Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
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: 4987688
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 20
Found at i:4306526 original size:18 final size:18
Alignment explanation
Indices: 4306503--4306538 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4306493 GATAATTGGT
4306503 TTTCATGGCATTTTTCTA
1 TTTCATGGCATTTTTCTA
4306521 TTTCATGGCATTTTTCTA
1 TTTCATGGCATTTTTCTA
4306539 AGTCAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.56
Consensus pattern (18 bp):
TTTCATGGCATTTTTCTA
Found at i:4307069 original size:18 final size:18
Alignment explanation
Indices: 4307022--4307070 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
4307012 ATATTAATAA
* *
4307022 AATATTAGATTTTTTTAT
1 AATATAAGATTATTTTAT
*
4307040 ACTATAAGATTATTTTAT
1 AATATAAGATTATTTTAT
4307058 AATA-AAGAATTAT
1 AATATAAG-ATTAT
4307071 CCAAGATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (18 bp):
AATATAAGATTATTTTAT
Found at i:4308496 original size:22 final size:23
Alignment explanation
Indices: 4308466--4308512 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
4308456 AAAATATATT
4308466 TATTAATATTTCTAATGAT-ATAA
1 TATTAATATTTCTAAT-ATGATAA
*
4308489 TATT-ATATTTTTAATATGATAA
1 TATTAATATTTCTAATATGATAA
4308511 TA
1 TA
4308513 AAATAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 2 0.09
22 16 0.73
23 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTAATATTTCTAATATGATAA
Found at i:4308653 original size:19 final size:18
Alignment explanation
Indices: 4308629--4308697 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
4308619 ATATTATTCA
4308629 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
4308648 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
4308666 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
4308688 ATT-TTAATAA
1 ATTATTAATAA
4308698 AGATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:4308718 original size:23 final size:23
Alignment explanation
Indices: 4308692--4308736 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4308682 AATAATATTT
4308692 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
4308715 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
4308737 ATATAATACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:4308854 original size:28 final size:28
Alignment explanation
Indices: 4308801--4308884 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
4308791 ATACCAATAT
* *
4308801 TAATATTTTTATTAATAAA-ATTATTAAAA
1 TAATA-TTTTAATAATAAATA-AATTAAAA
***
4308830 TAATATTTTAATAATAAATAAATTATTT
1 TAATATTTTAATAATAAATAAATTAAAA
*
4308858 TAATATTTTAAAAAT-AATAATATTAAA
1 TAATATTTTAATAATAAATAA-ATTAAA
4308885 TTTTATGATA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
27 5 0.11
28 34 0.76
29 6 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
TAATATTTTAATAATAAATAAATTAAAA
Found at i:4309018 original size:14 final size:14
Alignment explanation
Indices: 4308995--4309028 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4308985 CAAACATCGT
*
4308995 AAAATGTTTTTCAG
1 AAAATATTTTTCAG
*
4309009 AAAATATTTTTCAT
1 AAAATATTTTTCAG
4309023 AAAATA
1 AAAATA
4309029 CAATTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (14 bp):
AAAATATTTTTCAG
Found at i:4319580 original size:39 final size:39
Alignment explanation
Indices: 4319537--4319638 Score: 159
