Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 336 of 352
Found at i:107757655 original size:14 final size:14
Alignment explanation
Indices: 107757593--107757700 Score: 99
Period size: 14 Copynumber: 7.6 Consensus size: 14
107757583 ACCCTTAAAC
*
107757593 CCATAACCCATAAT
1 CCATAAACCATAAT
* * * *
107757607 CTATAACCCCTAAA
1 CCATAAACCATAAT
* * *
107757621 CCTTAAACCACAAC
1 CCATAAACCATAAT
* *
107757635 CCTTAAACCATAAA
1 CCATAAACCATAAT
*
107757649 CTATAAACCATAAT
1 CCATAAACCATAAT
107757663 CCATAAACCCATAAT
1 CCATAAA-CCATAAT
*
107757678 CCATAATCCATAAT
1 CCATAAACCATAAT
107757692 CCATAAACC
1 CCATAAACC
107757701 TTAAAATAGT
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
14 63 0.83
15 13 0.17
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
CCATAAACCATAAT
Found at i:107757666 original size:21 final size:21
Alignment explanation
Indices: 107757560--107757705 Score: 87
Period size: 21 Copynumber: 6.9 Consensus size: 21
107757550 TCCCCTAAAT
* *
107757560 TAAACCCTAAATCATACAA-CA
1 TAAACCATAAACCATA-AACCA
* * *
107757581 TAACCCTTAAACCCATAACCCA
1 TAAACCATAAA-CCATAAACCA
* * * * *
107757603 TAATCTATAACCCCTAAACCT
1 TAAACCATAAACCATAAACCA
* * *
107757624 TAAACCACAACCCTTAAACCA
1 TAAACCATAAACCATAAACCA
* *
107757645 TAAACTATAAACCATAATCCA
1 TAAACCATAAACCATAAACCA
* *
107757666 TAAACCCATAATCCATAATCCA
1 TAAA-CCATAAACCATAAACCA
* *
107757688 TAATCCATAAACCTTAAA
1 TAAACCATAAACCATAAA
107757706 ATAGTAACTC
Statistics
Matches: 95, Mismatches: 27, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
21 64 0.67
22 31 0.33
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCA
Found at i:107758017 original size:24 final size:24
Alignment explanation
Indices: 107757989--107758037 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
107757979 CCAAAATAAC
* *
107757989 AATTAATTTTTATATAGACTTTTA
1 AATTAAATTTTATATAAACTTTTA
107758013 AATTAAATTTTATATAAACTTTTA
1 AATTAAATTTTATATAAACTTTTA
107758037 A
1 A
107758038 TAAATATACG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
AATTAAATTTTATATAAACTTTTA
Found at i:107758040 original size:11 final size:12
Alignment explanation
Indices: 107757996--107758041 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
107757986 AACAATTAAT
*
107757996 TTTTATATAGAC
1 TTTTATATAAAC
*
107758008 TTTTAAATTAAA-
1 TTTTATA-TAAAC
107758020 TTTTATATAAAC
1 TTTTATATAAAC
107758032 TTTTA-ATAAA
1 TTTTATATAAA
107758042 TATACGAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 9 0.31
12 17 0.59
13 3 0.10
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:107762111 original size:26 final size:26
Alignment explanation
Indices: 107762080--107762187 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
107762070 TGAAATGCCC
*
107762080 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
107762106 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
107762132 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
107762158 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
107762184 ATCA
1 ATCA
107762188 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:107780203 original size:96 final size:98
Alignment explanation
Indices: 107780076--107780261 Score: 279
Period size: 96 Copynumber: 1.9 Consensus size: 98
107780066 GATAATAACA
** * * *
107780076 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TCTGTTGGTGCCCATGCCATGTCC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-ATCGGTGCCAATGCCATGTCC
*
107780140 CAGACATGGTCTTATA-GGGACCTCTCATCTCGG
65 CAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
107780173 TGCCAACGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATCGGTGCCAATGCCATGTCCC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCGGTGCCAATGCCATGTCCC
107780237 AGACATGGTCTTACATGGGACCTCT
66 AGACATGGTCTTACATGGGACCTCT
107780262 TTACCCAAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
96 56 0.70
97 24 0.30
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (98 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCGGTGCCAATGCCATGTCCC
AGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:107780258 original size:48 final size:48
Alignment explanation
Indices: 107780076--107780261 Score: 252
Period size: 48 Copynumber: 3.9 Consensus size: 48
107780066 GATAATAACA
* ** * *
107780076 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TCTGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-ATCGG
* *
107780124 TGCCCATGCCATGTCCCAGACATGGTCTTATA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA--TCGG
*
107780173 TGCCAACGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCGG
107780220 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
107780262 TTACCCAAAT
Statistics
Matches: 122, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
47 22 0.18
48 74 0.61
49 26 0.21
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCGG
Found at i:107780371 original size:13 final size:13
Alignment explanation
Indices: 107780355--107780386 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
107780345 TGCTTGATCA
*
107780355 TCATCAAATAAAT
1 TCATAAAATAAAT
107780368 TCATAAAATAAAT
1 TCATAAAATAAAT
107780381 TCATAA
1 TCATAA
107780387 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:107780633 original size:30 final size:30
Alignment explanation
Indices: 107780598--107780655 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
107780588 CCTCGACTCT
*
107780598 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
107780628 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
107780656 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:107787683 original size:50 final size:50
Alignment explanation
Indices: 107787568--107787760 Score: 278
Period size: 50 Copynumber: 3.8 Consensus size: 50
107787558 GATAATAACA
* ** * *
107787568 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
107787619 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
107787669 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
107787719 TGCCAATGCCATGTCCGAGACATGGCCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
107787761 TTACCCAAAT
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 94 0.74
51 33 0.26
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:107787875 original size:13 final size:13
Alignment explanation
Indices: 107787854--107787884 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
107787844 GCTTAGATCA
*
107787854 TCATCAAATAAAT
1 TCATAAAATAAAT
107787867 TCATAAAATAAAT
1 TCATAAAATAAAT
107787880 TCATA
1 TCATA
107787885 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:107788131 original size:30 final size:30
Alignment explanation
Indices: 107788096--107788153 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
107788086 CCTCGACTCT
*
107788096 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
107788126 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
107788154 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:107796656 original size:15 final size:13
Alignment explanation
Indices: 107796624--107796660 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
107796614 CAAATGGGAA
107796624 AAGAGAGAAAACT
1 AAGAGAGAAAACT
107796637 AAGAGAGAAAACT
1 AAGAGAGAAAACT
107796650 AAGAGAGAAAA
1 AAGAGAGAAAA
107796661 TTGAAATGAG
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:0.65, C:0.05, G:0.24, T:0.05
Consensus pattern (13 bp):
AAGAGAGAAAACT
Found at i:107819707 original size:17 final size:17
Alignment explanation
Indices: 107819681--107819714 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
107819671 ATTGAATGAG
* *
107819681 TTTATTTTTTTGTTAAA
1 TTTATATTTTGGTTAAA
107819698 TTTATATTTTGGTTAAA
1 TTTATATTTTGGTTAAA
107819715 CCAAATCAAA
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:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (17 bp):
TTTATATTTTGGTTAAA
Found at i:107820951 original size:10 final size:10
Alignment explanation
Indices: 107820936--107820985 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
107820926 TAATTTTAGG
107820936 ATTTAT-TTT
1 ATTTATCTTT
107820945 CATTTATCTTT
1 -ATTTATCTTT
107820956 ATTTATCTTT
1 ATTTATCTTT
107820966 ATTTAT-TTGT
1 ATTTATCTT-T
107820976 ATTTATCTTT
1 ATTTATCTTT
107820986 TACAATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:107826401 original size:26 final size:26
Alignment explanation
Indices: 107826369--107826418 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
107826359 ATAAGGAAAA
* *
107826369 TTTACAATTTTTTCATCTTCACAATT
1 TTTACAAATTTTACATCTTCACAATT
107826395 TTTACAAATTTTACATCTTCACAA
1 TTTACAAATTTTACATCTTCACAA
107826419 AAAATATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (26 bp):
TTTACAAATTTTACATCTTCACAATT
Found at i:107827423 original size:16 final size:17
Alignment explanation
Indices: 107827399--107827440 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
107827389 AAAATGGTAA
107827399 ATTTT-TAATTTA-AAT
1 ATTTTATAATTTATAAT
*
107827414 CTTTTATAATTTATAAT
1 ATTTTATAATTTATAAT
107827431 ATTTTA-AATT
1 ATTTTATAATT
107827441 AGTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 8 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATAATTTATAAT
Found at i:107832068 original size:69 final size:69
Alignment explanation
Indices: 107831929--107832079 Score: 167
Period size: 69 Copynumber: 2.2 Consensus size: 69
107831919 TCGTTTTCTT
* * * * * *
107831929 CAAGAAAAAGAGCCCCCTGTTGCTGGAAATAAAAAACCGTCTGAAATGCTAAATAAACGACTTCT
1 CAAGAAAAAGAGCCACCTGTCGCTGGAAACAAAAAACCGTCAGAAACGCTAAATAAACGACCTCT
107831994 ACTC
66 ACTC
* * * * * * *
107831998 CAAGAAAAAGAGCCACCTGTCGCTGGACACGAAGAGCCGTCAGAAACGCTAGATCAACTACCTCT
1 CAAGAAAAAGAGCCACCTGTCGCTGGAAACAAAAAACCGTCAGAAACGCTAAATAAACGACCTCT
*
107832063 CCTC
66 ACTC
*
107832067 CAAGGAAAAGAGC
1 CAAGAAAAAGAGC
107832080 GACATGTTCC
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.16
Consensus pattern (69 bp):
CAAGAAAAAGAGCCACCTGTCGCTGGAAACAAAAAACCGTCAGAAACGCTAAATAAACGACCTCT
ACTC
