGTGATTC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 2 0.03
79 66 0.92
80 4 0.06
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
TCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGACAATCGAGCGAGTCAC
TAAATCCGGCTAAAT
Found at i:46392331 original size:40 final size:40
Alignment explanation
Indices: 46392278--46392495 Score: 287
Period size: 40 Copynumber: 5.5 Consensus size: 40
46392268 GTGACTAAAT
46392278 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
46392318 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
46392358 CCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * *
46392398 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * *
46392438 CCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGTC-AATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
46392478 CCGGG-CAATGTCCCGAAG
1 CCGGGTCAAT-TCCCGAAG
46392496 ACAATCGAGC
Statistics
Matches: 161, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
39 3 0.02
40 158 0.98
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:46392457 original size:120 final size:121
Alignment explanation
Indices: 46392243--46392467 Score: 319
Period size: 120 Copynumber: 1.9 Consensus size: 121
46392233 GTGTCCGGAC
* * * * *
46392243 TAAGTCCCGAACGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAACGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTGCGA
*
46392308 GTTACCAAAACCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCAGGT
66 GTTACCAAAACCGGGTCAATTCCCGAAGGCAATTGTGCGAGTTACCAAAACCAGGT
* * * *
46392364 TAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTCGTGCGA
1 TAAGTCCCGAACGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTGCGA
* *
46392428 GTTACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGA
66 GTTACCAAAACCGGGTC-AATTCCCGAAGGCAATTGTGCGA
46392468 ATCACTATAA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
119 1 0.01
120 70 0.77
121 20 0.22
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (121 bp):
TAAGTCCCGAACGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTGCGA
GTTACCAAAACCGGGTCAATTCCCGAAGGCAATTGTGCGAGTTACCAAAACCAGGT
Found at i:46392491 original size:120 final size:121
Alignment explanation
Indices: 46392244--46392495 Score: 303
Period size: 120 Copynumber: 2.1 Consensus size: 121
46392234 TGTCCGGACT
* * * * * *
46392244 AAGTCCCGAACGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAG
1 AAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTGCGAG
* * * **
46392309 TTACCAAAACCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCAGGTT
66 TTACCAAAACCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCAGGGC
* * *
46392365 AAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 AAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTGCGAG
* * * *
46392429 TTACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC-GGGC
66 TTACCAAAACCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCAGGGC
46392484 AATGTCCCGAAG
1 AA-GTCCCGAAG
46392496 ACAATCGAGC
Statistics
Matches: 111, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
119 5 0.05
120 87 0.78
121 19 0.17
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (121 bp):
AAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTGCGAG
TTACCAAAACCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCAGGGC
Found at i:46392516 original size:40 final size:41
Alignment explanation
Indices: 46392288--46392521 Score: 194
Period size: 40 Copynumber: 5.8 Consensus size: 41
46392278 CCGGGTCAAT
* * * *
46392288 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGG-TCAAT-
1 TCCCGAAGGCAATCGTGCGAGTTACTATAACCGGGCT-AATG
* * * * * *
46392328 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCAGGTTAA-G
1 TCCCGAAGGCAATCGTGCGAGTTACTATAACCGGGCTAATG
* * * * *
46392368 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAA-G
