Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 189 of 208
Found at i:57780492 original size:4 final size:4
Alignment explanation
Indices: 57780471--57780615 Score: 101
Period size: 4 Copynumber: 36.0 Consensus size: 4
57780461 CTCTTCTTCT
*
57780471 TTTC TTTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTC TTTTCC TTT-
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTT-C TTTC
*
57780517 TCTTC -TTC -TTC TTTC TTTC TTT- TTT- TTTC TCTTC -TCC TTTCC TTTTC
1 T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC
* *
57780564 TTTC CTTC -TT- TTTC TTTC TTTCC TCTCC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC
57780612 TTTC
1 TTTC
57780616 CCTCTCCTTC
Statistics
Matches: 117, Mismatches: 7, Indels: 33
0.75 0.04 0.21
Matches are distributed among these distances:
3 22 0.19
4 69 0.59
5 19 0.16
6 7 0.06
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:57780518 original size:23 final size:22
Alignment explanation
Indices: 57780492--57780566 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 22
57780482 TCCTTCTTTC
57780492 TTTCTTTTTTCTTCTCTTTTCCT
1 TTTCTTTTTTCTTCTC-TTTCCT
57780515 TTTCTTCTTCTTCTT-TCTTT-CT
1 TTTCTT-TT-TTCTTCTCTTTCCT
57780537 TTT-TTTTTCTCTTCTCCTTTCCT
1 TTTCTTTTT-TCTTCT-CTTTCCT
57780560 TTTCTTT
1 TTTCTTT
57780567 CCTTCTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.02
20 6 0.13
21 3 0.07
22 9 0.20
23 14 0.31
24 7 0.16
25 5 0.11
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTCTTTTTTCTTCTCTTTCCT
Found at i:57780539 original size:40 final size:40
Alignment explanation
Indices: 57780462--57780614 Score: 153
Period size: 40 Copynumber: 4.0 Consensus size: 40
57780452 ATTCCTTCCC
*
57780462 TCTTCTTCTTTT-CTTTTCTT-TCCTTCTTTCTTTCTTTTT
1 TCTTC-TCTTTTCCTTTTCTTCTTCTTCTTTCTTTCTTTTT
57780501 TCTTCTCTTTTCCTTTTCTTCTTCTTCTTTCTTTCTTTTT
1 TCTTCTCTTTTCCTTTTCTTCTTCTTCTTTCTTTCTTTTT
* * *
57780541 TTTTCTCTTCTCC-TTTC--CTT-TTCTTTCCTTC-TTTT
1 TCTTCTCTTTTCCTTTTCTTCTTCTTCTTTCTTTCTTTTT
* *
57780576 TCTT-TC-TTTCCTCTCCTTTCTTTCTTTCTTTCTTTCTTT
1 TCTTCTCTTTTCCTTTTC-TTC-TTC-TTCTTTCTTTCTTT
57780615 CCCTCTCCTT
Statistics
Matches: 95, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
33 4 0.04
34 4 0.04
35 7 0.07
36 10 0.11
37 4 0.04
38 8 0.08
39 17 0.18
40 39 0.41
41 2 0.02
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (40 bp):
TCTTCTCTTTTCCTTTTCTTCTTCTTCTTTCTTTCTTTTT
Found at i:57780565 original size:36 final size:36
Alignment explanation
Indices: 57780485--57780610 Score: 139
Period size: 36 Copynumber: 3.4 Consensus size: 36
57780475 TTTTCTTTCC
* *
57780485 TTCTTTCTTTCTTTTTTCTTCTCTTTTCCTTTTCTTCTT
1 TTCTTTCTTTCTTTTTTTTTCTCTTCTCC-TTTC--CTT
57780524 CTTCTTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTT
1 -TTCTTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTT
* * *
57780561 TTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTTT-C-T
1 TTCTTTCTTTCTTTTT-TTT-TCTCTTCTCCTTTCCTT
57780597 TTCTTTCTTTCTTT
1 TTCTTTCTTTCTTT
57780611 CTTTCCCTCT
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
36 29 0.37
37 7 0.09
38 11 0.14
39 4 0.05
40 27 0.35
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (36 bp):
TTCTTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTT
Found at i:57780576 original size:32 final size:31
Alignment explanation
Indices: 57780495--57780624 Score: 115
Period size: 32 Copynumber: 4.1 Consensus size: 31
57780485 TTCTTTCTTT
* * *
57780495 CTTT-TTTCTTCTCTTTTCCTTTTCTTCTTCTT
1 CTTTCTTTCTT-TCTTTTTC-TTTCTTCCTCTC
* *
57780527 CTTTCTTTCTTTTTTTTTCTCTTC-TCCTTTC
1 CTTTCTTTCTTTCTTTTTCT-TTCTTCCTCTC
*
57780558 CTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTC
1 C-TTTCTTTCTTTCTTTTTCTTTC-TTCCTCTC
57780591 CTTTCTTTCTTTC--TTTCTTTCTTTCCCTCTC
1 CTTTCTTTCTTTCTTTTTCTTTC-TT-CCTCTC
57780622 CTT
1 CTT
57780625 CTGCCCCCCA
Statistics
Matches: 83, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
30 11 0.13
31 18 0.22
32 41 0.49
33 13 0.16
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (31 bp):
CTTTCTTTCTTTCTTTTTCTTTCTTCCTCTC
Found at i:57780734 original size:27 final size:27
Alignment explanation
Indices: 57780661--57780735 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
57780651 TATTAACTGC
57780661 TGCCGCCAATACCGTATTGGCACCATTGG
1 TGCCGCCAAT-CC-TATTGGCACCATTGG
** * *
57780690 TGCCGCCAATGGTTTTGGCACCTTTGG
1 TGCCGCCAATCCTATTGGCACCATTGG
*
57780717 TGCCGCCAATCCCATTGGC
1 TGCCGCCAATCCTATTGGC
57780736 GTGACCAGGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 28 0.74
29 10 0.26
ACGTcount: A:0.16, C:0.32, G:0.25, T:0.27
Consensus pattern (27 bp):
TGCCGCCAATCCTATTGGCACCATTGG
Found at i:57782173 original size:21 final size:22
Alignment explanation
Indices: 57782131--57782173 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
57782121 TTAAAATGAT
* *
57782131 AAAATTATAATTTTATTATTGA
1 AAAAATATAATTTAATTATTGA
57782153 AAAAATATAATTTAATT-TTGA
1 AAAAATATAATTTAATTATTGA
57782174 TCTCCCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
AAAAATATAATTTAATTATTGA
Found at i:57786185 original size:22 final size:22
Alignment explanation
Indices: 57786142--57786206 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
57786132 TGCCAGTAGT
* *
57786142 CAGAATGGCTA-AGAGCCGTAAA
1 CAGAATAGCTACA-AGCCATAAA
* * *
57786164 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTACAAGCCATAAA
*
57786186 CAGAATGGCTACAAGCCATAA
1 CAGAATAGCTACAAGCCATAA
57786207 GTACAGTAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (22 bp):
CAGAATAGCTACAAGCCATAAA
Found at i:57786283 original size:32 final size:32
Alignment explanation
Indices: 57786198--57786400 Score: 214
Period size: 32 Copynumber: 6.4 Consensus size: 32
57786188 GAATGGCTAC
* * *
57786198 AAGCCATAAGT-ACAGTAGTATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * **
57786229 AAGCCATCAGTAGCAATGATATGGCCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
57786261 CAA-CCATCAGTAACAGTAATATGATCGGTACA
1 -AAGCCATCAGTAACAGTAATATGATCGGCACA
*
57786293 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * ** *
57786325 AAGCTATAAGTAACGGTAATATGATTAGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
57786357 AAGCCATCAGTAA-TGATAATATGATCGGCACA
1 AAGCCATCAGTAACAG-TAATATGATCGGCACA
57786389 AAGCCATCAGTA
1 AAGCCATCAGTA
57786401 GCATCCCAGC
Statistics
Matches: 141, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
31 13 0.09
32 126 0.89
33 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:57786455 original size:26 final size:26
Alignment explanation
Indices: 57786407--57786456 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
57786397 AGTAGCATCC
**
57786407 CAGCAAAGCTGCCAGCGGCAGTATTG
1 CAGCAAAGCTGCCAGCAACAGTATTG
* *
57786433 CAGCAAAGCTGCCAGTAATAGTAT
1 CAGCAAAGCTGCCAGCAACAGTAT
57786457 ATGTGGTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGCAACAGTATTG
Found at i:57786474 original size:27 final size:27
Alignment explanation
Indices: 57786444--57786500 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
57786434 AGCAAAGCTG
*
57786444 CCAGTAATAGT-ATATGTGGTCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
57786471 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
57786498 CCA
1 CCA
57786501 ATATAATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 23 0.85
28 2 0.07
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:57786599 original size:24 final size:23
Alignment explanation
Indices: 57786572--57786653 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
57786562 CCAAGCTCAG
*
57786572 AATCAGTCATTCAAATCACAGACA
1 AATCAATCATTCAAA-CACAGACA
* *
57786596 AATCAATCATACCAAACACAGACG
1 AATCAATCAT-TCAAACACAGACA
* * *
57786620 AATCAATCATTTAACCACAGGCA
1 AATCAATCATTCAAACACAGACA
57786643 AATCAATCATT
1 AATCAATCATT
57786654 TGACCTCGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 19 0.39
24 26 0.53
25 4 0.08
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.21
Consensus pattern (23 bp):
AATCAATCATTCAAACACAGACA
Found at i:57786730 original size:27 final size:27
Alignment explanation
Indices: 57786693--57786870 Score: 212
Period size: 27 Copynumber: 6.6 Consensus size: 27
57786683 TCACTACGGC
* * *
57786693 ATTACGATCATTTTACCTTACATGGGT
1 ATTACGGTCATTTTACCCTACAAGGGT
* * *
57786720 ATTACAGTCATTCTACCCTACAATGGT
1 ATTACGGTCATTTTACCCTACAAGGGT
* * *
57786747 ATTACGGTTATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAAGGGT
* * *
57786774 ATTATGGTTATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTACAAGGGT
* **
57786801 AATACGGTCATTTTACCCTACAAGGAC
1 ATTACGGTCATTTTACCCTACAAGGGT
57786828 ATTACGGTCATTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAAGGGT
*
57786855 ATTACAGTCATTTTAC
1 ATTACGGTCATTTTAC
57786871 AACCTTTTCG
Statistics
Matches: 127, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAAGGGT
Found at i:57789231 original size:25 final size:25
Alignment explanation
Indices: 57789202--57789249 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
57789192 GGACACACTA
57789202 CAGCTCGT-ATGAGCTTACCGATTTG
1 CAGCTCGTGA-GAGCTTACCGATTTG
57789227 CAGCTCGTGAGAGCTTACCGATT
1 CAGCTCGTGAGAGCTTACCGATT
57789250 ATGAGCATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTACCGATTTG
Found at i:57793367 original size:101 final size:101
Alignment explanation
Indices: 57793192--57793397 Score: 403
Period size: 101 Copynumber: 2.0 Consensus size: 101
57793182 TAGTCCCAAT
57793192 ATTTTTAAAATTTTAAATTTTTAGTCTTGATCCAAGCAGTATCAGTTAAATCCATCTGATTAAAT
1 ATTTTTAAAATTTTAAATTTTTAGTCTTGATCCAAGCAGTATCAGTTAAATCCATCTGATTAAAT
57793257 TCAATTGCTAGTCCTATACTATGCTTACAATTGGAC
66 TCAATTGCTAGTCCTATACTATGCTTACAATTGGAC
*
57793293 ATTTTTGAAATTTTAAATTTTTAGTCTTGATCCAAGCAGTATCAGTTAAATCCATCTGATTAAAT
1 ATTTTTAAAATTTTAAATTTTTAGTCTTGATCCAAGCAGTATCAGTTAAATCCATCTGATTAAAT
57793358 TCAATTGCTAGTCCTATACTATGCTTACAATTGGAC
66 TCAATTGCTAGTCCTATACTATGCTTACAATTGGAC
57793394 ATTT
1 ATTT
57793398 AGTTCATATT
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 104 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (101 bp):
ATTTTTAAAATTTTAAATTTTTAGTCTTGATCCAAGCAGTATCAGTTAAATCCATCTGATTAAAT
TCAATTGCTAGTCCTATACTATGCTTACAATTGGAC
Found at i:57793814 original size:34 final size:34
Alignment explanation
Indices: 57793754--57793818 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
57793744 TTGCTCGAAC
* *
57793754 TTTTCATATCTTTGATTCAAGGTTTGATTGTAAG
1 TTTTCATATATTCGATTCAAGGTTTGATTGTAAG
*
57793788 TTTTCATATATTCGTTTC-AGGATTTGATTGT
1 TTTTCATATATTCGATTCAAGG-TTTGATTGT
57793819 CACTCAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 3 0.11
34 24 0.89
ACGTcount: A:0.22, C:0.09, G:0.17, T:0.52
Consensus pattern (34 bp):
TTTTCATATATTCGATTCAAGGTTTGATTGTAAG
Found at i:57801466 original size:20 final size:21
Alignment explanation