Found at i:107832198 original size:69 final size:69
Alignment explanation
Indices: 107832105--107832233 Score: 195
Period size: 69 Copynumber: 1.9 Consensus size: 69
107832095 GTAAAGAGCG
* *
107832105 GGAAATGCTAGATAAACAAGGTCGAAACCAAGAAAATGAGCTCCATGTTACCGGACATGAAGAGC
1 GGAAATGCTAAATAAACAACGTCGAAACCAAGAAAATGAGCTCCATGTTACCGGACATGAAGAGC
107832170 CATC
66 CATC
* ** * *
107832174 GGAAATGCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCATGTTGCTGGACATGA
1 GGAAATGCTAAATAAACAACGTCGAAACCAAGAAAATGAGCTCCATGTTACCGGACATGA
107832234 GCTAGATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 53 1.00
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (69 bp):
GGAAATGCTAAATAAACAACGTCGAAACCAAGAAAATGAGCTCCATGTTACCGGACATGAAGAGC
CATC
Found at i:107832273 original size:54 final size:54
Alignment explanation
Indices: 107832180--107832287 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
107832170 CATCGGAAAT
** ** *
107832180 GCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCATGTTGCTGGACATGA
1 GCTAAATAAACGACGTCGACTCCAAGAAAACAAAATCCATGTTGCCGGACATGA
* * * *
107832234 GCTAGATAAACTAGGTCGACTCCAAGAAAACAAAATCCATGTTTCCGGACATGA
1 GCTAAATAAACGACGTCGACTCCAAGAAAACAAAATCCATGTTGCCGGACATGA
107832288 AGAGCCATCG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (54 bp):
GCTAAATAAACGACGTCGACTCCAAGAAAACAAAATCCATGTTGCCGGACATGA
Found at i:107832331 original size:123 final size:123
Alignment explanation
Indices: 107832111--107832358 Score: 379
Period size: 123 Copynumber: 2.0 Consensus size: 123
107832101 AGCGGGAAAT
** **
107832111 GCTAGATAAACAAGGTCGAAACCAAGAAAATGAGCTCCATGTTACCGGACATGAAGAGCCATCGG
1 GCTAGATAAACAAGGTCGAAACCAAGAAAACAAAATCCATGTTACCGGACATGAAGAGCCATCGG
*
107832176 AAATGCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCATGTTGCTGGACATGA
66 AAATGCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGCTGGACATGA
* ** *
107832234 GCTAGATAAACTAGGTCGACTCCAAGAAAACAAAATCCATGTTTCCGGACATGAAGAGCCATCGG
1 GCTAGATAAACAAGGTCGAAACCAAGAAAACAAAATCCATGTTACCGGACATGAAGAGCCATCGG
* * * *
107832299 AAATGTTAGATAAACGACGTCGACTCCTAGAAAATGAGCTCCAAGTTGGTGGACATGA
66 AAATGCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGCTGGACATGA
107832357 GC
1 GC
107832359 AGCCATTAGA
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
123 112 1.00
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (123 bp):
GCTAGATAAACAAGGTCGAAACCAAGAAAACAAAATCCATGTTACCGGACATGAAGAGCCATCGG
AAATGCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGCTGGACATGA
Found at i:107832448 original size:129 final size:128
Alignment explanation
Indices: 107832280--107833422 Score: 1108
Period size: 129 Copynumber: 8.9 Consensus size: 128
107832270 CCATGTTTCC
* * * * * *
107832280 GGACATGAAGAGCCATCGGAAATGTTAGATAAACGACGTCGACTCCTAGA-AAATGAGCTCCAAG
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACTCCAAG
* * * *
107832344 TTGGTGGACATGAGCAGCCATTAGAAATGCTAGATAAACGGCGTCGACTCCAAGAACATATCGAT
65 TTGATGGACATGAG-AGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
107832409 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
* *
107832474 TGATGGACATGGAGAGCCCTCAGAAATGCTAGATAAACAGCGTCAACTCAAAGAACATATCGAT
66 TGATGGACAT-GAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
*
107832538 GGGCACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
*
107832603 TGATGGACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
66 TGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
* * * *
107832667 AGACACAAAGAGCCCTTGGAAATGCTAGATAAAAGACGTCGACTGCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
107832732 TGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
66 TGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
* *
107832796 GGACACGAAGAGCCTTCGGAAATGCTAGATAAAAGACGTCGACTTCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
*
107832861 TGATAGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
66 TGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
* * * * * * * *
107832925 CGACACGAAGAGACCTCGAAAATGCTAGATAAACGGCGTCGAAT-CAA-A-CAA-CA-T---A-T
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
* * * * * * *
107832981 CGATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCC
66 TGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACAT-A--T-C
107833046 AAGTTGAT
126 -----GAT
* * * * *
107833054 GGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACT-CAA-AG-AA-CA-T---A-T
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
* ** * * * *
107833110 CGATGGACACAAAGAGCCCT-TGAAAATGCTAGATAAAAGACGTCTACTCCAAGAGAAAGAACTA
66 TGATGGACA-TGAGAGCCCTCAG-AAATGCTAGATAAACGGCGTCGACT-C-----AAAGAAC-A
* *
107833174 CAGGTTGAT
122 TA--TCGAT
* * * * *
107833183 GGACATGAAGAGCCCTCAGAAATGCTAGATAAACGACATCGACT-CAA-A-AAACATA-T-C-A-
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGA-ACTCCAAG
* * * * * * * *
107833241 ---ATGGACACGAAGAGCCCTCTGAAATGCTAGATAAAAGACGTCGACTCAAGGAAAATGTTGAT
65 TTGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
* ** * * *
107833303 GGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGTCTCCAAGA-AAATGAGCTCCAAG
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACTCCAAG
* * * * *
107833367 TTGACGGACATGAAGAGCCCTC-GAAAATGCTAGATAAAAGACATCGACTCCAAGAA
65 TTGATGGACATG-AGAGCCCTCAG-AAATGCTAGATAAACGGCGTCGACTCAAAGAA
107833423 AATGAGCTAC
Statistics
Matches: 895, Mismatches: 80, Indels: 78
0.85 0.08 0.07
Matches are distributed among these distances:
120 97 0.11
121 5 0.01
122 5 0.01
123 8 0.01
124 3 0.00
125 2 0.00
126 2 0.00
127 1 0.00
128 7 0.01
129 744 0.83
130 9 0.01
131 2 0.00
132 1 0.00
135 8 0.01
136 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.17
Consensus pattern (128 bp):
GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
TGATGGACATGAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
Found at i:107832695 original size:189 final size:190
Alignment explanation
Indices: 107832406--107833425 Score: 922
Period size: 189 Copynumber: 5.3 Consensus size: 190
107832396 AGAACATATC
* *
107832406 GATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCA
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACT-CAA-AG-AA-AA-T-C-
* * * * *
107832471 AGTTGATGGACATGGAGAGCCCTCAGAAATGCTAGATAAACAGCGTCAACTCAAAGAACATATCG
59 AGTCGATAGACACGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCG
* *
107832536 ATGGGCACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAA
124 ATGGACACGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACT-CAA
107832601 GTT
188 GTT
* * * *
107832604 GATGGACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACAT-A-TCGAT
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCAAAGAAAATCAGTCGAT
* ** *
107832667 AGACACAAAGAGCCCTTGGAAATGCTAGATAAA-AGACGTCGACTGCAAGAGAAAGAACTCCAAG
66 AGACACGAAGAGCCCTCAGAAATGCTAGATAAACAG-CGTCGACT-CAA-AG-AA-CA-T---A-
* * * * *
107832731 TTGATGGACATGAAGAGCCCTC-AGAAATGCTAGATAAACGGCGTCGACT-CAA-AG-AA-CA-T
121 TCGATGGACACGAAGAGCCCTCGA-AAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACT
*
107832790 --A-TC
185 CAAGTT
* * *
107832793 GATGGACACGAAGAGCCTTCGGAAATGCTAGATAAAAGACGTCGACTTCAAGAGAAAGAACTCCA
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGAC-TCAA-AG-AA-AA-T-C-
* * *
107832858 AGTTGATAGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCG
59 AGTCGATAGACACGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCG
* * * * * * *
107832923 ATCGACACGAAGAGACCTCGAAAATGCTAGATAAACGGCGTCGAAT-CAA-A-CAA-CA-T--A-
124 ATGGACACGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCAAG
*
107832980 TC
189 TT
* * *
107832982 GATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCA
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCAAAG-AAA--A--T-C-
* * * *
107833047 AGTTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCG
59 AGTCGATAGACACGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCG
* * * *
107833112 ATGGACACAAAGAGCCCTTGAAAATGCTAGATAAAAGACGTCTACTCCAAGAGAAAGAACTACAG
124 ATGGACACGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACT-CAA
107833177 GTT
188 GTT
* * *
107833180 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGACATCGACTCAAA-AAACAT-A-TCAA
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCAAAGAAA-ATCAGTCGA
* * * * * *
107833242 TGGACACGAAGAGCCCTCTGAAATGCTAGATAAA-AGACGTCGACTCAAGGAAAATGTTGATGGA
65 TAGACACGAAGAGCCCTCAGAAATGCTAGATAAACAG-CGTCGACTCAAAGAACATATCGATGGA
* * * * *
107833306 CATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGTCTCCAAGA-AAATGAGCTCCAAGTT
129 CACGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACT-CAAGTT
* * *
107833369 GACGGACATGAAGAGCCCTC-GAAAATGCTAGATAAAAGACATCGACTCCAAGAAAAT
1 GATGGACATGAAGAGCCCTCAG-AAATGCTAGATAAAAGACGTCGACTCAAAGAAAAT
107833426 GAGCTACATG
Statistics
Matches: 698, Mismatches: 85, Indels: 87
0.80 0.10 0.10
Matches are distributed among these distances:
186 1 0.00
187 5 0.01
188 11 0.02
189 439 0.63
190 18 0.03
191 5 0.01
192 6 0.01
193 7 0.01
194 6 0.01
195 7 0.01
196 9 0.01
197 11 0.02
198 172 0.25
199 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (190 bp):
GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCAAAGAAAATCAGTCGAT
AGACACGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCGACTCAAAGAACATATCGATGGACA
CGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCAAGTT
Found at i:107832982 original size:318 final size:318
Alignment explanation
Indices: 107832620--107833422 Score: 1209
Period size: 318 Copynumber: 2.5 Consensus size: 318
107832610 CATGAAAAGC
* * * *
107832620 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATAGACACAAAGAGCCCTTG
1 CCTCTGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACGAAGAGCCCTCG
* *
107832685 GAAATGCTAGATAAAAGACGTCGACTGCAAGAGAAA-GAACTCCAAGTTGATGGACATGAAGAGC
66 GAAATGCTAGATAAAAGACGTCGACTCCAAGA-AAATGAGCTCCAAGTTGATGGACATGAAGAGC
*
107832749 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACGAAGAG-CCTTC
130 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACAAAGAGCCCTT-
* * *