1 TCCCGAAGGCAATCGTGCGAGTTACTATAACCGGGCTAATG
*
46392408 TCCCGAAGGCATTCGTGCGAGTTACTA-AATCCGGGCTAAT-
1 TCCCGAAGGCAATCGTGCGAGTTACTATAA-CCGGGCTAATG
* * *
46392448 TCCCGAAGGCAATTGTGCGAATCACTATAACCGGGC-AATG
1 TCCCGAAGGCAATCGTGCGAGTTACTATAACCGGGCTAATG
* * * *
46392488 TCCCGAAGACAATCGAGCGAGTTGCTATATCCGG
1 TCCCGAAGGCAATCGTGCGAGTTACTATAACCGG
46392522 TTAAATTCCG
Statistics
Matches: 172, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 5 0.03
40 164 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (41 bp):
TCCCGAAGGCAATCGTGCGAGTTACTATAACCGGGCTAATG
Found at i:46392520 original size:80 final size:80
Alignment explanation
Indices: 46392271--46392535 Score: 313
Period size: 80 Copynumber: 3.3 Consensus size: 80
46392261 GTGCTAAGTG
46392271 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAAT-TCCCGAA
1 ACTAAATCCGGGT-AATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAATGTCCCGAA
*
46392335 GGCATTTGTGCGAGTT
65 GGCATTCGTGCGAGTT
* * * * *
46392351 ACCAAAACCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAA-GTCCCGAA
1 ACTAAATCC-GGGTAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAATGTCCCGAA
46392415 GGCATTCGTGCGAGTT
65 GGCATTCGTGCGAGTT
* * * * *
46392431 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAA
1 ACTAAATCCGGG-TAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAATGTCCCGAA
* * *
46392495 GACAATCGAGCGAGTT
65 GGCATTCGTGCGAGTT
* * *
46392511 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGT-AATTCCCGAAGG
46392536 TACGTGATTC
Statistics
Matches: 158, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
79 12 0.08
80 143 0.91
81 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAATGTCCCGAAG
GCATTCGTGCGAGTT
Found at i:46396200 original size:40 final size:40
Alignment explanation
Indices: 46396121--46396278 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
46396111 TTCGAATGAT
* * * *
46396121 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
46396161 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
46396201 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
46396241 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
46396279 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:46396299 original size:80 final size:80
Alignment explanation
Indices: 46396121--46396308 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
46396111 TTCGAATGAT
* *
46396121 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
46396186 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
46396201 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
46396262 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
46396282 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
46396309 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:46399749 original size:51 final size:51
Alignment explanation
Indices: 46399672--46399870 Score: 319
Period size: 51 Copynumber: 3.9 Consensus size: 51
46399662 AGGATACATG
*
46399672 GTGGCCTTCACATAGTACCACCCTTGTAGT-CAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* *
46399723 GTGGCCTTCACATAGTACCAAACTTGTGTCCAAAACTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * *
46399774 GTGACCTTCACATAGTACCACACTTTTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
46399825 GTAGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
46399871 CTAAGGTTCA
Statistics
Matches: 135, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 2 0.01
51 133 0.99
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:46402931 original size:49 final size:49
Alignment explanation
Indices: 46402874--46402973 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
46402864 CATAACAGAC
46402874 ATAGCCATCACAAGTTAAAGAATACACATACTAAAAATCTGAGAACACA
1 ATAGCCATCACAAGTTAAAGAATACACATACTAAAAATCTGAGAACACA