Indices: 57801419--57801466 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
57801409 TCATGTTAGC
57801419 AATTAATTA-AATTTTAAATA
1 AATTAATTATAATTTTAAATA
57801439 AATT--TTATAACTTTT-AA-A
1 AATTAATTATAA-TTTTAAATA
57801457 AATTAATTAT
1 AATTAATTAT
57801467 TATCATATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
18 8 0.33
19 4 0.17
20 12 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTAATTATAATTTTAAATA
Found at i:57804770 original size:16 final size:15
Alignment explanation
Indices: 57804749--57804787 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
57804739 CAACTAGCCA
*
57804749 AACCCAAGGCCCAAC
1 AACCCAAAGCCCAAC
57804764 TAACCCACAAGCCCAAC
1 -AACCCA-AAGCCCAAC
57804781 AACCCAA
1 AACCCAA
57804788 TAGACCTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 12 0.57
17 8 0.38
ACGTcount: A:0.44, C:0.46, G:0.08, T:0.03
Consensus pattern (15 bp):
AACCCAAAGCCCAAC
Found at i:57804858 original size:13 final size:13
Alignment explanation
Indices: 57804840--57804875 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
57804830 AAACCCTAAC
*
57804840 GCCGCATCTAGGA
1 GCCGCACCTAGGA
57804853 GCCGCACCTAGGA
1 GCCGCACCTAGGA
57804866 GCCGCACCTA
1 GCCGCACCTA
57804876 TTGACCTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.22, C:0.39, G:0.28, T:0.11
Consensus pattern (13 bp):
GCCGCACCTAGGA
Found at i:57804949 original size:20 final size:20
Alignment explanation
Indices: 57804911--57804949 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57804901 CGCCGGACAT
*
57804911 CCCATCCACGTCCATCGCCG
1 CCCATCCACGTCCACCGCCG
* *
57804931 CCCATCCACTTGCACCGCC
1 CCCATCCACGTCCACCGCC
57804950 ACCTGCAAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.56, G:0.13, T:0.15
Consensus pattern (20 bp):
CCCATCCACGTCCACCGCCG
Found at i:57806834 original size:109 final size:109
Alignment explanation
Indices: 57806633--57807063 Score: 634
Period size: 109 Copynumber: 4.0 Consensus size: 109
57806623 AAGGAAAATT
* * * * *
57806633 TTTCTAAATGAGGCAATATTTAGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
57806698 CGATTTTTCTCGTTCAACTAAATAGCTAAGTATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
* *
57806742 TTTCAAAATAAGGCAATGTTTTGCGGTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
57806807 TGATTTTTCTCGTTCAACCAAATAGCTAAGTATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
57806851 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * * *
57806916 CAATTTTTCTCATTTAACCAAATAGCCAAATATCCTTTCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
* * * *
57806960 TTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAG-GATCGTGCCCTAATATGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
57807024 CGA--TTTCTCGTTTAACCAAATAGCCAAATATCCTCTTAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAA
57807064 TTTTAATCCA
Statistics
Matches: 296, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
106 34 0.11
108 24 0.08
109 238 0.80
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
Found at i:57814941 original size:54 final size:54
Alignment explanation
Indices: 57814873--57814983 Score: 186
Period size: 54 Copynumber: 2.1 Consensus size: 54
57814863 ACAGAAGGAG
*
57814873 AACATGTGCGAGTCTTAAAAAAGTTGTTCTTAAAATTAAGAAAGTTCCAACTCA
1 AACATGTGCAAGTCTTAAAAAAGTTGTTCTTAAAATTAAGAAAGTTCCAACTCA
* * *
57814927 AACATGTGCAAGTCTTAAGAAAGTTGTTCTTAAGATTAAGAAAGTTTCAACTCA
1 AACATGTGCAAGTCTTAAAAAAGTTGTTCTTAAAATTAAGAAAGTTCCAACTCA
57814981 AAC
1 AAC
57814984 TTAATCCATC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (54 bp):
AACATGTGCAAGTCTTAAAAAAGTTGTTCTTAAAATTAAGAAAGTTCCAACTCA
Found at i:57818758 original size:46 final size:46
Alignment explanation
Indices: 57818691--57819084 Score: 590
Period size: 46 Copynumber: 8.6 Consensus size: 46
57818681 AGAACAGATT
* * * *
57818691 ATCGAATATAGCAGGTCTTGTCTCCCTGTATTTGGCAGCAGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
*
57818737 ATCGAAGATAGCAGATCTTGTCTCCCTGTATTTGGCAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
* * * *
57818783 ATTGAAGATAACAGATCTTGTCTCCCTGTATTTGGTAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
* *
57818829 ATCAAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
* *
57818875 ATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGAAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
*
57818921 ATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
*
57818967 ATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
* * * * *
57819013 ATAGAAGATAGTAGATCATGTCTTCCTGTATTTGGCAGTGAAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
* *
57819059 ATCAAAGATAGCAGATCTTGTTTTCC
1 ATCGAAGATAGCAGATCTTGTCTTCC
57819085 AGTGAAGCAG
Statistics
Matches: 320, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 320 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (46 bp):
ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
Found at i:57819220 original size:44 final size:44
Alignment explanation
Indices: 57819164--57819265 Score: 195
Period size: 44 Copynumber: 2.3 Consensus size: 44
57819154 AATCCTATCT
57819164 CCCTGAAGTTGCAGTGAAGTGCATTAAAATGATGAATCTCGTCC
1 CCCTGAAGTTGCAGTGAAGTGCATTAAAATGATGAATCTCGTCC
*
57819208 CCCTGAAGTTGCAGTGGAGTGCATTAAAATGATGAATCTCGTCC
1 CCCTGAAGTTGCAGTGAAGTGCATTAAAATGATGAATCTCGTCC
57819252 CCCTGAAGTTGCAG
1 CCCTGAAGTTGCAG
57819266 CAGAGTGGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGAAGTGCATTAAAATGATGAATCTCGTCC
Found at i:57819749 original size:20 final size:20
Alignment explanation
Indices: 57819711--57819749 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57819701 CGCCGGACGT
*
57819711 CCCATCCACATCCATCGCCG
1 CCCATCCACATCCACCGCCG
* *
57819731 CCCATCCACTTGCACCGCC
1 CCCATCCACATCCACCGCC
57819750 ACCTGCAAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.56, G:0.10, T:0.15
Consensus pattern (20 bp):
CCCATCCACATCCACCGCCG
Found at i:57820739 original size:12 final size:12
Alignment explanation
Indices: 57820722--57820746 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57820712 AAATTTGATG
57820722 TTGTTATTATTA
1 TTGTTATTATTA
57820734 TTGTTATTATTA
1 TTGTTATTATTA
57820746 T
1 T
57820747 AATTGCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTGTTATTATTA
Found at i:57821610 original size:109 final size:109
Alignment explanation
Indices: 57821409--57821839 Score: 670
Period size: 109 Copynumber: 4.0 Consensus size: 109
57821399 AAGGAAATTT
* * * * *
57821409 TTTCTAAATGAGGCAATATTTAGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
57821474 CGATTTTTCTCGTTCAACCAAATAGCTAAGTATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
*
57821518 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
57821583 TGATTTTTCTCGTTCAACCAAATAGCTAAGTATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
*
57821627 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTTCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * * *
57821692 CAATTTTTCTCATTTAACCAAATAGCCAAATATCCTTTCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
*
57821736 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
57821800 CGA--TTTCTCGTTTAACCAAATAGCCAAATATCCTCTTAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAA
57821840 TTTTAATCCA
Statistics
Matches: 300, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
106 34 0.11
108 25 0.08
109 241 0.80
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
Found at i:57825763 original size:2 final size:2
Alignment explanation
Indices: 57825758--57825782 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57825748 TGTGTGTTTG
57825758 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
57825783 TAGTGATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57826186 original size:3 final size:3
Alignment explanation
Indices: 57826178--57826209 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
57826168 TTCAGAAGCT
*
57826178 TTC TTC TTC TTC TTC TTC GTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
57826210 TTTGTGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:57832344 original size:46 final size:46
Alignment explanation
Indices: 57832277--57832567 Score: 410
Period size: 46 Copynumber: 6.6 Consensus size: 46
57832267 TTTGAGTACT
*
57832277 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
57832323 TCTGATCAAGTGACAAAGTGATAA---GTA-C--T-G---CACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
57832359 TCTGATCAA-TAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGT-GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
57832405 TCTGATCAAGTGACAAAGTGATAAGTGGTTGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
57832451 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
57832497 TTTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
57832543 GCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
57832568 ATCATACGTA
Statistics
Matches: 223, Mismatches: 10, Indels: 26
0.86 0.04 0.10
Matches are distributed among these distances:
35 1 0.00
36 28 0.13
39 4 0.02
40 2 0.01
42 2 0.01
43 4 0.02
44 12 0.05
45 4 0.02
46 165 0.74
47 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:57835478 original size:19 final size:19
Alignment explanation
Indices: 57835456--57835496 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
57835446 ATGAAATAAA
57835456 AGAATAG-AAAAAGAGAAAC
1 AGAATAGCAAAAA-AGAAAC
*
57835475 AGAATAGCTAAAAAGAAAC
1 AGAATAGCAAAAAAGAAAC
57835494 AGA
1 AGA
57835497 GAACAGACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.66, C:0.07, G:0.20, T:0.07
Consensus pattern (19 bp):
AGAATAGCAAAAAAGAAAC
Found at i:57836023 original size:21 final size:21
Alignment explanation
Indices: 57835974--57836057 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 21
57835964 GTTTTGCCGA
57835974 TCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGT-T
57835996 CTCAGGCACTTTATGTGTCGTT
1 -TCAGGCACTTTATGTGTCGTT
****
57836018 TCAGGCACCCCGTGTGTCGTT
1 TCAGGCACTTTATGTGTCGTT
*
57836039 ACAGGCAC-TTATGTGTCGT
1 TCAGGCACTTTATGTGTCGT
57836058 CTACTGATCA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 8 0.15
21 24 0.45
22 1 0.02
23 20 0.38
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (21 bp):
TCAGGCACTTTATGTGTCGTT
Found at i:57842749 original size:13 final size:13
Alignment explanation
Indices: 57842713--57842752 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
57842703 GATTTTTATT
57842713 TGTTTTAATTTTA
1 TGTTTTAATTTTA
**
57842726 TAATTTAATTTTA
1 TGTTTTAATTTTA
*
57842739 TGTTTTTATTTTA
1 TGTTTTAATTTTA
57842752 T
1 T
57842753 TGTATCTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (13 bp):
TGTTTTAATTTTA
Found at i:57850086 original size:43 final size:43
Alignment explanation
Indices: 57849954--57850086 Score: 162