107832813 GGAAATGCTAGATAAAAGACGTCGACTTCAAGAGAAAGAACTCCAAGTTGATAGACATGAAGAGC
194 GAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTACAAGTTGATAGACATGAAGAGC
* * * *
107832878 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATCGACACGAAGAGA
259 CCTCAGAAATGCTAGATAAACGACATCGACTCAAAAAACATATCAATCGACACGAAGAGA
* *
107832938 CCTC-GAAAATGCTAGATAAACGGCGTCGAATCAAACAACATATCGATGGACACGAAGAGCCCTC
1 CCTCTG-AAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACGAAGAGCCCTC
107833002 GGAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGC
65 GGAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGC
107833067 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACAAAGAGCCCTTG
130 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACAAAGAGCCCTTG
* * *
107833132 AAAATGCTAGATAAAAGACGTCTACTCCAAGAGAAAGAACTACAGGTTGATGGACATGAAGAGCC
195 AAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTACAAGTTGATAGACATGAAGAGCC
* *
107833197 CTCAGAAATGCTAGATAAACGACATCGACTCAAAAAACATATCAATGGACACGAAGAGC
260 CTCAGAAATGCTAGATAAACGACATCGACTCAAAAAACATATCAATCGACACGAAGAGA
* * * * * * * *
107833256 CCTCTGAAATGCTAGATAAAAGACGTCGACTCAAGGAAAATGTTGATGGACATGAAGAGCCCTCA
1 CCTCTGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACGAAGAGCCCTCG
* * * *
107833321 AAAATGCTAGATAAAAGACATCGTCTCCAAGAAAATGAGCTCCAAGTTGACGGACATGAAGAGCC
66 GAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGCC
* * * *
107833386 CTC-GAAAATGCTAGATAAAAGACATCGACTCCAAGAA
131 CTCAG-AAATGCTAGATAAACGGCGTCGACTCAAAGAA
107833423 AATGAGCTAC
Statistics
Matches: 442, Mismatches: 38, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
317 5 0.01
318 432 0.98
319 5 0.01
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (318 bp):
CCTCTGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACGAAGAGCCCTCG
GAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGCC
CTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACAAAGAGCCCTTGA
AAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTACAAGTTGATAGACATGAAGAGCCC
TCAGAAATGCTAGATAAACGACATCGACTCAAAAAACATATCAATCGACACGAAGAGA
Found at i:107833355 original size:60 final size:60
Alignment explanation
Indices: 107833048--107833426 Score: 321
Period size: 60 Copynumber: 6.0 Consensus size: 60
107833038 TGAGCTCCAA
* * * * * *
107833048 GTTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAGAAAAT
* * ** ** * *
107833108 ATCGATGGACACAAAGAGCCCTTGAAAATGCTAGATAAAAGACGTCTACTCCAAGAGAAAGAACT
1 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCC-A-AG-AA-AA-T
* * *
107833173 ACAGGTTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGACATCGACT-CAAAAAACAT
1 ----GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAGAAA-AT
* ** * ** *
107833237 ATCAATGGACACGAAGAGCCCTCTGAAATGCTAGATAAAAGACGTCGACT-CAAGGAAAAT
1 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAA-GAAAAT
*
107833297 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGTCTCCAAGAAAATGAGCT
1 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAG-AAA--A--T
* *
107833362 CCAAGTTGACGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGACATCGACTCCAAGAAAAT
1 ----GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAGAAAAT
107833426 G
1 G
107833427 AGCTACATGT
Statistics
Matches: 256, Mismatches: 42, Indels: 42
0.75 0.12 0.12
Matches are distributed among these distances:
60 133 0.52
61 10 0.04
62 2 0.01
63 3 0.01
64 4 0.02
65 5 0.02
66 2 0.01
67 1 0.00
68 4 0.02
69 92 0.36
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (60 bp):
GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAGAAAAT
Found at i:107833563 original size:48 final size:48
Alignment explanation
Indices: 107833490--107833586 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
107833480 CGACTCCAAA
*
107833490 AAAATGAGCTCCATGTTGTTAGACATCAAGAGCCCTCGAAAATGCTAG
1 AAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCTAG
* * * *
107833538 AAAATGAGCTTCATGTTGCTGGACATGAAGAGCCCTCGGAAATGCTAG
1 AAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCTAG
107833586 A
1 A
107833587 TAAACGGCGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (48 bp):
AAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCTAG
Found at i:107833632 original size:117 final size:117
Alignment explanation
Indices: 107833419--107833655 Score: 305
Period size: 117 Copynumber: 2.0 Consensus size: 117
107833409 ATCGACTCCA
* ** *
107833419 AGAAAATGAGCTACATGTTGCTAGACACAGAGAACTCTTTGAAATGCTAGATAAACGACGTCGAC
1 AGAAAATGAGCTACATGTTGCTAGACACAGAGAACCCTCGGAAATGCTAGATAAACGACGTCAAC
*
107833484 TCCAAAAAAATGAGCTCCATGTTGTTAGACATCAAGAGCCCTCGAAAATGCT
66 TCCAAAAAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCT
* * * * *
107833536 AGAAAATGAGCTTCATGTTGCTGGACA-TGAAGAGCCCTCGGAAATGCTAGATAAACGGCGTCAA
1 AGAAAATGAGCTACATGTTGCTAGACACAG-AGAACCCTCGGAAATGCTAGATAAACGACGTCAA
* * * * * * *
107833600 CTCCAAGAAAATGGGCTCCATGTTGCTGGACATGAAGAGGCGTCGGAAATGCT
65 CTCCAAAAAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCT
107833653 AGA
1 AGA
107833656 TAAACGACGT
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
116 1 0.01
117 101 0.99
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (117 bp):
AGAAAATGAGCTACATGTTGCTAGACACAGAGAACCCTCGGAAATGCTAGATAAACGACGTCAAC
TCCAAAAAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCT
Found at i:107833647 original size:69 final size:69
Alignment explanation
Indices: 107833536--107833887 Score: 379
Period size: 69 Copynumber: 5.1 Consensus size: 69
107833526 CGAAAATGCT
* * * * *
107833536 AGAAAATGAGCTTCATGTTGCTGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGGCGTCAAC
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTAC
107833601 TCCA
66 TCCA
* * * *
107833605 AGAAAATGGGCTCCATGTTGCTGGACATGAAGAGGCGTCGGAAATGCTAGATAAACGACGTCGAC
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTAC
107833670 TCCA
66 TCCA
** * * * ** * *
107833674 AGAAGTTGAGCACCCTATTTTTGGACATGAAGAGCCGT-TGAAAGTGCTAGATAATATC--CGTT
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAA-TGCTAGATAA-A-CGACGTC
*
107833736 TACTCCG
63 TACTCCA
* * *
107833743 AGAAAATGAG-TCCACTGTTGCTGGACATGAAGAACTGTCAGAAATGCTAGATAAACCACGTCTA
1 AGAAAATGAGCTCCA-TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTA
107833807 CTCCA
65 CTCCA
* * * * * *
107833812 AGAAAAGGAGCCCCCTGTTGCTGGACATGAAGAGCCATCAGAAATTCTAGATAAACAACGTCTAC
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTAC
107833877 TCCA
66 TCCA
107833881 AGGAAAA
1 A-GAAAA
107833888 CAGTCCCCTG
Statistics
Matches: 235, Mismatches: 39, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
67 1 0.00
68 7 0.03
69 214 0.91
70 12 0.05
71 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (69 bp):
AGAAAATGAGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTAC
TCCA
Found at i:107833709 original size:186 final size:185
Alignment explanation
Indices: 107833350--107833724 Score: 459
Period size: 186 Copynumber: 2.0 Consensus size: 185
107833340 ATCGTCTCCA
*
107833350 AGAAAATGAGCTCCAAGTTGACGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGACATCGAC
1 AGAAAATGAGCTCCAAGTTGACGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGACATCAAC
* *
107833415 TCCAAGAAAATGAGCTACATGTTGCTAGACACAGAGAACTCTTTGAAATGCTAGATAAACGACGT
66 TCCAAGAAAATGAGCTACATGTTGCTAGACAAAGAGAACTC-TGGAAATGCTAGATAAACGACGT
* *
107833480 CGACTCCAAAAAAATGAGCTCCATGTTGTTAGACATCAAGAGCCCTCGAAAATGCT
130 CGACTCCAAAAAAATGAGCACCATATTGTTAGACATCAAGAGCCCTCGAAAATGCT
* * * * * *
107833536 AGAAAATGAGCTTCATGTTG-CTGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGGCGTCAA
1 AGAAAATGAGCTCCAAGTTGAC-GGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGACATCAA
* * * *
107833600 CTCCAAGAAAATGGGCTCCATGTTGCTGGACATGAAGAG-GCGTC-GGAAATGCTAGATAAACGA
65 CTCCAAGAAAATGAGCTACATGTTGCTAGACA--AAGAGAAC-TCTGGAAATGCTAGATAAACGA
* ** * * * * * * *
107833663 CGTCGACTCCAAGAAGTTGAGCACCCTATTTTTGGACATGAAGAGCCGTTGAAAGTGCT
127 CGTCGACTCCAAAAAAATGAGCACCATATTGTTAGACATCAAGAGCCCTCGAAAATGCT
107833722 AGA
1 AGA
107833725 TAATATCCGT
Statistics
Matches: 160, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
185 1 0.01
186 152 0.95
187 1 0.01
188 6 0.04
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (185 bp):
AGAAAATGAGCTCCAAGTTGACGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGACATCAAC
TCCAAGAAAATGAGCTACATGTTGCTAGACAAAGAGAACTCTGGAAATGCTAGATAAACGACGTC
GACTCCAAAAAAATGAGCACCATATTGTTAGACATCAAGAGCCCTCGAAAATGCT
Found at i:107833896 original size:69 final size:68
Alignment explanation
Indices: 107833551--107833955 Score: 345
Period size: 69 Copynumber: 5.9 Consensus size: 68
107833541 ATGAGCTTCA
* * * * *
107833551 TGTTGCTGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGGCGTCAACTCCAAGAAAATG-GG
1 TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAAGAAAA-GAGT
*
107833615 CTCCA
65 C-CCC
* * * **
107833620 TGTTGCTGGACATGAAGAGGCGTCGGAAATGCTAGATAAACGACGTCGACTCCAAGAAGTTGAG-
1 TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAAGAA-AAGAGT
107833684 CACCC
65 C-CCC
* ** * * *
107833689 TATTTTTGGACATGAAGAGCCGT-TGAAAGTGCTAGATAATATC--CGTTTACTCCGAGAAAATG
1 TGTTGCTGGACATGAAGAGCCGTCAGAAA-TGCTAGATAA-A-CGACGTCTACTCCAAGAAAA-G
*
107833751 AGTCCAC
62 AGTCCCC
* * * *
107833758 TGTTGCTGGACATGAAGAACTGTCAGAAATGCTAGATAAACCACGTCTACTCCAAGAAAAGGAGC
1 TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAAGAAAA-GAGT
107833823 CCCC
65 CCCC
* * * *
107833827 TGTTGCTGGACATGAAGAGCCATCAGAAATTCTAGATAAACAACGTCTACTCCAAGGAAAACAGT
1 TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAA-GAAAAGAGT
107833892 CCCC
65 CCCC
** * ** ** * * *
107833896 TGGTT-CTGGACACAAAGAACCACCAGAAATGCTCCATAAACGACCTGTACTCCAAAAAAA
1 T-GTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAAGAAAA
107833956 AGAACCACCT
Statistics
Matches: 276, Mismatches: 48, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
67 1 0.00
68 9 0.03
69 250 0.91
70 15 0.05
71 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (68 bp):
TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAAGAAAAGAGTC
CCC
Found at i:107835178 original size:5 final size:5
Alignment explanation
Indices: 107835168--107835196 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
107835158 AATATACCAT
107835168 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
107835197 AGCTCTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (5 bp):
TTTTG
Found at i:107842825 original size:21 final size:21
Alignment explanation
Indices: 107842799--107842840 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
107842789 CGCATCTCGA
107842799 ATGCCAAAAAGCTCAATTTCC
1 ATGCCAAAAAGCTCAATTTCC
107842820 ATGCCAAAAAGCTCAATTTCC
1 ATGCCAAAAAGCTCAATTTCC
107842841 TTTTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.24
Consensus pattern (21 bp):
ATGCCAAAAAGCTCAATTTCC
Found at i:107850713 original size:26 final size:26
Alignment explanation
Indices: 107850682--107850789 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
107850672 TGAAATGCCC
*
107850682 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
107850708 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
107850734 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
107850760 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
107850786 ATCA
1 ATCA
107850790 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:107852876 original size:20 final size:21
Alignment explanation
Indices: 107852851--107852894 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
107852841 TGTAAATCTA
* *
107852851 TAAAAAATATA-TATTTAATT
1 TAAAAAACATATTATTGAATT
107852871 TAAAAAACATATTATTGAATT
1 TAAAAAACATATTATTGAATT
107852892 TAA
1 TAA
107852895 TAATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAAAACATATTATTGAATT
Found at i:107856870 original size:85 final size:85
Alignment explanation
Indices: 107856727--107856897 Score: 315
Period size: 85 Copynumber: 2.0 Consensus size: 85
107856717 TAGCTTATAG
107856727 ATCAAGTAAGCCAGTTTCCTTAATTGCCACAAAGAATGCTATAAGATCAGTTGGTTTATACAATC
1 ATCAAGTAAGCCAGTTTCCTTAATTGCCACAAAGAATGCTATAAGATCAGTTGGTTTATACAATC
107856792 AGTTTTAAGAGGTGACATCC
66 AGTTTTAAGAGGTGACATCC
* * *
107856812 ATCAAGTAAGCCAGTTTCCTTATTTGGCACAAAGAATGCTATGAGATCAGTTGGTTTATACAATC
1 ATCAAGTAAGCCAGTTTCCTTAATTGCCACAAAGAATGCTATAAGATCAGTTGGTTTATACAATC
107856877 AGTTTTAAGAGGTGACATCC
66 AGTTTTAAGAGGTGACATCC
107856897 A
1 A
107856898 ATAAGTTTGA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (85 bp):
ATCAAGTAAGCCAGTTTCCTTAATTGCCACAAAGAATGCTATAAGATCAGTTGGTTTATACAATC
AGTTTTAAGAGGTGACATCC
Found at i:107859557 original size:24 final size:24
Alignment explanation
Indices: 107859522--107859623 Score: 104
Period size: 23 Copynumber: 4.3 Consensus size: 24
107859512 GTCATTTGAA
* *
107859522 TATATATATATACTGTATATGTTTT
1 TATATATAT-TAATGTATATATTTT
*
107859547 TCATATATA-TAATGTATGTATTTT
1 T-ATATATATTAATGTATATATTTT
107859571 TA-ATATTATTAAT-TATATATTTT
1 TATATA-TATTAATGTATATATTTT
*
107859594 TATATATATT-ATGTATACATTTT
1 TATATATATTAATGTATATATTTT
*
107859617 TAAATAT
1 TATATAT
107859624 CATACTGTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
22 5 0.08
23 33 0.50
24 20 0.30
25 1 0.02
26 7 0.11
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (24 bp):
TATATATATTAATGTATATATTTT
Found at i:107860987 original size:24 final size:23
Alignment explanation
Indices: 107860960--107861005 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
107860950 ATCCATAGTA
107860960 AAAATAAAAT-ATAATGTGCAATAT
1 AAAATAAAATGA-AATGTG-AATAT
*
107860984 AAAATATAATGAAATGTGAATA
1 AAAATAAAATGAAATGTGAATA
107861006 CTATTACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 15 0.75
25 1 0.05
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (23 bp):
AAAATAAAATGAAATGTGAATAT
Found at i:107861174 original size:27 final size:26
Alignment explanation
Indices: 107861113--107861179 Score: 66
Period size: 29 Copynumber: 2.5 Consensus size: 26
107861103 AAGGAACAAT
107861113 ATATAATAAAGTATATAAAATAATAC
1 ATATAATAAAGTATATAAAATAATAC
** *
107861139 ACTGGAATAAAGAATATATATAATAATA-
1 A-TATAATAAAG--TATATAAAATAATAC
107861167 ATATAAT-AAGTAT
1 ATATAATAAAGTAT
107861180 TTTGCATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
24 3 0.09
26 4 0.12
27 12 0.36
28 1 0.03
29 13 0.39
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.31
Consensus pattern (26 bp):
ATATAATAAAGTATATAAAATAATAC
Found at i:107861251 original size:19 final size:19
Alignment explanation
Indices: 107861227--107861267 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
107861217 TACTAAATTC
107861227 ATAAATAAAATGT-ATAATA
1 ATAAATAAAAT-TAATAATA
*
107861246 ATAAATATAATTAATAATA
1 ATAAATAAAATTAATAATA
107861265 ATA
1 ATA
107861268 TAAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAAATAAAATTAATAATA
Found at i:107863355 original size:21 final size:21
Alignment explanation
Indices: 107863325--107863377 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
107863315 TTATTAGTAG
*
107863325 TATATGTTTATTATATATTTA
1 TATATGTTTATTATATATATA
* * *
107863346 TATATCTTTAATATATATATG
1 TATATGTTTATTATATATATA
107863367 TATATGTTTAT
1 TATATGTTTAT
107863378 GCAGTATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (21 bp):
TATATGTTTATTATATATATA
Found at i:107863524 original size:20 final size:22
Alignment explanation
Indices: 107863474--107863525 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
107863464 TTTAACACTT
107863474 TTTTATGTATATACTTTTAATA
1 TTTTATGTATATACTTTTAATA
*
107863496 TTATTATGTATTTA-TTTTAATA
1 TT-TTATGTATATACTTTTAATA
107863518 -TTTATGTA
1 TTTTATGTA
107863526 CATATTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.25
21 1 0.04
22 10 0.36
23 10 0.36
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.62
Consensus pattern (22 bp):
TTTTATGTATATACTTTTAATA
Found at i:107863531 original size:20 final size:21
Alignment explanation
Indices: 107863474--107863532 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
107863464 TTTAACACTT
107863474 TTTTATGTATATACTTTTAATA
1 TTTTATGTATATA-TTTTAATA
*
107863496 TTATTATGTATTTATTTTAATA
1 TT-TTATGTATATATTTTAATA
*
107863518 -TTTATGTACATATTT
1 TTTTATGTATATATTT
107863533 ATGTAGTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 12 0.36
21 1 0.03
22 10 0.30
23 10 0.30
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (21 bp):
TTTTATGTATATATTTTAATA
Found at i:107863594 original size:31 final size:32
Alignment explanation
Indices: 107863527--107863595 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
107863517 ATTTATGTAC
* *
107863527 ATAT-TTATGTAGTATTATTAATATATTTTTT
1 ATATGTTATGTAGTATTATTAATATATATTGT
*
107863558 TTATGTTAT-TAGTATT-TCTAATATATATTGT
1 ATATGTTATGTAGTATTAT-TAATATATATTGT
107863589 ATATGTT
1 ATATGTT
107863596 CATTTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.03
31 27 0.84
32 4 0.12
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.59
Consensus pattern (32 bp):
ATATGTTATGTAGTATTATTAATATATATTGT
Found at i:107866314 original size:19 final size:19
Alignment explanation
Indices: 107866292--107866331 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
107866282 TTTAACCAAG
107866292 GAAGAAAAGCTTAATATAA
1 GAAGAAAAGCTTAATATAA
107866311 GAAGAAAAGCTTAATATAA
1 GAAGAAAAGCTTAATATAA
107866330 GA
1 GA
107866332 TAGTCTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.20
Consensus pattern (19 bp):
GAAGAAAAGCTTAATATAA
Found at i:107872017 original size:16 final size:16
Alignment explanation
Indices: 107871996--107872028 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
107871986 GTAATGGAAC
107871996 TAGAAATATATTGGTG
1 TAGAAATATATTGGTG
107872012 TAGAAATATATTGGTG
1 TAGAAATATATTGGTG
107872028 T
1 T
107872029 TCTTAATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (16 bp):
TAGAAATATATTGGTG
Found at i:107875641 original size:16 final size:16
Alignment explanation
Indices: 107875620--107875652 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
107875610 TTGTCCTGTT
107875620 TGCTATCTTTAGATTC
1 TGCTATCTTTAGATTC
107875636 TGCTATCTTTAGATTC
1 TGCTATCTTTAGATTC
107875652 T
1 T
107875653 TTTTCTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (16 bp):
TGCTATCTTTAGATTC
Found at i:107876800 original size:219 final size:216
Alignment explanation
Indices: 107876285--107876871 Score: 874
Period size: 219 Copynumber: 2.7 Consensus size: 216
107876275 GTAACAGGCT
* * * * ** * **
107876285 AAAG-CATAGCAGATTTGACCTTCAGGTGTTTACACTGAAGCGGATCCAAGATGATTTAACATCT
1 AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCT
* * * * *
107876349 TTATATTATTAGAGAACAAATCGAAGAAACAGATTTGGCATATCCATATTCGACGGAGAGCAGAT
66 CTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
*
107876414 CGAAGACATAGCAGATCTAACC-TTCAGATCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
131 CGAAGACATAGCAGATCTAACCTTTCAGATCACATAGAAGTAGATCCAAGATGATTTGGCATCCT
107876478 TGCATTGACAAGGAGCAGATC
196 TGCATTGACAAGGAGCAGATC
* *
107876499 GAAGACATAGCAGATTTGGCTTTCACGTGTTTATGCTGAAGTAGATCTAAGATGATTTGGCATCT
1 AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCT
* * *
107876564 CTGTACTGTCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGAT
66 CTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
* *
107876629 CGAAGACATAGCAGATCTAACCTTTGGATGTCTTCACATAGAAGTAGATCCAAGATGATTTGGCA
131 CGAAGACATAGCAGATCTAACCTTT-CA-G--ATCACATAGAAGTAGATCCAAGATGATTTGGCA
* *
107876694 TCCTTTCGTTGACAAGGAGCAGATC
192 TCCTTGCATTGACAAGGAGCAGATC
*
107876719 AAAGACATAGCA-ATTTGGCTTTCACGCGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCT
1 AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCT
107876783 CTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
66 CTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
* *
107876848 CGAAGACACAGCAGATCTGACCTT
131 CGAAGACATAGCAGATCTAACCTT
107876872 CATTGAAGCA
Statistics
Matches: 335, Mismatches: 32, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
214 3 0.01
215 129 0.39
216 2 0.01
217 1 0.00
218 1 0.00
219 134 0.40
