Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
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: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 18 of 23
Found at i:2806692 original size:14 final size:14
Alignment explanation
Indices: 2806685--2806711 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2806675 CTTGACGATA
2806685 ATTTCTTGACAAAC
1 ATTTCTTGACAAAC
2806699 ATTTCTTGACAAA
1 ATTTCTTGACAAA
2806712 TGGCAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (14 bp):
ATTTCTTGACAAAC
Found at i:2808208 original size:28 final size:28
Alignment explanation
Indices: 2808150--2808475 Score: 339
Period size: 28 Copynumber: 11.6 Consensus size: 28
2808140 TACCAACTTG
*
2808150 TGTGGGCTTTGAAAAAAAGTGCCACTGACT
1 TGTGGGCTTTG-AAAAGA-TGCCACTGACT
* * *
2808180 TATGGGCTTTGAAAAGATGCCAATAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * * *
2808208 TATGGACTTTGAAAGGATACCACTGACA
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
2808236 TGTGTGCTTTGAAAA-AGTGCCACTGACT
1 TGTGGGCTTTGAAAAGA-TGCCACTGACT
*
2808264 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
2808292 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * *
2808320 TGTTGGCTTTGAAAAGATTCTACCGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
2808348 TGTAGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * * * *
2808376 TGTAGGCTTTGAAAGGAAGACATTGACC
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
2808404 TGTGGGCTTTGAAAAGGTGCCACTCACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * *
2808432 TGTGGGCTTTGAAAGGATGGCACTAACA
1 TGTGGGCTTTGAAAAGATGCCACTGACT
2808460 TGTGGGCTTTGAAAAG
1 TGTGGGCTTTGAAAAG
2808476 GGGTCGTATT
Statistics
Matches: 243, Mismatches: 51, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
27 1 0.00
28 226 0.93
29 6 0.02
30 10 0.04
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGATGCCACTGACT
Found at i:2809779 original size:12 final size:11
Alignment explanation
Indices: 2809750--2809798 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
2809740 ATTTGGACCC
*
2809750 TTTTTTTTTTG
1 TTTTTTTTTGG
* *
2809761 TTATTTTTAGG
1 TTTTTTTTTGG
2809772 -TTTTTTTTGG
1 TTTTTTTTTGG
2809782 TTTTTTTGTTGG
1 TTTTTTT-TTGG
2809794 TTTTT
1 TTTTT
2809799 GCCCTTTAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
10 8 0.26
11 14 0.45
12 9 0.29
ACGTcount: A:0.04, C:0.00, G:0.16, T:0.80
Consensus pattern (11 bp):
TTTTTTTTTGG
Found at i:2815820 original size:20 final size:20
Alignment explanation
Indices: 2815795--2815832 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2815785 ACATGTATAA
2815795 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
2815815 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
2815833 ATCTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:2817408 original size:32 final size:33
Alignment explanation
Indices: 2817350--2817412 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
2817340 CACCCAGATG
*
2817350 TATCGATACATTATGCTTTGTATCGATACATTA
1 TATCGATACATTATGCATTGTATCGATACATTA
2817383 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
2817413 GGAAAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTA
Found at i:2821037 original size:12 final size:12
Alignment explanation
Indices: 2821020--2821120 Score: 100
Period size: 12 Copynumber: 8.4 Consensus size: 12
2821010 TCCTTCATAC
2821020 AAAAAAACAAAA
1 AAAAAAACAAAA
2821032 AAAAAAACAAAA
1 AAAAAAACAAAA
*
2821044 AACCAAGAAA-AAAC
1 AA--AA-AAACAAAA
2821058 AAAAAAA-AAAA
1 AAAAAAACAAAA
**
2821069 TGAAAAAC-AAA
1 AAAAAAACAAAA
2821080 AAAAAAACAAAA
1 AAAAAAACAAAA
*
2821092 AAAAAAACAAAC
1 AAAAAAACAAAA
**
2821104 AAGCAAACAAAA
1 AAAAAAACAAAA
2821116 AAAAA
1 AAAAA
2821121 GGTGTCCAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
11 20 0.28
12 42 0.58
14 7 0.10
15 3 0.04
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:2821057 original size:30 final size:30
Alignment explanation
Indices: 2821020--2821118 Score: 135
Period size: 30 Copynumber: 3.2 Consensus size: 30
2821010 TCCTTCATAC
*
2821020 AAAAAAACAAAAAAAAAAACAAAAAACCAA
1 AAAAAAACAAAAAAAAAAACAAAAAACAAA
* **
2821050 GAAAAAACAAAAAAAAAAATGAAAAACAAA
1 AAAAAAACAAAAAAAAAAACAAAAAACAAA
*
2821080 AAAAAAACAAAAAAAAAAACAAACAAGCAAA
1 AAAAAAACAAAAAAAAAAACAAA-AAACAAA
2821111 CAAAAAAA
1 -AAAAAAA
2821119 AAGGTGTCCA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
30 46 0.78
31 6 0.10
32 7 0.12
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (30 bp):
AAAAAAACAAAAAAAAAAACAAAAAACAAA
Found at i:2821118 original size:1 final size:1
Alignment explanation
Indices: 2821020--2821098 Score: 68
Period size: 1 Copynumber: 79.0 Consensus size: 1
2821010 TCCTTCATAC
* * ** * * ** *
2821020 AAAAAAACAAAAAAAAAAACAAAAAACCAAGAAAAAACAAAAAAAAAAATGAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
2821085 AACAAAAAAAAAAA
1 AAAAAAAAAAAAAA
2821099 CAAACAAGCA
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:2822393 original size:28 final size:29
Alignment explanation
Indices: 2822361--2823201 Score: 698
Period size: 28 Copynumber: 28.7 Consensus size: 29
2822351 CTAAAACGTT
*
2822361 CATCTC-TTCAAAGCCCACAGGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
2822389 CATCT-TTTCAAAGCCCACAAGTTAGTGA
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
2822417 CA-CCCTTCCAAAGCCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
2822445 TA-CCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* * * * *
2822473 CATACCCTTTCAAAACCCACAGGTTAATGG
1 CAT-CTCTTTCAAAGCCCACAAGTCAGTGG
2822503 CATCTC-TTCAAAAGCCCACAAGTCAGTGG
1 CATCTCTTTC-AAAGCCCACAAGTCAGTGG
* * * *
2822532 CA-CCCTTTCAAAGCACACATAAGTTAGTGA
1 CATCTCTTTCAAAGC-C-CACAAGTCAGTGG
* *
2822562 CATGCCCTTTCAAAGCCCACACAAGTCGGTGG
1 CAT-CTCTTTCAAAG-CC-CACAAGTCAGTGG
*
2822594 CAACTCTTTTCAAAGCCCACAAGTCAGTGG
1 CATCTC-TTTCAAAGCCCACAAGTCAGTGG
* *
2822624 CATTTC-TTCAAAAGCCTACAAGTCAGTGG
1 CATCTCTTTC-AAAGCCCACAAGTCAGTGG
*
2822653 CATC-CTTTCAAAGCCCACACAAGTCGGTGG
1 CATCTCTTTCAAAG-CC-CACAAGTCAGTGG
* *
2822683 CAACTCTTTTCAAAGCCCACAAGTCAGTGA
1 CATCTC-TTTCAAAGCCCACAAGTCAGTGG
* *
2822713 CATCTC-TTCAAAAGACCACAAGTTAGTGG
1 CATCTCTTTC-AAAGCCCACAAGTCAGTGG
*
2822742 CATC-CTTTCAAAGCCTACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* * *
2822770 CATACCCTTTTAAAGCCCGCACAAGTCGGTGG
1 CAT-CTCTTTCAAAG-CC-CACAAGTCAGTGG
* * *
2822802 CAACTCTTTTTAAAGCCCACAAGTTAGTGG
1 CATCTC-TTTCAAAGCCCACAAGTCAGTGG
* *
2822832 CATCT-TTTCAAAAGCCCAAAAGTC-GTGA
1 CATCTCTTTC-AAAGCCCACAAGTCAGTGG
* * *
2822860 CA-CCCTTTCAAAGCCCATATAAGTTAGTGG
1 CATCTCTTTCAAAGCCC--ACAAGTCAGTGG
*
2822890 CATACCCTTTCAAAGCCTACACAAGTC-GATGG
1 CAT-CTCTTTCAAAGCC--CACAAGTCAG-TGG
* *
2822922 CAACTCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCT-CTTTCAAAGCCCACAAGTCAGTGG
* * *
2822952 CATCTC-TTCAAAAGACCACAAGTTAGTGT
1 CATCTCTTTC-AAAGCCCACAAGTCAGTGG
* *
2822981 CATC-CTTTCAAAGCTCACAAGGCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
2823009 CATAC-CATTTCAAAGCCCACAAGTCGGTGG
1 CAT-CTC-TTTCAAAGCCCACAAGTCAGTGG
* *
2823039 CA-CCCTTTCAAAGCCCACACAAGTCGGTGG
1 CATCTCTTTCAAAG-CC-CACAAGTCAGTGG
* *
2823069 CAACTCTTTTAAAGCCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
2823098 CA-CCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
2823126 CAT-TCTTTTAAAGCCCACAAGTCAGTGA
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* * **
2823154 CA-CCCTTTCAAGGCCTGCAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* * * *
2823182 CGTATCCTTCAAAGCTCACA
1 CATCTCTTTCAAAGCCCACA
2823202 TAAGTTAGTG
Statistics
Matches: 663, Mismatches: 102, Indels: 95
0.77 0.12 0.11
Matches are distributed among these distances:
27 9 0.01
28 224 0.34
29 144 0.22
30 164 0.25
31 25 0.04
32 95 0.14
33 1 0.00
34 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (29 bp):
CATCTCTTTCAAAGCCCACAAGTCAGTGG
Found at i:2822682 original size:89 final size:85
Alignment explanation
Indices: 2822367--2823221 Score: 701
Period size: 89 Copynumber: 9.7 Consensus size: 85
2822357 CGTTCATCTC
* * * * * *
2822367 TTCAAAGCCCACAGGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGACAC-CCTTCCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* *
2822431 CCACAAGTCAGTGGTACCCT
66 CCACAAGTCAGTGGCACTCT
* * * * *
2822451 TTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAACCCACAGGTTAATGGCA-TCTCTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC-AA
*
2822515 AGCCCACAAGTCAGTGGCACCCT
63 AGCCCACAAGTCAGTGGCACTCT
* * * *
2822538 TTCAAAGCACACATAAGTTAGTGACATGCCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTT
1 TTCAAAGC-C-CACAAGTCAGTGGCAT--CCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTT
*
2822603 TCAAAGCCCACAAGTCAGTGGCA-TTT
59 TCAAAGCCCACAAGTCAGTGGCACTCT
* *
2822629 CTTCAAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTC
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTC
*
2822694 AAAGCCCACAAGTCAGTGACA-TCT
61 AAAGCCCACAAGTCAGTGGCACTCT
* * * *
2822718 CTTCAAAAGACCACAAGTTAGTGGCATCCTTTCAAAGCCTACAAGTCAGTGGCATACCCTTTT-A
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC--ACTCTTTTCA
*
2822782 AAGCCCGCACAAGTCGGTGGCAACTCTT
62 AAG-CC-CACAAGTCAGTGGC-ACTC-T
* * * * * *
2822810 TTTAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCAAAAGTC-GTGACAC-CCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* * *
2822873 CCCATATAAGTTAGTGGCATACCCT
65 CCC--ACAAGTCAGTGGC--ACTCT
* *
2822898 TTCAAAGCCTACACAAGTC-GATGGCAACTCCTTTCAAAGCCCACAAGTTAGTGGCA-TCTCTTC
1 TTCAAAGCC--CACAAGTCAG-TGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * *
2822961 AAAAGACCACAAGTTAGTGTCA-TCCT
61 -AAAGCCCACAAGTCAGTGGCACT-CT
* * * *
2822987 TTCAAAGCTCACAAGGCAGTGGCATACCATTTCAAAGCCCACAAGTCGGTGGCAC-CCTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCAT-CC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
*
2823051 GCCCACACAAGTCGGTGGCAACTCT
64 G-CC-CACAAGTCAGTGGC-ACTCT
* * * *
2823076 TTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATTCTTTT-AAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* *
2823140 CCACAAGTCAGTGACACCCT
66 CCACAAGTCAGTGGCACTCT
* ** * * *
2823160 TTCAAGGCCTGCAAGTCAGTGGCGTATCC-TTCAAAGCTCACATAAGTTAGTGGCACTTTTTT
1 TTCAAAGCCCACAAGTCAGTGGC--ATCCTTTCAAAGC-C-CACAAGTCAGTGGCACTCTTTT
2823222 TTAAAAAGCC
Statistics
Matches: 636, Mismatches: 90, Indels: 87
0.78 0.11 0.11
Matches are distributed among these distances:
84 47 0.07
85 21 0.03
86 39 0.06
87 139 0.22
88 55 0.09
89 168 0.26
90 45 0.07
91 63 0.10
92 42 0.07
93 17 0.03
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (85 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
CCACAAGTCAGTGGCACTCT
Found at i:2823388 original size:48 final size:47
Alignment explanation
Indices: 2823294--2823456 Score: 204
Period size: 48 Copynumber: 3.5 Consensus size: 47
2823284 GCTGATATCA
* * * * *
2823294 CTGGCATTGAATCAGCATATTG-CCACCTTT-ATTAGCTGAATGTCG
1 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCTTAGCTCAATGTCG
2823339 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCG
1 CTGGCCTTGAATCAGCACATTGTCCACTTTT-CCTTAGCTCAATGTCG
* *
2823387 CTGGCCTTGAATCAGCACATTGTCCATTTTTTCCTTAGCTCGATGTCG
1 CTGGCCTTGAATCAGCACATTGTCCA-CTTTTCCTTAGCTCAATGTCG
* **
2823435 TTGGCCTTGAATTGGCACATTG
1 CTGGCCTTGAATCAGCACATTG
2823457 GCACTCCTTT
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
45 20 0.19
46 7 0.07
48 73 0.70
49 4 0.04
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (47 bp):
CTGGCCTTGAATCAGCACATTGTCCACTTTTCCTTAGCTCAATGTCG
Found at i:2824106 original size:20 final size:20
Alignment explanation
Indices: 2824081--2824158 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
2824071 TTTTTACCCA
2824081 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * * *
2824101 AATGTATTGATACATGTATG
1 AATGTATCGATACATTTTTC
*
2824121 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
*
2824141 AACGTATCGATACATTTT
1 AATGTATCGATACATTTT