Period size: 43 Copynumber: 3.1 Consensus size: 43
57849944 AACATATACT
57849954 GAAGGAAAT-ATATTGGCACACATAGTGCATCATC-GAATAAACC
1 GAAGG-AATCATATTGGCACACATAGTGCATCATCAG-ATAAACC
** * * *
57849997 GAAACAATCATACTAGCACACATAGTGCATCTTCAGATAAACC
1 GAAGGAATCATATTGGCACACATAGTGCATCATCAGATAAACC
* * *
57850040 GAAGGAATCATATTGGCACAAATAGTGTATCATCAGATAAATC
1 GAAGGAATCATATTGGCACACATAGTGCATCATCAGATAAACC
57850083 GAAG
1 GAAG
57850087 CAAATAAATT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 3 0.04
43 71 0.95
44 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (43 bp):
GAAGGAATCATATTGGCACACATAGTGCATCATCAGATAAACC
Found at i:57851154 original size:11 final size:12
Alignment explanation
Indices: 57851115--57851203 Score: 51
Period size: 11 Copynumber: 7.4 Consensus size: 12
57851105 TTCCCACTTC
*
57851115 ATTTGTTAATT-
1 ATTTATTAATTA
*
57851126 ATTTATTACTTA
1 ATTTATTAATTA
*
57851138 ACTT-TTAATTA
1 ATTTATTAATTA
57851149 ATTT-TTAATTA
1 ATTTATTAATTA
**
57851160 ATAAATTTAATTA
1 ATTTA-TTAATTA
57851173 AGGTTTATTTAATTA
1 A--TTTA-TTAATTA
* *
57851188 AATTATT-TTTA
1 ATTTATTAATTA
57851199 ATTTA
1 ATTTA
57851204 ACTAATACTT
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
11 34 0.56
12 5 0.08
13 11 0.18
15 11 0.18
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.57
Consensus pattern (12 bp):
ATTTATTAATTA
Found at i:57851173 original size:24 final size:25
Alignment explanation
Indices: 57851141--57851191 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
57851131 TTACTTAACT
**
57851141 TTTAATTAATTTTTAATTAA-TAAA
1 TTTAATTAAGGTTTAATTAATTAAA
*
57851165 TTTAATTAAGGTTTATTTAATTAAA
1 TTTAATTAAGGTTTAATTAATTAAA
57851190 TT
1 TT
57851192 ATTTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTAATTAAGGTTTAATTAATTAAA
Found at i:57851576 original size:18 final size:18
Alignment explanation
Indices: 57851553--57851589 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
57851543 TATGTCAAAT
57851553 TAAAATATAATAATTAAA
1 TAAAATATAATAATTAAA
57851571 TAAAATATAATAATTAAA
1 TAAAATATAATAATTAAA
57851589 T
1 T
57851590 CTTAAATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAATATAATAATTAAA
Found at i:57866045 original size:6 final size:6
Alignment explanation
Indices: 57866034--57866058 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57866024 AATAGGGATT
57866034 GGAAAG GGAAAG GGAAAG GGAAAG G
1 GGAAAG GGAAAG GGAAAG GGAAAG G
57866059 AGAATCCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GGAAAG
Found at i:57870125 original size:22 final size:22
Alignment explanation
Indices: 57870091--57870132 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
57870081 CTTCGTTGCT
*
57870091 TCTAGTATCGACATTCTCTGTC
1 TCTAGCATCGACATTCTCTGTC
*
57870113 TCTAGCATTGACATTCTCTG
1 TCTAGCATCGACATTCTCTG
57870133 CGAATTCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.40
Consensus pattern (22 bp):
TCTAGCATCGACATTCTCTGTC
Found at i:57875781 original size:60 final size:60
Alignment explanation
Indices: 57875655--57875770 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
57875645 ATTTTTTTGA
** * ** * * *
57875655 AATTTTTAGAATTAGAGTTAAATTGACAAATTTTGTAAATGTTGAGGGTTAATTTTATTG
1 AATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCTAAATTTATTG
* *
57875715 ATTTTTTAGAATTTGAACTAAAATGACAAATTTTGTAAACATTAAGGGCTAAATTT
1 AATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCTAAATTT
57875771 GTTACATTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (60 bp):
AATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCTAAATTTATTG
Found at i:57880897 original size:82 final size:82
Alignment explanation
Indices: 57880806--57880971 Score: 287
Period size: 82 Copynumber: 2.0 Consensus size: 82
57880796 CATTTGTTTC
* * *
57880806 GAAATTTAGATGTTTTTCATGGTATGAAGTTTATACTTTCATTTGATATTGCTATCTTGATCATA
1 GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
*
57880871 TGAGTCCTTTCTTAAAA
66 CGAGTCCTTTCTTAAAA
57880888 GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
1 GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
*
57880953 CGAGTCCTTTGTTAAAA
66 CGAGTCCTTTCTTAAAA
57880970 GA
1 GA
57880972 TATGAGACTC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (82 bp):
GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
CGAGTCCTTTCTTAAAA
Found at i:57882891 original size:28 final size:28
Alignment explanation
Indices: 57882846--57882920 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
57882836 TTTATATCAG
* *
57882846 ATTTATATTAAATGATAATGCAAAAT-T
1 ATTTATATTAAATAATAATGAAAAATAT
*
57882873 ATGTTATATTAAATAATAATTAAAAATAT
1 AT-TTATATTAAATAATAATGAAAAATAT
57882902 ATTTA-ATCTAAATAATAAT
1 ATTTATAT-TAAATAATAAT
57882921 AATAACAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 4 0.10
28 35 0.83
29 3 0.07
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (28 bp):
ATTTATATTAAATAATAATGAAAAATAT
Found at i:57884814 original size:27 final size:28
Alignment explanation
Indices: 57884783--57884837 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
57884773 TTAATTATAA
*
57884783 TTTTTCAT-AGATCAAAATATAAGTTTT
1 TTTTTAATAAGATCAAAATATAAGTTTT
57884810 TTTTTAATAGAGATCAAAATATAAGTTT
1 TTTTTAATA-AGATCAAAATATAAGTTT
57884838 ATTATGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.28
29 18 0.72
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.45
Consensus pattern (28 bp):
TTTTTAATAAGATCAAAATATAAGTTTT
Found at i:57889325 original size:53 final size:54
Alignment explanation
Indices: 57889215--57889656 Score: 437
Period size: 54 Copynumber: 8.2 Consensus size: 54
57889205 TTTTAACCAC
* * * *
57889215 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGCGGCTCGCCAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * *
57889269 TTTAAGATCGCAGCCTTATACTTGA-AA-ATTTTTCGAATCTTGCGGTTTGTCGA
1 TTTAAGATCGCAACCTTATACTT-ACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * * * * *
57889322 TTTAAGATTGCAATCTTATAATTTA-AAGATATTTC-AATCTTGGGGCTTGCCTA
1 TTTAAGATCGCAACCTTAT-ACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * * * * **
57889375 TTTAAGATTGCAACATTATACTTACAGGATTTTTCGAATCTCGCGGTTTGTGGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * ** * **
57889429 TTTAAGATCACAACCTTATACTTACATGATTTTT-GAAATCTTATGGTTTTTCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCG-AATCTTGCGGCTTGCCGA
* *
57889483 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATTTTGCGGCTTGCCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * * * * ***
57889537 TTTAAGATCGTAACCTTATACTTTCGAGATTTTTTGAATCATGCGGCTTGTTAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * * * *
57889591 TTTAAGATCCCAACCATATACTTACAAGATTTCTAGAATCTTGCAG-TTGCCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
57889644 TTTAAGATCGCAA
1 TTTAAGATCGCAA
57889657 ATTTCTCATG
Statistics
Matches: 313, Mismatches: 68, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
52 4 0.01
53 95 0.30
54 213 0.68
55 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (54 bp):
TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
Found at i:57889978 original size:17 final size:17
Alignment explanation
Indices: 57889944--57889976 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57889934 TGAGTTCTAG
*
57889944 TAGCTATAGGTATCAAA
1 TAGCTATAGATATCAAA
57889961 TAGCTATAGAT-TCAAA
1 TAGCTATAGATATCAAA
57889977 ATTAGAGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
TAGCTATAGATATCAAA
Found at i:57890632 original size:5 final size:5
Alignment explanation
Indices: 57890622--57890655 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
57890612 GCCAAAGATG
*
57890622 TGAAT TGAAT TGAAT TGCAT TGAAT ATGAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAAT -TGAAT TGA
57890656 TTTTAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:57897908 original size:25 final size:25
Alignment explanation
Indices: 57897879--57897942 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
57897869 ATTGACTCTT
*
57897879 ATGAGCTTCCCGTTATATAGCTCAA
1 ATGAGCTTCCCGTTACATAGCTCAA
* *
57897904 ATGAGCTTCCCGTTACATGGCTCAC
1 ATGAGCTTCCCGTTACATAGCTCAA
57897929 ATGAGCTTCCCGTT
1 ATGAGCTTCCCGTT
57897943 TATGAACTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATAGCTCAA
Found at i:57897957 original size:25 final size:26
Alignment explanation
Indices: 57897873--57897974 Score: 95
Period size: 25 Copynumber: 4.0 Consensus size: 26
57897863 CCTGATATTG
*
57897873 ACTCTTATGAGCTTCCCGTTATAT-A
1 ACTCATATGAGCTTCCCGTTATATGA
* * *
57897898 GCTCAAATGAGCTTCCCGTTACATG-
1 ACTCATATGAGCTTCCCGTTATATGA
* *
57897923 GCTCACATGAGCTTCCCGTT-TATGA
1 ACTCATATGAGCTTCCCGTTATATGA
* *
57897948 ACTCGTATGAGCATTCCCG-GATATGA
1 ACTCATATGAGC-TTCCCGTTATATGA
57897974 A
1 A
57897975 TTGACAGATT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.05
25 48 0.76
26 12 0.19
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (26 bp):
ACTCATATGAGCTTCCCGTTATATGA
Found at i:57907021 original size:43 final size:44
Alignment explanation
Indices: 57906871--57907053 Score: 225
Period size: 43 Copynumber: 4.2 Consensus size: 44
57906861 CTAACTTTTT
57906871 GCGGCGCTTATAGAAAA-AAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTA-AGAAAATAAACGCCGCTAAAGATCATGTTCTTTA
* *
57906915 GCGGCGC-TAAGAAAATAAATGCGGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAAGAAAATAAACGCCGCTAAAGATCATGTTCTTTA
*
57906958 GCGGCGC-TAAGATAATAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAAGAAAATAAACGCCGCTAAAGATCATGTTCTTTA
** * * *
57907001 GCGGCGCTTTGGAAGA-AAACGCCGCGAATAG-T-AGTGTTATTTA
1 GCGGCGCTTAAGAAAATAAACGCCGCTAA-AGATCA-TGTTCTTTA
57907044 GCGGCGCTTA
1 GCGGCGCTTA
57907054 TTTCACAAAC
Statistics
Matches: 123, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
42 7 0.06
43 103 0.84
44 13 0.11
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
GCGGCGCTTAAGAAAATAAACGCCGCTAAAGATCATGTTCTTTA
Found at i:57907516 original size:21 final size:21
Alignment explanation
Indices: 57907492--57907539 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
57907482 GCTTCTATCG
* *
57907492 CTGCTTCTCTCGCTGTAGCAT
1 CTGCTTCCCTCGCTGCAGCAT
*
57907513 CTGCTTCCCTCGCTGCCGCAT
1 CTGCTTCCCTCGCTGCAGCAT
57907534 CTGCTT
1 CTGCTT
57907540 TAAGTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.06, C:0.40, G:0.19, T:0.35
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCAT
Found at i:57910401 original size:113 final size:113
Alignment explanation
Indices: 57910251--57910488 Score: 431
Period size: 113 Copynumber: 2.1 Consensus size: 113
57910241 ATAGTGGCAG
* *
57910251 TAGCGGCATTTGTTTGTAAGCGCCGCAACAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTA
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTA
* *
57910316 TAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
66 TAGTAGAATTGGTGGCGTTTCTATAAAAACGCCACTGAAGTGGATCAT