220 65 0.19
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (216 bp):
AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCT
CTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
CGAAGACATAGCAGATCTAACCTTTCAGATCACATAGAAGTAGATCCAAGATGATTTGGCATCCT
TGCATTGACAAGGAGCAGATC
Found at i:107876948 original size:78 final size:78
Alignment explanation
Indices: 107876829--107877030 Score: 280
Period size: 78 Copynumber: 2.6 Consensus size: 78
107876819 GGCATCTCCA
* * * * *
107876829 TATTCGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGGTGA
1 TATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
* *
107876894 TTTGGCATATTTG
66 TTTGGAATATCTG
* * * *
107876907 TATTAGACGGGGAGCATATCAAAGACATAACAGAT-TGGACCTTCATTGAAGTAGATGCAAGATG
1 TATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGAAGCAGATCCAAGATG
*
107876971 ATTTGGAATCTCTG
65 ATTTGGAATATCTG
107876985 TATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
1 TATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
107877031 GTGTTTACAT
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
77 1 0.01
78 106 0.98
79 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (78 bp):
TATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
TTTGGAATATCTG
Found at i:107877164 original size:45 final size:45
Alignment explanation
Indices: 107876970--107877198 Score: 198
Period size: 45 Copynumber: 5.1 Consensus size: 45
107876960 GATGCAAGAT
* *
107876970 GATTTGGAATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-AA-AGATAACA
* * * * * * * *
107877017 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCAAAGATAACA
* * *
107877062 TATTTGGCATCTCTATATTAGACGGGGAGCAGA-CTAAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-AAAGATAACA
* * *
107877106 GATTTGGCGTCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
* * *
107877151 GATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCAAAGATATCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
107877196 GAT
1 GAT
107877199 ATCGCCTTCC
Statistics
Matches: 142, Mismatches: 31, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 40 0.28
45 73 0.51
46 5 0.04
47 18 0.13
48 4 0.03
49 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
Found at i:107877568 original size:17 final size:17
Alignment explanation
Indices: 107877548--107877610 Score: 83
Period size: 17 Copynumber: 3.5 Consensus size: 17
107877538 AATGATATGT
107877548 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
107877565 AATCTTAGATATGATTGA-
1 AATCTTAGATATGA-T-AC
107877583 AATCTTAGATATGATATGC
1 AATCTTAGATATGATA--C
107877602 AATCTTAGA
1 AATCTTAGA
107877611 AGATATGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.02
17 15 0.37
18 15 0.37
19 10 0.24
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (17 bp):
AATCTTAGATATGATAC
Found at i:107877588 original size:18 final size:18
Alignment explanation
Indices: 107877548--107877610 Score: 85
Period size: 18 Copynumber: 3.5 Consensus size: 18
107877538 AATGATATGT
107877548 AATCTTAGATATGA-T-A
1 AATCTTAGATATGATTGA
107877564 CAATCTTAGATATGATTGA
1 -AATCTTAGATATGATTGA
*
107877583 AATCTTAGATATGATATGC
1 AATCTTAGATATGAT-TGA
107877602 AATCTTAGA
1 AATCTTAGA
107877611 AGATATGATT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 14 0.33
18 16 0.38
19 12 0.29
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTGA
Found at i:107877588 original size:35 final size:37
Alignment explanation
Indices: 107877539--107877618 Score: 114
Period size: 35 Copynumber: 2.2 Consensus size: 37
107877529 ATAATCTTCA
*
107877539 ATGATATGTAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGAAATCTTAGATATGATAGCAATCTTAGAT
107877575 ATGAT-TGAAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGAAATCTTAGATATGATA-GCAATCTTAGAT
107877611 A-GATATGA
1 ATGATATGA
107877619 TTTTGTAATC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.52
36 9 0.22
37 10 0.25
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATATGAAATCTTAGATATGATAGCAATCTTAGAT
Found at i:107877617 original size:17 final size:19
Alignment explanation
Indices: 107877539--107877610 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
107877529 ATAATCTTCA
*
107877539 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
107877558 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
107877575 ATGAT-TGAAATCTTAGAT
1 ATGATATGCAATCTTAGAT
107877593 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
107877611 AGATATGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 15 0.32
18 15 0.32
19 17 0.36
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:107877617 original size:22 final size:23
Alignment explanation
Indices: 107877589--107877633 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
107877579 TTGAAATCTT
107877589 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
107877611 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
107877634 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:107886547 original size:20 final size:20
Alignment explanation
Indices: 107886522--107886562 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
107886512 ACTTTACTTC
107886522 TAATTTCCAATTGATCTGAT
1 TAATTTCCAATTGATCTGAT
*
107886542 TAATTTCCAATTGATTTGAT
1 TAATTTCCAATTGATCTGAT
107886562 T
1 T
107886563 TCAAGAGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (20 bp):
TAATTTCCAATTGATCTGAT
Found at i:107887691 original size:37 final size:37
Alignment explanation
Indices: 107887645--107887715 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
107887635 TAACAATAGG
* * *
107887645 AGATTTATTGAAAAATAATTATTATACTCAAATTAAA
1 AGATGTATTGAAAAATAATTATAATACTAAAATTAAA
*
107887682 AGATGTATTGAATAATAATTATAATACTAAAATT
1 AGATGTATTGAAAAATAATTATAATACTAAAATT
107887716 GTAATTTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (37 bp):
AGATGTATTGAAAAATAATTATAATACTAAAATTAAA
Found at i:107889047 original size:13 final size:13
Alignment explanation
Indices: 107889029--107889066 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
107889019 AACAACACAC
*
107889029 ATATATTAAATAA
1 ATATATAAAATAA
107889042 ATATATAAAATAA
1 ATATATAAAATAA
107889055 A-ATA-AAAATAA
1 ATATATAAAATAA
107889066 A
1 A
107889067 AAAATAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.33
12 3 0.12
13 13 0.54
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATATATAAAATAA
Found at i:107889735 original size:40 final size:42
Alignment explanation
Indices: 107889649--107889735 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 42
107889639 GATAATTTTA
* *
107889649 TTATTTTCTTTTACTACTATTTATTATATTTTACTATTATAG
1 TTATTTTCTTCTACTACTATTTATTATATTGTACTATTATAG
* * *
107889691 TTATTTT-TTCTACTACTGTGTTA-T-TATTGTACTATTGTTG
1 TTATTTTCTTCTACTACTAT-TTATTATATTGTACTATTATAG
107889731 TTATT
1 TTATT
107889736 GCCATTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
40 18 0.46
41 11 0.28
42 10 0.26
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.62
Consensus pattern (42 bp):
TTATTTTCTTCTACTACTATTTATTATATTGTACTATTATAG
Found at i:107890759 original size:27 final size:27
Alignment explanation
Indices: 107890711--107890869 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
107890701 GCGAGGCTGC
* *
107890711 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
107890738 AAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
107890764 CAGATATATGTGGCAGAGCCACCGGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
107890791 CAGATAATTGTGGCATAGCCACTAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
107890818 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
107890845 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
107890870 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 9 0.08
27 97 0.87
28 5 0.05
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:107890872 original size:54 final size:54
Alignment explanation
Indices: 107890729--107890872 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
107890719 GTGACGAAGT
* * *
107890729 CACCAGATAAAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
* *
107890783 CACCGGATCAGATAATTGTGGCATAGCCACTAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
107890837 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
107890873 GCTTCCTCCA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.05
54 78 0.95
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:107898417 original size:27 final size:27
Alignment explanation
Indices: 107898387--107898500 Score: 108
Period size: 27 Copynumber: 4.2 Consensus size: 27
107898377 GTGACGAAGT
*
107898387 CACCAGATACAGATATTGTAGTAGAGC
1 CACCAGATACAGATATTGTAGCAGAGC
*
107898414 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTAGCAGAGC
* *
107898441 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTAGCAGAGC
* * * *
107898468 CACTAG-GACAGATATATGTGGCATAGC
1 CACCAGATACAGATAT-TGTAGCAGAGC
107898495 CACCAG
1 CACCAG
107898501 GACGCTCCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
26 10 0.13
27 64 0.84
28 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGATACAGATATTGTAGCAGAGC
Found at i:107898459 original size:54 final size:54
Alignment explanation
Indices: 107898387--107898500 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
107898377 GTGACGAAGT
*
107898387 CACCAGATACAGATATTGTAGTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATTGTAGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
* * * * *
107898441 CACCAGAT-CAGATAATTGTGGCATAGCCACTAGGACAGATATATGTGGCATAGC
1 CACCAGATACAGAT-ATTGTAGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
107898495 CACCAG
1 CACCAG
107898501 GACGCTCCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 5 0.09
54 48 0.91
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATACAGATATTGTAGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:107898502 original size:27 final size:27
Alignment explanation
Indices: 107898411--107898503 Score: 127