2824159 ATCTTTTTTC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:2837551 original size:8 final size:8
Alignment explanation
Indices: 2837538--2837615 Score: 79
Period size: 8 Copynumber: 9.8 Consensus size: 8
2837528 CTTCGTACAA
2837538 AAAAAAAC
1 AAAAAAAC
2837546 AAAAAAACC
1 AAAAAAA-C
2837555 AAAAAAA-
1 AAAAAAAC
** *
2837562 AAATCAAG
1 AAAAAAAC
2837570 AAAAAAAC
1 AAAAAAAC
2837578 AAAAAAAC
1 AAAAAAAC
*
2837586 -CAAAAAC
1 AAAAAAAC
2837593 AAAAAAAAC
1 -AAAAAAAC
*
2837602 AAACAAAC
1 AAAAAAAC
2837610 AAAAAA
1 AAAAAA
2837616 TGGGTCTAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
7 11 0.19
8 32 0.56
9 14 0.25
ACGTcount: A:0.83, C:0.14, G:0.01, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:2837579 original size:32 final size:32
Alignment explanation
Indices: 2837538--2837615 Score: 113
Period size: 32 Copynumber: 2.4 Consensus size: 32
2837528 CTTCGTACAA
* *
2837538 AAAAAAACAAAAAAACCAAAAA-AAAAATCAAG
1 AAAAAAACAAAAAAACCAAAAACAAAAA-AAAC
2837570 AAAAAAACAAAAAAACCAAAAACAAAAAAAAC
1 AAAAAAACAAAAAAACCAAAAACAAAAAAAAC
*
2837602 AAACAAACAAAAAA
1 AAAAAAACAAAAAA
2837616 TGGGTCTAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
32 37 0.88
33 5 0.12
ACGTcount: A:0.83, C:0.14, G:0.01, T:0.01
Consensus pattern (32 bp):
AAAAAAACAAAAAAACCAAAAACAAAAAAAAC
Found at i:2837597 original size:24 final size:23
Alignment explanation
Indices: 2837536--2837614 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
2837526 TTCTTCGTAC
*
2837536 AAAA-AAAAACAAAAAAACCAAA
1 AAAACAAAAACAAAAAAAACAAA
*
2837558 AAAA-AAATCAA-GAAAAAAACAAA
1 AAAACAAA--AACAAAAAAAACAAA
2837581 AAAACCAAAAACAAAAAAAACAAA
1 AAAA-CAAAAACAAAAAAAACAAA
*
2837605 CAAACAAAAA
1 AAAACAAAAA
2837615 ATGGGTCTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
22 7 0.15
23 22 0.46
24 16 0.33
25 3 0.06
ACGTcount: A:0.84, C:0.14, G:0.01, T:0.01
Consensus pattern (23 bp):
AAAACAAAAACAAAAAAAACAAA
Found at i:2838955 original size:30 final size:29
Alignment explanation
Indices: 2838867--2839648 Score: 687
Period size: 30 Copynumber: 26.4 Consensus size: 29
2838857 CGTTCATCTC
* * ****
2838867 TTCAAATCCCACAGGTCAGTGGCATTTGT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
2838896 TTCAAAGCCCACAAGTCAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
*
2838924 TTCAAAGCGCACAAGTCAGTGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-ACCCT
* *
2838954 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCAAC-CCT
* *
2838986 TTCAAAGCCCACAAGTCAGTGGCATCTC-
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
2839014 TTCAAAAGCCCACAAGTCAGTGGC-ACCCT
1 TTC-AAAGCCCACAAGTCAGTGGCAACCCT
2839043 TTCAAAGCCCACATAAG-CTAGTGGCATACCCT
1 TTCAAAGCCCAC--AAGTC-AGTGGCA-ACCCT
* *
2839075 TTCAAAGCCTACACAAGTCGGTGGCAACTCTT
1 TTCAAAGCC--CACAAGTCAGTGGCAAC-CCT
* * *
2839107 TTCAAAGCCTACAAGTCAGTGGCATCTC-
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
2839135 TTCAAAAGCCCACAAGTCAGTGGC-ACCCT
1 TTC-AAAGCCCACAAGTCAGTGGCAACCCT
* *
2839164 TTCAAAGCCCACACAAGTCAGTAGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCAAC-CCT
* * * *
2839196 TTTAAAGCACACAAGTCAGTGGCATCTC-
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
*
2839224 TTCAAAAGCCCACAAGTTAGTGGC-ACCCT
1 TTC-AAAGCCCACAAGTCAGTGGCAACCCT
* * * *
2839253 TTCAAAGCCTAGACAAGTCGGTGGCATCTCTT
1 TTCAAAGCC--CACAAGTCAGTGGCAAC-CCT
* * * *
2839285 TTCAAAGCCTACAAGTTAGTGGCATCTC-
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
2839313 TTCAAAAGCCCACAAGTCAGTGGC-ACCCT
1 TTC-AAAGCCCACAAGTCAGTGGCAACCCT
* * *
2839342 TTCAAAGCCCACATAAATCGGTGGCAACTCTT
1 TTCAAAGCCCAC--AAGTCAGTGGCAAC-CCT
* *
2839374 TTCAAAGCCCACAAGTCAGTGGCATCTC-
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
* * * *
2839402 TTCAAAAGACCACAAGTTAGTGGC-ATCAT
1 TTC-AAAGCCCACAAGTCAGTGGCAACCCT
* * * * *
2839431 TTCAAAGCCTATAATTCTGTGGCATACCAT
1 TTCAAAGCCCACAAGTCAGTGGCA-ACCCT
* *
2839461 TTCAAAGCCCACAAGTCGGTGGCATACCAT
1 TTCAAAGCCCACAAGTCAGTGGCA-ACCCT
*
2839491 TTCAAAGCCCACAAGTTAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
*
2839519 TTCAAAGCCCACACAAGTCAGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCAAC-CCT
* *
2839551 TTCAAAACCCACAAGTCAGCGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
*
2839579 TTCAAAGCCCACAAGTTAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
* *
2839607 TTCAAAGCCCGCAAGTTAGTGGCATACCC-
1 TTCAAAGCCCACAAGTCAGTGGCA-ACCCT
2839636 TTCAAAGCCCACA
1 TTCAAAGCCCACA
2839649 TAAGTTAGTA
Statistics
Matches: 618, Mismatches: 91, Indels: 88
0.78 0.11 0.11
Matches are distributed among these distances:
28 147 0.24
29 148 0.24
30 204 0.33
31 17 0.03
32 98 0.16
33 1 0.00
34 3 0.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCAACCCT
Found at i:2839080 original size:89 final size:85
Alignment explanation
Indices: 2838895--2839648 Score: 700
Period size: 89 Copynumber: 8.5 Consensus size: 85
2838885 GTGGCATTTG
* *
2838895 TTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCGCACAAGTCAGTGGCATACC-CTTTC-
1 TTTCAAAGCCCACAAGTCAGTGGCATCTC-TTCAAAGCCCACAAGTCAGTGGC--ACCTC-TTCA
** *
2838957 AAAGCCCACACAAGTCGGTGGCAACTCT
62 AAAG-CC-CACAAGTTAGTGGC-AC-CC
2838985 TTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAGCCCACAAGTCAGTGGCACC-CTTTC-AA
1 TTTCAAAGCCCACAAGTCAGTGGCATCTCTTC-AAAGCCCACAAGTCAGTGGCACCTC-TTCAAA
*
2839048 AGCCCACATAAGCTAGTGGCATACCC
64 AGCCCAC--AAGTTAGTGGC--ACCC
* * * *
2839074 TTTCAAAGCCTACACAAGTCGGTGGCAACTCTTTTCAAAGCCTACAAGTCAGTGGCATCTCTTCA
1 TTTCAAAGCC--CACAAGTCAGTGGC-A-TCTCTTCAAAGCCCACAAGTCAGTGGCACCTCTTCA
*
2839139 AAAGCCCACAAGTCAGTGGCACCC
62 AAAGCCCACAAGTTAGTGGCACCC
* * * * *
2839163 TTTCAAAGCCCACACAAGTCAGTAGCAACTCTTTTTAAAGCACACAAGTCAGTGGCATCTCTTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTCTTCAAAGCCCACAAGTCAGTGGCACCTCTTCA
2839228 AAAGCCCACAAGTTAGTGGCACCC
62 AAAGCCCACAAGTTAGTGGCACCC
* * * * *
2839252 TTTCAAAGCCTAGACAAGTCGGTGGCATCTCTTTTCAAAGCCTACAAGTTAGTGGCATCTCTTCA
1 TTTCAAAGCC--CACAAGTCAGTGGCATCTC--TTCAAAGCCCACAAGTCAGTGGCACCTCTTCA
*
2839317 AAAGCCCACAAGTCAGTGGCACCC
62 AAAGCCCACAAGTTAGTGGCACCC
* * * *
2839341 TTTCAAAGCCCACATAAATCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCA
1 TTTCAAAGCCCAC--AAGTCAGTGGC-A-TCTCTTCAAAGCCCACAAGTCAGTGGCACCTCTTCA
* * *
2839406 AAAGACCACAAGTTAGTGGCATCA
62 AAAGCCCACAAGTTAGTGGCACCC
* * * * *
2839430 TTTCAAAGCCTATAATTCTGTGGCATAC-CATTTCAAAGCCCACAAGTCGGTGGCATACCAT-TT
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CTC--TTCAAAGCCCACAAGTCAGTGGC--ACC-TCTT
2839493 C-AAAGCCCACAAGTTAGTGGCACCC
60 CAAAAGCCCACAAGTTAGTGGCACCC
* * *
2839518 TTTCAAAGCCCACACAAGTCAGTGGCAACTCTTTTCAAAACCCACAAGTCAGCGGCACC-CTTTC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTCTTCAAAGCCCACAAGTCAGTGGCACCTC-TTC
2839582 -AAAGCCCACAAGTTAGTGGCACCC
61 AAAAGCCCACAAGTTAGTGGCACCC
* * *
2839606 TTTCAAAGCCCGCAAGTTAGTGGCATACCCTTCAAAGCCCACA
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAGCCCACA
2839649 TAAGTTAGTA
Statistics
Matches: 571, Mismatches: 60, Indels: 71
0.81 0.09 0.10
Matches are distributed among these distances:
84 1 0.00
85 15 0.03
86 14 0.02
87 41 0.07
88 72 0.13
89 274 0.48
90 64 0.11
91 48 0.08
92 26 0.05
93 16 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (85 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCCCACAAGTCAGTGGCACCTCTTCAAAAG
CCCACAAGTTAGTGGCACCC
Found at i:2839260 original size:178 final size:176
Alignment explanation
Indices: 2838895--2839615 Score: 869
Period size: 178 Copynumber: 4.1 Consensus size: 176
2838885 GTGGCATTTG
* * *
2838895 TTTCAAAGCC-CACAAGTCAGTGGC-ACCCTTTCAAAGCGC-ACAAGTCAGTGGCATACCCTTTC
1 TTTCAAAGCCTCACAAGTCGGTGGCAACCTTTTCAAAGC-CTACAAGTCAGTGGCATACTCTTTC
* * *
2838957 AAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTCTTCA
65 AAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACACAAGTCAGTGGCAACTCTTTTC-
*
2839018 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACATAAGCTAGTGGCATACCC
125 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC--AAGTTAGTGGC--ACCC
2839074 TTTCAAAGCCTACACAAGTCGGTGGCAACTCTTTTCAAAGCCTACAAGTCAGTGGCAT-CTC-TT
1 TTTCAAAGCCT-CACAAGTCGGTGGCAAC-CTTTTCAAAGCCTACAAGTCAGTGGCATACTCTTT
* *
2839137 CAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTAGCAACTCTTTTTAAA
64 C-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCTTTTCAAA
* *
2839202 GCACACAAGTCAGTGGCA-TCTCTTCAAAAGCCCACAAGTTAGTGGCACCC
128 GCCCACAAGTCAGTGGCACCCT-TTC-AAAGCCCACAAGTTAGTGGCACCC
* * *
2839252 TTTCAAAGCCTAGACAAGTCGGTGGCATCTCTTTTCAAAGCCTACAAGTTAGTGGCAT-CTC-TT
1 TTTCAAAGCCT-CACAAGTCGGTGGCAAC-CTTTTCAAAGCCTACAAGTCAGTGGCATACTCTTT
* * *
2839315 CAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACATAAATCGGTGGCAACTCTTTTCAAA
64 C-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCTTTTCAAA
* * * *
2839380 GCCCACAAGTCAGTGGCA-TCTCTTCAAAAGACCACAAGTTAGTGGCATCA
128 GCCCACAAGTCAGTGGCACCCT-TTC-AAAGCCCACAAGTTAGTGGCACCC
* * * * * *
2839430 TTTCAAAGCCT-ATAATTCTGTGGCATACCATTTCAAAGCCCACAAGTCGGTGGCATAC-CATTT
1 TTTCAAAGCCTCACAAGTCGGTGGCA-ACCTTTTCAAAGCCTACAAGTCAGTGGCATACTC-TTT
* *
2839493 CAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCTTTTCAAAA
64 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCTTTTCAAAG
*
2839558 CCCACAAGTCAGCGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
129 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
2839606 TTTCAAAGCC
1 TTTCAAAGCC
2839616 CGCAAGTTAG
Statistics
Matches: 484, Mismatches: 41, Indels: 37
0.86 0.07 0.07
Matches are distributed among these distances:
176 67 0.14
177 80 0.17
178 195 0.40
179 14 0.03
180 38 0.08
181 42 0.09
182 23 0.05
183 25 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (176 bp):
TTTCAAAGCCTCACAAGTCGGTGGCAACCTTTTCAAAGCCTACAAGTCAGTGGCATACTCTTTCA
AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCTTTTCAAAGCC
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCC
Found at i:2839840 original size:48 final size:48
Alignment explanation
Indices: 2839779--2839903 Score: 169
Period size: 48 Copynumber: 2.6 Consensus size: 48
2839769 TTATTAACTT
*
2839779 AATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTCAGCTC
1 AATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTCAGCTC
* * * *
2839827 AATGTTGTTGGCCTTGAATCAGTACATTGTCCATTTTTCCCTTAGCTC
1 AATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTCAGCTC
* * **
2839875 GATGTCGTTGGCCTAGAATTGGCACATTG
1 AATGTCGTTGGCCTTGAATCAGCACATTG
2839904 GCACTCCTCT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (48 bp):
AATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTCAGCTC
Found at i:2840618 original size:20 final size:20
Alignment explanation
Indices: 2840593--2840742 Score: 122
Period size: 20 Copynumber: 7.8 Consensus size: 20
2840583 TTTTACCCAG
*
2840593 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
* *
2840613 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
2840633 ATGTATCGATACATTCTT--
1 ATGTATCGATACATTCTTCA
* * *
2840651 -TGTCTTGTTAC---C--CA
1 ATGTATCGATACATTCTTCA
*
2840665 GATGTATCAATACATTCTTCA
1 -ATGTATCGATACATTCTTCA
* *
2840686 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
2840706 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
2840726 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
2840743 GTTTTTTTCT
Statistics
Matches: 102, Mismatches: 15, Indels: 26
0.71 0.10 0.18
Matches are distributed among these distances:
14 1 0.01
16 7 0.07
17 8 0.08
19 3 0.03
20 79 0.77
21 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:2840704 original size:73 final size:73
Alignment explanation
Indices: 2840585--2840723 Score: 260
Period size: 73 Copynumber: 1.9 Consensus size: 73
2840575 AGTCACATTT
* *
2840585 TTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCT
1 TTACCCAGATGTATCAATACATTCTTCAATGTATCGATACATGTATGAATGTATCGATACATTCT
2840650 TTGTCTTG
66 TTGTCTTG
2840658 TTACCCAGATGTATCAATACATTCTTCAATGTATCGATACATGTATGAATGTATCGATACATTCT