57910364 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTA
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTA
*
57910429 TAGTAGAATTGGTGGCGTTTCTATAAAAACGCCACTGAAGTGTATCAT
66 TAGTAGAATTGGTGGCGTTTCTATAAAAACGCCACTGAAGTGGATCAT
57910477 TAGCGGCGTTTG
1 TAGCGGCGTTTG
57910489 GGAAAAACGC
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 120 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (113 bp):
TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTA
TAGTAGAATTGGTGGCGTTTCTATAAAAACGCCACTGAAGTGGATCAT
Found at i:57910519 original size:113 final size:112
Alignment explanation
Indices: 57910286--57910523 Score: 334
Period size: 113 Copynumber: 2.1 Consensus size: 112
57910276 CAACAATGTT
* *
57910286 AAACAAAACGCAGCGTACAAGATTGAGGTATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGC
1 AAACAAAACGCAGCGTACAAGATTGAGGTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCAC
* * * * * *
57910351 TGAAGTGGATCATTAGCGGCGTTTGTTTGTAAGCGCCGCAAAAATGTT
66 TGAAGTGGATCATTAGCGGCGTTTG-TGGAAAACGCCACAAAAATCTG
57910399 AAACAAAACGCAGCGTACAAGATTGAGGTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCAC
1 AAACAAAACGCAGCGTACAAGATTGAGGTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCAC
* *
57910464 TGAAGTGTATCATTAGCGGCGTTTG-GGAAAAACGCTACAAAAGATCTG
66 TGAAGTGGATCATTAGCGGCGTTTGTGG-AAAACGCCACAAAA-ATCTG
* *
57910512 GACCAAAACGCA
1 AAACAAAACGCA
57910524 CCGTTTGGAA
Statistics
Matches: 111, Mismatches: 12, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
111 1 0.01
112 10 0.09
113 100 0.90
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (112 bp):
AAACAAAACGCAGCGTACAAGATTGAGGTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCAC
TGAAGTGGATCATTAGCGGCGTTTGTGGAAAACGCCACAAAAATCTG
Found at i:57911260 original size:25 final size:26
Alignment explanation
Indices: 57911226--57911277 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
57911216 TTGTTTGTGG
* * *
57911226 TTTACGGGTTTAATATTTATGGTTAA
1 TTTACGGGTTTAAGATCTACGGTTAA
57911252 TTTA-GGGTTTAAGATCTACGGTTAA
1 TTTACGGGTTTAAGATCTACGGTTAA
57911277 T
1 T
57911278 GTTTACGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (26 bp):
TTTACGGGTTTAAGATCTACGGTTAA
Found at i:57913250 original size:24 final size:24
Alignment explanation
Indices: 57913218--57913268 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
57913208 GGTTCCTAGT
57913218 TGTCTATATGTGCAGATATATGTG
1 TGTCTATATGTGCAGATATATGTG
*
57913242 TGTCTATATGTGCAGATATGTGTG
1 TGTCTATATGTGCAGATATATGTG
57913266 TGT
1 TGT
57913269 GTTAGTGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.43
Consensus pattern (24 bp):
TGTCTATATGTGCAGATATATGTG
Found at i:57915182 original size:9 final size:9
Alignment explanation
Indices: 57915141--57915725 Score: 515
Period size: 9 Copynumber: 64.8 Consensus size: 9
57915131 TACAAGCTTA
*
57915141 TACATAAAT
1 TACATAACT
* *
57915150 TAAATTACT
1 TACATAACT
57915159 TACATAACT
1 TACATAACT
*
57915168 TGA-ATAAAT
1 T-ACATAACT
* *
57915177 TAAATAAGT
1 TACATAACT
57915186 TACATAACT
1 TACATAACT
*
57915195 TACATAACC
1 TACATAACT
*
57915204 TACATAAAT
1 TACATAACT
*
57915213 TAAATAACT
1 TACATAACT
57915222 TACATAACT
1 TACATAACT
57915231 TACATAA--
1 TACATAACT
* *
57915238 -A-TTAACC
1 TACATAACT
57915245 TACATAACT
1 TACATAACT
57915254 TACATAAACT
1 TACAT-AACT
* *
57915264 TGCATAAAT
1 TACATAACT
*
57915273 TAAATAACT
1 TACATAACT
*
57915282 TACATAACC
1 TACATAACT
*
57915291 TACATAAAT
1 TACATAACT
* *
57915300 TAAACAACT
1 TACATAACT
57915309 TACATAACT
1 TACATAACT
*
57915318 TACATAAAT
1 TACATAACT
57915327 TA-AGTAACT
1 TACA-TAACT
57915336 TACATAACT
1 TACATAACT
*
57915345 TACATAAACA
1 TACAT-AACT
*
57915355 TGCATAACT
1 TACATAACT
* *
57915364 TAAATAACC
1 TACATAACT
*
57915373 TACATAACC
1 TACATAACT
*
57915382 TACATAAAT
1 TACATAACT
*
57915391 TAAATAACT
1 TACATAACT
57915400 TACATAACT
1 TACATAACT
*
57915409 TACATAAAT
1 TACATAACT
*
57915418 TA-AGTAACC
1 TACA-TAACT
57915427 TACATAACT
1 TACATAACT
57915436 TACATAAACT
1 TACAT-AACT
* *
57915446 TGCATAAAT
1 TACATAACT
*
57915455 TAAATAACT
1 TACATAACT
*
57915464 TACATAACC
1 TACATAACT
*
57915473 TACATAAAT
1 TACATAACT
*
57915482 TAAATAACT
1 TACATAACT
57915491 TACATAACT
1 TACATAACT
*
57915500 TACATAAAT
1 TACATAACT
*
57915509 TA-AGTAACC
1 TACA-TAACT
57915518 TACATAACT
1 TACATAACT
57915527 TACATAAACT
1 TACAT-AACT
* *
57915537 TGCATAAAT
1 TACATAACT
*
57915546 TAAATAACT
1 TACATAACT
*
57915555 TACATAACC
1 TACATAACT
*
57915564 TACATAAAT
1 TACATAACT
*
57915573 TAAATAACT
1 TACATAACT
*
57915582 TACATAAAT
1 TACATAACT
*
57915591 TA-AGTAACC
1 TACA-TAACT
57915600 TACATAACT
1 TACATAACT
57915609 TACATAAACT
1 TACAT-AACT
* *
57915619 TGCATAAAT
1 TACATAACT
*
57915628 TAAATAACT
1 TACATAACT
*
57915637 TACATAACC
1 TACATAACT
*
57915646 TACATAAAT
1 TACATAACT
*
57915655 TAAATAACT
1 TACATAACT
57915664 TACATAACT
1 TACATAACT
*
57915673 TACATAAAT
1 TACATAACT
*
57915682 TA-AGTAACC
1 TACA-TAACT
57915691 TACATAACT
1 TACATAACT
57915700 TACATAAACT
1 TACAT-AACT
*
57915710 TGCATAACT
1 TACATAACT
57915719 TACATAA
1 TACATAA
57915726 AAATATATCA
Statistics
Matches: 454, Mismatches: 100, Indels: 44
0.76 0.17 0.07
Matches are distributed among these distances:
5 3 0.01
6 1 0.00
8 7 0.02
9 390 0.86
10 53 0.12
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (9 bp):
TACATAACT
Found at i:57915248 original size:23 final size:22
Alignment explanation
Indices: 57915213--57915261 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
57915203 CTACATAAAT
*
57915213 TAAATAACTTACATAACTTACA
1 TAAATAACCTACATAACTTACA
57915235 TAAATTAACCTACATAACTTACA
1 TAAA-TAACCTACATAACTTACA
57915258 TAAA
1 TAAA
57915262 CTTGCATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAATAACCTACATAACTTACA
Found at i:57915390 original size:91 final size:91
Alignment explanation
Indices: 57915141--57915725 Score: 930
Period size: 91 Copynumber: 6.6 Consensus size: 91
57915131 TACAAGCTTA
* * * ** * *
57915141 TACATAAATTAAATTACTTACATAACTTGA-ATAAA-TTAAATAAGTTACATAACTTACATAACC
1 TACATAAATTAAGTAACCTACATAACTT-ACATAAACTTGCATAAATTAAATAACTTACATAACC
57915204 TACATAAATTAAATAACTTACATAACT
65 TACATAAATTAAATAACTTACATAACT
57915231 TACATAAA-T---TAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
1 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
*
57915292 ACATAAATTAAACAACTTACATAACT
66 ACATAAATTAAATAACTTACATAACT
* * * *
57915318 TACATAAATTAAGTAACTTACATAACTTACATAAACATGCATAACTTAAATAACCTACATAACCT
1 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
57915383 ACATAAATTAAATAACTTACATAACT
66 ACATAAATTAAATAACTTACATAACT
57915409 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
1 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
57915474 ACATAAATTAAATAACTTACATAACT
66 ACATAAATTAAATAACTTACATAACT
57915500 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
1 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
57915565 ACATAAA-T---T-A---A-ATAACT
66 ACATAAATTAAATAACTTACATAACT
57915582 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
1 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
57915647 ACATAAATTAAATAACTTACATAACT
66 ACATAAATTAAATAACTTACATAACT
* *
57915673 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAACTTACATAA
1 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAA
57915726 AAATATATCA
Statistics
Matches: 462, Mismatches: 18, Indels: 29
0.91 0.04 0.06
Matches are distributed among these distances:
82 78 0.17
83 2 0.00
85 1 0.00
86 20 0.04
87 60 0.13
88 1 0.00
89 1 0.00
90 10 0.02
91 289 0.63
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (91 bp):
TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
ACATAAATTAAATAACTTACATAACT
Found at i:57915746 original size:91 final size:91
Alignment explanation
Indices: 57915567--57915746 Score: 254
Period size: 91 Copynumber: 2.0 Consensus size: 91
57915557 CATAACCTAC
57915567 ATAAATTAAATAACTTACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAA
1 ATAAATTAAATAACTTACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAA
** * *
57915632 TAACTTACATAACCTACATAAATTAA
66 TAACAAACATAACATACACAAATTAA
* * * *
57915658 ATAACTTACATAACTTACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAACTTACA
1 ATAAATTAAATAACTTACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAA
* *
57915723 TAA-AAATATATCATATCACAAATT
66 TAACAAACATAACATA-CACAAATT
57915747 CCCGTAATTC
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
90 7 0.09
91 71 0.91
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (91 bp):
ATAAATTAAATAACTTACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAA
TAACAAACATAACATACACAAATTAA
Found at i:57921401 original size:21 final size:21
Alignment explanation
Indices: 57921377--57921445 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
57921367 CAGCAACTTA
* * *
57921377 AAGCAGAGGCGGCAGTGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
57921398 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
*
57921419 AAGCAAAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
57921440 AAGCAG
1 AAGCAG
57921446 CGATAGAAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:57921941 original size:42 final size:41
Alignment explanation
Indices: 57921882--57922173 Score: 347
Period size: 42 Copynumber: 7.0 Consensus size: 41
57921872 TTTGTGAAAT
* *
57921882 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTAAAC
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TAC
* * * * *
57921924 AAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCCTCC
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTAC
*
57921966 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTAT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTAC
*
57922008 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTAC
* *
57922050 AAGCGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTAC
* *
57922091 TAAGCGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTTTTC
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTAC
*
57922134 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCCTTTTTT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
57922174 TATGTAAGCG
Statistics
Matches: 226, Mismatches: 17, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
41 40 0.18
42 113 0.50
43 72 0.32
44 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTAC
Found at i:57922088 original size:84 final size:84
Alignment explanation
Indices: 57921880--57922192 Score: 384
Period size: 84 Copynumber: 3.7 Consensus size: 84
57921870 CGTTTGTGAA
* ** * *
57921880 ATAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTAAACAAGCGCCGCTATAGAACAT
1 ATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACAT
* * **
57921943 TA-CTTTTAGAGGCGTTTTCCTCC
64 GATC-TTTAGCGGCGTTTT--TTT