46402923 ATAGCCATCACAAGTTAAAGAATACACATACTAAAAATCTGAGAACACA
1 ATAGCCATCACAAGTTAAAGAATACACATACTAAAAATCTGAGAACACA
46402972 AT
1 AT
46402974 TCAGAAGGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.51, C:0.20, G:0.10, T:0.19
Consensus pattern (49 bp):
ATAGCCATCACAAGTTAAAGAATACACATACTAAAAATCTGAGAACACA
Found at i:46406237 original size:51 final size:51
Alignment explanation
Indices: 46406161--46406409 Score: 383
Period size: 51 Copynumber: 4.9 Consensus size: 51
46406151 GGATACACGA
* *
46406161 TGGCCTTCACATAGTACCACCCTTGTAG-CCAAGGCTATTTTATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAAG
**
46406212 TGGCCTTCACATAGTACCACACTTGTGTCTGAAGCTATTTTATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
* *
46406263 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAA
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
* * * * *
46406314 TGTCCCTCAAATAGTGCCACACTTGTGTCCAAAGCTATTATATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
46406365 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
46406410 CTAACGTTCA
Statistics
Matches: 179, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 1 0.01
51 178 0.99
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
Found at i:46406472 original size:24 final size:24
Alignment explanation
Indices: 46406445--46406490 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
46406435 ACTTAACACA
46406445 ATGCCATGGACTTATTTCACTTGG
1 ATGCCATGGACTTATTTCACTTGG
*
46406469 ATGCCGTGGACTTATTTCACTT
1 ATGCCATGGACTTATTTCACTT
46406491 AGCACATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTGG
Found at i:46408614 original size:13 final size:13
Alignment explanation
Indices: 46408596--46408620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46408586 CCAAGCACAT
46408596 GCCCGTGTTCCTA
1 GCCCGTGTTCCTA
46408609 GCCCGTGTTCCT
1 GCCCGTGTTCCT
46408621 TACACGGCCT
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:0.04, C:0.40, G:0.24, T:0.32
Consensus pattern (13 bp):
GCCCGTGTTCCTA
Found at i:46415914 original size:20 final size:20
Alignment explanation
Indices: 46415879--46415934 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
46415869 TGATACGTGG
46415879 AATATGATAT--ACATGAAT
1 AATATGATATGCACATGAAT
46415897 AATATGATATGCACATG-AT
1 AATATGATATGCACATGAAT
* *
46415916 ATGTATGAAATGCACATGA
1 A-ATATGATATGCACATGA
46415935 TGTAATCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 10 0.31
19 3 0.09
20 19 0.59
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (20 bp):
AATATGATATGCACATGAAT
Found at i:46416027 original size:26 final size:26
Alignment explanation
Indices: 46415985--46416146 Score: 242
Period size: 26 Copynumber: 6.3 Consensus size: 26
46415975 GAGGAAGTGC
46415985 AAAAGGGC-TATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
46416010 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
46416036 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
46416062 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
46416088 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
46416114 AAAAGGGCTT-TGCCCCA-ATTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
46416137 AAAAGAGGCT
1 AAAAG-GGCT
46416147 AGGCCTCCAG
Statistics
Matches: 126, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 5 0.04
24 8 0.06
25 15 0.12
26 98 0.78
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:46419267 original size:23 final size:23
Alignment explanation
Indices: 46419232--46419281 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
46419222 GACTCACCAT
* *
46419232 AGCTCATAAGAGCTTAGTATTTC
1 AGCTCATAAGAGCTTACTAATTC
**
46419255 AGCTCATTGGAGCTTACTAATTC
1 AGCTCATAAGAGCTTACTAATTC
46419278 AGCT
1 AGCT
46419282 TGAAAAAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (23 bp):
AGCTCATAAGAGCTTACTAATTC
Found at i:46419330 original size:24 final size:24