Period size: 27 Copynumber: 3.4 Consensus size: 27
107898401 ATTGTAGTAG
* *
107898411 AGCCACCAGAACAGATATATGTGGCAG
1 AGCCACCAGGACAGATATATGTGGCAT
107898438 AGCCACCA-GATCAGATA-ATTGTGGCAT
1 AGCCACCAGGA-CAGATATA-TGTGGCAT
*
107898465 AGCCACTAGGACAGATATATGTGGCAT
1 AGCCACCAGGACAGATATATGTGGCAT
107898492 AGCCACCAGGAC
1 AGCCACCAGGAC
107898504 GCTCCCTCCA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.03
27 53 0.91
28 3 0.05
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (27 bp):
AGCCACCAGGACAGATATATGTGGCAT
Found at i:107900453 original size:3 final size:3
Alignment explanation
Indices: 107900432--107900485 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
107900422 GGGCATTACA
* * * *
107900432 TAT TAT CAT TAT TAC TAT TAT TAT TTT TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
107900480 ATAT TA
1 -TAT TA
107900486 GTGTATATCT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:107900907 original size:13 final size:12
Alignment explanation
Indices: 107900881--107900973 Score: 60
Period size: 11 Copynumber: 8.2 Consensus size: 12
107900871 GTACATTACG
*
107900881 TATATATTTCATA
1 TATATATGT-ATA
107900894 TATATCATGTATA
1 TATAT-ATGTATA
107900907 TATATAT-T-T-
1 TATATATGTATA
107900916 TATATAT-TATA
1 TATATATGTATA
* *
107900927 TTTTTTATGTATA
1 -TATATATGTATA
107900940 TAT-TATGTATA
1 TATATATGTATA
*
107900951 TATCT-T-TA-A
1 TATATATGTATA
107900960 TAT-TATGTATA
1 TATATATGTATA
107900971 TAT
1 TAT
107900974 TTTAATACAT
Statistics
Matches: 67, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
8 1 0.01
9 13 0.19
10 6 0.09
11 17 0.25
12 10 0.15
13 17 0.25
14 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.57
Consensus pattern (12 bp):
TATATATGTATA
Found at i:107900926 original size:20 final size:20
Alignment explanation
Indices: 107900903--107900977 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
107900893 ATATATCATG
107900903 TATATATATATTTTATATAT
1 TATATATATATTTTATATAT
*
107900923 TATAT-T-TTTTATGTATATAT
1 TATATATATATT-T-TATATAT
*
107900943 TATGTATATATCTTTA-ATAT
1 TATATATATAT-TTTATATAT
*
107900963 TATGTATATATTTTA
1 TATATATATATTTTA
107900978 ATACATATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.06
19 6 0.13
20 31 0.66
21 3 0.06
22 3 0.06
23 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (20 bp):
TATATATATATTTTATATAT
Found at i:107900947 original size:11 final size:11
Alignment explanation
Indices: 107900892--107900974 Score: 68
Period size: 11 Copynumber: 7.7 Consensus size: 11
107900882 ATATATTTCA
*
107900892 TATATATCATG
1 TATATATTATG
*
107900903 TATATATATATTT
1 TATATAT-TA-TG
107900916 TATATATTA--
1 TATATATTATG
* *
107900925 TATTTTTTATG
1 TATATATTATG
107900936 TATATATTATG
1 TATATATTATG
107900947 TATATATCT-T-
1 TATATAT-TATG
107900957 TA-ATATTATG
1 TATATATTATG
107900967 TATATATT
1 TATATATT
107900975 TTAATACATA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
8 1 0.02
9 12 0.21
10 4 0.07
11 29 0.50
12 4 0.07
13 8 0.14
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (11 bp):
TATATATTATG
Found at i:107901116 original size:3 final size:3
Alignment explanation
Indices: 107901108--107901191 Score: 50
Period size: 3 Copynumber: 28.7 Consensus size: 3
107901098 TCATATTTAC
* * * ** *
107901108 ATT ATT ATT ATT ATT ATT ATG CTT AAT ACC A-T ATGT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
* *
107901153 GTT -TT A-T ACT ATT ATT ATT -TAT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT
107901192 CATTTTCGTT
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
2 6 0.10
3 53 0.84
4 4 0.06
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:107918633 original size:16 final size:16
Alignment explanation
Indices: 107918612--107918644 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
107918602 TTTCCCCATT
107918612 CATTTAGAGTTCTAAA
1 CATTTAGAGTTCTAAA
107918628 CATTTAGAGTTCTAAA
1 CATTTAGAGTTCTAAA
107918644 C
1 C
107918645 TGTGTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (16 bp):
CATTTAGAGTTCTAAA
Found at i:107925758 original size:12 final size:12
Alignment explanation
Indices: 107925741--107925765 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
107925731 ACGTCAACTT
107925741 TAATTTAATATA
1 TAATTTAATATA
107925753 TAATTTAATATA
1 TAATTTAATATA
107925765 T
1 T
107925766 GAACTTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATTTAATATA
Found at i:107928034 original size:162 final size:156
Alignment explanation
Indices: 107927754--107928068 Score: 436
Period size: 162 Copynumber: 2.0 Consensus size: 156
107927744 ACATGTGATA
107927754 GATAAAATGATCAAATCAAAATATTCGAAAAAATTAAAAATAATATTTCTGTGACTTTTTCTGTT
1 GATAAAATGATCAAATCAAAATATTCG-AAAAATTAAAAATAATATTTCTGTGACTTTTTCTGTT
* *
107927819 GTTTCCATGACTTTTTTGTGTACTGCACATTTCATACAATTAGAATAAAGTTTTGAAAATGATAT
65 GTTTCCATGACTTTTTTGTGTACTACACATTTCATACAATTAAAATAAAGTTTTGAAAATGATAT
107927884 TCATATGAATTATGTTGGACCTATTGTG
130 TCATATGAATTATGTT-GACCTATTGTG
* * **
107927912 GATAAAATTATCAAATCAAAATATTTG-AAAATTCCAAAAATTGTATTTCTGTGACTACTTTT-T
1 GATAAAATGATCAAATCAAAATATTCGAAAAATT--AAAAATAATATTTCTGTGACT--TTTTCT
* * *
107927975 GTTGTTTTCATGACTTTCTTTTTGTGTACTATACATTTCATATAATTAAAATAAAGTTTTGAAAA
62 GTTGTTTCCATGAC--T-TTTTTGTGTACTACACATTTCATACAATTAAAATAAAGTTTTGAAAA
* *
107928040 TTATATTCATATTAATTATGTTGACCTAT
124 TGATATTCATATGAATTATGTTGACCTAT
107928069 GATAGATATG
Statistics
Matches: 139, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
156 6 0.04
158 44 0.32
159 14 0.10
160 4 0.03
161 8 0.06
162 63 0.45
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (156 bp):
GATAAAATGATCAAATCAAAATATTCGAAAAATTAAAAATAATATTTCTGTGACTTTTTCTGTTG
TTTCCATGACTTTTTTGTGTACTACACATTTCATACAATTAAAATAAAGTTTTGAAAATGATATT
CATATGAATTATGTTGACCTATTGTG
Found at i:107929404 original size:29 final size:30
Alignment explanation
Indices: 107929349--107929414 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
107929339 GTTCGATGTG
* *
107929349 CAATGTTATACATGAACTTTAATTTTG-TA
1 CAATTTTATACATGAAATTTAATTTTGATA
* *
107929378 CAATTTTATACATTAAATCTTAA-TTTGATT
1 CAATTTTATACATGAAAT-TTAATTTTGATA
107929408 CAATTTT
1 CAATTTT
107929415 CACAAGTCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (30 bp):
CAATTTTATACATGAAATTTAATTTTGATA
Found at i:107929903 original size:10 final size:10
Alignment explanation
Indices: 107929888--107929925 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
107929878 ATTTTAGCTT
107929888 TTATCTTTAA
1 TTATCTTTAA
107929898 TTATCTTTAA
1 TTATCTTTAA
*
107929908 TTAT-TTGTAT
1 TTATCTT-TAA
107929918 TTATCTTT
1 TTATCTTT
107929926 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:107930975 original size:14 final size:14
Alignment explanation
Indices: 107930956--107930985 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
107930946 AAAAACTCAC
107930956 CTCACCAGCAACAA
1 CTCACCAGCAACAA
107930970 CTCACCAGCAACAA
1 CTCACCAGCAACAA
107930984 CT
1 CT
107930986 TTGGATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.43, G:0.07, T:0.10
Consensus pattern (14 bp):
CTCACCAGCAACAA
Found at i:107938328 original size:19 final size:19
Alignment explanation
Indices: 107938304--107938343 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
107938294 TGTACTTCTT
*
107938304 TTTTTTTTTAATTTTTAAA
1 TTTTTTTATAATTTTTAAA
107938323 TTTTTTTATAATTTTTAAA
1 TTTTTTTATAATTTTTAAA
107938342 TT
1 TT
107938344 ATTTATTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTTTATAATTTTTAAA
Found at i:107941051 original size:10 final size:10
Alignment explanation
Indices: 107941038--107941083 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
107941028 CAATTTATTT
107941038 TTTTCTTTTA
1 TTTTCTTTTA
107941048 TTTTCTTTTAA
1 TTTTCTTTT-A
*
107941059 CTTTCTTTTA
1 TTTTCTTTTA
* *
107941069 TCTTCTTTTT
1 TTTTCTTTTA
107941079 TTTTC
1 TTTTC
107941084 ATTCTCTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:107955239 original size:18 final size:18
Alignment explanation
Indices: 107955216--107955317 Score: 114
Period size: 18 Copynumber: 5.7 Consensus size: 18
107955206 GATCATCAAT
*
107955216 CTTACTCAAATCGCCGAG
1 CTTACTCAAATCGCCAAG
* *
107955234 CTTACTCAAACCTCCAAG
1 CTTACTCAAATCGCCAAG
* *
107955252 CGTACTGAAATCGCCAAG
1 CTTACTCAAATCGCCAAG
* * * * *
107955270 CATGCACAAATCTCCGAG
1 CTTACTCAAATCGCCAAG
107955288 CTTACTCAAATCGCCAAG
1 CTTACTCAAATCGCCAAG
107955306 CTTACTCAAATC
1 CTTACTCAAATC
107955318 ACCTCCAACC
Statistics
Matches: 66, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.32, C:0.33, G:0.13, T:0.22
Consensus pattern (18 bp):
CTTACTCAAATCGCCAAG
Found at i:107955316 original size:36 final size:36
Alignment explanation
Indices: 107955216--107955317 Score: 132
Period size: 36 Copynumber: 2.8 Consensus size: 36
107955206 GATCATCAAT
* *
107955216 CTTACTCAAATCGCCGAGCTTACTCAAACCTCCAAG
1 CTTACTCAAATCGCCAAGCTTACTCAAATCTCCAAG
* * * * * *
107955252 CGTACTGAAATCGCCAAGCATGCACAAATCTCCGAG
1 CTTACTCAAATCGCCAAGCTTACTCAAATCTCCAAG
107955288 CTTACTCAAATCGCCAAGCTTACTCAAATC
1 CTTACTCAAATCGCCAAGCTTACTCAAATC
107955318 ACCTCCAACC
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.32, C:0.33, G:0.13, T:0.22
Consensus pattern (36 bp):
CTTACTCAAATCGCCAAGCTTACTCAAATCTCCAAG
Found at i:107955517 original size:24 final size:25
Alignment explanation
Indices: 107955475--107955522 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
107955465 ACGCAATTTT
107955475 AGTTAAAGAAATTAAAAATCCAAAC
1 AGTTAAAGAAATTAAAAATCCAAAC
* *
107955500 AGTT-AAGAATTTAGAAATCCAAA
1 AGTTAAAGAAATTAAAAATCCAAA
107955523 TTTTAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (25 bp):
AGTTAAAGAAATTAAAAATCCAAAC
Found at i:107957835 original size:19 final size:19
Alignment explanation
Indices: 107957811--107957849 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
107957801 CTGAAATAAG
107957811 AACAAAGAAGATTTATTGA
1 AACAAAGAAGATTTATTGA
107957830 AACAAAGAAGATTTATTGA
1 AACAAAGAAGATTTATTGA
107957849 A
1 A
107957850 TCTCCTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (19 bp):