1 TTACCCAGATGTATCAATACATTCTTCAATGTATCGATACATGTATGAATGTATCGATACATTCT
2840723 T
66 T
2840724 CAATGTATCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (73 bp):
TTACCCAGATGTATCAATACATTCTTCAATGTATCGATACATGTATGAATGTATCGATACATTCT
TTGTCTTG
Found at i:2848843 original size:31 final size:31
Alignment explanation
Indices: 2848805--2848941 Score: 99
Period size: 31 Copynumber: 4.5 Consensus size: 31
2848795 TACATTTTTC
*
2848805 AATGTATCGATACATCTAGGAAAAATGACAG
1 AATGTATCGATACATCTAGGAAAAATGACAA
* *
2848836 AATGTATCGATACAT-T--GAAGAATGTATCGA
1 AATGTATCGATACATCTAGGAAAAATG-A-CAA
* * * * * *
2848866 TACGT-TC-ATACATGTATCGATACATTGA-AA
1 AATGTATCGATACATCTA-GGA-AAAATGACAA
2848896 AATGTATCGATACATCTAGGTAAAAA-GACAA
1 AATGTATCGATACATCTAGG-AAAAATGACAA
2848927 AATGTATCGATACAT
1 AATGTATCGATACAT
2848942 TGAAGAATGT
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
28 13 0.16
29 4 0.05
30 11 0.14
31 37 0.46
32 12 0.15
33 4 0.05
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (31 bp):
AATGTATCGATACATCTAGGAAAAATGACAA
Found at i:2848859 original size:20 final size:20
Alignment explanation
Indices: 2848834--2849001 Score: 135
Period size: 20 Copynumber: 7.8 Consensus size: 20
2848824 GAAAAATGAC
2848834 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
2848854 AGAATGTATCGATACGTTCA
1 AGAATGTATCGATACATTGA
*
2848874 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
2848894 AAAATGTATCGATACATCTAGGTAAAA
1 AGAATGTATCGATACAT-T--G----A
2848921 AGACAAAATGTATCGATACATTGA
1 AG----AATGTATCGATACATTGA
*
2848945 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
2848965 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
2848985 A-AAGTGTATCGATACAT
1 AGAA-TGTATCGATACAT
2849002 CTGGATAAAA
Statistics
Matches: 122, Mismatches: 11, Indels: 30
0.75 0.07 0.18
Matches are distributed among these distances:
19 3 0.02
20 93 0.76
21 3 0.02
23 1 0.01
24 3 0.02
27 2 0.02
28 1 0.01
30 1 0.01
31 15 0.12
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:2848862 original size:51 final size:50
Alignment explanation
Indices: 2848786--2848961 Score: 185
Period size: 51 Copynumber: 3.7 Consensus size: 50
2848776 TTTTAATTAG
****
2848786 ATGTATCGATACATTTTTCAATGTATCGATACATCTAGGAAAAATGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTAGGAAAAATGACA-A
* *
2848837 ATGTATCGATACATTGAAGAATGTATCGATACGT-T------CAT-AC--
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTAGGAAAAATGACAA
*
2848877 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAA-GACAAA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTAGG-AAAAATGAC-AA
2848928 ATGTATCGATACATTGAAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAGAATGTATCGATACAT
2848962 TCATACATGT
Statistics
Matches: 103, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
40 32 0.31
41 1 0.01
43 2 0.02
44 2 0.02
48 3 0.03
50 1 0.01
51 62 0.60
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (50 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATCTAGGAAAAATGACAA
Found at i:2848941 original size:91 final size:92
Alignment explanation
Indices: 2848786--2849014 Score: 365
Period size: 91 Copynumber: 2.5 Consensus size: 92
2848776 TTTTAATTAG
**** *
2848786 ATGTATCGATACATTTTTCAATGTATCGATACATCTAGG-AAAAATGACAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAATGACAAAATGTATCGATACA
*
2848850 TTGAAGAATGTATCGATACGTTCATAC
66 TTGAAGAATGTATCGATACATTCATAC
2848877 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAA-GACAAAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAATGACAAAATGTATCGATACA
2848941 TTGAAGAATGTATCGATACATTCATAC
66 TTGAAGAATGTATCGATACATTCATAC
*
2848968 ATGTATCGATACATTGAAAAGTGTATCGATACATCT-GGATAAAAATG
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGG-TAAAAATG
2849015 TAACTTTTTC
Statistics
Matches: 128, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
90 2 0.02
91 120 0.94
92 6 0.05
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (92 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAATGACAAAATGTATCGATACA
TTGAAGAATGTATCGATACATTCATAC
Found at i:2853323 original size:77 final size:77
Alignment explanation
Indices: 2853153--2853352 Score: 222
Period size: 77 Copynumber: 2.6 Consensus size: 77
2853143 GAGATAATAA
* * * * * ** * *
2853153 CGGGGTTGGAGTGTTCCCTTGAAAATAACAGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT-CCCAATTATGAGAAATCAATGA
*
2853218 TTAGAAAAAAAAT
65 TTAGAAAAAAAAG
*
2853231 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCAATTATGAGAAATCAAT-AT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCAATTATGAGAAATCAATGA-
* ** *
2853295 TTTGGGAATAAAG
65 TTAGAAAAAAAAG
* *
2853308 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
2853353 CGATGAAATA
Statistics
Matches: 103, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
76 1 0.01
77 66 0.64
78 36 0.35
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (77 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCAATTATGAGAAATCAATGAT
TAGAAAAAAAAG
Found at i:2853363 original size:105 final size:108
Alignment explanation
Indices: 2853231--2853433 Score: 245
Period size: 105 Copynumber: 1.9 Consensus size: 108
2853221 GAAAAAAAAT
** * *
2853231 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC-CAATTATGAGAAATCAATA-
1 CGGGATTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCTCAACTATGAAAAATCAATAT
* *
2853294 TTTTGGGAAT-AAAGCGGGGTTGGAGTATCCCCTCGGAAGTAA
66 TTTTGGAAATAAAAGCGGAGTTGGAGTATCCCCTCGGAAGTAA
* * ***
2853336 CGGGGTTGGAGTAT-CCC-CGATGAAATAACAAGGTTGGAGTATCCTCGACTATGAAAAATTGGT
1 CGGGATTGGAGTATCCCCTCGA--AAATAACAAGGTTGGAGTATCCTCAACTATGAAAAATCAAT
*
2853399 ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
64 ATTTTTGGAAATAAAAGCGGAGTTGGAGTATCCCC
2853434 GATTAAAGGA
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
103 3 0.04
104 3 0.04
105 33 0.41
106 13 0.16
107 9 0.11
108 20 0.25
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (108 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCTCAACTATGAAAAATCAATAT
TTTTGGAAATAAAAGCGGAGTTGGAGTATCCCCTCGGAAGTAA
Found at i:2853364 original size:28 final size:28
Alignment explanation
Indices: 2853308--2853379 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2853298 GGGAATAAAG
** *
2853308 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2853336 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
**
2853364 CAAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2853380 TCGACTATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2855878 original size:13 final size:13
Alignment explanation
Indices: 2855860--2855885 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2855850 ACAAAGATCC
2855860 ATGTATCGATACA
1 ATGTATCGATACA
2855873 ATGTATCGATACA
1 ATGTATCGATACA
2855886 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2855881 original size:33 final size:33
Alignment explanation
Indices: 2855839--2855905 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2855829 AAAATTTCCA
***
2855839 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2855872 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2855905 A
1 A
2855906 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2855949 original size:19 final size:18
Alignment explanation
Indices: 2855925--2855992 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2855915 CAGTAGCTAA
2855925 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2855944 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2855959 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2855976 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2855993 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2855965 original size:13 final size:13
Alignment explanation
Indices: 2855947--2855971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2855937 ACAATACTTA
2855947 TGTATCGATACAT
1 TGTATCGATACAT
2855960 TGTATCGATACA
1 TGTATCGATACA
2855972 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2855969 original size:32 final size:32
Alignment explanation
Indices: 2855928--2855990 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2855918 TAGCTAATTA
*
2855928 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2855960 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2855991 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2862069 original size:48 final size:48
Alignment explanation
Indices: 2861962--2862158 Score: 202
Period size: 48 Copynumber: 4.1 Consensus size: 48
2861952 TATTGTATTA
* ** * *
2861962 ATACAATGCACAATGTATCGATGTATCT-GAGTTTTTCCTGAATGTATCG
1 ATACAATGCAAAATGTATCGATACATTTGGA-TTTTT-CAGAATGTATCG
2862011 ATACAATGCAAAATGTATCGATACATTTGGATTTTTCAGAATGTATCG
1 ATACAATGCAAAATGTATCGATACATTTGGATTTTTCAGAATGTATCG
* * * * *
2862059 ATACAATGCAAATTATACCGATACATATGGATTTTTCAAAATGTATCG
1 ATACAATGCAAAATGTATCGATACATTTGGATTTTTCAGAATGTATCG
* * * * * *
2862107 ATACAATG-AATCATGTATAGATACATTTGGGTTTCT-AGATTGTATTG
1 ATACAATGCAA-AATGTATCGATACATTTGGATTTTTCAGAATGTATCG
2862154 ATACA
1 ATACA
2862159 TTCACTAATG
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
47 15 0.12
48 79 0.63
49 29 0.23
50 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (48 bp):
ATACAATGCAAAATGTATCGATACATTTGGATTTTTCAGAATGTATCG
Found at i:2865188 original size:21 final size:21
Alignment explanation
Indices: 2865149--2865188 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2865139 TTCAATTGTA
*
2865149 TTCATTTTGTGATGTTTTAAG
1 TTCATTTTGTGATCTTTTAAG
2865170 TTCATTTTGT-ATCTCTTTA
1 TTCATTTTGTGATCT-TTTA
2865189 CTTAATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.60
Consensus pattern (21 bp):
TTCATTTTGTGATCTTTTAAG
Found at i:2866558 original size:28 final size:28
Alignment explanation
Indices: 2866518--2866591 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
2866508 AAGTATCAAT
* *
2866518 TAGTGTGGGCTTTGACTTGGGTGCCAAG
1 TAGTGTGGGCTTTGACTTGAGTGCCAAC
*
2866546 TAGTGTGGGCTTTGACTCGAGTGCCAAC
1 TAGTGTGGGCTTTGACTTGAGTGCCAAC
* * *
2866574 TAGCGTAGACTTTGACTT
1 TAGTGTGGGCTTTGACTT
2866592 AAGAGCTAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (28 bp):
TAGTGTGGGCTTTGACTTGAGTGCCAAC
Found at i:2866753 original size:28 final size:28
Alignment explanation
Indices: 2866708--2866771 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
2866698 TGACTAGGGC
* *
2866708 GCTAGCTAAAGTGCGCTTTTACAT-AAGT
1 GCTAGCTAAAGGGCGCTTTGAC-TCAAGT
* * *
2866736 GCTAGCTAATGGGGGCTTTGACTCGAGT
1 GCTAGCTAAAGGGCGCTTTGACTCAAGT
2866764 GCTAGCTA
1 GCTAGCTA
2866772 GTATGGGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (28 bp):
GCTAGCTAAAGGGCGCTTTGACTCAAGT
Found at i:2867006 original size:84 final size:84
Alignment explanation
Indices: 2866853--2867007 Score: 186
Period size: 84 Copynumber: 1.8 Consensus size: 84
2866843 CAAGTGCCAT
* * * * * ** *
2866853 CTAATGTGGGCTTTGATTTAGGTGCCAACTAGTATAGACTTTGACTCGAGTGCTAGTTAATGTGA
1 CTAATGTGGGCATTGATCTAGGTGCCAACTAGGATAGACTTTGACTCAAATGCTAACTAATATGA
2866918 GCTTTGGCTTGGGTTCCAG
66 GCTTTGGCTTGGGTTCCAG
* * *
2866937 CTAATGTGGGCATTGACTCTA-GTGCCAACTAGGGTAGGCTTTGACTTAAATGCTAACTAATATG
1 CTAATGTGGGCATTGA-TCTAGGTGCCAACTAGGATAGACTTTGACTCAAATGCTAACTAATATG
*
2867001 GGCTTTG
65 AGCTTTG
2867008 ACTTAGAGGT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
84 55 0.95
85 3 0.05
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (84 bp):
CTAATGTGGGCATTGATCTAGGTGCCAACTAGGATAGACTTTGACTCAAATGCTAACTAATATGA
GCTTTGGCTTGGGTTCCAG
Found at i:2867041 original size:28 final size:28
Alignment explanation
Indices: 2866941--2867041 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 28
2866931 TTCCAGCTAA
* *
2866941 TGTGGGCATTGACTCTAG-TGCCAACTAG
1 TGTGGGCTTTGACT-TAGATGCTAACTAG
* * * *
2866969 GGTAGGCTTTGACTTAAATGCTAACTAA
1 TGTGGGCTTTGACTTAGATGCTAACTAG
* *
2866997 TATGGGCTTTGACTTAGA-GGTGAACTAG
1 TGTGGGCTTTGACTTAGATGCT-AACTAG
2867025 TGTGGGCTTTGACTTAG
1 TGTGGGCTTTGACTTAG