Period size: 39 Copynumber: 2.6 Consensus size: 39
4319527 ATAGCATCAA
4319537 TTTAGATTAACTAGAACTCTATCTTATTTGATTTAGTAG
1 TTTAGATTAACTAGAACTCTATCTTATTTGATTTAGTAG
*
4319576 TTTAGATTAACTAGAACTCTATCCTATTTGATTTAGTAG
1 TTTAGATTAACTAGAACTCTATCTTATTTGATTTAGTAG
* * * *
4319615 TTTAAATTAATTATAACTTTATCT
1 TTTAGATTAACTAGAACTCTATCT
4319639 AGGAGTAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (39 bp):
TTTAGATTAACTAGAACTCTATCTTATTTGATTTAGTAG
Found at i:4323975 original size:17 final size:17
Alignment explanation
Indices: 4323955--4323988 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4323945 TTCCATTTGA
4323955 TCACATTTTCAG-TTCAT
1 TCACA-TTTCAGATTCAT
4323972 TCACATTTCAGATTCAT
1 TCACATTTCAGATTCAT
4323989 AGCCTAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (17 bp):
TCACATTTCAGATTCAT
Found at i:4325547 original size:25 final size:24
Alignment explanation
Indices: 4325500--4325547 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4325490 ACAAATTTTT
* * *
4325500 TTTAACTAAAAGTAAAAGTGAATA
1 TTTAACAAAAAATAAAAGAGAATA
4325524 TTTAACAAAAAATAATAAGAGAAT
1 TTTAACAAAAAATAA-AAGAGAAT
4325548 GAAAAGAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.27
Consensus pattern (24 bp):
TTTAACAAAAAATAAAAGAGAATA
Found at i:4328232 original size:13 final size:13
Alignment explanation
Indices: 4328210--4328258 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
4328200 AATGATAAAT
4328210 AATAAAAAAATTAC
1 AATAAAAAAA-TAC
*
4328224 AATAAAAAAATCC
1 AATAAAAAAATAC
* *
4328237 AATAAACAACTAC
1 AATAAAAAAATAC
4328250 AATAAAAAA
1 AATAAAAAA
4328259 GTACTAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 20 0.67
14 10 0.33
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.16
Consensus pattern (13 bp):
AATAAAAAAATAC
Found at i:4328752 original size:33 final size:33
Alignment explanation
Indices: 4328688--4328755 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
4328678 GCCTCCAGGA
* * * *
4328688 GGGGTCATATAATTCTGTGACGGTGGTGGTGGC
1 GGGGTCATATAATTCGGTGAAGGCGGCGGTGGC
4328721 GGGGTCATA-AATTCAGGTGAAGGCGGCGGTGGC
1 GGGGTCATATAATTC-GGTGAAGGCGGCGGTGGC
4328754 GG
1 GG
4328756 TATCTGGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.18, C:0.13, G:0.46, T:0.24
Consensus pattern (33 bp):
GGGGTCATATAATTCGGTGAAGGCGGCGGTGGC
Found at i:4333659 original size:12 final size:12
Alignment explanation
Indices: 4333642--4333674 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4333632 TTCTCCTTCC
4333642 TCTCTTTCTC-TT
1 TCTCTTTC-CGTT
4333654 TCTCTTTCCGTT
1 TCTCTTTCCGTT
4333666 TCTCTTTCC
1 TCTCTTTCC
4333675 CTTCTCTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 1 0.05
12 19 0.95
ACGTcount: A:0.00, C:0.36, G:0.03, T:0.61
Consensus pattern (12 bp):
TCTCTTTCCGTT
Found at i:4336642 original size:110 final size:110
Alignment explanation
Indices: 4336445--4336651 Score: 315
Period size: 110 Copynumber: 1.9 Consensus size: 110
4336435 GCTCTGGAAA
* * * * *
4336445 TTATTTGTTGATAGTCAGCCGCTCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTTCATTA
1 TTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
* *
4336510 TCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
66 TCCCTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAG
* * *
4336555 TTATTTGTTGACAATCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATA
1 TTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
*
4336620 TCCCTCGCTGTGAAGTTAAAATTGGCTCTGAA
66 TCCCTCGCTGTGAAGTTAAAATTGACTCTGAA
4336652 ACTGGGAAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
110 86 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (110 bp):
TTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
TCCCTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAG
Found at i:4337758 original size:11 final size:11
Alignment explanation
Indices: 4337738--4337774 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
4337728 GTTTTTCATT
4337738 TTTTTG-TTTG
1 TTTTTGTTTTG
4337748 TTTTTGTTTTG
1 TTTTTGTTTTG
4337759 -TTTTGTTTTTG
1 TTTTTG-TTTTG
4337770 TTTTT
1 TTTTT
4337775 TTTGACTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 11 0.46
11 9 0.38
12 4 0.17
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
TTTTTGTTTTG
Found at i:4337763 original size:16 final size:16
Alignment explanation
Indices: 4337739--4337778 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
4337729 TTTTTCATTT
4337739 TTTTG-TTTGTTTTTG
1 TTTTGTTTTGTTTTTG
4337754 TTTTGTTTTGTTTTTG
1 TTTTGTTTTGTTTTTG
4337770 TTTT-TTTTG
1 TTTTGTTTTG
4337779 ACTTAGGACG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (16 bp):
TTTTGTTTTGTTTTTG
Found at i:4344170 original size:16 final size:16
Alignment explanation
Indices: 4344149--4344204 Score: 112
Period size: 16 Copynumber: 3.5 Consensus size: 16
4344139 ATCTTCATTC
4344149 GATCTTCTAACATCTT
1 GATCTTCTAACATCTT
4344165 GATCTTCTAACATCTT
1 GATCTTCTAACATCTT
4344181 GATCTTCTAACATCTT
1 GATCTTCTAACATCTT
4344197 GATCTTCT
1 GATCTTCT
4344205 GTTCCATCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (16 bp):
GATCTTCTAACATCTT
Found at i:4347037 original size:8 final size:9
Alignment explanation
Indices: 4347007--4347036 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
4346997 AATGATTAGT
4347007 AAAATAAAA
1 AAAATAAAA
4347016 AAAATAAAA
1 AAAATAAAA
4347025 AAAATAAAA
1 AAAATAAAA
4347034 AAA
1 AAA
4347037 TGACGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAATAAAA
Found at i:4348017 original size:29 final size:29
Alignment explanation
Indices: 4347959--4348021 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
4347949 AAAAATGTAG
* *
4347959 TAAAAATGAATAAAATAAAGAAGGTGAAA
1 TAAAAATAAATAAAATAAAGAAGGTAAAA
* *
4347988 TAAAAATAAATGAAATAAAGTAGAG-AAAA
1 TAAAAATAAATAAAATAAAGAAG-GTAAAA
4348017 TAAAA
1 TAAAA
4348022 CAGATAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.17
Consensus pattern (29 bp):
TAAAAATAAATAAAATAAAGAAGGTAAAA
Found at i:4348168 original size:15 final size:15
Alignment explanation
Indices: 4348148--4348179 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4348138 ATACAAAAAT
*
4348148 AAAAATAGAAGATAA
1 AAAAATAAAAGATAA
4348163 AAAAATAAAAGATAA
1 AAAAATAAAAGATAA
4348178 AA
1 AA
4348180 TGAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAGATAA
Found at i:4355119 original size:24 final size:24
Alignment explanation
Indices: 4355099--4355153 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
4355089 GAACGTTCGA
*
4355099 TTATGTTCGTTTATATGCGTTTAG
1 TTATGTTCGTTTATATGCGTTCAG
* *
4355123 TTATGTTCGTTTATGTGCGTTCAT
1 TTATGTTCGTTTATATGCGTTCAG
4355147 TTATGTT
1 TTATGTT
4355154 TAACCTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.15, C:0.09, G:0.20, T:0.56
Consensus pattern (24 bp):