AACAAAGAAGATTTATTGA
Found at i:107958795 original size:114 final size:114
Alignment explanation
Indices: 107958592--107958978 Score: 453
Period size: 114 Copynumber: 3.4 Consensus size: 114
107958582 TCAGTAGCCA
** * * *
107958592 CTCCTGGAGAGC-TTTGGGCAGTTGAGATGGCATCGGATGAGACCTGCTTGATGAACCCAGAGGC
1 CTCCTGGAGA-CATTTGGGCAGCCGAGATGGCATCAGATGAGACCTCCTTGATGAATCCAGAGGC
*
107958656 AGTGCCCAACAGTCCAGAATACTGAGCCTGAGGAGACCCTTCCCCAGAAC
65 AGTGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCCCAGAAC
*
107958706 CTCCTGGAGACATTTGGGCAACCGAGATGGCATCAGATGAGACCTCCTTGATGAATCCAGAGGCA
1 CTCCTGGAGACATTTGGGCAGCCGAGATGGCATCAGATGAGACCTCCTTGATGAATCCAGAGGCA
** * *
107958771 GCACCCAACAGTTCAGAAGGCTGAGCCTGAGGAGACCC-TCCCTCA-AAC
66 GTGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCC-CAGAAC
* * * ** * *
107958819 ACTCCTGG-G--GTTTGGGCAGCCGAGATGGCATCGGAAGAGATTTGCTTGATGAGTCCAGAGGC
1 -CTCCTGGAGACATTTGGGCAGCCGAGATGGCATCAGATGAGACCTCCTTGATGAATCCAGAGGC
* * * ***
107958881 AGTGCCCAACAGTCCAGAATGCTGAACCTGAGGAGGCCCTCCCCCAGCTG
65 AGTGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCCCAGAAC
* * * *
107958931 CTCCTGGAGACATTTGTGCAGCCGAGATAGCTTCAGATGAGACATCCT
1 CTCCTGGAGACATTTGGGCAGCCGAGATGGCATCAGATGAGACCTCCT
107958979 AGACAATTGG
Statistics
Matches: 227, Mismatches: 38, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
111 87 0.38
112 4 0.02
113 9 0.04
114 127 0.56
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.19
Consensus pattern (114 bp):
CTCCTGGAGACATTTGGGCAGCCGAGATGGCATCAGATGAGACCTCCTTGATGAATCCAGAGGCA
GTGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCCCAGAAC
Found at i:107965561 original size:19 final size:20
Alignment explanation
Indices: 107965539--107965578 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
107965529 ATTATGTAAA
107965539 TGTGACATATTTATA-TATT
1 TGTGACATATTTATATTATT
**
107965558 TGTGTTATATTTATATTATT
1 TGTGACATATTTATATTATT
107965578 T
1 T
107965579 TCTTACATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (20 bp):
TGTGACATATTTATATTATT
Found at i:107966009 original size:31 final size:31
Alignment explanation
Indices: 107965951--107966009 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
107965941 TCGAATTGCT
* * *
107965951 TTTTTTTTGAATTTTTATTTACTTTTTTCTG
1 TTTTCTTTGAATTTTTATTGAATTTTTTCTG
107965982 TTTTCTTTG-ATTTTTATTGAATATTTTT
1 TTTTCTTTGAATTTTTATTGAAT-TTTTT
107966010 ATAATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (31 bp):
TTTTCTTTGAATTTTTATTGAATTTTTTCTG
Found at i:107970305 original size:19 final size:19
Alignment explanation
Indices: 107970271--107970307 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
107970261 ATGTGTGTGT
* *
107970271 GTATAAAAGTAGTTTAAAC
1 GTATAAAAGAACTTTAAAC
107970290 GTATAAAAGAACTTTAAA
1 GTATAAAAGAACTTTAAA
107970308 ATATATTAGA
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:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATAAAAGAACTTTAAAC
Found at i:107971810 original size:47 final size:47
Alignment explanation
Indices: 107971700--107971811 Score: 147
Period size: 47 Copynumber: 2.4 Consensus size: 47
107971690 TCCGGGATAA
* *
107971700 ACACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGT
1 ACACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGT
* * *
107971747 ACACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-
1 ACACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGT
107971794 ACACATAGTG-TCTCATCG
1 ACACATAGTGCT-TCATCG
107971812 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (47 bp):
ACACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGT
Found at i:107972583 original size:4 final size:4
Alignment explanation
Indices: 107972574--107972606 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
107972564 CCCTTTTCTA
107972574 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
107972607 CACGTTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:107976230 original size:19 final size:22
Alignment explanation
Indices: 107976201--107976242 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
107976191 TGAGAATAAG
107976201 AAAATAA-TTT-TACGTTAACT
1 AAAATAATTTTGTACGTTAACT
107976221 AAAA-AATTTTGTACGTTAACT
1 AAAATAATTTTGTACGTTAACT
107976242 A
1 A
107976243 TCTTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.10
20 7 0.35
21 11 0.55
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (22 bp):
AAAATAATTTTGTACGTTAACT
Found at i:107976817 original size:16 final size:16
Alignment explanation
Indices: 107976786--107976824 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
107976776 TAAATAAAAT
107976786 AATATTTTTTAGATAA
1 AATATTTTTTAGATAA
*
107976802 TATATTGTTTTA-ATAA
1 AATATT-TTTTAGATAA
107976818 AATATTT
1 AATATTT
107976825 AAATTTCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.70
17 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (16 bp):
AATATTTTTTAGATAA
Found at i:107982177 original size:24 final size:24
Alignment explanation
Indices: 107982150--107982198 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
107982140 ATTCGAAACC
107982150 AATCTAAATTTATAATAACAATTA
1 AATCTAAATTTATAATAACAATTA
107982174 AATCTAAATTTATAATAACAATTA
1 AATCTAAATTTATAATAACAATTA
107982198 A
1 A
107982199 GATAGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (24 bp):
AATCTAAATTTATAATAACAATTA
Found at i:107986254 original size:7 final size:6
Alignment explanation
Indices: 107986237--107986266 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
107986227 CTCTCTTTAC
107986237 AAAATA AAAATAA AAAATA AAAATA AAAAT
1 AAAATA AAAAT-A AAAATA AAAATA AAAAT
107986267 CACAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:107986255 original size:13 final size:13
Alignment explanation
Indices: 107986237--107986265 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
107986227 CTCTCTTTAC
107986237 AAAATAAAAATAA
1 AAAATAAAAATAA
107986250 AAAATAAAAATAA
1 AAAATAAAAATAA
107986263 AAA
1 AAA
107986266 TCACAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:107987634 original size:14 final size:14
Alignment explanation
Indices: 107987615--107987642 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
107987605 TATATTAGTA
107987615 TTTTCTATTCTATT
1 TTTTCTATTCTATT
107987629 TTTTCTATTCTATT
1 TTTTCTATTCTATT
107987643 AGTATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:107987654 original size:5 final size:6
Alignment explanation
Indices: 107987639--107987709 Score: 59
Period size: 5 Copynumber: 13.2 Consensus size: 6
107987629 TTTTCTATTC
* * *
107987639 TATTAG TATTAG -ATTAG TATT-C TATT-C TATTAA TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
107987683 TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG T
107987710 TAGTGATCCC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
4 4 0.07
5 28 0.49
6 25 0.44
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (6 bp):
TATTAG
Found at i:107987654 original size:11 final size:11
Alignment explanation
Indices: 107987640--107987713 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 11
107987630 TTTCTATTCT
107987640 ATTAGTATTAG
1 ATTAGTATTAG
**
107987651 ATTAGTATTCT
1 ATTAGTATTAG
*
107987662 ATT-CTATTA-
1 ATTAGTATTAG
107987671 A-TA-T--TAG
1 ATTAGTATTAG
107987678 ATTAGTATTAG
1 ATTAGTATTAG
107987689 -TTAG-ATTAG
1 ATTAGTATTAG
107987698 ATTAGTATTAG
1 ATTAGTATTAG
107987709 -TTAGT
1 ATTAGT
107987714 GATCCCAACG
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
6 2 0.04
7 1 0.02
8 4 0.08
9 7 0.14
10 17 0.33
11 20 0.39
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.49
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:107987661 original size:27 final size:27
Alignment explanation
Indices: 107987631--107987686 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
107987621 ATTCTATTTT
*
107987631 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAATATTAGATTAGTA
107987658 TTCTATTCTATTAATATTAGATTAGTA
1 TTCTATTCTATTAATATTAGATTAGTA
107987685 TT
1 TT
107987687 AGTTAGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (27 bp):
TTCTATTCTATTAATATTAGATTAGTA
Found at i:107987698 original size:20 final size:20
Alignment explanation
Indices: 107987673--107987712 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
107987663 TTCTATTAAT
107987673 ATTAGATTAGTATTAGTTAG
1 ATTAGATTAGTATTAGTTAG
107987693 ATTAGATTAGTATTAGTTAG
1 ATTAGATTAGTATTAGTTAG
107987713 TGATCCCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
ATTAGATTAGTATTAGTTAG
Found at i:107988690 original size:12 final size:12
Alignment explanation
Indices: 107988675--107988726 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
107988665 CTTCATAAGC
107988675 ATCTTCGAAATA
1 ATCTTCGAAATA
*
107988687 ATCTTCAAAATTA
1 ATCTTCGAAA-TA
** **
107988700 ATCTTCGTGAGC
1 ATCTTCGAAATA
107988712 ATCTTCGAAATA
1 ATCTTCGAAATA
107988724 ATC
1 ATC
107988727 ACCACCCCGC
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
12 20 0.69
13 9 0.31
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (12 bp):
ATCTTCGAAATA
Found at i:107988713 original size:37 final size:33
Alignment explanation
Indices: 107988616--107988726 Score: 125
Period size: 33 Copynumber: 3.2 Consensus size: 33
107988606 AAGCCTTCTA
* *
107988616 AAATAATCTTG-AAAATCTTTATGAGCATCTGCG
1 AAATAATC-TGCAAAATCTTCATGAGCATCTTCG
*
107988649 AAATAATCTGCAAAATCTTCATAAGCATCTTCG
1 AAATAATCTGCAAAATCTTCATGAGCATCTTCG
* *
107988682 AAATAATCTTCAAAATTAATCTTCGTGAGCATCTTCG
1 AAATAATCTGC--AA--AATCTTCATGAGCATCTTCG
107988719 AAATAATC
1 AAATAATC
107988727 ACCACCCCGC
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
32 2 0.03
33 37 0.55
35 2 0.03
37 26 0.39
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (33 bp):
AAATAATCTGCAAAATCTTCATGAGCATCTTCG
Found at i:107997103 original size:18 final size:18
Alignment explanation
Indices: 107997080--107997114 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
107997070 TAAGATGCAT
107997080 AAACTATACAGCACAGTA
1 AAACTATACAGCACAGTA