2867042 GTACCAGTTA
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
27 4 0.07
28 54 0.93
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.33
Consensus pattern (28 bp):
TGTGGGCTTTGACTTAGATGCTAACTAG
Found at i:2871584 original size:29 final size:29
Alignment explanation
Indices: 2871552--2871609 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
2871542 GTTTTCAATA
**
2871552 TATG-GAATTTTCTATTTTGTAAAATTTTT
1 TATGAGAATTTTCTAAATT-TAAAATTTTT
*
2871581 TATGAGATTTTTCTAAATTTAAAATTTTT
1 TATGAGAATTTTCTAAATTTAAAATTTTT
2871610 AAAATTCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (29 bp):
TATGAGAATTTTCTAAATTTAAAATTTTT
Found at i:2871647 original size:22 final size:20
Alignment explanation
Indices: 2871601--2871641 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 20
2871591 TTCTAAATTT
2871601 AAAATTTTTAAAATTCATAA
1 AAAATTTTTAAAATTCATAA
2871621 AAAATTTTTATTAAATTCATA
1 AAAATTTTTA--AAATTCATA
2871642 TTAAATCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATTTTTAAAATTCATAA
Found at i:2871705 original size:18 final size:19
Alignment explanation
Indices: 2871664--2871708 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
2871654 TTGAAAATCT
* *
2871664 AATTTATTTTATAAATTTTG
1 AATTT-TTTTATAAATTATC
2871684 AATTTTTTTATAAA-TATC
1 AATTTTTTTATAAATTATC
2871702 AATTTTT
1 AATTTTT
2871709 CTCTATTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 9 0.39
20 5 0.22
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTTTTTATAAATTATC
Found at i:2872230 original size:4 final size:4
Alignment explanation
Indices: 2872221--2872270 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
2872211 TCTTTTCTTT
**
2872221 TTAA TTAA TTAA GCCAA TTAA TTATA TTAA -T-A TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA -TTAA TTAA TTA-A TTAA TTAA TTAA TTAA TTAA TTAA
2872269 TT
1 TT
2872271 TATTTATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 1 0.03
3 2 0.05
4 29 0.76
5 6 0.16
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (4 bp):
TTAA
Found at i:2874885 original size:13 final size:13
Alignment explanation
Indices: 2874869--2874899 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2874859 ACAATTCATC
2874869 ATGTATCGATACA
1 ATGTATCGATACA
2874882 ATGTATCGATACA
1 ATGTATCGATACA
2874895 ATGTA
1 ATGTA
2874900 CCATGTATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2874894 original size:33 final size:33
Alignment explanation
Indices: 2874847--2874915 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2874837 CCGTTAGAAG
*
2874847 CAATGTATCAATACAAT-TCATCATGTATCGATA
1 CAATGTATCAATACAATGT-ACCATGTATCGATA
*
2874880 CAATGTATCGATACAATGTACCATGTATCGATA
1 CAATGTATCAATACAATGTACCATGTATCGATA
2874913 CAA
1 CAA
2874916 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (33 bp):
CAATGTATCAATACAATGTACCATGTATCGATA
Found at i:2874962 original size:43 final size:43
Alignment explanation
Indices: 2874901--2875001 Score: 202
Period size: 43 Copynumber: 2.3 Consensus size: 43
2874891 TACAATGTAC
2874901 CATGTATCGATACAAACAGTGGTAGGATAGCTACTGCCAGTTT
1 CATGTATCGATACAAACAGTGGTAGGATAGCTACTGCCAGTTT
2874944 CATGTATCGATACAAACAGTGGTAGGATAGCTACTGCCAGTTT
1 CATGTATCGATACAAACAGTGGTAGGATAGCTACTGCCAGTTT
2874987 CATGTATCGATACAA
1 CATGTATCGATACAA
2875002 TTGTCCTTAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
CATGTATCGATACAAACAGTGGTAGGATAGCTACTGCCAGTTT
Found at i:2876085 original size:59 final size:59
Alignment explanation
Indices: 2875988--2876107 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
2875978 CTGGCGATAG
2875988 GGCAAATGAGGCACGCTCGACTTAATATCCCTCATGATTGGGGATTTCTATGGCATGAT
1 GGCAAATGAGGCACGCTCGACTTAATATCCCTCATGATTGGGGATTTCTATGGCATGAT
*
2876047 GGCAAATGAGGCACGCTCGACTTAATATCCCTCGTGATTGGGGATTTCTATGGCATGAT
1 GGCAAATGAGGCACGCTCGACTTAATATCCCTCATGATTGGGGATTTCTATGGCATGAT
2876106 GG
1 GG
2876108 GAAGTGTGTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (59 bp):
GGCAAATGAGGCACGCTCGACTTAATATCCCTCATGATTGGGGATTTCTATGGCATGAT
Found at i:2879143 original size:52 final size:52
Alignment explanation
Indices: 2879065--2879193 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
2879055 CGAAATATGA
2879065 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
2879117 AAATTTGCGTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
2879169 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2879194 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:2879204 original size:52 final size:51
Alignment explanation
Indices: 2879065--2879213 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
2879055 CGAAATATGA
2879065 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
2879117 AAATTTGCGTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
2879169 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2879214 ATGTATCGAT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:2879220 original size:13 final size:13
Alignment explanation
Indices: 2879202--2879226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2879192 CAAAGATCAG
2879202 TGTATCGATACAA
1 TGTATCGATACAA
2879215 TGTATCGATACA
1 TGTATCGATACA
2879227 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2881189 original size:13 final size:13
Alignment explanation
Indices: 2881171--2881196 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2881161 TAGTAACCTT
2881171 TGTATCGATACAA
1 TGTATCGATACAA
2881184 TGTATCGATACAA
1 TGTATCGATACAA
2881197 AGAATATTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2887395 original size:20 final size:20
Alignment explanation
Indices: 2887370--2887423 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
2887360 GTTAGAAGTA
*
2887370 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
2887390 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
2887410 ATGTATCGATACAA
1 ATGTATCGATACAA
2887424 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:2887493 original size:16 final size:18
Alignment explanation
Indices: 2887452--2887500 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
2887442 CTGCCAGTTT
2887452 CATGTATCGATACAATGAA
1 CATGTATCGATACAAT-AA
2887471 CATGTATCGATACAAT-A
1 CATGTATCGATACAATAA
*
2887488 -ATGTATTGATACA
1 CATGTATCGATACA
2887501 TCTGGTGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 12 0.41
17 1 0.03
19 16 0.55
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (18 bp):
CATGTATCGATACAATAA
Found at i:2893158 original size:14 final size:14
Alignment explanation
Indices: 2893109--2893171 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
2893099 TATCATTCAT
* *
2893109 AAAATTATACTATA
1 AAAATTAAATTATA
2893123 AAAATT-AA-TA-A
1 AAAATTAAATTATA
2893134 AAAGGATTAAATTATA
1 AAA--ATTAAATTATA
2893150 AAAATTAAAATT-TA
1 AAAATT-AAATTATA
2893164 AAAATTAA
1 AAAATTAA
2893172 GCTAAAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
11 4 0.10
12 2 0.05
13 6 0.14
14 19 0.45
15 7 0.17
16 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (14 bp):
AAAATTAAATTATA
Found at i:2893940 original size:168 final size:164
Alignment explanation
Indices: 2893441--2894031 Score: 583
Period size: 167 Copynumber: 3.5 Consensus size: 164
2893431 ATTTATGGAA
* ** * *
2893441 TAGAAAACTCGATTTTTTGGGAAAAAAGGGATTTCAAAGAAAAAAATC-AAAACTCGTA-AAAAT
1 TAGAAAACTCG-TTTTTTTGGAAAAAAGAAATTTCAAAGAAAAAATTCAAAAACTC-AAGAAAAT
* * * * * * *
2893504 GAATGAATTATTT-ACAACTGATTTAATATGAAATAAATAATAATATTTGGTGGATTTTAATAAT
64 GAATGAATT-TTTGAAAATTGATTTAATGT-AAATAAATAATAATATTTGATGAATTTTAAAAAA
* * *
2893568 TAAAAAAGCAAGAAAAATCCCCCCAAAACAATTTA-TAGAG
127 T-AAAAACCAAGAAAAATCCCCCCAAAA-AAATTACGA-AG
* * * *
2893608 TAGAAAACTC-TATTTTTCGAAAATAGAGGAATTTCAAAGAAAAAATTCAAAAACTCATGAAAAT
1 TAGAAAACTCGTTTTTTTGGAAAA-A-AGAAATTTCAAAGAAAAAATTCAAAAACTCAAGAAAAT
* *
2893672 GAATGAA-TTTTCAAAATTGATTTATTATG-AAATAAATAATACTATTTGATGAATTTT-AAAAA
64 GAATGAATTTTTGAAAATTGATTTA--ATGTAAATAAATAATAATATTTGATGAATTTTAAAAAA
*
2893734 TTAAAACCAAGAAAAATCCCCCCTAAAAAAATTTACGAAG
127 TAAAAACCAAGAAAAATCCCCCC-AAAAAAA-TTACGAAG
* *
2893774 TAAAAAACTTCGTTTTTTTGGAAAAAATGAAATTTCAATGAAAAAATTCAAAAACTCAAGAAAAT
1 TAGAAAAC-TCGTTTTTTTGGAAAAAA-GAAATTTCAAAGAAAAAATTCAAAAACTCAAGAAAAT
2893839 G-ATAGAATTTTTGAAAATTGATTTAATGTAATATAAATAATAATATTTGATGAATTTTAAAAAA
64 GAAT-GAATTTTTGAAAATTGATTTAATGTAA-ATAAATAATAATATTTGATGAATTTTAAAAAA
** *
2893903 TAAAAACCAAGAAAAATCTCTTCGAAAAAAATTACGAAG
127 TAAAAACCAAGAAAAATC-CCCCCAAAAAAATTACGAAG
* * * * * *
2893942 TAGAAAA-TAACG-TATTTTGAAAAAAAAAGAGAATTTTAAGGAAAAAATTTAAAAAGTCAAGAA
1 TAGAAAACT--CGTTTTTTTG--GAAAAAAGA-AATTTCAAAGAAAAAATTCAAAAACTCAAGAA
* *
2894005 AATGAAGGAATTTTTGAAAAATGATTT
61 AATGAATGAATTTTTGAAAATTGATTT
2894032 GATGGGAATT
Statistics
Matches: 359, Mismatches: 40, Indels: 48
0.80 0.09 0.11
Matches are distributed among these distances:
165 32 0.09
166 31 0.09
167 116 0.32
168 89 0.25
169 88 0.25
170 3 0.01
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (164 bp):
TAGAAAACTCGTTTTTTTGGAAAAAAGAAATTTCAAAGAAAAAATTCAAAAACTCAAGAAAATGA
ATGAATTTTTGAAAATTGATTTAATGTAAATAAATAATAATATTTGATGAATTTTAAAAAATAAA
AACCAAGAAAAATCCCCCCAAAAAAATTACGAAG
Found at i:2895363 original size:43 final size:42
Alignment explanation
Indices: 2895244--2895474 Score: 135
Period size: 42 Copynumber: 5.4 Consensus size: 42
2895234 ACAGGCCAAC
* ** ** **
2895244 AAAAAGATGAGGAAGTCTCTAGGGCTTGAGTTGACAAGCAGA
1 AAAAAGATGAAGAAGTCTCCCGGGCTTGAGCCGACGGGCAGA
* * * * ** * *
2895286 TAAAGGATAAAAAAGTCTCCTAGG-TCTGAACCGACGGGTAGA
1 AAAAAGATGAAGAAGTCTCCCGGGCT-TGAGCCGACGGGCAGA
2895328 TAAAAAGATGAAGAAGTCTCCCGGGCTTGAGCCGACGGGCA-A
1 -AAAAAGATGAAGAAGTCTCCCGGGCTTGAGCCGACGGGCAGA
* * * * * * * *
2895370 ACAAAGGAT-ATAGAAGTCTACCGGGTTTAAGTCGACTGACAAA
1 A-AAAAGATGA-AGAAGTCTCCCGGGCTTGAGCCGACGGGCAGA
* * *
2895413 CAAAAAGATGAAGAAGTCTCCCAGGCCTGAGCCTACGGGCAGA
1 -AAAAAGATGAAGAAGTCTCCCGGGCTTGAGCCGACGGGCAGA
* *
2895456 CAAAAGATTAAGAAAGTCT
1 AAAAAGATGAAG-AAGTCT
2895475 TTGAAGTCTA
Statistics
Matches: 138, Mismatches: 42, Indels: 17
0.70 0.21 0.09
Matches are distributed among these distances:
41 3 0.02
42 67 0.49
43 65 0.47
44 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.17
Consensus pattern (42 bp):
AAAAAGATGAAGAAGTCTCCCGGGCTTGAGCCGACGGGCAGA
Found at i:2895387 original size:85 final size:85
Alignment explanation
Indices: 2895241--2895474 Score: 211
Period size: 85 Copynumber: 2.7 Consensus size: 85
2895231 TTGACAGGCC
* ** ** ** *
2895241 AACAAAAAGATGAGGAAGTCTCTAGGGCTTGAGTTGACAAGCAGATAAAGGATAAAAAAGTCT-C
1 AACAAAAAGATGAAGAAGTCTCCCGGGCTTGAGCCGACGGGCAGACAAAGGATAAAAAAGTCTAC
**
2895305 CTAGGTCTGAA-CCGACGGGTA
66 C-AGGT-TGAAGCCGACGGACA
* * * * *
2895326 GATAAAAAGATGAAGAAGTCTCCCGGGCTTGAGCCGACGGGCAAACAAAGGATATAGAAGTCTAC
1 AACAAAAAGATGAAGAAGTCTCCCGGGCTTGAGCCGACGGGCAGACAAAGGATAAAAAAGTCTAC
* * * *
2895391 CGGGTTTAAGTCGACTGACA
66 CAGGTTGAAGCCGACGGACA
* * * * *
2895411 AACAAAAAGATGAAGAAGTCTCCCAGGCCTGAGCCTACGGGCAGACAAAAGATTAAGAAAGTCT
1 AACAAAAAGATGAAGAAGTCTCCCGGGCTTGAGCCGACGGGCAGACAAAGGA-TAAAAAAGTCT
2895475 TTGAAGTCTA
Statistics
Matches: 117, Mismatches: 29, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
84 3 0.03
85 104 0.89
86 10 0.09
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.17
Consensus pattern (85 bp):
AACAAAAAGATGAAGAAGTCTCCCGGGCTTGAGCCGACGGGCAGACAAAGGATAAAAAAGTCTAC
CAGGTTGAAGCCGACGGACA
Found at i:2895585 original size:85 final size:84
Alignment explanation
Indices: 2895453--2895757 Score: 292
Period size: 85 Copynumber: 3.6 Consensus size: 84
2895443 GCCTACGGGC
* * ** * *
2895453 AGACAAAAGATTAAGAAAGTCT-TTGAAGTCTAAGCCAACAAGTAGACAAAAGATGAAAAAAGTC
1 AGACAAAAGATAAAG-AAGTCTCTCG-AGTCTAAGCCAACGGGCAGACAAAAGAT-AAAGAAGTC
**
2895517 TTTCAAGTCTAAGCCGATGGGT
63 TTTCGGGTCTAAGCCGATGGGT
** * * * **
2895539 AGTGAAAAGACAAAGAAGTCTCCCGAGTCTAAGCCAACGGGCAGACAAAAAATAAAGAAGTCCCT
1 AGACAAAAGATAAAGAAGTCTCTCGAGTCTAAGCCAACGGGCAGACAAAAGATAAAGAAGTCTTT
* * *
2895604 CGGGTCTAAGCCGACGAGC