Alignment explanation
Indices: 46419303--46419366 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
46419293 ATTGTTCAGA
*
46419303 TCAATAGAGCTTACCATTTTCATC
1 TCAATAGAGCTTACCATTATCATC
**
46419327 TCAATAGAGCTTACTGTTATCATC
1 TCAATAGAGCTTACCATTATCATC
*
46419351 TCATAAAGAGCTTACC
1 TCA-ATAGAGCTTACC
46419367 GACCATGTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 24 0.71
25 10 0.29
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (24 bp):
TCAATAGAGCTTACCATTATCATC
Found at i:46426488 original size:23 final size:24
Alignment explanation
Indices: 46426443--46426505 Score: 83
Period size: 23 Copynumber: 2.6 Consensus size: 24
46426433 ATTGTTCAGA
*
46426443 TCAATAGAGCTTACCATTTTCATC
1 TCAATAGAGCTTACCATTATCATC
*
46426467 TCAATAGA-CTTACTATTATCATC
1 TCAATAGAGCTTACCATTATCATC
*
46426490 TCATAAAGAGCTTACC
1 TCA-ATAGAGCTTACC
46426506 GACCATGTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 16 0.48
24 12 0.36
25 5 0.15
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (24 bp):
TCAATAGAGCTTACCATTATCATC
Found at i:46427751 original size:19 final size:19
Alignment explanation
Indices: 46427727--46427763 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46427717 ACTTGAAAAG
*
46427727 TTAAAAATTTTCTATGTTT
1 TTAAAAATTTTATATGTTT
*
46427746 TTAAAATTTTTATATGTT
1 TTAAAAATTTTATATGTT
46427764 ATCAATTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
TTAAAAATTTTATATGTTT
Found at i:46430968 original size:67 final size:67
Alignment explanation
Indices: 46430820--46430960 Score: 192
Period size: 67 Copynumber: 2.1 Consensus size: 67
46430810 ACATGGCATT
* * * * * * *
46430820 AGACACTCCCGTGTTTTTAGGCCGTGGCAAAATAGGGCATACATACTAATTTGTCCATACAGCCA
1 AGACACGCCCGTGTGTCTAAGCCGTGGCAAAACAGGGCATACATACTAACTTGTCCACACAGCCA
46430885 CA
66 CA
* * *
46430887 AGACATGCCCGTGTGTCTAAGCCGTGGCAAAACAGGGCATACATACTGACTTGTCCACATAGCCA
1 AGACACGCCCGTGTGTCTAAGCCGTGGCAAAACAGGGCATACATACTAACTTGTCCACACAGCCA
46430952 CA
66 CA
46430954 AGACACG
1 AGACACG
46430961 TCTGTGTGCC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (67 bp):
AGACACGCCCGTGTGTCTAAGCCGTGGCAAAACAGGGCATACATACTAACTTGTCCACACAGCCA
CA
Found at i:46432078 original size:9 final size:9
Alignment explanation
Indices: 46432034--46432118 Score: 72
Period size: 9 Copynumber: 9.9 Consensus size: 9
46432024 ATTACTCACA
*
46432034 TAATTTATG
1 TAATTCATG
*
46432043 TAATTCATA
1 TAATTCATG
*
46432052 T-A-TCATA
1 TAATTCATG
* *
46432059 AAATCCATG
1 TAATTCATG
46432068 TAATTCATG
1 TAATTCATG
46432077 TAATTCATG
1 TAATTCATG
46432086 TAATTCATG
1 TAATTCATG
46432095 TAACTT-A--
1 TAA-TTCATG
46432102 TAATTCATG
1 TAATTCATG
*
46432111 TAAATCAT
1 TAATTCAT
46432119 ATAGCTCTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
6 2 0.03
7 9 0.15
8 2 0.03
9 47 0.76
10 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (9 bp):
TAATTCATG
Found at i:46432111 original size:43 final size:43
Alignment explanation
Indices: 46432034--46432118 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
46432024 ATTACTCACA
* * *
46432034 TAATTTATGTAATTCATATATCATAAAATCCATGTAATTCATG
1 TAATTCATGTAATTCATATAACATAAAATCCATGTAAATCATG
* * * *
46432077 TAATTCATGTAATTCATGTAACTTATAATTCATGTAAATCAT
1 TAATTCATGTAATTCATATAACATAAAATCCATGTAAATCAT
46432119 ATAGCTCTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (43 bp):
TAATTCATGTAATTCATATAACATAAAATCCATGTAAATCATG
Found at i:46432532 original size:20 final size:20
Alignment explanation
Indices: 46432491--46432532 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
46432481 ATTACATATA
* *
46432491 TTCAATATATATACATTCAT
1 TTCAATATACATACATTAAT
46432511 TTCAA-ATACATACAATTAAT
1 TTCAATATACATAC-ATTAAT
46432531 TT
1 TT
46432533 AAAGTTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (20 bp):
TTCAATATACATACATTAAT
Found at i:46434235 original size:46 final size:46