57921966 A-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTATAAGCGCCGCTAAAGAACATGA
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGA
57922029 TCTTTAGCGGCGTTTTTTT
66 TCTTTAGCGGCGTTTTTTT
* * *
57922048 ATAAGCGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTATAGAACATGA
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGA
57922113 TCTTTAGCGGCGTTTTTTTT
66 TCTTTAGCGGCG-TTTTTTT
* * *
57922133 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCCTTTTTTTATGTAAGCGCCGCAAAAG
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTA--TAAGCGCCGCTAAAG
57922193 TTAGCGACGT
Statistics
Matches: 201, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
82 2 0.01
83 32 0.16
84 77 0.38
85 75 0.37
86 2 0.01
87 13 0.06
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (84 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGA
TCTTTAGCGGCGTTTTTTT
Found at i:57922153 original size:85 final size:85
Alignment explanation
Indices: 57921881--57922174 Score: 384
Period size: 85 Copynumber: 3.5 Consensus size: 85
57921871 GTTTGTGAAA
* **
57921881 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTAAAC-AAGCGCCGCTATAGAACAT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TTCTAAGCGCCGCTATAGAACAT
* * ** *
57921943 TA-CTTTTAGAGGCGTTTTCCTCC
63 GATC-TTTAGCGGCGTTTTTTTTC
* * *
57921966 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTATAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTATAGAACATGAT
*
57922030 CTTTAGCGGCG-TTTTTTTA
66 CTTTAGCGGCGTTTTTTTTC
*
57922049 TAAGCGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTATAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTATAGAACATGAT
57922114 CTTTAGCGGCGTTTTTTTTC
66 CTTTAGCGGCGTTTTTTTTC
*
57922134 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCCTTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
57922175 ATGTAAGCGC
Statistics
Matches: 184, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
83 36 0.20
84 72 0.39
85 75 0.41
86 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTATAGAACATGAT
CTTTAGCGGCGTTTTTTTTC
Found at i:57922158 original size:168 final size:170
Alignment explanation
Indices: 57921880--57922192 Score: 431
Period size: 168 Copynumber: 1.8 Consensus size: 170
57921870 CGTTTGTGAA
*
57921880 ATAAGCGCCGCTAAAGAACACTACTTTTAGCGGCATTTTTAAACAAGCGCCGCTATAGAACATTA
1 ATAAGCGCCGCTAAAGAACACTACTTTTAGCGGCATTTTTAAACAAGCGCCGCTATAGAACATGA
57921945 CTTTTAGAGGCGTTTTCCTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGG-CGTTTTTTA-T
66 CTTTTAGAGGCGTTTTCCTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCCGTTTTTTAGT
*
57922008 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
131 AAGCGCCGCAAAAGAACATGATCTTTAGCGGCGTTTTTTT
* * **
57922048 ATAAGCGCCGCTATAGAACA-TGA-TCTTTAGCGGCGTTTTT-TTCTAAGCGCCGCTATAGAACA
1 ATAAGCGCCGCTAAAGAACACT-ACT-TTTAGCGGCATTTTTAAAC-AAGCGCCGCTATAGAACA
* ** * * *
57922110 TGA-TCTTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCCTTTTTT
63 TGACT-TTTAGAGGCGTTTTCCTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCCGTTTTT
57922174 TATGTAAGCGCCGCAAAAG
127 TA-GTAAGCGCCGCAAAAG
57922193 TTAGCGACGT
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
167 4 0.03
168 100 0.79
169 8 0.06
171 14 0.11
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (170 bp):
ATAAGCGCCGCTAAAGAACACTACTTTTAGCGGCATTTTTAAACAAGCGCCGCTATAGAACATGA
CTTTTAGAGGCGTTTTCCTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCCGTTTTTTAGT
AAGCGCCGCAAAAGAACATGATCTTTAGCGGCGTTTTTTT
Found at i:57931653 original size:2 final size:2
Alignment explanation
Indices: 57931646--57931678 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
57931636 GTTGTTCCCT
57931646 TA 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 TA T
57931679 TATTTATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57949248 original size:3 final size:3
Alignment explanation
Indices: 57949240--57949294 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
57949230 GAAGATGGCA
57949240 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
57949288 AAG AAG A
1 AAG AAG A
57949295 GGGTGAAGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:57955267 original size:19 final size:19
Alignment explanation
Indices: 57955225--57955261 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
57955215 ATATGTAAAT
57955225 TTTTTATTTTTTATTATAC
1 TTTTTATTTTTTATTATAC
57955244 TTTTTAGTTTTTT-TTATA
1 TTTTTA-TTTTTTATTATA
57955262 TATTTTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTTATTTTTTATTATAC
Found at i:57955544 original size:24 final size:23
Alignment explanation
Indices: 57955517--57955561 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
57955507 ATATTGTTCG
57955517 TGAACATGTTCAATTATATGTTTA
1 TGAACATGTTCAATTA-ATGTTTA
*
57955541 TGAACATGTTCATTTAATGTT
1 TGAACATGTTCAATTAATGTT
57955562 CGTAAACATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (23 bp):
TGAACATGTTCAATTAATGTTTA
Found at i:57956151 original size:18 final size:17
Alignment explanation
Indices: 57956113--57956163 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
57956103 TATGAAACAT
* *
57956113 TTAAAAAATTAAAAATT
1 TTAAAAATTTAAAAATA
57956130 TTAAAAATTTAAAAATCA
1 TTAAAAATTTAAAAAT-A
*
57956148 TTAAAAATTTAGAAAT
1 TTAAAAATTTAAAAAT
57956164 TTTTTGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
TTAAAAATTTAAAAATA
Found at i:57956163 original size:8 final size:8
Alignment explanation
Indices: 57956111--57956165 Score: 65
Period size: 8 Copynumber: 6.5 Consensus size: 8
57956101 ATTATGAAAC
57956111 ATTTAAAA
1 ATTTAAAA
*
57956119 AATTAAAA
1 ATTTAAAA
57956127 ATTTTAAAA
1 A-TTTAAAA
57956136 ATTTAAAA
1 ATTTAAAA
57956144 ATCATTAAAA
1 AT--TTAAAA
*
57956154 ATTTAGAA
1 ATTTAAAA
57956162 ATTT
1 ATTT
57956166 TTTGAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
8 26 0.63
9 7 0.17
10 8 0.20
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (8 bp):
ATTTAAAA
Found at i:57957869 original size:42 final size:42
Alignment explanation
Indices: 57957797--57957929 Score: 158
Period size: 42 Copynumber: 3.2 Consensus size: 42
57957787 TCACATTAGT
* ** *
57957797 TTCTGTTCAACCCTAATGGGTTTCCCTTCAGCTCTTTTGAGC
1 TTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
* *
57957839 TTATGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
* * * * * *
57957881 TTCCGTTCAACCCTTACGAGTTTCTGTTTAGCACTTATGTGC
1 TTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
57957923 TTCTGTT
1 TTCTGTT
57957930 TAGCCTTCAG
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (42 bp):
TTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
Found at i:57957875 original size:21 final size:21
Alignment explanation
Indices: 57957794--57957908 Score: 86
Period size: 21 Copynumber: 5.5 Consensus size: 21
57957784 AACTCACATT
*
57957794 AGTTTCTGTTCAACCCTAATG
1 AGTTTCTGTTCAACCCTTATG
* ** * * *
57957815 GGTTTCCCTTCAGCTCTTTTG
1 AGTTTCTGTTCAACCCTTATG
* * *
57957836 AGCTTATGTTTAACCCTTATG
1 AGTTTCTGTTCAACCCTTATG
* * *
57957857 GGTTTCTGTTCAGCTCTTATG
1 AGTTTCTGTTCAACCCTTATG
* * *
57957878 AGCTTCCGTTCAACCCTTACG
1 AGTTTCTGTTCAACCCTTATG
57957899 AGTTTCTGTT
1 AGTTTCTGTT
57957909 TAGCACTTAT
Statistics
Matches: 64, Mismatches: 30, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (21 bp):
AGTTTCTGTTCAACCCTTATG
Found at i:57961702 original size:20 final size:20
Alignment explanation
Indices: 57961656--57961702 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
57961646 TAGGGACTAA
*
57961656 ATTGAAAAGATTTAAAATTT
1 ATTGAAAAAATTTAAAATTT
*
57961676 ATGGAAAAAATTCT-AAATTT
1 ATTGAAAAAATT-TAAAATTT
*
57961696 TTTGAAA
1 ATTGAAA
57961703 TACATGGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
ATTGAAAAAATTTAAAATTT
Found at i:57962329 original size:74 final size:74
Alignment explanation
Indices: 57962230--57962371 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 74
57962220 ATCATGAGCA
* * * * * * *
57962230 TCTCGATATTTGGCTCTTATGAGCTTCCTGTTATATGATTTTTACGAGCTTCCCGTTTACGGCTC
1 TCTCGATAATTGACTCTTATGAGCTTCCTGATAAATGACTCTTACGAGCTTCCCGTTAACGGCTC
57962295 TTCAGAGTT
66 TTCAGAGTT
* * *
57962304 TCTCGATAATTGACTCTTCA-GAGCTTCCTGATAAATGGCTCTTATGAGCTTCCCGTTAATGGCT
1 TCTCGATAATTGACTCTT-ATGAGCTTCCTGATAAATGACTCTTACGAGCTTCCCGTTAACGGCT
57962368 CTTC
65 CTTC
57962372 GGAGCTTCCT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
74 56 0.98
75 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (74 bp):
TCTCGATAATTGACTCTTATGAGCTTCCTGATAAATGACTCTTACGAGCTTCCCGTTAACGGCTC
TTCAGAGTT
Found at i:57962336 original size:25 final size:24
Alignment explanation
Indices: 57962290--57962407 Score: 98
Period size: 25 Copynumber: 4.8 Consensus size: 24
57962280 TCCCGTTTAC
*
57962290 GGCTCTTCAGAG-TTTCTCGATAATT
1 GGCTCTTCAGAGCTTCCT-GATAA-T
*
57962315 GACTCTTCAGAGCTTCCTGATAAAT
1 GGCTCTTCAGAGCTTCCTGAT-AAT
* *
57962340 GGCTCTT-ATGAGCTTCCCGTTAAT
1 GGCTCTTCA-GAGCTTCCTGATAAT
* *
57962364 GGCTCTTCGGAGCTTCCTGTTACAT
1 GGCTCTTCAGAGCTTCCTGATA-AT
*
57962389 GGCTC-ACATGAGCTTCCTG
1 GGCTCTTCA-GAGCTTCCTG
57962408 GTATATGGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
24 24 0.31
25 48 0.62
26 6 0.08
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (24 bp):
GGCTCTTCAGAGCTTCCTGATAAT
Found at i:57965920 original size:62 final size:63
Alignment explanation
Indices: 57965792--57965922 Score: 149
Period size: 62 Copynumber: 2.1 Consensus size: 63
57965782 GTACACGCCT
* * * * * * *
57965792 GTGTCCCTGAACGTGTGGCTTTTATACCACAAACAATGAGTTACACGGCCTCGGCACTCGCTC
1 GTGTCCCTGAACGTGTGGCTTGTATACCACAAACAATGAGTTACACGACCTAGACACACACCC
** *
57965855 GTGTCCCTGGCCGTGTGGTCTTGT-T-CCACAAACAGTGAGTTACACGACCTAGACACACACCC
1 GTGTCCCTGAACGTGTGG-CTTGTATACCACAAACAATGAGTTACACGACCTAGACACACACCC
57965917 GTGTCC
1 GTGTCC
57965923 GTTGCCCGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
62 36 0.63
63 17 0.30
64 4 0.07
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (63 bp):
GTGTCCCTGAACGTGTGGCTTGTATACCACAAACAATGAGTTACACGACCTAGACACACACCC
Found at i:57971377 original size:90 final size:88
Alignment explanation
Indices: 57971156--57971389 Score: 265
Period size: 90 Copynumber: 2.6 Consensus size: 88
57971146 TATATATTGT
* * *
57971156 CGAATTGATTTGTATATGGATAAATATATTGCCG-AATTAATT-TATATATATATATAGCCGAAT
1 CGAATTGATTTGTATAT-G-TATATATATTGCCGAAATGAATTGTATATATATACATAGCCGAAT
* **
57971219 TGATTTGTATGTGGATATACACTGT
64 TGATTTGTATATGGATATACACTAC
* * * * * *
57971244 TGAATTGATTTGTATATGGATATAAATTGCCGAATTGATTTGTATATGGATATACATTGCCGAAT
1 CGAATTGATTTGTATATGTATATATATTGCCGAAATGAATTGTATAT--ATATACATAGCCGAAT
*
57971309 TGATTTGTATATGGATATACATTAC
64 TGATTTGTATATGGATATACACTAC
* * **
57971334 CGAATTGATTTGTATATGTATATATATTTCTGAAATGAATTGTATACGTATACATA
1 CGAATTGATTTGTATATGTATATATATTGCCGAAATGAATTGTATATATATACATA