TTATGTTCGTTTATATGCGTTCAG
Found at i:4361969 original size:17 final size:17
Alignment explanation
Indices: 4361947--4361979 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4361937 TAAGAGTTAA
4361947 TTTAATAAATGAACTAG
1 TTTAATAAATGAACTAG
*
4361964 TTTAATTAATGAACTA
1 TTTAATAAATGAACTA
4361980 CTTCCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
TTTAATAAATGAACTAG
Found at i:4366995 original size:14 final size:15
Alignment explanation
Indices: 4366972--4367004 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4366962 AAAAAATTTC
*
4366972 TTTTGTTTTTTG-TT
1 TTTTGATTTTTGATT
4366986 TTTTGATTTTTGATT
1 TTTTGATTTTTGATT
4367001 TTTT
1 TTTT
4367005 TACTAACTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (15 bp):
TTTTGATTTTTGATT
Found at i:4367661 original size:21 final size:21
Alignment explanation
Indices: 4367621--4367661 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4367611 AAGGTTGGCT
*
4367621 GAATATTCTAGATCATTTTGG
1 GAATATTCTAGATCACTTTGG
4367642 GAATGATTCTAGA-CACTTTG
1 GAAT-ATTCTAGATCACTTTG
4367662 AAGCTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (21 bp):
GAATATTCTAGATCACTTTGG
Found at i:4368239 original size:17 final size:17
Alignment explanation
Indices: 4368217--4368249 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4368207 TAAGAGTTAA
4368217 TTTAATAAATGAACTAG
1 TTTAATAAATGAACTAG
*
4368234 TTTAATTAATGAACTA
1 TTTAATAAATGAACTA
4368250 CTTCCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
TTTAATAAATGAACTAG
Found at i:4369582 original size:24 final size:24
Alignment explanation
Indices: 4369555--4369600 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4369545 AGTAGATTTT
* *
4369555 TTTATTGATCGATCCTATTTAGCG
1 TTTATCGATCAATCCTATTTAGCG
*
4369579 TTTATCGATCAATCCTGTTTAG
1 TTTATCGATCAATCCTATTTAG
4369601 TGCATTCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.46
Consensus pattern (24 bp):
TTTATCGATCAATCCTATTTAGCG
Found at i:4369759 original size:24 final size:24
Alignment explanation
Indices: 4369706--4369775 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
4369696 TTACCTATGT
* * *
4369706 GTACTCTTGTATTAGTGCATACGT
1 GTACTCTTGTATTAGTACATTCGA
* *
4369730 GCACTCTTGTATTAGTACATTTGA
1 GTACTCTTGTATTAGTACATTCGA
* *
4369754 GTACTCCTGTGTTAGTACATTC
1 GTACTCTTGTATTAGTACATTC
4369776 CTATACTCCT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
GTACTCTTGTATTAGTACATTCGA
Found at i:4386375 original size:83 final size:81
Alignment explanation
Indices: 4386155--4386435 Score: 276
Period size: 83 Copynumber: 3.4 Consensus size: 81
4386145 TTTATAGCTA
* * * * * **
4386155 AAACACCGCAATAGATATGTTTATAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTGGTAATT
1 AAACACCGTAATATAT-TGTTTATAGTGGCGTTTGTTCAAAAAACGACGCAATAGAGAAGTAATT
* *
4386220 TAGCGGTGTTTTTACAC
65 TAGCGGTGTTTTCAAAC
* * * * * * *
4386237 AAACATCATGATAGTGTTGTTTATATTGGCGTTTGTTCAATAAACGACGCTATAGAGAAGTAATT
1 AAACACCGTAATA-TATTGTTTATAGTGGCGTTTGTTCAAAAAACGACGCAATAGAGAAGTAATT
4386302 TAGCGGTGTTTATCAAAC
65 TAGCGGTGTTT-TCAAAC
* * *
4386320 AAACACCGTAATATTATTGTTTATAGTGGCGTTTGTGCAAAAAATGTCGCAATAGAGTAA-TAAT
1 AAACACCGTAATA-TATTGTTTATAGTGGCGTTTGTTCAAAAAACGACGCAATAGAG-AAGTAAT
* **
4386384 ATAGCGGTGTTTGTCCTAC
64 TTAGCGGTGTTT-TCAAAC
* * *
4386403 AAACGCCGTAATATGTTGTTTATCGTGGCGTTT
1 AAACACCGTAATATATTGTTTATAGTGGCGTTT
4386436 ATATAAAAAC