66 CGGGTCTAAGCCGATGGGT
* * *
2895623 AAACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCAATGGGCAGACAAAAGATAAAGAAGTCTC
1 AGACAAAAGATAAAG-AAGTCTCTCGAGTCTAAGCCAACGGGCAGACAAAAGATAAAGAAGTCT-
* *
2895688 TT-GGGTCTGAGCTGATGGGT
64 TTCGGGTCTAAGCCGATGGGT
* * * * *
2895708 AGACAAAAGATAAAGAAATCTCTCGGGTCTAAGTCAAAGGGTAGA-AAAAG
1 AGACAAAAGATAAAGAAGTCTCTCGAGTCTAAGCCAACGGGCAGACAAAAG
2895758 GATCAAAGGT
Statistics
Matches: 178, Mismatches: 38, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
83 5 0.03
84 60 0.34
85 100 0.56
86 13 0.07
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (84 bp):
AGACAAAAGATAAAGAAGTCTCTCGAGTCTAAGCCAACGGGCAGACAAAAGATAAAGAAGTCTTT
CGGGTCTAAGCCGATGGGT
Found at i:2895656 original size:127 final size:127
Alignment explanation
Indices: 2895423--2895740 Score: 318
Period size: 127 Copynumber: 2.5 Consensus size: 127
2895413 CAAAAAGATG
* * * * * *
2895423 AAGAAGTCTCCC-AGGCCTGAGCCTACGGGCAGACAAAAGATTAAGAAAGT-CTTTGAAGTCTAA
1 AAGAAGTCTCCCGA-GTCTGAGCCAACGGGCAGACAAAAGATAAAG-AAGTCCCTCG-GGTCTAA
* * * * * **
2895486 GCCAACAAGTAGACAAAAGATGAAAAAAGTCTTTCAAGTCTAAGCCGATGGGTAGTGAAAAGACA
63 GCCAACAAGCAAACAAAAGATGAAAAAAGTCTCTCAAGTCTAAGCCAATGGGCAGACAAAAGACA
* *
2895551 AAGAAGTCTCCCGAGTCTAAGCCAACGGGCAGACAAAAAATAAAGAAGTCCCTCGGGTCTAAGCC
1 AAGAAGTCTCCCGAGTCTGAGCCAACGGGCAGACAAAAGATAAAGAAGTCCCTCGGGTCTAAGCC
* * ** *
2895616 GACGAGCAAACAAAAGAT-AAAGAAAGTCTCTCGGGTCTAAGCCAATGGGCAGACAAAAGATA
66 AACAAGCAAACAAAAGATGAAA-AAAGTCTCTCAAGTCTAAGCCAATGGGCAGACAAAAGACA
** * ** * * * *
2895678 AAGAAGTCTCTTGGGTCTGAGCTGATGGGTAGACAAAAGATAAAGAAATCTCTCGGGTCTAAG
1 AAGAAGTCTCCCGAGTCTGAGCCAACGGGCAGACAAAAGATAAAGAAGTCCCTCGGGTCTAAG
2895741 TCAAAGGGTA
Statistics
Matches: 156, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
126 3 0.02
127 111 0.71
128 41 0.26
129 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (127 bp):
AAGAAGTCTCCCGAGTCTGAGCCAACGGGCAGACAAAAGATAAAGAAGTCCCTCGGGTCTAAGCC
AACAAGCAAACAAAAGATGAAAAAAGTCTCTCAAGTCTAAGCCAATGGGCAGACAAAAGACA
Found at i:2895657 original size:43 final size:42
Alignment explanation
Indices: 2895281--2895740 Score: 309
Period size: 42 Copynumber: 10.8 Consensus size: 42
2895271 GAGTTGACAA
* * * *
2895281 GCAGATAAAGGATAAAAAAGTCTC-CTAGGTCTGAA-CCGACGG
1 GCAGACAAAAGATAAAGAAGTCTCTC-GGGTCT-AAGCCGACGG
* * * * *
2895323 GTAGATAAAAAGATGAAGAAGTCTCCCGGG-CTTGAGCCGACGG
1 GCAGA-CAAAAGATAAAGAAGTCTCTCGGGTC-TAAGCCGACGG
* * * * * *
2895366 GCAAACAAAGGATATAGAAGTCTAC-CGGGTTTAAGTCGACTG
1 GCAGACAAAAGATAAAGAAGTCT-CTCGGGTCTAAGCCGACGG
* * * * * * * *
2895408 ACAAACAAAAAGATGAAGAAGTCTCCCAGGCCTGAGCCTACGG
1 GCAGAC-AAAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGG
* * * * **
2895451 GCAGACAAAAGATTAAGAAAGTCT-TTGAAGTCTAAGCCAACAA
1 GCAGACAAAAGATAAAG-AAGTCTCTCG-GGTCTAAGCCGACGG
* * * ** *
2895494 GTAGACAAAAGATGAAAAAAGTCTTTCAAGTCTAAGCCGATGG
1 GCAGACAAAAGAT-AAAGAAGTCTCTCGGGTCTAAGCCGACGG
* ** * * * *
2895537 GTAGTGAAAAGACAAAGAAGTCTCCCGAGTCTAAGCCAACGG
1 GCAGACAAAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGG
* * *
2895579 GCAGACAAAAAATAAAGAAGTCCCTCGGGTCTAAGCCGACGA
1 GCAGACAAAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGG
* * *
2895621 GCAAACAAAAGATAAAGAAAGTCTCTCGGGTCTAAGCCAATGG
1 GCAGACAAAAGATAAAG-AAGTCTCTCGGGTCTAAGCCGACGG
* * * *
2895664 GCAGACAAAAGATAAAGAAGTCTCTTGGGTCTGAGCTGATGG
1 GCAGACAAAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGG
* *
2895706 GTAGACAAAAGATAAAGAAATCTCTCGGGTCTAAG
1 GCAGACAAAAGATAAAGAAGTCTCTCGGGTCTAAG
2895741 TCAAAGGGTA
Statistics
Matches: 322, Mismatches: 83, Indels: 26
0.75 0.19 0.06
Matches are distributed among these distances:
42 170 0.53
43 148 0.46
44 4 0.01
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.17
Consensus pattern (42 bp):
GCAGACAAAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGG
Found at i:2895900 original size:44 final size:44
Alignment explanation
Indices: 2895837--2896348 Score: 308
Period size: 44 Copynumber: 11.6 Consensus size: 44
2895827 ATGCAAATTG
* *
2895837 TTTGACTAGGGTGATAACCATACGTCAAA-CAGGAAGGAGACAGA
1 TTTGACTAGGGTGGTAACCATACGTCAAATCA-GAAGGAGAAAGA
* * * *
2895881 TTTGACCAGGGTGGTAACCATACGTCAAATTAAAATGA-AAAGAA
1 TTTGACTAGGGTGGTAACCATACGTCAAATCAGAAGGAGAAAG-A
* * * * ***
2895925 TCTGACTAAGGTGGTAACCATACGTCAGAT-AGGAAAGAGGCGGA
1 TTTGACTAGGGTGGTAACCATACGTCAAATCA-GAAGGAGAAAGA
* ** * *
2895969 TTTGACCAGGGTGGTAACCATATATCAAATCATAATGA-AAAGAA
1 TTTGACTAGGGTGGTAACCATACGTCAAATCAGAAGGAGAAAG-A
* * * * * *
2896013 TCTGACCAAGGTGGTAACCATACATCAAATTAGAATGA-AAAGAA
1 TTTGACTAGGGTGGTAACCATACGTCAAATCAGAAGGAGAAAG-A
* * **
2896057 TCTGACTAGGGTGGTAACCATACGTCAAATAAGAAGGAGGCAGA
1 TTTGACTAGGGTGGTAACCATACGTCAAATCAGAAGGAGAAAGA
* * ** * *
2896101 TTTGACTAGGGTGGTAACCATATGTCAAATCAAAATAAAAAAAAA
1 TTTGACTAGGGTGGTAACCATACGTCAAATCAGAA-GGAGAAAGA
* * * * * * **
2896146 TCTGACCAAGGTGGTAACCATAC-ACTAGA-CAAAAAGGAGGCAGA
1 TTTGACTAGGGTGGTAACCATACGTC-AAATC-AGAAGGAGAAAGA
* *
2896190 TTTGACTAGGGTGGTAACCATACGTCAAATCGGAATGA-AAAGAA
1 TTTGACTAGGGTGGTAACCATACGTCAAATCAGAAGGAGAAAG-A
* * * ** * *
2896234 TCTGACTAGAGTGGTAACCATACG-CCAGGCAAGAAGAATG-CAGA
1 TTTGACTAGGGTGGTAACCATACGTCAAATC-AGAAGGA-GAAAGA
* * * *
2896278 TTTGAATAGGGTGGTAACCATGCGTCAAATCAAAATGA-AAAGAA
1 TTTGACTAGGGTGGTAACCATACGTCAAATCAGAAGGAGAAAG-A
* * * *
2896322 TCTAACCAGGGTGGTAACCATATGTCA
1 TTTGACTAGGGTGGTAACCATACGTCA
2896349 GACAAGAAAA
Statistics
Matches: 353, Mismatches: 96, Indels: 38
0.72 0.20 0.08
Matches are distributed among these distances:
43 12 0.03
44 301 0.85
45 40 0.11
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (44 bp):
TTTGACTAGGGTGGTAACCATACGTCAAATCAGAAGGAGAAAGA
Found at i:2896074 original size:132 final size:133
Alignment explanation
Indices: 2895883--2896169 Score: 450
Period size: 132 Copynumber: 2.2 Consensus size: 133
2895873 GAGACAGATT
* *
2895883 TGACCAGGGTGGTAACCATACGTCAAATTAAAATGAAAAGAATCTGACTAAGGTGGTAACCATAC
1 TGACCAAGGTGGTAACCATACATCAAATTAAAATGAAAAGAATCTGACTAAGGTGGTAACCATAC
* * * * * *
2895948 GTCAGATAGGAAAGAGGCGGATTTGACCAGGGTGGTAACCATATATCAAATCATAAT-GAAAAGA
66 GTCAAATAAGAAAGAGGCAGATTTGACCAGGGTGGTAACCATATATCAAATCAAAATAAAAAAAA
2896012 ATC
131 ATC
* *
2896015 TGACCAAGGTGGTAACCATACATCAAATTAGAATGAAAAGAATCTGACTAGGGTGGTAACCATAC
1 TGACCAAGGTGGTAACCATACATCAAATTAAAATGAAAAGAATCTGACTAAGGTGGTAACCATAC
* * *
2896080 GTCAAATAAGAAGGAGGCAGATTTGACTAGGGTGGTAACCATATGTCAAATCAAAATAAAAAAAA
66 GTCAAATAAGAAAGAGGCAGATTTGACCAGGGTGGTAACCATATATCAAATCAAAATAAAAAAAA
2896145 ATC
131 ATC
2896148 TGACCAAGGTGGTAACCATACA
1 TGACCAAGGTGGTAACCATACA
2896170 CTAGACAAAA
Statistics
Matches: 141, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
132 111 0.79
133 30 0.21
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.21
Consensus pattern (133 bp):
TGACCAAGGTGGTAACCATACATCAAATTAAAATGAAAAGAATCTGACTAAGGTGGTAACCATAC
GTCAAATAAGAAAGAGGCAGATTTGACCAGGGTGGTAACCATATATCAAATCAAAATAAAAAAAA
ATC
Found at i:2896230 original size:177 final size:176
Alignment explanation
Indices: 2896022--2896343 Score: 482
Period size: 177 Copynumber: 1.8 Consensus size: 176
2896012 ATCTGACCAA
* * * *
2896022 GGTGGTAACCATACATCAAATTAGAATGAAAAGAATCTGACTAGGGTGGTAACCATACGTCAAAT
1 GGTGGTAACCATACATCAAATCAGAATGAAAAGAATCTGACTAGAGTGGTAACCATACGCCAAAC
* * * *
2896087 AAGAAGGAGGCAGATTTGACTAGGGTGGTAACCATATGTCAAATCAAAATAAAAAAAAATCTGAC
66 AAGAAGAAGGCAGATTTGAATAGGGTGGTAACCATACGTCAAATCAAAAT-AAAAAAAATCTAAC
2896152 CAAGGTGGTAACCATACACTAGACAAAAAGGAGGCAGATTTGACTAG
130 CAAGGTGGTAACCATACACTAGACAAAAAGGAGGCAGATTTGACTAG
* * **
2896199 GGTGGTAACCATACGTCAAATCGGAATGAAAAGAATCTGACTAGAGTGGTAACCATACGCCAGGC
1 GGTGGTAACCATACATCAAATCAGAATGAAAAGAATCTGACTAGAGTGGTAACCATACGCCAAAC
* * * *
2896264 AAGAAGAATGCAGATTTGAATAGGGTGGTAACCATGCGTCAAATCAAAATGAAAAGAATCTAACC
66 AAGAAGAAGGCAGATTTGAATAGGGTGGTAACCATACGTCAAATCAAAATAAAAAAAATCTAACC
*
2896329 AGGGTGGTAACCATA
131 AAGGTGGTAACCATA
2896344 TGTCAGACAA
Statistics
Matches: 128, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
176 26 0.20
177 102 0.80
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (176 bp):
GGTGGTAACCATACATCAAATCAGAATGAAAAGAATCTGACTAGAGTGGTAACCATACGCCAAAC
AAGAAGAAGGCAGATTTGAATAGGGTGGTAACCATACGTCAAATCAAAATAAAAAAAATCTAACC
AAGGTGGTAACCATACACTAGACAAAAAGGAGGCAGATTTGACTAG
Found at i:2896335 original size:221 final size:219
Alignment explanation
Indices: 2895843--2896348 Score: 558
Period size: 221 Copynumber: 2.3 Consensus size: 219
2895833 ATTGTTTGAC
* * * * * * *
2895843 TAGGGTGATAACCATACGTCAAACAGGAAGGAGACAGATTTGACCAGGGTGGTAACCATACGTCA
1 TAGGGTGGTAACCATACGTCAAATAAGAAGGAGAAAGATCTAACCAGGGTGGTAACCATATGTCA
* * * * * * * *
2895908 AATTAAAATGAAAAGAATCTGACTAAGGTGGTAACCATACGTCAGATAGGAAAGAGGCGGATTTG
66 AATCAAAATAAAAAAAATCTGACCAAGGTGGTAACCATACCTCAGACAGAAAAGAGGCAGATTTG
* * *
2895973 ACCAGGGTGGTAACCATATATCAAATCATAATGAAAAGAATCTGACCAAGGTGGTAACCATACAT
131 ACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAATCTGACCAAGGTGGTAACCATACAC
** *
2896038 CAAATTAGAATGAAAAGAATCTGAC
196 CAAAGAAGAATG-AAAGAATCTGAA
** * * *
2896063 TAGGGTGGTAACCATACGTCAAATAAGAAGGAGGCAGATTTGACTAGGGTGGTAACCATATGTCA
1 TAGGGTGGTAACCATACGTCAAATAAGAAGGAGAAAGATCTAACCAGGGTGGTAACCATATGTCA
2896128 AATCAAAATAAAAAAAAATCTGACCAAGGTGGTAACCATACACT-AGACA-AAAAGGAGGCAGAT
66 AATCAAAAT-AAAAAAAATCTGACCAAGGTGGTAACCATAC-CTCAGACAGAAAA-GAGGCAGAT
* * * *
2896191 TTGACTAGGGTGGTAACCATACGTCAAATCGGAATGAAAAGAATCTGA-CTAGAGTGGTAACCAT
128 TTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAATCTGACCAAG-GTGGTAACCAT
* * *
2896255 ACGCCAGGCAAGAAGAATG-CAG-ATTTGAA
192 ACACCA---AAGAAGAATGAAAGAATCTGAA
* *
2896284 TAGGGTGGTAACCATGCGTCAAATCAA-AATGA-AAAGAATCTAACCAGGGTGGTAACCATATGT
1 TAGGGTGGTAACCATACGTCAAAT-AAGAAGGAGAAAG-ATCTAACCAGGGTGGTAACCATATGT
2896347 CA
64 CA
2896349 GACAAGAAAA
Statistics
Matches: 243, Mismatches: 34, Indels: 17
0.83 0.12 0.06
Matches are distributed among these distances:
220 75 0.31
221 155 0.64
222 5 0.02
224 8 0.03
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (219 bp):
TAGGGTGGTAACCATACGTCAAATAAGAAGGAGAAAGATCTAACCAGGGTGGTAACCATATGTCA
AATCAAAATAAAAAAAATCTGACCAAGGTGGTAACCATACCTCAGACAGAAAAGAGGCAGATTTG
ACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAATCTGACCAAGGTGGTAACCATACAC
CAAAGAAGAATGAAAGAATCTGAA
Found at i:2896370 original size:88 final size:88
Alignment explanation
Indices: 2896022--2896370 Score: 423
Period size: 88 Copynumber: 4.0 Consensus size: 88
2896012 ATCTGACCAA
* * * * * *
2896022 GGTGGTAACCATACATCAAATTAGAATGAAAAGAATCTGACTAGGGTGGTAACCATACGTCAAAT
1 GGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGAC
*
2896087 AAGAAGGAGGCAGATTTGACTAG
66 AAGAAGAAGGCAGATTTGACTAG
* * * * *
2896110 GGTGGTAACCATATGTCAAATCAAAATAAAAAAAAATCTGACCAAGGTGGTAACCATAC-ACTAG
1 GGTGGTAACCATACGTCAAATCAAAAT-GAAAAGAATCTGACCAGGGTGGTAACCATACGTC-AG
* *
2896174 ACAAAAAGGAGGCAGATTTGACTAG
64 ACAAGAAGAAGGCAGATTTGACTAG
** * * * *
2896199 GGTGGTAACCATACGTCAAATCGGAATGAAAAGAATCTGACTAGAGTGGTAACCATACGCCAGGC
1 GGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGAC
* *
2896264 AAGAAGAATGCAGATTTGAATAG
66 AAGAAGAAGGCAGATTTGACTAG
* * *
2896287 GGTGGTAACCATGCGTCAAATCAAAATGAAAAGAATCTAACCAGGGTGGTAACCATATGTCAGAC
1 GGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGAC
*
2896352 AAGAA-AAGGGAGAGTTTGA
66 AAGAAGAAGGCAGA-TTTGA
2896371 TCAAGCCTAC
Statistics
Matches: 220, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
87 6 0.03
88 138 0.63
89 76 0.35
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (88 bp):
GGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGAC
AAGAAGAAGGCAGATTTGACTAG
Found at i:2896431 original size:48 final size:48
Alignment explanation
Indices: 2896379--2896655 Score: 245
Period size: 48 Copynumber: 5.8 Consensus size: 48
2896369 GATCAAGCCT
* * * **
2896379 ACCAATACAGTTAAACGAGGGATGAAAAGAGTTTGACTAGAACCTAAC
1 ACCAATACAATCAAACAAGGGATGAAAAGAGTTTGACTAGGCCCTAAC
* * ** * * *** *