107997098 AAACTATACAGCACAGT
1 AAACTATACAGCACAGT
107997115 GCTGCAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.23, G:0.11, T:0.17
Consensus pattern (18 bp):
AAACTATACAGCACAGTA
Found at i:108001762 original size:26 final size:24
Alignment explanation
Indices: 108001732--108001779 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
108001722 AATAAAAAAA
*
108001732 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
108001758 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
108001780 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:108001799 original size:21 final size:21
Alignment explanation
Indices: 108001750--108001808 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
108001740 ATAATAAATC
*
108001750 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
108001770 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
108001792 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
108001809 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:108002964 original size:9 final size:8
Alignment explanation
Indices: 108002943--108002981 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
108002933 TAGTAAAATG
108002943 TAATTTTA
1 TAATTTTA
108002951 TAATTTTAA
1 TAATTTT-A
108002960 TAA-TTTA
1 TAATTTTA
*
108002967 TATTTTTA
1 TAATTTTA
108002975 TAATTTT
1 TAATTTT
108002982 TAAAAGGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 3 0.11
8 20 0.74
9 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TAATTTTA
Found at i:108002977 original size:15 final size:16
Alignment explanation
Indices: 108002947--108002980 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
108002937 AAAATGTAAT
108002947 TTTATAATTTTAATAA
1 TTTATAATTTTAATAA
*
108002963 TTTAT-ATTTTTATAA
1 TTTATAATTTTAATAA
108002978 TTT
1 TTT
108002981 TTAAAAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATAATTTTAATAA
Found at i:108010427 original size:15 final size:15
Alignment explanation
Indices: 108010407--108010443 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
108010397 TAATTCTGTA
108010407 ACCATTAGAGGCCCT
1 ACCATTAGAGGCCCT
**
108010422 ACCATTATCGGCCCT
1 ACCATTAGAGGCCCT
108010437 ACCATTA
1 ACCATTA
108010444 TCTCCATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (15 bp):
ACCATTAGAGGCCCT
Found at i:108010444 original size:15 final size:15
Alignment explanation
Indices: 108010416--108010445 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
108010406 AACCATTAGA
108010416 GGCCCTACCATTATC
1 GGCCCTACCATTATC
108010431 GGCCCTACCATTATC
1 GGCCCTACCATTATC
108010446 TCCATTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (15 bp):
GGCCCTACCATTATC
Found at i:108010612 original size:9 final size:9
Alignment explanation
Indices: 108010598--108010626 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
108010588 CCCCTCTCTC
108010598 TCTCCATCT
1 TCTCCATCT
108010607 TCTCCATCT
1 TCTCCATCT
108010616 TCTCCATCT
1 TCTCCATCT
108010625 TC
1 TC
108010627 ATGACTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.45, G:0.00, T:0.45
Consensus pattern (9 bp):
TCTCCATCT
Found at i:108011301 original size:6 final size:6
Alignment explanation
Indices: 108011280--108011335 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
108011270 TTGTTTTCAA
* *
108011280 TTTAAT TTTTA- TTTAAT ATTAAT TTTAAT TTTAAT TTTAAT TTTAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
*
108011327 TGTAAT TTT
1 TTTAAT TTT
108011336 TCATTTAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (6 bp):
TTTAAT
Found at i:108011344 original size:12 final size:11
Alignment explanation
Indices: 108011273--108011345 Score: 74
Period size: 12 Copynumber: 6.2 Consensus size: 11
108011263 AAGAGAGTTG
108011273 TTTTCAATTTAA
1 TTTT-AATTTAA
*
108011285 TTTTTATTTAA
1 TTTTAATTTAA
*
108011296 TATTAATTTTAA
1 TTTTAA-TTTAA
108011308 TTTTAATTTTAA
1 TTTTAA-TTTAA
108011320 TTTTAATTGTAA
1 TTTTAATT-TAA
*
108011332 TTTTTCATTTAA
1 -TTTTAATTTAA
108011344 TT
1 TT
108011346 ATTTTCTCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
11 14 0.26
12 32 0.60
13 7 0.13
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (11 bp):
TTTTAATTTAA
Found at i:108013710 original size:15 final size:15
Alignment explanation
Indices: 108013676--108013704 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
108013666 ATAACTTTAG
108013676 ACACGGATACAATTT
1 ACACGGATACAATTT
108013691 ACACGGATACAATT
1 ACACGGATACAATT
108013705 ATCACGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (15 bp):
ACACGGATACAATTT
Found at i:108015300 original size:31 final size:29
Alignment explanation
Indices: 108015264--108015340 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
108015254 GTACCAGGGA
108015264 AGTCCCTATATTA-TAGGAACCGGATCAAGTT
1 AGTCCCTATATTATTA--AA-CGGATCAAGTT
* *
108015295 AGTCCCTCTATTATTAAACGGATCAATTT
1 AGTCCCTATATTATTAAACGGATCAAGTT
*
108015324 AGT-CCTATACTATTAAA
1 AGTCCCTATATTATTAAA
108015341 AAGAATCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.29
29 13 0.32
30 2 0.05
31 12 0.29
32 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (29 bp):
AGTCCCTATATTATTAAACGGATCAAGTT
Found at i:108019882 original size:17 final size:17
Alignment explanation
Indices: 108019860--108019894 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
108019850 AAGTAAAGCT
108019860 TTTGTTTTCTCTTCTTG
1 TTTGTTTTCTCTTCTTG
108019877 TTTGTTTTCTCTTCTTG
1 TTTGTTTTCTCTTCTTG
108019894 T
1 T
108019895 GTTATTTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTGTTTTCTCTTCTTG
Found at i:108019902 original size:17 final size:17
Alignment explanation
Indices: 108019860--108019903 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
108019850 AAGTAAAGCT
*
108019860 TTTGTTTTCTCTTCTTG
1 TTTGATTTCTCTTCTTG
*
108019877 TTTGTTTTCTCTTCTTG
1 TTTGATTTCTCTTCTTG
108019894 TGTT-ATTTCT
1 T-TTGATTTCT
108019904 GCAGACCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.02, C:0.16, G:0.11, T:0.70
Consensus pattern (17 bp):
TTTGATTTCTCTTCTTG
Found at i:108020633 original size:6 final size:6
Alignment explanation
Indices: 108020587--108020636 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
108020577 ACACACACAC
* *
108020587 ACAAAA A-AAAA A-AAAA ACAACA ACAACA ACAAACAA ACAAAA ACAAAA
1 ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA AC-AA-AA ACAAAA ACAAAA
108020635 AC
1 AC
108020637 TTTTATTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 10 0.26
6 22 0.56
7 4 0.10
8 3 0.08
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:108023425 original size:22 final size:21
Alignment explanation
Indices: 108023383--108023434 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
108023373 ATAAGATTTT
*
108023383 AATATATTATTTAAAATTTAAA
1 AATATTTTATTTAAAATTT-AA
*
108023405 AATATTTTATATTAATA-TTAA
1 AATATTTTAT-TTAAAATTTAA
*
108023426 TATATTTTA
1 AATATTTTA
108023435 ATTCAAGCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 10 0.38
22 11 0.42
23 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTTTATTTAAAATTTAA
Found at i:108023634 original size:15 final size:15
Alignment explanation
Indices: 108023614--108023644 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
108023604 AGTCTTCTAG
108023614 ACGAATCAAAATTTT
1 ACGAATCAAAATTTT
108023629 ACGAATCAAAATTTT
1 ACGAATCAAAATTTT
108023644 A
1 A
108023645 TTTCTTGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (15 bp):
ACGAATCAAAATTTT
Found at i:108025224 original size:16 final size:14
Alignment explanation
Indices: 108025196--108025227 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
108025186 TCAGTTTGAT
108025196 TAAAAAATTATAAA
1 TAAAAAATTATAAA
108025210 TAAAAAA-T-TAAA
1 TAAAAAATTATAAA
108025222 TAAAAA
1 TAAAAA
108025228 TTACTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.56
13 1 0.06
14 7 0.39
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAAAAATTATAAA
Found at i:108030801 original size:46 final size:46
Alignment explanation
Indices: 108030704--108030811 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
108030694 GATATGAAAT
* * * ***
108030704 GACCATGGTTGAAAGATACCATGGCAGCATGATATGAAATGTGTAA
1 GACCATGGTTGAAAGATACCATAGCAACATGACATGAAATGAACAA
* *
108030750 GACCATGGTTGAAAGATACCATAGCAACGTGACATGAAATGAACGA
1 GACCATGGTTGAAAGATACCATAGCAACATGACATGAAATGAACAA
* *
108030796 TACCATAGTTGAAAGA
1 GACCATGGTTGAAAGA
108030812 CACTATGGCA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GACCATGGTTGAAAGATACCATAGCAACATGACATGAAATGAACAA
Found at i:108032784 original size:18 final size:17
Alignment explanation
Indices: 108032725--108032787 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
108032715 TGAAAAATAT
* *
108032725 AATAAAAAT-TGATTAT
1 AATAAAAATATAATTAA
* * *
108032741 ATTAAAATTAAAATTAA
1 AATAAAAATATAATTAA
*
108032758 AATATAAATATAATTAA
1 AATAAAAATATAATTAA
108032775 AGATAAAAATATA
1 A-ATAAAAATATA
108032788 TATATATTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
16 7 0.20
17 18 0.51
18 10 0.29
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AATAAAAATATAATTAA
Found at i:108032792 original size:24 final size:23
Alignment explanation
Indices: 108032738--108032793 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
108032728 AAAAATTGAT
* *
108032738 TATAT-TAAAATTAAAATTAAAA
1 TATATATATAATTAAAATAAAAA
*
108032760 TATAAATATAATTAAAGATAAAAA
1 TATATATATAATTAAA-ATAAAAA
108032784 TATATATATA
1 TATATATATA
108032794 TTTTTTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 4 0.14
23 9 0.32
24 15 0.54
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
TATATATATAATTAAAATAAAAA
Found at i:108039898 original size:18 final size:18
Alignment explanation
Indices: 108039875--108039911 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
108039865 ATTCCATTAC
108039875 ATGGAAATGGCTTTACCT
1 ATGGAAATGGCTTTACCT
108039893 ATGGAAATGGCTTTACCT
1 ATGGAAATGGCTTTACCT
108039911 A
1 A
108039912 AAATTATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (18 bp):
ATGGAAATGGCTTTACCT
Done.