Statistics
Matches: 163, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
82 79 0.48
83 82 0.50
84 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (81 bp):
AAACACCGTAATATATTGTTTATAGTGGCGTTTGTTCAAAAAACGACGCAATAGAGAAGTAATTT
AGCGGTGTTTTCAAAC
Found at i:4387907 original size:42 final size:42
Alignment explanation
Indices: 4387835--4387981 Score: 197
Period size: 42 Copynumber: 3.5 Consensus size: 42
4387825 AAGGTAATTA
*
4387835 GCGGCGTTTGTAT-AAAAAACGCCACCATAGACCTAACTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCCATAGACCTAACTTTT
** * * *
4387876 GTAGCGTTTGTATTAAAAAACGCCGCTATAGACATAACTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCCATAGACCTAACTTTT
** *
4387918 GCGGCGTTTGTATCAAAACAATTCCGCCATAGATCTAACTTTT
1 GCGGCGTTTGTATCAAAA-AACGCCGCCATAGACCTAACTTTT
4387961 GCGGCGTTTGTATCAAAAAAC
1 GCGGCGTTTGTATCAAAAAAC
4387982 ACCACAATAT
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 11 0.12
42 42 0.47
43 37 0.41
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (42 bp):
GCGGCGTTTGTATCAAAAAACGCCGCCATAGACCTAACTTTT
Found at i:4390035 original size:2 final size:2
Alignment explanation
Indices: 4390028--4390057 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4390018 AGATACTACA
4390028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4390058 TGTAAAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4390471 original size:2 final size:2
Alignment explanation
Indices: 4390464--4390497 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4390454 GGGTTATTCA
4390464 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4390498 TACAGTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4390706 original size:2 final size:2
Alignment explanation
Indices: 4390699--4390734 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4390689 ATTTCGGTCA
4390699 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4390735 CTAATGTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4393317 original size:82 final size:81
Alignment explanation
Indices: 4393197--4393460 Score: 267
Period size: 83 Copynumber: 3.2 Consensus size: 81
4393187 GCAATAGATA
* * * * * * *
4393197 TGTTTATAGTGGCATTTTTTCAACAAATGCCGCAATAGAGTGGTAATATAGCAGCGTTTTTACAC
1 TGTTTATAGTGGCGTTTGTTCAAAAAACGACGCAATAGAGTAGTAATATAGCGGCGTTTTTACAC
* *
4393262 AAACACCGTGATAGTGT
66 AAACACCGTAATA-TAT
* * * * * * *
4393279 TGTTTATAGTGGCGTTTGTTCAATAAACGACGCTATAGAGAAGTAATTTAGCGGTGTTTATCAAA
1 TGTTTATAGTGGCGTTTGTTCAAAAAACGACGCAATAGAGTAGTAATATAGCGGCGTTT-TTACA
*
4393344 TAAACACCGTAATATTAT
65 CAAACACCGTAATA-TAT
* ** * * *
4393362 TGTTTATAGTGGCGTTTGTGCAAAAAACGTTGCAATAGAGTAATAATATAGCGGCGTTTGTCCTA
1 TGTTTATAGTGGCGTTTGTTCAAAAAACGACGCAATAGAGTAGTAATATAGCGGCGTTTTTAC-A
*
4393427 CAAACGCCGTAATATAT
65 CAAACACCGTAATATAT
*
4393444 TGTTTATTGTGGCGTTT
1 TGTTTATAGTGGCGTTT
4393461 ATATAAAAAG
Statistics
Matches: 147, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
82 67 0.46
83 80 0.54
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (81 bp):
TGTTTATAGTGGCGTTTGTTCAAAAAACGACGCAATAGAGTAGTAATATAGCGGCGTTTTTACAC
AAACACCGTAATATAT
Found at i:4394926 original size:42 final size:42
Alignment explanation
Indices: 4394854--4395000 Score: 197
Period size: 42 Copynumber: 3.5 Consensus size: 42
4394844 AAGGTAATTA
4394854 GCGGCGTTTGTAT-AAAAAACGCCGCCATAGACCTAACTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCCATAGACCTAACTTTT
** * * *
4394895 GTAGCGTTTGTATTAAAAAACGCCGCTATAGACATAACTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCCATAGACCTAACTTTT
* ** *
4394937 ACGGCGTTTGTATCAAAACAATTCCGCCATAGATCTAACTTTT
1 GCGGCGTTTGTATCAAAA-AACGCCGCCATAGACCTAACTTTT
4394980 GCGGCGTTTGTATCAAAAAAC
1 GCGGCGTTTGTATCAAAAAAC
4395001 ACCACAATAT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 11 0.12
42 42 0.47
43 36 0.40
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (42 bp):
GCGGCGTTTGTATCAAAAAACGCCGCCATAGACCTAACTTTT
Found at i:4395311 original size:41 final size:41
Alignment explanation
Indices: 4395264--4395362 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 41
4395254 GTAATTAGCG
* * *
4395264 GCGTTTGTATCAAAAATGCCGCCATAGTCCTAACTTTTGCA
1 GCGTTTGTATCAAAAACGCCGCCATAGACATAACTTTTGCA
* * * * *
4395305 GTGTTTGTATTAAAAAACGTCGCTATAGACATAACTTTTGCG
1 GCGTTTGTA-TCAAAAACGCCGCCATAGACATAACTTTTGCA
4395347 GCGTTTGTATCAAAAA
1 GCGTTTGTATCAAAAA
4395363 ACACCACAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 14 0.30
42 33 0.70
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (41 bp):
GCGTTTGTATCAAAAACGCCGCCATAGACATAACTTTTGCA
Found at i:4397436 original size:16 final size:16
Alignment explanation
Indices: 4397415--4397446 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4397405 TACAATATAT
4397415 ATATATATATATTGTA
1 ATATATATATATTGTA
4397431 ATATATATATATTGTA
1 ATATATATATATTGTA
4397447 GAGTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATATATATATATTGTA
Found at i:4398067 original size:2 final size:2
Alignment explanation
Indices: 4398060--4398090 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4398050 ATTTCGGTCA
4398060 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4398091 TAGAAGAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4402593 original size:172 final size:173
Alignment explanation
Indices: 4402300--4402644 Score: 683
Period size: 172 Copynumber: 2.0 Consensus size: 173
4402290 AGGGCTGACA
4402300 TTACATAAGATTGTCGTACGATTTTATATCTTCATTTATTTATTTATAATGTTATAACCTTTAAC
1 TTACATAAGATTGTCGTACGATTTTATATCTTCATTTATTTATTTATAATGTTATAACCTTTAAC
4402365 ATGTTGTCTTTCAATATATTCATTAATTAATGAGTTTTATTATTGCACATGTTTGTTTATTACAG
66 ATGTTGTCTTTCAATATATTCATTAATTAATGAGTTTTATTATTGCACATGTTTGTTTATTACAG
4402430 ATATCATACCGAGGAGAAAAATTACTGATTTGCGGGTTGTTCG
131 ATATCATACCGAGGAGAAAAATTACTGATTTGCGGGTTGTTCG
4402473 TTACAT-AGATTGTCGTACGATTTTATATCTTCATTTATTTATTTATAATGTTATAACCTTTAAC
1 TTACATAAGATTGTCGTACGATTTTATATCTTCATTTATTTATTTATAATGTTATAACCTTTAAC
4402537 ATGTTGTCTTTCAATATATTCATTAATTAATGAGTTTTATTATTGCACATGTTTGTTTATTACAG
66 ATGTTGTCTTTCAATATATTCATTAATTAATGAGTTTTATTATTGCACATGTTTGTTTATTACAG
4402602 ATATCATACCGAGGAGAAAAATTACTGATTTGCGGGTTGTTCG
131 ATATCATACCGAGGAGAAAAATTACTGATTTGCGGGTTGTTCG
4402645 AGCTTCTGAA
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
172 166 0.97
173 6 0.03
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (173 bp):
TTACATAAGATTGTCGTACGATTTTATATCTTCATTTATTTATTTATAATGTTATAACCTTTAAC
ATGTTGTCTTTCAATATATTCATTAATTAATGAGTTTTATTATTGCACATGTTTGTTTATTACAG
ATATCATACCGAGGAGAAAAATTACTGATTTGCGGGTTGTTCG
Found at i:4404696 original size:44 final size:44
Alignment explanation
Indices: 4404540--4404689 Score: 192
Period size: 44 Copynumber: 3.4 Consensus size: 44
4404530 AAAATGCCAC
** * *
4404540 AAACGCCGCTATATACCAGGAATATAGCGACGTTTGTATCCTAA