2896427 ACCAATACAGTTAAATGAGGAAAGATTTGAGTTTAACTAGGCCCTAAC
1 ACCAATACAATCAAACAAGGGATGAAAAGAGTTTGACTAGGCCCTAAC
* * *
2896475 ACCAATACAATCAAACAAAGGG-TGAAAAGAATTTAACCAGGCCCTAAC
1 ACCAATACAATCAAAC-AAGGGATGAAAAGAGTTTGACTAGGCCCTAAC
* * * * * * *
2896523 ACCAATACAGTCAAATAAGAGATGAAAAAGAGTTTGACCAGGTCATAAT
1 ACCAATACAATCAAACAAGGGATG-AAAAGAGTTTGACTAGGCCCTAAC
* * * *
2896572 GCCAATACAATCAAAC-GGGGGTGGAAAGAGTTTGACTAGGCTCC-AAC
1 ACCAATACAATCAAACAAGGGATGAAAAGAGTTTGACTAGGC-CCTAAC
2896619 ACCAATACAATCAAACAAGGGATGAAAAGAGTTTGAC
1 ACCAATACAATCAAACAAGGGATGAAAAGAGTTTGAC
2896656 CAGATACAGT
Statistics
Matches: 181, Mismatches: 43, Indels: 10
0.77 0.18 0.04
Matches are distributed among these distances:
47 36 0.20
48 110 0.61
49 35 0.19
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (48 bp):
ACCAATACAATCAAACAAGGGATGAAAAGAGTTTGACTAGGCCCTAAC
Found at i:2897776 original size:20 final size:23
Alignment explanation
Indices: 2897723--2897777 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
2897713 TAGGTGAGAA
2897723 AATGCAAATGCAATCATTAATAG
1 AATGCAAATGCAATCATTAATAG
2897746 AATGACAAATGC-AT-ATGTAA-AG
1 AATG-CAAATGCAATCAT-TAATAG
2897768 -ATGCAAATGC
1 AATGCAAATGC
2897778 TAATGCAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.23
21 3 0.10
22 4 0.13
23 9 0.30
24 7 0.23
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (23 bp):
AATGCAAATGCAATCATTAATAG
Found at i:2898816 original size:19 final size:19
Alignment explanation
Indices: 2898790--2898837 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
2898780 CTATCTATAC
* *
2898790 TTTT-TTTTTCATGCTATT
1 TTTTGTTTTTCATCCCATT
**
2898808 TTTTGTTTTTTTTCCCATT
1 TTTTGTTTTTCATCCCATT
2898827 TTTTGTTTTTC
1 TTTTGTTTTTC
2898838 TCTTTTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.75
Consensus pattern (19 bp):
TTTTGTTTTTCATCCCATT
Found at i:2898835 original size:26 final size:26
Alignment explanation
Indices: 2898823--2898875 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2898813 TTTTTTTTCC
*
2898823 CATTTTTTGTTTTTCTCTTTTTATTT
1 CATTTTTTATTTTTCTCTTTTTATTT
** *
2898849 CATTTTTTATTTTAATTTTTTTATTT
1 CATTTTTTATTTTTCTCTTTTTATTT
2898875 C
1 C
2898876 GAGAAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.75
Consensus pattern (26 bp):
CATTTTTTATTTTTCTCTTTTTATTT
Found at i:2900686 original size:20 final size:21
Alignment explanation
Indices: 2900650--2900690 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
2900640 AGTATAGATA
2900650 TTTTTCAAGCATAAAAATAATG
1 TTTTTCAAG-ATAAAAATAATG
2900672 TTTTTCAAG-TAAAAATAAT
1 TTTTTCAAGATAAAAATAAT
2900691 TCAAAGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (21 bp):
TTTTTCAAGATAAAAATAATG
Found at i:2900828 original size:32 final size:33
Alignment explanation
Indices: 2900766--2900829 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2900756 CACACCCAGA
*
2900766 TGTATCGATACATATTGCTTAGTATCAATACAT
1 TGTATCGATACATATTGATTAGTATCAATACAT
* *
2900799 TGTATCGATACATGTT-ATTGGTATCAATACA
1 TGTATCGATACATATTGATTAGTATCAATACA
2900830 CCTTGAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATATTGATTAGTATCAATACAT
Found at i:2900921 original size:20 final size:20
Alignment explanation
Indices: 2900889--2900942 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2900879 GTATCGATTC
2900889 ATTGTAT-GATACATAATGA
1 ATTGTATCGATACATAATGA
**
2900908 ATTGTATCGATACATGGTGA
1 ATTGTATCGATACATAATGA
2900928 ATTGTATCGATACAT
1 ATTGTATCGATACAT
2900943 TGAGCCTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 7 0.22
20 25 0.78
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (20 bp):
ATTGTATCGATACATAATGA
Found at i:2901452 original size:35 final size:36
Alignment explanation
Indices: 2901382--2901453 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
2901372 CTAAGTGATT
**
2901382 GAGAGGTTCTATCATAGCCTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCATAGCCCGTGAAAAAGATAGGGA
*
2901418 GAGAGGTTCTATCTTAGCCCGTG-AAAAGATAGGGA
1 GAGAGGTTCTATCATAGCCCGTGAAAAAGATAGGGA
2901453 G
1 G
2901454 GTTTCTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 13 0.39
36 20 0.61
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.24
Consensus pattern (36 bp):
GAGAGGTTCTATCATAGCCCGTGAAAAAGATAGGGA
Found at i:2901465 original size:32 final size:31
Alignment explanation
Indices: 2901382--2901479 Score: 92
Period size: 36 Copynumber: 3.0 Consensus size: 31
2901372 CTAAGTGATT
* *
2901382 GAGAGGTTCTATCATAGCCTTTGAAAAAGATAGGG
1 GAGAGGTTCTATCTTAGCC-CTG-AAAAGATA--G
2901417 AGAGAGGTTCTATCTTAGCCCGTGAAAAGATAG
1 -GAGAGGTTCTATCTTAGCCC-TGAAAAGATAG
*
2901450 G-GAGGTTTCTATCTTA-CCCTTAAAAGATAG
1 GAGAGG-TTCTATCTTAGCCCTGAAAAGATAG
2901480 TGTTGTAAGG
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
30 10 0.18
31 7 0.12
32 11 0.19
33 1 0.02
35 8 0.14
36 20 0.35
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (31 bp):
GAGAGGTTCTATCTTAGCCCTGAAAAGATAG
Found at i:2906210 original size:20 final size:21
Alignment explanation
Indices: 2906171--2906210 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
2906161 TTAAGTATAG
2906171 ATATTTTTCAAGCATAAAAATA
1 ATATTTTTCAAG-ATAAAAATA
2906193 ATATTTTTCAAG-TAAAAA
1 ATATTTTTCAAGATAAAAA
2906211 CAATTCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (21 bp):
ATATTTTTCAAGATAAAAATA
Found at i:2906372 original size:32 final size:33
Alignment explanation
Indices: 2906310--2906373 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
2906300 CACACCCAGA
2906310 TGTATCGATACATATTGCTTAGTATCAATACAT
1 TGTATCGATACATATTGCTTAGTATCAATACAT
*
2906343 TGTATCGATACATATT-CTTGGTATCAATACA
1 TGTATCGATACATATTGCTTAGTATCAATACA
2906374 CCTTGAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCAATACAT
Found at i:2906466 original size:20 final size:20
Alignment explanation
Indices: 2906441--2906487 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
2906431 ATATTGTATG
2906441 GATACATAGCGAATTATATC
1 GATACATAGCGAATTATATC
* *
2906461 GATACATAGTGAATTGTATC
1 GATACATAGCGAATTATATC
2906481 GATACAT
1 GATACAT
2906488 TCAGACCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
GATACATAGCGAATTATATC
Found at i:2906972 original size:36 final size:36
Alignment explanation
Indices: 2906927--2907057 Score: 182
Period size: 36 Copynumber: 3.8 Consensus size: 36
2906917 CTAAGTAATT
2906927 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
*
2906963 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
**
2906999 GAGAGGTTCTATCTTAGCCCGTG-AAAAGATA-GG-
1 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
* *
2907032 GAG-GTTTCTATATTAGCC-TTGAAAAA
1 GAGAGGTTCTATCTTAGCCTTTGAAAAA
2907058 TAGTGTTGTA
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
31 2 0.02
32 17 0.20
33 3 0.03
34 1 0.01
35 8 0.09
36 56 0.64
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
Found at i:2911396 original size:15 final size:15
Alignment explanation
Indices: 2911367--2911404 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
2911357 ATTATATCGT
2911367 AAAAATT-AA-TAAA
1 AAAAATTAAATTAAA
*
2911380 AAAGATTAAATTAAA
1 AAAAATTAAATTAAA
2911395 AAAAATTAAA
1 AAAAATTAAA
2911405 ATTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 6 0.29
14 2 0.10
15 13 0.62
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
AAAAATTAAATTAAA
Found at i:2911912 original size:168 final size:166
Alignment explanation
Indices: 2911706--2912254 Score: 596
Period size: 159 Copynumber: 3.4 Consensus size: 166
2911696 CTTTTTTGGG
* * * *
2911706 AAAAGGGAG-ATTTCAAAGAAAAAAATTC-AAAACTCATGAAAATGAATGAATTTTTAGAAACTG
1 AAAAAGGAGAATTTCAAGGAAAAAAATTCAAAAACTCAAGAAAATGAAGGAATTTTT-GAAACTG
* *
2911769 ATTTAATATGAAATAAATAATAATATTTGATGGA-TTTAATAATTAAAAACCAAGAAAAATCCTC
65 ATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTC
* *
2911833 CTGAAAAAAATTTACGAAGTAGAAATTTCTTTTTTTC
130 CTGAAAAAAATTTACGAAGTAGAAAATTCTGTTTTTC
* * * *
2911870 GAAAATAGGAGAATTTCAAGGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTCAAAAC
1 -AAAA-AGGAGAATTTCAAGGAAAAAAATTCAAAAACTCAAGAAAATGAAGGAATTTTT-GAAAC
* *
2911935 TGATTTATTATGAAATAAATAATAATATTTAATGAATTTTAAAAATTAAAAACCAAG-AAAATCC
63 TGATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC
* * *
2911999 -CCTTG-AAAAAATTTACGAAGAAGAAAACTCCGTTTTTC
128 TCC-TGAAAAAAATTTACGAAGTAGAAAATTCTGTTTTTC
* *
2912037 -AAAA--A-AA-TTGAA-GAAAAAAATTCAAAAACTTAAGAAAATGAAGGAATTTTTGAAAACTG
1 AAAAAGGAGAATTTCAAGGAAAAAAATTCAAAAACTCAAGAAAATGAAGGAATTTTTG-AAACTG
* * * * * * *
2912096 ATTTAATGTGATAGAAACAATGATATTTGATGAATTTTAAAAAATAAAAA-TAA-AAAAATCGCT
65 ATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATC-CT
* * ** *
2912159 -TTGAAAAAAA-TTACAAAGTAGAAAATAATGTATTTC
129 CCTGAAAAAAATTTACGAAGTAGAAAATTCTGTTTTTC
*
2912195 AAAAAAAGG-GAATTT--TGGAAAAAAATTCAAAAACTCAAGAAAATGAAGGAATTTTTGAAA
1 --AAAAAGGAGAATTTCAAGGAAAAAAATTCAAAAACTCAAGAAAATGAAGGAATTTTTGAAA
2912255 ACTAATTTGA
Statistics
Matches: 327, Mismatches: 39, Indels: 39
0.81 0.10 0.10
Matches are distributed among these distances:
158 29 0.09
159 90 0.28
160 4 0.01
161 6 0.02
162 4 0.01
163 41 0.13
164 3 0.01
165 7 0.02
166 4 0.01
167 47 0.14
168 73 0.22
169 19 0.06
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (166 bp):
AAAAAGGAGAATTTCAAGGAAAAAAATTCAAAAACTCAAGAAAATGAAGGAATTTTTGAAACTGA
TTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCC
TGAAAAAAATTTACGAAGTAGAAAATTCTGTTTTTC
Found at i:2916625 original size:52 final size:51
Alignment explanation
Indices: 2916547--2916695 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
2916537 CGAAATATGA
2916547 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
2916599 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
2916651 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
2916696 ATATATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:2916788 original size:13 final size:13
Alignment explanation
Indices: 2916770--2916794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2916760 ACAAAAAAAA
2916770 TGTATCGATACAT
1 TGTATCGATACAT
2916783 TGTATCGATACA
1 TGTATCGATACA
2916795 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2917910 original size:95 final size:94
Alignment explanation
Indices: 2917737--2918171 Score: 429
Period size: 95 Copynumber: 4.5 Consensus size: 94
2917727 AAAGATGAGA
* *
2917737 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAA
1 AAAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--AAAATGTGCCAA
* *
2917802 TATGCTGATTCAAGGCCAACTATATTGGACTT
63 TATGCTGATTCAAGGCCAGCTACATTGGACTT
*
2917834 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGATGAAGAATGTGCCAAT
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AA-AATGTGCCAAT
*
2917898 ATGCTGATTCAAGGCCAGTTACATTGGACTT
64 ATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
2917929 AATGATGAAGAATGTGCCAATATGTTGATTCAAGGCCAGCAATATTGGACTTAAAG-------GT
1 -A--A--AAG---GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAATGT
*
2917987 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
58 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
2918024 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGAT-AAAGGTGCC
1 --A-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAATGTGCC
*
2918088 AATATGCTGATTCAAGGCCAGCTATATTGGACTT
61 AATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
2918122 AAAGATAAAGGTGCCAATATGGTGATTCAAGGCCAGCTATATTGGGCTTA
1 ----A-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
2918172 GAAGGGTTGC
Statistics
Matches: 294, Mismatches: 25, Indels: 37
0.83 0.07 0.10
Matches are distributed among these distances:
92 39 0.13
94 3 0.01
95 124 0.42
96 7 0.02
98 76 0.26
99 1 0.00
100 3 0.01
101 3 0.01
104 38 0.13
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (94 bp):
AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAATGTGCCAATAT
GCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:2917958 original size:147 final size:143
Alignment explanation