57971390 TATATTGCCG
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
86 11 0.09
87 6 0.05
88 28 0.24
90 74 0.62
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (88 bp):
CGAATTGATTTGTATATGTATATATATTGCCGAAATGAATTGTATATATATACATAGCCGAATTG
ATTTGTATATGGATATACACTAC
Found at i:57971379 original size:30 final size:30
Alignment explanation
Indices: 57971146--57971357 Score: 261
Period size: 30 Copynumber: 7.1 Consensus size: 30
57971136 GTATATGTTT
* *
57971146 TATATATTGTCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
57971176 TAAATATATTGCCGAATT-AATT-TATAT--A
1 T--ATACATTGCCGAATTGATTTGTATATGGA
* * *
57971204 TATATATAGCCGAATTGATTTGTATGTGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* **
57971234 TATACACTGTTGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
57971264 TATAAATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
57971294 TATACATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
57971324 TATACATTACCGAATTGATTTGTATATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
57971354 TATA
1 TATA
57971358 TATTTCTGAA
Statistics
Matches: 158, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
26 14 0.09
27 3 0.02
28 6 0.04
30 118 0.75
31 3 0.02
32 14 0.09
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:57978344 original size:30 final size:30
Alignment explanation
Indices: 57978304--57978569 Score: 313
Period size: 30 Copynumber: 8.9 Consensus size: 30
57978294 ATGTATTTCT
*
57978304 GAATTGATTTGTATATGGATATATATTGTCC
1 GAATTGATTTGTATATGGATATACATTG-CC
* ** *
57978335 -AATTAATTTGTATATATATATATATATAGCC
1 GAATTGATTTGTATATGGATATACAT-T-GCC
* ***
57978366 GAATTGATTTGTATATGAATATACATTATT
1 GAATTGATTTGTATATGGATATACATTGCC
*
57978396 GAATTGATTTGTTTATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
57978426 GAATTGATTTGTATATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
* *
57978456 AAATTGATTTGTATATGGATATACATTACC
1 GAATTGATTTGTATATGGATATACATTGCC
* * *
57978486 GAATTGATTTGTATATAGATATACATTACT
1 GAATTGATTTGTATATGGATATACATTGCC
* * *
57978516 GAATTTATTTGTATATGTATATATATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
*
57978546 GAAATGATTTGTATAT-G-TATACAT
1 GAATTGATTTGTATATGGATATACAT
57978570 ATATATTGTC
Statistics
Matches: 201, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
28 6 0.03
30 169 0.84
31 4 0.02
32 22 0.11
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (30 bp):
GAATTGATTTGTATATGGATATACATTGCC
Found at i:57978478 original size:90 final size:90
Alignment explanation
Indices: 57978302--57978569 Score: 346
Period size: 90 Copynumber: 3.0 Consensus size: 90
57978292 TTATGTATTT
* *
57978302 CTGAATTGATTTGTATATGGATATATATTGTCC-AATTAATTTGTATATATATATATATATAGCC
1 CTGAATTGATTTGTATATGGATATACATTG-CCGAATTAATTTGTATATGTATATATAT-T-GCC
* *
57978366 GAATTGATTTGTATATGAATATACATTA
63 AAATTGATTTGTATATGGATATACATTA
* * * * *
57978394 TTGAATTGATTTGTTTATGGATATACATTGCCGAATTGATTTGTATATGGATATACATTGCCAAA
1 CTGAATTGATTTGTATATGGATATACATTGCCGAATTAATTTGTATATGTATATATATTGCCAAA
57978459 TTGATTTGTATATGGATATACATTA
66 TTGATTTGTATATGGATATACATTA
* * * * *
57978484 CCGAATTGATTTGTATATAGATATACATTACTGAATTTATTTGTATATGTATATATATTGCCGAA
1 CTGAATTGATTTGTATATGGATATACATTGCCGAATTAATTTGTATATGTATATATATTGCC-AA
57978549 A-TGATTTGTATAT-G-TATACAT
65 ATTGATTTGTATATGGATATACAT
57978570 ATATATTGTC
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
88 7 0.04
89 1 0.01
90 94 0.60
91 6 0.04
92 48 0.31
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (90 bp):
CTGAATTGATTTGTATATGGATATACATTGCCGAATTAATTTGTATATGTATATATATTGCCAAA
TTGATTTGTATATGGATATACATTA
Found at i:57978750 original size:41 final size:42
Alignment explanation
Indices: 57978700--57978831 Score: 137
Period size: 43 Copynumber: 3.1 Consensus size: 42
57978690 TAAGGACTTC
* *
57978700 CGATGAGTGATTTCATGTAAGACCATGTCTGGGACATTGGCAT
1 CGAT-AGTGAATTCGTGTAAGACCATGTCTGGGACATTGGCAT
**
57978743 CGA-AGTGAGAAAACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATAGT--GAATTCGTGTAAGACCATGTCTGGGACATTGGCAT
* *
57978786 CGTATA-T-AATTCGTATAAGA-CATTGTCTGGGACAGTGGCAT
1 CG-ATAGTGAATTCGTGTAAGACCA-TGTCTGGGACATTGGCAT
57978827 CGATA
1 CGATA
57978832 TGCGTTAACG
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
40 5 0.07
41 32 0.42
43 36 0.47
44 2 0.03
45 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (42 bp):
CGATAGTGAATTCGTGTAAGACCATGTCTGGGACATTGGCAT
Found at i:57978762 original size:43 final size:41
Alignment explanation
Indices: 57978715--57978829 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 41
57978705 AGTGATTTCA
57978715 TGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAA-T-AGAAAACG
* * **
57978758 TGTAAGACCATGTCTGGGACATTGGCATCGTATATAATTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAATAGAAAACG
* *
57978799 TATAAGA-CATTGTCTGGGACAGTGGCATCGA
1 TGTAAGACCA-TGTCTGGGACATTGGCATCGA
57978830 TATGCGTTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
40 2 0.03
41 30 0.47
42 1 0.02
43 31 0.48
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGAATAGAAAACG
Found at i:57981885 original size:10 final size:10
Alignment explanation
Indices: 57981836--57981883 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
57981826 TAAATTCCCA
57981836 AAAGATAAAT
1 AAAGATAAAT
* ** *
57981846 ACATTTAATT
1 AAAGATAAAT
57981856 AAAGATAAAT
1 AAAGATAAAT
57981866 AAAGATAAAT
1 AAAGATAAAT
57981876 AAA-ATAAA
1 AAAGATAAA
57981884 ATCCTAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:57984515 original size:24 final size:23
Alignment explanation
Indices: 57984452--57984533 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 23
57984442 CTATATAATA
*
57984452 GGAAGCTCAGAAGAGCCATAATTG
1 GGAAGCTCAG-AGAGCCATAATGG
*
57984476 GGAAGCTCATGCGAGCC-TATATGG
1 GGAAGCTCA-GAGAGCCATA-ATGG
* **
57984500 GGAAGCTCCAGAGAGCAATTAATCA
1 GGAAGCT-CAGAGAGCCA-TAATGG
57984525 GGAAGCTCA
1 GGAAGCTCA
57984534 TAAAAGAACC
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
23 2 0.04
24 31 0.66
25 12 0.26
26 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (23 bp):
GGAAGCTCAGAGAGCCATAATGG
Found at i:57987975 original size:18 final size:17
Alignment explanation
Indices: 57987954--57987996 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
57987944 AAAAAAATGT
57987954 TTTGAAATTGAATAATAA
1 TTTGAAA-TGAATAATAA
*
57987972 TTTGTAAATGAATAATAT
1 TTTG-AAATGAATAATAA
57987990 TTTGAAA
1 TTTGAAA
57987997 ACGAACGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (17 bp):
TTTGAAATGAATAATAA
Found at i:57989328 original size:126 final size:126
Alignment explanation
Indices: 57989103--57989339 Score: 429
Period size: 126 Copynumber: 1.9 Consensus size: 126
57989093 TTCATAATCT
*
57989103 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCAATACAAGATTTTAATAA
1 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCAATACAAGATATTAATAA
57989168 ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATTGGTATCTTTTAAAAC
66 ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATTGGTATCTTTTAAAAC
* * * *
57989229 CAATATAAGATCCATTATAAATATCTTTTAAAACCGATGGATTAACCATTACAAGATATTAATAT
1 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCAATACAAGATATTAATAA
57989294 ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATT
66 ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATT
57989340 AGAATATATT
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 106 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.38
Consensus pattern (126 bp):
CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCAATACAAGATATTAATAA
ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATTGGTATCTTTTAAAAC
Found at i:57993508 original size:15 final size:15
Alignment explanation
Indices: 57993488--57993518 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57993478 TCACTTTTCG
57993488 AGCCAACCTTCGTCT
1 AGCCAACCTTCGTCT
57993503 AGCCAACCTTCGTCT
1 AGCCAACCTTCGTCT
57993518 A
1 A
57993519 ATTATCAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.39, G:0.13, T:0.26
Consensus pattern (15 bp):
AGCCAACCTTCGTCT
Found at i:57994453 original size:3 final size:3
Alignment explanation
Indices: 57994445--57994478 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
57994435 AGTACAAATG
57994445 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
57994479 TATGAGACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:57996550 original size:18 final size:18
Alignment explanation
Indices: 57996502--57996553 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
57996492 TATATTTACA
57996502 AAATA-AAAGAAATATATG
1 AAATATAAA-AAATATATG
* *
57996520 -AGTATATATAAATATATG
1 AAATATA-AAAAATATATG
57996538 AAATATAAAAAATATA
1 AAATATAAAAAATATA
57996554 AAAATTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 3 0.11
18 18 0.67
19 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (18 bp):
AAATATAAAAAATATATG
Found at i:57998550 original size:133 final size:132
Alignment explanation
Indices: 57998248--57999138 Score: 1127
Period size: 133 Copynumber: 6.7 Consensus size: 132
57998238 ATAGGATTGG
* * * * * * *
57998248 TGGCTTCAACGTACTCCATTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
* * * *
57998313 ACTGCT-TAGGG-AGACAAGATCTGAAATCTTCAATCTATT-CGCTGCTGCCCAGGGAAGTAGAA
66 -CTGCTAT-GGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
*
57998375 TTAC
129 TTTC
* * * * *
57998379 CGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
* * * *
57998444 ACTGCT-TGGGGAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGAAAGTAGAA
66 -CTGCTATGGGAAGGCAAGATCTGAAATC-TTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
57998508 TTTC
129 TTTC
*
57998512 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCTTCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
* * *
57998577 -TTCTATGCAAGAAGGCAAGATCTGAAACCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
66 CTGCTATG--GGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
57998641 TTTC
129 TTTC
*
57998645 TGGCTTCAATGTACTCCACTGCAACCTTAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
* * * *
57998710 GT-TTATGCAGGAAGGCAATATCTGAAATCTTTAATCTATTCCACTGTTGACCAGGGAAGTAGAA
66 CTGCTATG--GGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
57998774 TTTC
129 TTTC
* *
57998778 TGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
* * * *
57998843 GT-TTATGTAGGAAGGCAAGATCTGAAATCTTTGATCTATTCCACTGCTGCCCAGGGAAGTAGAA
66 CTGCTATG--GGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
57998907 TTTC
129 TTTC
* * *
57998911 TGGCTTCAATGTACTCCACTGCAACTTTAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
* * *
57998976 GT-CTATGCAGGAAGGCAATATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
66 CTGCTATG--GGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
*
57999040 TTAC