Alignment explanation
Indices: 46434093--46434300 Score: 246
Period size: 46 Copynumber: 4.5 Consensus size: 46
46434083 CTGAGCTAGC
* *
46434093 GTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCCAGT
* * *
46434139 GTAAGACCATGTCTGGGACATGTCATCGGCATTGAGATGAG-GTCTAGT
1 GTAAGA-CATGTCTGGGACATG-CATCGGCCTCGAGATGAGAG-CCAGT
*
46434187 GTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCCAGT
*
46434233 GTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGATA-CTCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGC-CAGT
46434279 GTAAGACCATGTCTGGGACATG
1 GTAAGA-CATGTCTGGGACATG
46434301 GCATTGACTT
Statistics
Matches: 142, Mismatches: 10, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
45 4 0.03
46 67 0.47
47 48 0.34
48 22 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCCAGT
Found at i:46434323 original size:93 final size:92
Alignment explanation
Indices: 46434084--46434356 Score: 265
Period size: 94 Copynumber: 2.9 Consensus size: 92
46434074 CATTCAAATC
* * *
46434084 TGAG-CTAGCGTAAGACATGTCTGGGACATGCATCGG-C-C-ACATTATGAGAGCCAGTGTAAGA
1 TGAGTCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGA-CAT--GAGCCAGTGTAAGA
*
46434145 CCATGTCTGGGACATGTCATCGGCATTGAGA
63 CCATGTCTGGGACATG-CATCGGCATCGAGA
* * *
46434176 TGAGGTCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGA-C
1 TGA-GTCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACATGAGCCAGTGTAAGACC
46434240 ATGTCTGGGACATGCATCGGC-TACGAGA
65 ATGTCTGGGACATGCATCGGCAT-CGAGA
* * * * *
46434268 TGA-TACTCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACTTGATATATGAGCCAGTATAAG
1 TGAGT-CT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGACTCGAGACATGAGCCAGTGTAAG
* *
46434331 ACCGTGTCTAGGACATGGCATCGGCA
62 ACCATGTCTGGGACAT-GCATCGGCA
46434357 CCTTACCCTA
Statistics
Matches: 152, Mismatches: 16, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
90 1 0.01
91 3 0.02
92 26 0.17
93 49 0.32
94 60 0.39
95 9 0.06
96 2 0.01
97 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (92 bp):
TGAGTCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACATGAGCCAGTGTAAGACCA
TGTCTGGGACATGCATCGGCATCGAGA
Found at i:46434345 original size:140 final size:141
Alignment explanation
Indices: 46434093--46434355 Score: 340
Period size: 140 Copynumber: 1.9 Consensus size: 141
46434083 CTGAGCTAGC
*
46434093 GTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGAC
1 GTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGGGAC
* * * * *
46434158 ATGTCATCGGCATTGAGATGAGGTCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGA
66 ATGGCATCGACATTGAGATGAGGTCCAGTATAAGACATGTCTAGGACATGGCATCGGCCTCGAGA
46434222 CGTAAGCCAGT
131 CGTAAGCCAGT
* *
46434233 GTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATA-CTCAGTGTAAGACCATGTCTGGG
1 GTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGC-CAGTGTAAGACCATGTCTGGG
* * *
46434296 ACATGGCATTGAC-TTGATAT-ATGAG-CCAGTATAAGACCGTGTCTAGGACATGGCATCGGC
64 ACATGGCATCGACATTGAGATGA-G-GTCCAGTATAAGA-CATGTCTAGGACATGGCATCGGC
46434356 ACCTTACCCT
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
138 1 0.01
139 17 0.16
140 79 0.75
141 9 0.08
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (141 bp):
GTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGGGAC
ATGGCATCGACATTGAGATGAGGTCCAGTATAAGACATGTCTAGGACATGGCATCGGCCTCGAGA
CGTAAGCCAGT
Found at i:46440888 original size:21 final size:21
Alignment explanation
Indices: 46440858--46440901 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
46440848 TATTTCATCT
46440858 TCTTTATTTACCAAAAATCAG
1 TCTTTATTTACCAAAAATCAG
*
46440879 TCTTTCTTTACCAAAAATCAG
1 TCTTTATTTACCAAAAATCAG
46440900 TC
1 TC
46440902 ATTAAAGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTTTATTTACCAAAAATCAG
Found at i:46441832 original size:46 final size:47
Alignment explanation