Indices: 2917747--2918171 Score: 602
Period size: 147 Copynumber: 2.9 Consensus size: 143
2917737 AAAAGGATGT
*
2917747 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAAATGTGCCAATATGCTGATT
* *
2917812 CAAGGCCAACTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTT
65 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
2917877 AAAGATGAAGAATGTGC
130 AAAGATGAAG---GTGC
* * * *
2917894 CAATATGCTGATTCAAGGCCAGTTACATTGGACTTAATGATGAAGAATGTGCCAATATGTTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA-AATGTGCCAATATGCTGATT
*
2917959 CAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
65 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
2918024 AAAGATGAAGGTGC
130 AAAGATGAAGGTGC
* * *
2918038 CAATGTGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGAT--AAAGGTGCCAATATGCTGATTC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAATGTGCCAATATGCTGATTC
* * *
2918101 AAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGGTGATTCAAGGCCAGCTATATTG
66 AAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
*
2918166 GGCTTA
125 GACTTA
2918172 GAAGGGTTGC
Statistics
Matches: 251, Mismatches: 20, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
141 37 0.15
142 2 0.01
144 40 0.16
146 3 0.01
147 169 0.67
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (143 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAATGTGCCAATATGCTGATTC
AAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
AAGATGAAGGTGC
Found at i:2918037 original size:49 final size:49
Alignment explanation
Indices: 2917689--2918171 Score: 504
Period size: 49 Copynumber: 9.8 Consensus size: 49
2917679 GTGATAAAGA
* * * * *
2917689 TGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* * * * *
2917743 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
*
2917796 TGCCAATATGCTGATTCAAGGCCAACTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
2917839 TGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGATGAAGAATG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAG---G
* * *
2917891 TGCCAATATGCTGATTCAAGGCCAGTTACATTGGACTTAATGATGAAGAATG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAG---G
* *
2917943 TGCCAATATGTTGATTCAAGGCCAGCAATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
2917986 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
2918035 TGCCAATGTGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
2918084 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
2918133 TGCCAATATGGTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
2918172 GAAGGGTTGC
Statistics
Matches: 375, Mismatches: 38, Indels: 36
0.84 0.08 0.08
Matches are distributed among these distances:
43 72 0.19
46 3 0.01
47 2 0.01
48 2 0.01
49 137 0.37
52 118 0.31
53 5 0.01
54 1 0.00
55 35 0.09
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:2918215 original size:33 final size:35
Alignment explanation
Indices: 2918171--2918240 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
2918161 TATTGGGCTT
2918171 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
2918205 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
2918239 AG
1 AG
2918241 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:2918283 original size:34 final size:32
Alignment explanation
Indices: 2918245--2918717 Score: 407
Period size: 34 Copynumber: 14.8 Consensus size: 32
2918235 AGGAAGGGAG
*
2918245 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAA
1 AAAG-TGCCACGGAGTTGTGGGCTTAAAA-GG-AA
*
2918280 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
2918314 AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAAA-GG-AA
2918350 AAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAA-AGGAA
2918384 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGG--
1 AAA-GTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
2918415 ---GTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
2918446 AAAGTGCCACGGAGTTGTGGGCTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
2918476 ---GTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
*
2918507 AAAGTACCACGGAGTTGTGGGCTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
2918537 ---GTGCCACGGAGTTGTGGGCTTAGAAGGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGG-AA
* *
2918567 AAGAGTGCCACAGAGTTGTGGGCTT-TAA--AA
1 AA-AGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
2918597 AGAGTGCCACGGAGTTGTGGGCTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
*
2918631 AAAGTGCCACGGAGTTGTGGGCTT-TAA--AA
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * **
2918660 AGATTGCCATAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
*
2918693 GAAGGTGCCACGGAGTTGTGGGCTT
1 -AAAGTGCCACGGAGTTGTGGGCTT
2918718 TGAAAAAGAT
Statistics
Matches: 367, Mismatches: 31, Indels: 82
0.76 0.06 0.17
Matches are distributed among these distances:
27 71 0.19
28 2 0.01
29 43 0.12
30 6 0.02
31 1 0.00
32 6 0.02
33 39 0.11
34 138 0.38
35 22 0.06
36 15 0.04
37 24 0.07
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (32 bp):
AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:2918300 original size:71 final size:68
Alignment explanation
Indices: 2918225--2918717 Score: 377
Period size: 61 Copynumber: 7.6 Consensus size: 68
2918215 CACCGACTTG
* * *
2918225 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTTA--AAAGGAAAAAG-TGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCA
2918290 CGGAGT
63 CGGAGT
*
2918296 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGGAAAAAGTGCCACGGAGTTGTGGGC-TT-AAAAGGGAAAAAGAGTGCCAC
2918361 GGAGT
64 GGAGT
2918366 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGTTGTGGGCTTAAAA--G-----G-GTGCCAC
1 TGTGGGCTTTAAA-AGGAAAAA-GTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCAC
2918422 GGAGT
64 GGAGT
* *
2918427 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAA--G-----G-GTGCCAC
1 TGTGGGCTTTAAA-A-GGAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCAC
2918483 GGAGT
64 GGAGT
* * *
2918488 TGTGGAC-TTAAAGATGAAAAAAGTACCACGGAGTTGTGGGCTTAAAA--G-----G-GTGCCAC
1 TGTGGGCTTTAAA-A-GGAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCAC
2918544 GGAGT
64 GGAGT
* * *
2918549 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT------TAAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGG-AAAA-AGTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCAC
2918607 GGAGT
64 GGAGT
* * * *
2918612 TGTGGGC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT------TAAAAAGATTGCCAT
1 TGTGGGCTTTAAA-A-GGAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCAC
*
2918670 AGAGT
64 GGAGT
*
2918675 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTT
1 TGTGGGCTTT-AAAAGGAA-AAAGTGCCACGGAGTTGTGGGCTT
2918718 TGAAAAAGAT
Statistics
Matches: 380, Mismatches: 23, Indels: 46
0.85 0.05 0.10
Matches are distributed among these distances:
59 1 0.00
60 11 0.03
61 147 0.39
62 9 0.02
63 91 0.24
64 8 0.02
65 4 0.01
67 1 0.00
68 17 0.04
69 14 0.04
70 46 0.12
71 31 0.08
ACGTcount: A:0.31, C:0.12, G:0.35, T:0.22
Consensus pattern (68 bp):
TGTGGGCTTTAAAAGGAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCACGG
AGT
Found at i:2918615 original size:63 final size:61
Alignment explanation
Indices: 2918347--2918746 Score: 506
Period size: 61 Copynumber: 6.5 Consensus size: 61
2918337 TTGAAAAGGG
* *
2918347 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAGAGAAAAAAGTGCCACGGAGTTGTGGGCTT
* *
2918409 -AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGA-GAAAAAAGTGCCACGGAGTTGTGGGCTT
* * *
2918470 -AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTACCACGGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGA-GAAAAAAGTGCCACGGAGTTGTGGGCTT
* *
2918531 -AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAG-GAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTA-AAGAGAAAAA-AGTGCCACGGAGTTGTGGGC-TT
2918593 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGA-GAAAAAAGTGCCACGGAGTTGTGGGC-TT
* ** * *
2918656 AAAAAGATTGCCATAGAGTTGTGGGCTTTGAAA-AGAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAGAGAAAAAAGTGCCACGGAGTTGTGGGC-TT
* *
2918719 GAAAAAGA-TGCCACTGACTTGTGGGCTT
1 -AAAAAGAGTGCCACGGAGTTGTGGGCTT
2918747 TTGAAGGGTA
Statistics
Matches: 310, Mismatches: 18, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
60 12 0.04
61 155 0.50
62 10 0.03
63 114 0.37
64 16 0.05
65 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (61 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGAGAAAAAAGTGCCACGGAGTTGTGGGCTT
Found at i:2920195 original size:1 final size:1
Alignment explanation
Indices: 2920189--2920279 Score: 92
Period size: 1 Copynumber: 91.0 Consensus size: 1
2920179 ATCCGGACCC
* * * * * * *
2920189 TTTTTTTGTTTTTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTGTTTTTTTTTTTTGTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
2920254 TTTTTGTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
2920280 GTGGAGGATG
Statistics
Matches: 70, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (1 bp):
T
Found at i:2920213 original size:19 final size:19
Alignment explanation
Indices: 2920189--2920281 Score: 115
Period size: 19 Copynumber: 5.1 Consensus size: 19
2920179 ATCCGGACCC
2920189 TTTTTTTGTTTTTTTTTTG
1 TTTTTTTGTTTTTTTTTTG
2920208 TTTTTTT-TTTGTTTTTTTG
1 TTTTTTTGTTT-TTTTTTTG
2920227 --TTTTTGTTTTTTTTTT-
1 TTTTTTTGTTTTTTTTTTG
*
2920243 TTGTTTTGTTTTTTTTGTT-
1 TTTTTTTGTTTTTTTT-TTG
*
2920262 TTGTTTTGTTTTTTTTTTG
1 TTTTTTTGTTTTTTTTTTG
2920281 T
1 T
2920282 GGAGGATGCC
Statistics
Matches: 67, Mismatches: 1, Indels: 12
0.84 0.01 0.15
Matches are distributed among these distances:
17 12 0.18
18 21 0.31
19 34 0.51
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTTTTG
Found at i:2920214 original size:14 final size:14
Alignment explanation
Indices: 2920189--2920279 Score: 105
Period size: 14 Copynumber: 6.4 Consensus size: 14
2920179 ATCCGGACCC
*
2920189 TTTTTTTGTTTTTTT
1 TTTTTTT-TTTTTTG
2920204 TTTGTTTTTTTTTTG
1 TTT-TTTTTTTTTTG
*
2920219 TTTTTTTGTTTTTG
1 TTTTTTTTTTTTTG
2920233 -TTTTTTTTTTTTG
1 TTTTTTTTTTTTTG
*
2920246 TTTTGTTTTTTTTG
1 TTTTTTTTTTTTTG
2920260 TTTTGTTTTGTTTTT-
1 TTTT-TTTT-TTTTTG
2920275 TTTTT
1 TTTTT
2920280 GTGGAGGATG
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
13 12 0.18
14 27 0.40
15 19 0.28
16 9 0.13
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:3024111 original size:14 final size:14
Alignment explanation
Indices: 3024092--3024118 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3024082 AAGTTAATTC
3024092 TATTTTTAAAATAT
1 TATTTTTAAAATAT
3024106 TATTTTTAAAATA
1 TATTTTTAAAATA
3024119 AAATTATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTTTTAAAATAT
Found at i:3024852 original size:19 final size:20
Alignment explanation
Indices: 3024828--3024877 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
3024818 ACATGATGCT
**
3024828 TTGTATTGATACATG-TTAA
1 TTGTATTGATACATGCACAA
*
3024847 TTGTATCGATACATGCACAA
1 TTGTATTGATACATGCACAA
3024867 TTGTATTGATA
1 TTGTATTGATA
3024878 TACAAAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (20 bp):
TTGTATTGATACATGCACAA
Found at i:3024928 original size:13 final size:13
Alignment explanation
Indices: 3024910--3024936 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3024900 CTACCATTGT
3024910 TTGTATCGATACA
1 TTGTATCGATACA
3024923 TTGTATCGATACA
1 TTGTATCGATACA
3024936 T
1 T
3024937 GAGAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3033646 original size:20 final size:19
Alignment explanation
Indices: 3033599--3033658 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
3033589 ACATTATGCT
***
3033599 TTGTATCGATACATGTTTA
1 TTGTATCGATACATGACAA
*
3033618 TTATATCGATACATGCACAA
1 TTGTATCGATACATG-ACAA
3033638 TTGTATCGATACATGA-AA
1 TTGTATCGATACATGACAA
3033656 TTG
1 TTG
3033659 GCAGTAGCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 5 0.14