129 TTTC
* * * * * *
57999044 TGGCTTCAATGTACTCCACTGCAACTTCATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
* *
57999109 ACTGCT-TAGGG-AGACAAGACCTGAAATCTT
66 -CTGCTAT-GGGAAGGCAAGATCTGAAATCTT
57999139 CAACCTGCTC
Statistics
Matches: 691, Mismatches: 59, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
130 3 0.00
131 83 0.12
132 28 0.04
133 556 0.80
134 18 0.03
135 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
CTGCTATGGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAATT
TC
Found at i:57998905 original size:399 final size:397
Alignment explanation
Indices: 57998248--57999141 Score: 1252
Period size: 399 Copynumber: 2.2 Consensus size: 397
57998238 ATAGGATTGG
* * * *
57998248 TGGCTTCAACGTACTCCATTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTTAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
* * * * *
57998313 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCGCTGCTGCCCAGGGAAGTAGAATTA
66 ACTGATCAGGAAGACAAGATCTGAAATCTTCAATCTATTCACTGCTGACCAGGGAAGTAGAATTA
* * *
57998378 CCGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTGCTCCAC
131 CCGGCTTCAATATACTCCACTGCAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCAC
* * *
57998443 TACTGCTTGGGGAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGAAAGTAGAA
196 TACTGATTAGGAAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGAAAGTAGAA
* *
57998508 TTTCTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCTTCTTTGATCTGCTC
261 TTTCTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTC
*
57998573 CGCTTTCTATGCAAGAAGGCAAGATCTGAAACCTTTAATCTATTCCACTGCTGACCAGGGAAGTA
326 CGCTGTCTATGCAAGAAGGCAAGATCTGAAACCTTTAATCTATTCCACTGCTGACCAGGGAAGTA
*
57998638 GAATTTC
391 GAATTAC
* * * *
57998645 TGGCTTCAATGTACTCCACTGCAACCTTAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTTAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
** * * * * *
57998710 GTTTATGCAGGAAGGCAATATCTGAAATCTTTAATCTATTCCACTGTTGACCAGGGAAGTAGAAT
66 ACTGAT-CAGGAAGACAAGATCTGAAATCTTCAATCTATT-CACTGCTGACCAGGGAAGTAGAAT
* * **
57998775 TTCTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCC
129 TACCGGCTTCAATATACTCCACTGCAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCC
* ** * * * * * *
57998840 GCTGTTTATGTAGGAAGGCAAGATCTGAAATC-TTTGATCTATTCCACTGCTGCCCAGGGAAGTA
194 ACTACTGAT-TAGGAAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGAAAGTA
* *
57998904 GAATTTCTGGCTTCAATGTACTCCACTGCAACTTTAGGGAGGTAAAATCCACCATCTTTGATCTG
258 GAATTTCTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTG
* * * *
57998969 CTCCGCTGTCTATGCAGGAAGGCAATATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
323 CTCCGCTGTCTATGCAAGAAGGCAAGATCTGAAACCTTTAATCTATTCCACTGCTGACCAGGGAA
57999034 GTAGAATTAC
388 GTAGAATTAC
*
57999044 TGGCTTCAATGTACTCCACTGCAA-CTTCATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
1 TGGCTTCAATGTACTCCACTGCAACCTT-AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
* * * *
57999108 TACTGCTTAGGGAGACAAGACCTGAAATCTTCAA
65 TACTGATCAGGAAGACAAGATCTGAAATCTTCAA
57999142 CCTGCTCCAC
Statistics
Matches: 429, Mismatches: 64, Indels: 7
0.86 0.13 0.01
Matches are distributed among these distances:
397 59 0.14
398 52 0.12
399 300 0.70
400 18 0.04
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (397 bp):
TGGCTTCAATGTACTCCACTGCAACCTTAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
ACTGATCAGGAAGACAAGATCTGAAATCTTCAATCTATTCACTGCTGACCAGGGAAGTAGAATTA
CCGGCTTCAATATACTCCACTGCAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCAC
TACTGATTAGGAAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGAAAGTAGAA
TTTCTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTC
CGCTGTCTATGCAAGAAGGCAAGATCTGAAACCTTTAATCTATTCCACTGCTGACCAGGGAAGTA
GAATTAC
Found at i:58004059 original size:19 final size:19
Alignment explanation
Indices: 58004035--58004080 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
58004025 AGAGGTGTTT
* *
58004035 AATGCATATG-ATGCAATG
1 AATGCAAATGCATGAAATG
58004053 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
58004073 AATGCAAA
1 AATGCAAA
58004081 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:58004268 original size:28 final size:28
Alignment explanation
Indices: 58004236--58004319 Score: 168
Period size: 28 Copynumber: 3.0 Consensus size: 28
58004226 AAACCTTGCG
58004236 AACTCTTCAAAAGGAGCGTCTCTTCTAT
1 AACTCTTCAAAAGGAGCGTCTCTTCTAT
58004264 AACTCTTCAAAAGGAGCGTCTCTTCTAT
1 AACTCTTCAAAAGGAGCGTCTCTTCTAT
58004292 AACTCTTCAAAAGGAGCGTCTCTTCTAT
1 AACTCTTCAAAAGGAGCGTCTCTTCTAT
58004320 CTCTTTTTGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (28 bp):
AACTCTTCAAAAGGAGCGTCTCTTCTAT
Found at i:58008415 original size:56 final size:56
Alignment explanation
Indices: 58008332--58008438 Score: 178
Period size: 56 Copynumber: 1.9 Consensus size: 56
58008322 CATACCTCTA
* *
58008332 TAGGAAGTTTAATGTATATACAGTGGAAGAAGAGTAATACAAATTGTTTACAACTC
1 TAGGAAGTTTAATGTATATACACTGGAAGAAGAGGAATACAAATTGTTTACAACTC
**
58008388 TAGGAAGTTTAATGTATATAGTCTGGAAGAAGAGGAATACAAATTGTTTAC
1 TAGGAAGTTTAATGTATATACACTGGAAGAAGAGGAATACAAATTGTTTAC
58008439 TTTATTTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (56 bp):
TAGGAAGTTTAATGTATATACACTGGAAGAAGAGGAATACAAATTGTTTACAACTC
Found at i:58016405 original size:7 final size:7
Alignment explanation
Indices: 58016393--58016417 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58016383 CTTTCATATT
58016393 TTCTTTA
1 TTCTTTA
58016400 TTCTTTA
1 TTCTTTA
58016407 TTCTTTA
1 TTCTTTA
58016414 TTCT
1 TTCT
58016418 CTCCATCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTTA
Found at i:58017049 original size:44 final size:44
Alignment explanation
Indices: 58016963--58017050 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
58016953 AAAACAAAAA
* **
58016963 TTGAATTCAACCATGAGATCATCCTTCATCTTTGTCGGACTCAT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
* *
58017007 TTGAATTCAACCATGAGATCATCTTTGATCTTTCTCCAACTCAT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
58017051 CTTTCTTAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (44 bp):
TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
Found at i:58020655 original size:12 final size:11
Alignment explanation
Indices: 58020600--58020674 Score: 53
Period size: 12 Copynumber: 6.4 Consensus size: 11
58020590 TATTTTGCAC
*
58020600 ATTTTGTTATT
1 ATTTTTTTATT
* *
58020611 ATTATTCTCATT
1 ATT-TTTTTATT
*
58020623 ATTATTGTTATT
1 ATT-TTTTTATT
58020635 ATTTATTTTTCATT
1 A-TT-TTTTT-ATT
58020649 ATTTTTTTTATT
1 A-TTTTTTTATT
58020661 -TTTTTTTATT
1 ATTTTTTTATT
58020671 ATTT
1 ATTT
58020675 AATTAGTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
10 10 0.18
11 6 0.11
12 20 0.36
13 12 0.22
14 7 0.13
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (11 bp):
ATTTTTTTATT
Found at i:58022104 original size:2 final size:2
Alignment explanation
Indices: 58022099--58022126 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
58022089 TCATTATTAT
58022099 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58022127 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:58023082 original size:23 final size:22
Alignment explanation
Indices: 58023039--58023082 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
58023029 TTTCAAGTCA
58023039 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
58023062 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
58023083 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:58023207 original size:23 final size:23
Alignment explanation
Indices: 58023181--58023256 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
58023171 ATAAGTGCCA
58023181 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
58023204 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
58023227 CACTGAAATGTAGCCGAAACTAC
1 CACTGATATGTAGCCGAAGCTAC
58023250 CACTGAT
1 CACTGAT
58023257 CAATAACACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:58025065 original size:23 final size:23
Alignment explanation
Indices: 58025033--58025082 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
58025023 GGTCCTTTTT
58025033 GAAAAAAAAGAGAAATC-AAATAC
1 GAAAAAAAAG-GAAATCGAAATAC
* *
58025056 GAAAACAAAGGCAATCGAAATAC
1 GAAAAAAAAGGAAATCGAAATAC
58025079 -AAAA
1 GAAAA
58025083 TCGAAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.66, C:0.12, G:0.14, T:0.08
Consensus pattern (23 bp):
GAAAAAAAAGGAAATCGAAATAC
Found at i:58027140 original size:46 final size:46
Alignment explanation
Indices: 58027067--58027343 Score: 473
Period size: 46 Copynumber: 6.0 Consensus size: 46
58027057 ACATTGTTAT
* *
58027067 AACTCAGTATGGTTTTCTTCACAGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * *
58027113 AACTCAGTATGGTTTTCTTTACCGAAATACCATACTTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
58027159 AACTCAGTATGGTTTTCTTTACCGAAACACCATACCTACTTTTAAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
*
58027205 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
*
58027251 AACTTAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
58027297 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
58027343 A
1 A
58027344 CTTTGCCATG
Statistics
Matches: 219, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 219 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:58039944 original size:58 final size:58
Alignment explanation
Indices: 58039854--58040191 Score: 438
Period size: 58 Copynumber: 6.1 Consensus size: 58
58039844 ACTTCTGATC
*
58039854 AGTGATAAGTTATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* *
58039912 AGTGATAACTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACAAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* *
58039970 AGTGATAAGTGATAAGTGGTAGC-TTAGCTACCCTTATCTGATAAGTGACAAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * * *
58040027 AGTGATAAGTGATAAGTGATAGCTTCATCTACACTTATCTAATCA--G-C--G-G-CA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
*
58040078 AGTGATAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAGTGACAA--G-C-
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * * *
58040132 --TG-CAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGGGACAAGAGATA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
58040186 AGTGAT
1 AGTGAT
58040192 CATACGTAAG
Statistics
Matches: 246, Mismatches: 21, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
50 27 0.11
51 59 0.24
52 4 0.02
53 2 0.01
54 1 0.00
55 3 0.01
56 3 0.01
57 54 0.22
58 93 0.38
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (58 bp):
AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:58039965 original size:51 final size:50
Alignment explanation
Indices: 58039905--58040191 Score: 315
Period size: 51 Copynumber: 5.4 Consensus size: 50
58039895 ATCAGTGACA
*
58039905 AGTGACAAGTGATAACTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGAC
1 AGTGACAAGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTG---A-T--C
*
58039962 AAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACCCTTATCTGATAAGTGAC
1 -AGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTG---A-T--C
* * *
58040019 AAGTGACAAGTGATAAGTGATAAGTGATAGCTTCATCTACACTTATCTAATC
1 -AGTGACAAGTGATAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATC
* *
58040071 AGCGGCAAGTGATAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC
*
58040122 AGTGACAAGCTG-CAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAG-TGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
* *
58040172 AGGGACAAGAGATAAGTGAT
1 AGTGACAAGTGATAAGTGAT
58040192 CATACGTAAG
Statistics
Matches: 207, Mismatches: 18, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
49 1 0.00
50 35 0.17
51 67 0.32
52 5 0.02
54 1 0.00
55 1 0.00
57 56 0.27
58 41 0.20
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
Found at i:58040046 original size:7 final size:7
Alignment explanation
Indices: 58040008--58040047 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
58039998 TACCCTTATC
58040008 TGATAAG
1 TGATAAG
*
58040015 TGACAAG
1 TGATAAG
*
58040022 TGACAAG
1 TGATAAG
58040029 TGATAAG
1 TGATAAG
58040036 TGATAAG
1 TGATAAG
58040043 TGATA
1 TGATA
58040048 GCTTCATCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (7 bp):
TGATAAG
Found at i:58040660 original size:23 final size:23
Alignment explanation
Indices: 58040634--58040682 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
58040624 ATATTTTGAG
58040634 GATATATTGTGAAGATTTATAAA
1 GATATATTGTGAAGATTTATAAA
*
58040657 GATATATTGTGAAGATTTATTAA
1 GATATATTGTGAAGATTTATAAA
58040680 GAT
1 GAT
58040683 TATAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (23 bp):
GATATATTGTGAAGATTTATAAA
Found at i:58041025 original size:12 final size:12
Alignment explanation
Indices: 58041010--58041048 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
58041000 ACTTTCTTCT
58041010 TTACTTAGTTT-C
1 TTACTT-GTTTAC
58041022 TTACTTGTTTAC
1 TTACTTGTTTAC
*
58041034 TTACTTGCTTAC
1 TTACTTGTTTAC
58041046 TTA
1 TTA
58041049 AATAACTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.56
Consensus pattern (12 bp):
TTACTTGTTTAC
Found at i:58041034 original size:20 final size:20
Alignment explanation
Indices: 58041009--58041047 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58040999 TACTTTCTTC
* *
58041009 TTTACTTAGTTTCTTACTTG
1 TTTACTTACTTGCTTACTTG
58041029 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
58041048 AAATAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.08, T:0.59
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:58041418 original size:50 final size:50
Alignment explanation
Indices: 58041239--58041426 Score: 164
Period size: 50 Copynumber: 3.8 Consensus size: 50
58041229 ACATGTCAAA
* ** * * *
58041239 GCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCTGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGGTGCCAAT
* * * * * ** *
58041288 GCCATATCCCAAATATGATCTTACATGAGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
* *** *
58041338 GCCATGTCTCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
**
58041388 TTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
58041427 ACCTCACTTA
Statistics
Matches: 107, Mismatches: 30, Indels: 3
0.76 0.21 0.02
Matches are distributed among these distances:
48 1 0.01
49 31 0.29
50 75 0.70
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
Found at i:58041626 original size:22 final size:21
Alignment explanation
Indices: 58041579--58041622 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
58041569 TCTACATTAA
* *
58041579 ATAATTTCATAAAATAAGTAC
1 ATAATTTCAGAAAATAAGCAC
58041600 ATAATTTCTAGAAAATAA-CAC
1 ATAATTTC-AGAAAATAAGCAC
58041621 AT
1 AT
58041623 TAATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (21 bp):
ATAATTTCAGAAAATAAGCAC
Found at i:58042613 original size:30 final size:30
Alignment explanation
Indices: 58042574--58042640 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
58042564 CACATGCATC
58042574 CAATCAATAGGTAAATCATAAAAATTAATCA
1 CAAT-AATAGGTAAATCATAAAAATTAATCA
58042605 CAATAATAGGTAAATCATAAAAATTAATCA
1 CAATAATAGGTAAATCATAAAAATTAATCA
58042635 CAATAA
1 CAATAA
58042641 ACTTTTCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.57, C:0.12, G:0.06, T:0.25
Consensus pattern (30 bp):
CAATAATAGGTAAATCATAAAAATTAATCA
Found at i:58048970 original size:50 final size:50
Alignment explanation
Indices: 58048849--58049036 Score: 155
Period size: 50 Copynumber: 3.8 Consensus size: 50
58048839 ACATGCGAAA
* ** * * * *
58048849 GCCATGTCCCAGACATGTTCTTAC-GTGGGATGTTTCCTGTAC-TACCAAT
1 GCCATGTCCCAGACATGATCTTACAG-GGGACATCTCATATACGTGCCAAT
* * * * ** * *
58048898 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCAT
1 GCCATGTCCCAGACATGATCTTACAGGGGACATCTCATATACGTGCCAAT
** * * * *
58048948 GCCATGTCTTAGACATGATCTTACGGGGGACCTCTCATCTCCGTGCCAAT
1 GCCATGTCCCAGACATGATCTTACAGGGGACATCTCATATACGTGCCAAT
*
58048998 GCCATGTCCCAGACATGGTCTTACAGGGGACATCTCATA
1 GCCATGTCCCAGACATGATCTTACAGGGGACATCTCATA
58049037 ACCTCAATAA
Statistics
Matches: 106, Mismatches: 31, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
49 31 0.29
50 75 0.71
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGATCTTACAGGGGACATCTCATATACGTGCCAAT
Found at i:58056283 original size:24 final size:24
Alignment explanation
Indices: 58056256--58056327 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 24
58056246 GGATTGCTCC
58056256 GAGTCATGTAGAAGCCATCTCGAT
1 GAGTCATGTAGAAGCCATCTCGAT
* * **
58056280 GAGTGA-GT-TAAG-TTTGCTC--T
1 GAGTCATGTAGAAGCCAT-CTCGAT
58056300 GAGTCATGTAGAAGCCATCTCGAT
1 GAGTCATGTAGAAGCCATCTCGAT
58056324 GAGT
1 GAGT
58056328 GAGTTAAGTC
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
20 6 0.18
21 3 0.09
22 12 0.35
23 3 0.09
24 10 0.29
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (24 bp):
GAGTCATGTAGAAGCCATCTCGAT
Found at i:58056312 original size:44 final size:44
Alignment explanation
Indices: 58056249--58056336 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
58056239 GCGTCAGGGA
58056249 TTGCTCCGAGTCATGTAGAAGCCATCTCGATGAGTGAGTTAAGT
1 TTGCTCCGAGTCATGTAGAAGCCATCTCGATGAGTGAGTTAAGT
*
58056293 TTGCTCTGAGTCATGTAGAAGCCATCTCGATGAGTGAGTTAAGT
1 TTGCTCCGAGTCATGTAGAAGCCATCTCGATGAGTGAGTTAAGT
58056337 CGTACAAGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (44 bp):
TTGCTCCGAGTCATGTAGAAGCCATCTCGATGAGTGAGTTAAGT
Found at i:58056957 original size:21 final size:20
Alignment explanation
Indices: 58056929--58056996 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
58056919 ACAGCAAAAA
58056929 TTTC-CCCTCGTTCTTGCTGG
1 TTTCTCCCTCGTT-TTGCTGG
* *
58056949 TTTCTCCCTTG-TTTACTGG
1 TTTCTCCCTCGTTTTGCTGG
* *
58056968 TTTGTCCCTCGTTTTTGCTAG
1 TTTCTCCCTCG-TTTTGCTGG
58056989 TTTCTCCC
1 TTTCTCCC
58056997 CTCTTTTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 15 0.39
20 5 0.13
21 18 0.47
ACGTcount: A:0.03, C:0.31, G:0.16, T:0.50
Consensus pattern (20 bp):
TTTCTCCCTCGTTTTGCTGG
Found at i:58057003 original size:21 final size:21
Alignment explanation
Indices: 58056929--58057008 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 21
58056919 ACAGCAAAAA
*
58056929 TTTC-CCCTCGTTCTTGCTGG
1 TTTCTCCCTCGTTTTTGCTGG
* *
58056949 TTTCTCCCT--TGTTTACTGG
1 TTTCTCCCTCGTTTTTGCTGG
* *
58056968 TTTGTCCCTCGTTTTTGCTAG
1 TTTCTCCCTCGTTTTTGCTGG
*
58056989 TTTCTCCCCTCTTTTTTGCT
1 TTTCT-CCCTCGTTTTTGCT
58057009 TTGTTCTTGG
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
19 15 0.32
20 4 0.09
21 15 0.32
22 13 0.28
ACGTcount: A:0.03, C:0.30, G:0.15, T:0.53
Consensus pattern (21 bp):
TTTCTCCCTCGTTTTTGCTGG
Found at i:58057012 original size:40 final size:40
Alignment explanation
Indices: 58056933--58057012 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
58056923 CAAAAATTTC
* * * *
58056933 CCCTCGTTCTTGCTGGTTTCTCCCTTGTTTACTGGTTTGT
1 CCCTCGTTCTTGCTAGTTTCTCCCCTCTTTACTGCTTTGT
* **
58056973 CCCTCGTTTTTGCTAGTTTCTCCCCTCTTTTTTGCTTTGT
1 CCCTCGTTCTTGCTAGTTTCTCCCCTCTTTACTGCTTTGT
58057013 TCTTGGTTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.03, C:0.29, G:0.16, T:0.53
Consensus pattern (40 bp):
CCCTCGTTCTTGCTAGTTTCTCCCCTCTTTACTGCTTTGT
Found at i:58059368 original size:7 final size:6
Alignment explanation
Indices: 58059344--58059437 Score: 102
Period size: 6 Copynumber: 15.2 Consensus size: 6
58059334 TATTGTTGAT
58059344 AATGGG AATGGG AATGGG AAATGGG AAATGGG AATTGGG AAT-GG AATGGG
1 AATGGG AATGGG AATGGG -AATGGG -AATGGG AA-TGGG AATGGG AATGGG
* * *
58059394 AATGGG AAATGGG AATGGG TAT-TG CATGGG AATGGG AAATGGG A
1 AATGGG -AATGGG AATGGG AATGGG AATGGG AATGGG -AATGGG A
58059438 GGAGAGAACG
Statistics
Matches: 77, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
5 8 0.10
6 38 0.49
7 31 0.40
ACGTcount: A:0.35, C:0.01, G:0.45, T:0.19
Consensus pattern (6 bp):
AATGGG
Found at i:58059368 original size:13 final size:13
Alignment explanation
Indices: 58059344--58059437 Score: 104
Period size: 13 Copynumber: 7.1 Consensus size: 13
58059334 TATTGTTGAT
58059344 AATGGG-AATGGG
1 AATGGGAAATGGG
58059356 AATGGGAAATGGG
1 AATGGGAAATGGG
*
58059369 AAATGGGAATTGGG
1 -AATGGGAAATGGG
58059383 AAT-GG-AATGGG
1 AATGGGAAATGGG
58059394 AATGGGAAATGGG
1 AATGGGAAATGGG
*
58059407 AATGGGTATTGCATGGG
1 AATGGG-A---AATGGG
58059424 AATGGGAAATGGG
1 AATGGGAAATGGG
58059437 A
1 A
58059438 GGAGAGAACG
Statistics
Matches: 70, Mismatches: 4, Indels: 15
0.79 0.04 0.17
Matches are distributed among these distances:
11 8 0.11
12 10 0.14
13 27 0.39
14 13 0.19
16 1 0.01
17 11 0.16
ACGTcount: A:0.35, C:0.01, G:0.45, T:0.19
Consensus pattern (13 bp):
AATGGGAAATGGG
Found at i:58059524 original size:7 final size:7
Alignment explanation
Indices: 58059512--58059542 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
58059502 GGCACGGTGG
58059512 AATGGGA
1 AATGGGA
58059519 AATGGGA
1 AATGGGA
58059526 AATGGG-
1 AATGGGA
58059532 AATGGGA
1 AATGGGA
58059539 AATG
1 AATG
58059543 AGAATGGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.16
Consensus pattern (7 bp):
AATGGGA
Found at i:58059535 original size:6 final size:6
Alignment explanation
Indices: 58059510--58059575 Score: 53
Period size: 7 Copynumber: 10.5 Consensus size: 6
58059500 AGGGCACGGT
* * * *
58059510 GGAATG GGAAATG GGAAATG GGAATG GGAAATG AGAATG GGTAT- TGCATG
1 GGAATG GG-AATG GG-AATG GGAATG GG-AATG GGAATG GGAATG GGAATG
58059560 GGAATG GGAAATG GGA
1 GGAATG GG-AATG GGA
58059576 GAAGGATACG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 3 0.06
6 22 0.45
7 24 0.49
ACGTcount: A:0.36, C:0.02, G:0.44, T:0.18
Consensus pattern (6 bp):
GGAATG
Done.