Indices: 46441673--46441949 Score: 212
Period size: 46 Copynumber: 5.9 Consensus size: 47
46441663 TTTGGGTCAT
* * * *
46441673 TCGAG-TGTGAGCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCC
1 TCGAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACC
* * * *
46441718 AC-ATTATGAGAGCCAGTGTAAGACAATGTCTGGGACATGGCATCGGCA
1 TCGA-GATGAGAGCCAGTGTAAGAC-ATGTCTGGGACATGGCATCGACC
* * * * *
46441766 TTGAAACGAGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACC
1 TCGAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACC
* * * *
46441812 TCGAGACGTA-AGCCAGTGTAAGACACGTCTGGGACAT-GCATAG-GC
1 TCGAGATG-AGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACC
* * * *
46441857 TACGAGATGATAGTCAGTGTAAGACCATGTCTGGGACATAGCATC-AAC
1 T-CGAGATGAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACC
* * *
46441905 TTGAGAT-ATGAGCCAGTATAAGACCATGTCTAGGACATGGCATCG
1 TCGAGATGA-GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
46441950 GCACCTTAAC
Statistics
Matches: 187, Mismatches: 32, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
44 1 0.01
45 4 0.02
46 77 0.41
47 74 0.40
48 30 0.16
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (47 bp):
TCGAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACC
Found at i:46441911 original size:47 final size:47
Alignment explanation
Indices: 46441686--46441948 Score: 177
Period size: 47 Copynumber: 5.6 Consensus size: 47
46441676 AGTGTGAGCT
* * * **
46441686 AGTGTAAGA-CATGTTTGGGACATGCATCGGC-C-ACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCTCGAGACGAT-A-AGCC
* * * * ** *
46441732 AGTGTAAGACAATGTCTGGGACATGGCATCGGCATTGAAACGA-GGGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGC-TCGAGACGATAAGCC
*
46441780 AGTGTAAGA-CATGTCTGGGACATGCATCGACCTCGAGACG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-AGCTCGAGACGATAAGCC
* * *
46441826 AGTGTAAGA-CACGTCTGGGACATGCAT-AGGCTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCA-GCT-CGAGACGATAAGCC
* * * *
46441872 AGTGTAAGACCATGTCTGGGACATAGCATCAACTTGAGA-TATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCTCGAGACGATAAGCC
* *
46441919 AGTATAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC
46441949 GGCACCTTAA
Statistics
Matches: 174, Mismatches: 29, Indels: 27
0.76 0.13 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 68 0.39
47 74 0.43
48 25 0.14
49 1 0.01
51 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGCTCGAGACGATAAGCC
Found at i:46441941 original size:140 final size:140
Alignment explanation
Indices: 46441686--46441949 Score: 320
Period size: 140 Copynumber: 1.9 Consensus size: 140
46441676 AGTGTGAGCT
* * * *
46441686 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACAATGTCTGG
1 AGTGTAAGACACGTCTGGGACATGCATAGGCCACATGATGAGAGCCAGTGTAAGACAATGTCTGG
* ** * * *
46441751 GACATGGCATCGGCATTGAAACGAGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCG
66 GACATAGCATCAACATTGAAACGA-GGCCAGTATAAGACATGTCTAGGACATGGCATCGACCTCG
46441815 AGACGTAAGCC
130 AGACGTAAGCC
* * * *
46441826 AGTGTAAGACACGTCTGGGACATGCATAGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACACGTCTGGGACATGCATAGGCCAC-ATGATGAGAGCCAGTGTAAGACAATGTCTG
*
46441890 GGACATAGCATCAAC-TTGAGATATGA-GCCAGTATAAGACCATGTCTAGGACATGGCATCG
65 GGACATAGCATCAACATTGA-A-ACGAGGCCAGTATAAGA-CATGTCTAGGACATGGCATCG
46441950 GCACCTTAAC
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
139 14 0.13
140 80 0.77
141 10 0.10
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (140 bp):
AGTGTAAGACACGTCTGGGACATGCATAGGCCACATGATGAGAGCCAGTGTAAGACAATGTCTGG
GACATAGCATCAACATTGAAACGAGGCCAGTATAAGACATGTCTAGGACATGGCATCGACCTCGA
GACGTAAGCC
Found at i:46443560 original size:2 final size:2
Alignment explanation
Indices: 46443553--46443586 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
46443543 GACATTGTAC