19 15 0.43
20 15 0.43
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATGACAA
Found at i:3036080 original size:17 final size:17
Alignment explanation
Indices: 3036060--3036109 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
3036050 TTTTTTGTAT
*
3036060 TATTTATTTAAGATATA
1 TATTTATTTAAGATAAA
*
3036077 TATTTAATTTGAG-TAAA
1 TATTT-ATTTAAGATAAA
*
3036094 TATCTATTTAAGATAA
1 TATTTATTTAAGATAA
3036110 TAATAAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 6 0.22
17 15 0.56
18 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (17 bp):
TATTTATTTAAGATAAA
Found at i:3042969 original size:51 final size:52
Alignment explanation
Indices: 3042914--3043035 Score: 176
Period size: 51 Copynumber: 2.4 Consensus size: 52
3042904 ATTTTTCATC
* * *
3042914 TCGGGGATACTCCAACCCCAG-TTTTATTTCCACAACATCAATTTTCCATAA
1 TCGGGGATACTCCAACCCCAGATTTTATTTCCAAAACACCAATTTTCCACAA
* * *
3042965 TCGGGGATACTCTAACTCC-GATTTTATTTCCAAAACACCAATTTTTCACAA
1 TCGGGGATACTCCAACCCCAGATTTTATTTCCAAAACACCAATTTTCCACAA
3043016 TCGGGGATACTCCAACCCCA
1 TCGGGGATACTCCAACCCCA
3043036 TTATTTTCGA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.02
51 60 0.98
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (52 bp):
TCGGGGATACTCCAACCCCAGATTTTATTTCCAAAACACCAATTTTCCACAA
Found at i:3043105 original size:80 final size:78
Alignment explanation
Indices: 3042988--3043190 Score: 228
Period size: 79 Copynumber: 2.6 Consensus size: 78
3042978 AACTCCGATT
* * * *
3042988 TTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTCGAGAGGGAT
1 TTATTTCTAAAACATCGA-TTTTCACAATCGGGGATACTCCAACCCCATTATTTTCG-CAGGGAT
*
3043053 ACTCCAAACCCGGCT
64 ACTCCAAACCCGGCC
* * * * * *
3043068 TTA-TTCTTAAAATATTGATTTCTCACAATCGGAGATACTCTAACCCCGTTATTTTTGCAGGGAT
1 TTATTTC-TAAAACATCGATTT-TCACAATCGGGGATACTCCAACCCCATTATTTTCGCAGGGAT
*
3043132 ACTCCAACCCCGGCC
64 ACTCCAAACCCGGCC
* *
3043147 TTATTTCTAAAGCATCGATTTTCTATAATCGGGGATACTCCAAC
1 TTATTTCTAAAACATCGATTTTC-ACAATCGGGGATACTCCAAC
3043191 TCCGGCTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
78 2 0.02
79 56 0.55
80 43 0.43
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (78 bp):
TTATTTCTAAAACATCGATTTTCACAATCGGGGATACTCCAACCCCATTATTTTCGCAGGGATAC
TCCAAACCCGGCC
Found at i:3043187 original size:51 final size:51
Alignment explanation
Indices: 3043127--3043347 Score: 266
Period size: 51 Copynumber: 4.3 Consensus size: 51
3043117 TATTTTTGCA
* *
3043127 GGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGA-TTTTCTATAATCG
1 GGGATACTCCAACCCCGGCCTTATTTCTAAATCATCGATTTTTC-ACAATCG
* * * ** *
3043178 GGGATACTCCAACTCCGGCTTTATTTCCAAAAT-ATTAATTTCTCACAATCG
1 GGGATACTCCAACCCCGGCCTTATTT-CTAAATCATCGATTTTTCACAATCG
* * * *
3043229 GGGATACTTCAACCCCGACCTTATTTCTAAATCATCAATTTTTCATAATCG
1 GGGATACTCCAACCCCGGCCTTATTTCTAAATCATCGATTTTTCACAATCG
* ** *
3043280 GGGATACTTCAACCCTTGCCTTATTTCTAAATCATCGATTTTTCACAATCA
1 GGGATACTCCAACCCCGGCCTTATTTCTAAATCATCGATTTTTCACAATCG
3043331 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
3043348 TTATTTTCGA
Statistics
Matches: 142, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
50 5 0.04
51 129 0.91
52 8 0.06
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGCCTTATTTCTAAATCATCGATTTTTCACAATCG
Found at i:3043412 original size:79 final size:79
Alignment explanation
Indices: 3043303--3043507 Score: 223
Period size: 79 Copynumber: 2.6 Consensus size: 79
3043293 CCTTGCCTTA
* ** * *
3043303 TTTCTAAATCATCGATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCGA-GAGGATACT
1 TTTC-AAAACATCGATTTCCCATAATCAGGGATACTCCAACCCCGTTATTTCCGAGGA-GATACT
*
3043367 CCCACCCCGATTTTAT
64 CCAACCCCGATTTTAT
* * * * * *
3043383 TTTCAAAATATTGATTTTCTATAATCAGGGATACTTCAACCCTGTTATTTCCGAGGAGATACTCC
1 TTTCAAAACATCGATTTCCCATAATCAGGGATACTCCAACCCCGTTATTTCCGAGGAGATACTCC
*
3043448 AACCCTGATTTTAT
66 AACCCCGATTTTAT
* * * * *
3043462 TTTTAGAACATCGATTTCCCATAATCAAGGACACTCCAGCCCCGTT
1 TTTCAAAACATCGATTTCCCATAATCAGGGATACTCCAACCCCGTT
3043508 GTTATCTCCA
Statistics
Matches: 102, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
79 96 0.94
80 6 0.06
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (79 bp):
TTTCAAAACATCGATTTCCCATAATCAGGGATACTCCAACCCCGTTATTTCCGAGGAGATACTCC
AACCCCGATTTTAT
Found at i:3044523 original size:19 final size:19
Alignment explanation
Indices: 3044496--3044535 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
3044486 TAAATATATA
*
3044496 TAAATGATTA-ATTATATTT
1 TAAAAGATTAGATT-TATTT
3044515 TAAAAGATTAGATTTATTT
1 TAAAAGATTAGATTTATTT
3044534 TA
1 TA
3044536 TTTTGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TAAAAGATTAGATTTATTT
Found at i:3048203 original size:17 final size:17
Alignment explanation
Indices: 3048181--3048213 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3048171 ACCTTATTAG
3048181 ATATGATATAATCCATA
1 ATATGATATAATCCATA
*
3048198 ATATGATATAGTCCAT
1 ATATGATATAATCCAT
3048214 TATGAGTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (17 bp):
ATATGATATAATCCATA
Found at i:3052361 original size:25 final size:25
Alignment explanation
Indices: 3052328--3052386 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
3052318 TGTTTCTTTA
* *
3052328 TATATATGTAAACTAATGCAATAAT
1 TATACATGTAAAATAATGCAATAAT
*
3052353 TATACATGTAAAATAATGCAATAGT
1 TATACATGTAAAATAATGCAATAAT
3052378 TATACATGT
1 TATACATGT
3052387 GTAAGTCCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (25 bp):
TATACATGTAAAATAATGCAATAAT
Found at i:3058567 original size:19 final size:18
Alignment explanation
Indices: 3058545--3058596 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
3058535 AATTTAAACC
3058545 TAATATTTATCTTAGTAAA
1 TAATATTTATC-TAGTAAA
* *
3058564 TAATATTCATCTAATAAA
1 TAATATTTATCTAGTAAA
*
3058582 T-ATAATTATCTAGTA
1 TAATATTTATCTAGTA
3058597 TTATAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 11 0.39
18 7 0.25
19 10 0.36
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (18 bp):
TAATATTTATCTAGTAAA
Found at i:3058583 original size:18 final size:19
Alignment explanation
Indices: 3058545--3058583 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3058535 AATTTAAACC
* *
3058545 TAATATTTATCTTAGTAAA
1 TAATATTCATCTTAATAAA
3058564 TAATATTCATC-TAATAAA
1 TAATATTCATCTTAATAAA
3058582 TA
1 TA
3058584 TAATTATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (19 bp):
TAATATTCATCTTAATAAA
Found at i:3062004 original size:2 final size:2
Alignment explanation
Indices: 3061997--3062043 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
3061987 AAAAATCTTT
* * * *
3061997 TA TA TA TA TA TA TA TA TG TG TG TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3062039 TA TA T
1 TA TA T
3062044 CATAAAATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3062024 original size:18 final size:18
Alignment explanation
Indices: 3062001--3062043 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
3061991 ATCTTTTATA
* *
3062001 TATATATATATATGTGTG
1 TATATATATATATATATG
3062019 TATATATATATATATATG
1 TATATATATATATATATG
3062037 TATATAT
1 TATATAT
3062044 CATAAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (18 bp):
TATATATATATATATATG
Found at i:3062024 original size:20 final size:20
Alignment explanation
Indices: 3061997--3062043 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
3061987 AAAAATCTTT
*
3061997 TATATATATATATATATGTG
1 TATATATATATATATATATG
*
3062017 TGTATATATATATATATATG
1 TATATATATATATATATATG
3062037 TATATAT
1 TATATAT
3062044 CATAAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (20 bp):
TATATATATATATATATATG
Found at i:3062302 original size:50 final size:50
Alignment explanation
Indices: 3062248--3062351 Score: 163
Period size: 50 Copynumber: 2.1 Consensus size: 50
3062238 TTTATATTTA
* *
3062248 TATAAAATTTATTACGTTAATAATTCACATTATATAAATTTTGAGATAAT
1 TATAAAATTTATTACGTTAATAATTCACAATATATAAATTTTAAGATAAT
* **
3062298 TATAAAATTTATTATGTTAATAATTCGTAATATATAAATTTTAAGATAAT
1 TATAAAATTTATTACGTTAATAATTCACAATATATAAATTTTAAGATAAT
3062348 TATA
1 TATA
3062352 CTATTCATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (50 bp):
TATAAAATTTATTACGTTAATAATTCACAATATATAAATTTTAAGATAAT
Found at i:3063043 original size:2 final size:2
Alignment explanation
Indices: 3063038--3063080 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3063028 CCATTTATTT
3063038 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3063080 T
1 T
3063081 TTGACCATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:3064257 original size:15 final size:16
Alignment explanation
Indices: 3064225--3064264 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
3064215 ATGATATCAC
3064225 TTTATTAAAAATAATT
1 TTTATTAAAAATAATT
*
3064241 TTTATTTAAAA-AATT
1 TTTATTAAAAATAATT
*
3064256 TTTAATAAA
1 TTTATTAAA
3064265 GTTGATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTATTAAAAATAATT
Found at i:3064727 original size:15 final size:15
Alignment explanation
Indices: 3064707--3064740 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3064697 ATTTTATATG
3064707 TTAATACAAATTTAA
1 TTAATACAAATTTAA
* *
3064722 TTAATACACATTTTA
1 TTAATACAAATTTAA
3064737 TTAA
1 TTAA
3064741 AAAAATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATACAAATTTAA
Found at i:3066391 original size:16 final size:16
Alignment explanation
Indices: 3066368--3066404 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
3066358 TATTTTTATG
3066368 AAAA-AAAATTTAAGT
1 AAAAGAAAATTTAAGT
*
3066383 AAAAGAAAATTTGAGT
1 AAAAGAAAATTTAAGT
3066399 AAAAGA
1 AAAAGA
3066405 TATGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.22
Consensus pattern (16 bp):
AAAAGAAAATTTAAGT
Found at i:3066770 original size:2 final size:2
Alignment explanation
Indices: 3066763--3066791 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3066753 TAGCGGTCTG
3066763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3066792 GTGTATAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3067271 original size:37 final size:38
Alignment explanation
Indices: 3067230--3067306 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 38
3067220 TATATTATTT
* *
3067230 AAATAATAAAAA-TATTTTTATTTAA-A-TTTAATTATAA
1 AAAT-ATAAAAATTAATTTT-TTTAATATTTTAATGATAA
3067267 AAATATAAAAATTAATTTTTTTAATATTTTAATGATAA
1 AAATATAAAAATTAATTTTTTTAATATTTTAATGATAA
3067305 AA
1 AA
3067307 TAAATTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 12 0.34
37 11 0.31
38 12 0.34
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (38 bp):
AAATATAAAAATTAATTTTTTTAATATTTTAATGATAA
Found at i:3069000 original size:3 final size:3
Alignment explanation
Indices: 3068987--3069029 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
3068977 ATGAAAAAGG
*
3068987 ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
3069030 AGAACCAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:3070063 original size:18 final size:17
Alignment explanation
Indices: 3070040--3070088 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
3070030 TTTTAAATTA
*
3070040 TAATTATAAATATGTTTT
1 TAATTATAAATAT-TTAT
*
3070058 TAATTATATTATATTTAT
1 TAATTATA-AATATTTAT
3070076 TAAGTTATAAATA
1 TAA-TTATAAATA
3070089 AAAAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
TAATTATAAATATTTAT
Found at i:3077894 original size:2 final size:2
Alignment explanation
Indices: 3077887--3077917 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3077877 TACGTGTCTG
3077887 TA TA TA 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 TA TA TA T
3077918 TTACATACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3080630 original size:16 final size:17
Alignment explanation
Indices: 3080609--3080641 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3080599 TATCCATACC
3080609 AAGTCTCCTAT-TTTGA
1 AAGTCTCCTATATTTGA
*
3080625 AAGTCTGCTATATTTGA
1 AAGTCTCCTATATTTGA
3080642 TGCTTGTCGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (17 bp):
AAGTCTCCTATATTTGA
Done.