46443553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46443587 TCGGCCATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46444128 original size:28 final size:28
Alignment explanation
Indices: 46444059--46444159 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
46444049 GACAAGATTG
* * * *
46444059 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
46444089 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46444117 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
46444146 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46444160 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:46444153 original size:29 final size:28
Alignment explanation
Indices: 46444088--46444159 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
46444078 AAAATTGTAC
*
46444088 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
46444116 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
46444145 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
46444160 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:46451375 original size:2 final size:2
Alignment explanation
Indices: 46451368--46451392 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46451358 GACATTGTAC
46451368 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
46451393 TCGGCCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46451934 original size:28 final size:28
Alignment explanation
Indices: 46451865--46451965 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
46451855 GACAAGATTG
* * * *
46451865 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
46451895 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46451923 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
46451952 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46451966 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:46451959 original size:29 final size:28
Alignment explanation
Indices: 46451894--46451965 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
46451884 AAAATTGTAC
*
46451894 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
46451922 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
46451951 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
46451966 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:46453663 original size:41 final size:42
Alignment explanation
Indices: 46453618--46453718 Score: 168
Period size: 41 Copynumber: 2.4 Consensus size: 42
46453608 GACATAGCCA
*
46453618 TGTGTCTCAGCCGTGTGAAGGGCACGGCCTAGCACAC-GGTG
1 TGTGTCTTAGCCGTGTGAAGGGCACGGCCTAGCACACGGGTG
*
46453659 TGTGTTTTAGCCGTGTGAAGGGCACGGCCTAGCACACGGGTG
1 TGTGTCTTAGCCGTGTGAAGGGCACGGCCTAGCACACGGGTG
*
46453701 TGTGTCTTGGCCGTGTGA
1 TGTGTCTTAGCCGTGTGA
46453719 CATTTTGGGG
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
41 35 0.64
42 20 0.36
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.25
Consensus pattern (42 bp):
TGTGTCTTAGCCGTGTGAAGGGCACGGCCTAGCACACGGGTG
Found at i:46456714 original size:20 final size:20
Alignment explanation
Indices: 46456681--46456721 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46456671 AGCACATGTA
46456681 TTCATAAAAATTCAAAATTT
1 TTCATAAAAATTCAAAATTT
* * *
46456701 TTCATCAAATTTCACAATTT
1 TTCATAAAAATTCAAAATTT
46456721 T
1 T
46456722 ACATTTTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (20 bp):
TTCATAAAAATTCAAAATTT
Found at i:46458402 original size:32 final size:32
Alignment explanation
Indices: 46458361--46458424 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
46458351 ATCCGAGTCA
46458361 GAAAAATTATTTTAAAATTAATGCATGATTTG
1 GAAAAATTATTTTAAAATTAATGCATGATTTG
*
46458393 GAAAAATTATTTTAAAATTAATGCATGGTTTG
1 GAAAAATTATTTTAAAATTAATGCATGATTTG
46458425 CATTATTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.41
Consensus pattern (32 bp):
GAAAAATTATTTTAAAATTAATGCATGATTTG
Done.