1 AAACGCCGCTATATACCAGTCATATCGCGGCGTTTGTATCCTAA
* *
4404584 AAACGCCGCTATATACCAGTCCTATCGCGGCATTTGTATCCTAA
1 AAACGCCGCTATATACCAGTCATATCGCGGCGTTTGTATCCTAA
* * *
4404628 AAACGCCTCTATATACCAGTCATATCGCTGCGTTTTTATCCTAA
1 AAACGCCGCTATATACCAGTCATATCGCGGCGTTTGTATCCTAA
* * *
4404672 AATCACCGCTAAATACCA
1 AAACGCCGCTATATACCA
4404690 TACATATTGT
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 91 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (44 bp):
AAACGCCGCTATATACCAGTCATATCGCGGCGTTTGTATCCTAA
Found at i:4404836 original size:43 final size:43
Alignment explanation
Indices: 4404714--4404839 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 43
4404704 TTTTCATAAA
* * * * * *
4404714 AAAAATGCCG-TGAAATATCAACACTTATTGCGGCATTTGTGAT
1 AAAAATGCCGCT-AAATATCGACACCTATTGCGGCGTTTTTAAG
*
4404757 AAAAATGCCGCTAAATATTGACACCTATTG-GAGCGTTTTTAAG
1 AAAAATGCCGCTAAATATCGACACCTATTGCG-GCGTTTTTAAG
**
4404800 AAAAATGCCGCTAAATATCGGTACCTATTGCGGCGTTTTT
1 AAAAATGCCGCTAAATATCGACACCTATTGCGGCGTTTTT
4404840 GGTTAACAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.01
43 67 0.96
44 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (43 bp):
AAAAATGCCGCTAAATATCGACACCTATTGCGGCGTTTTTAAG
Found at i:4407552 original size:55 final size:56
Alignment explanation
Indices: 4407476--4407584 Score: 159
Period size: 55 Copynumber: 1.9 Consensus size: 56
4407466 AATGGCACTA
*
4407476 TGTGCGCAAAAATTTAAGAAATTCAAACTAAGTGTATTAATTT-ATGTATGGGCATTG
1 TGTGCGCAAAAA-TTAAGAAATTCAAACTAAGTGTATGAATTTCA-GTATGGGCATTG
* *
4407533 TGTGTGCAAAAA-TAAGAAATTCATACTAAGTGTATGAATTTCAGTATGGGCA
1 TGTGCGCAAAAATTAAGAAATTCAAACTAAGTGTATGAATTTCAGTATGGGCA
4407585 CCATGGGTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
55 36 0.75
56 1 0.02
57 11 0.23
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (56 bp):
TGTGCGCAAAAATTAAGAAATTCAAACTAAGTGTATGAATTTCAGTATGGGCATTG
Found at i:4407958 original size:68 final size:68
Alignment explanation
Indices: 4407845--4409787 Score: 2579
Period size: 68 Copynumber: 28.8 Consensus size: 68
4407835 AAAAGATTAT
** * *
4407845 AGGCCTAACTACGCAAATGACAGAAAGGTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4407910 TTG
66 TTG
* * * * * *
4407913 AGGCCTAACTATGCAAATGACATAAAGGTGTCATTTACGCTAGTTAGATGAAAGACTAATTGCTT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4407978 TTG
66 TTG
* * * *
4407981 AGGCCTAACTGTGCAAATAATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGTCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4408046 TTG
66 TTG
** *
4408049 AGGCCTAACTGTGCAAATGTTAGAAAGATGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4408114 TTG
66 TTG
* *
4408117 AGGCCTAACTATGCAAATGACAAAAAGGTGTCATTTATG-TCAGTTAGATGAAAGGCTAA-TGCC
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCT-AGTTAGATGAAAGGCTAAGTGCC
4408180 TTTG
65 TTTG
* * * *
4408184 AGGCCTAACTATGCAAATGAAAGAAATGTGTCATTTATGCTAGTTAGATGAAACGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
**
4408249 TAC
66 TTG
* * * * * * * * *
4408252 AGGCTTAATTGTGCAAATAAAATAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGTTCTT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4408317 TTG
66 TTG
* *
4408320 AGGCCTAA-TCGTGCAAATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCC
1 AGGCCTAACT-GTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCC
4408384 TTTG
65 TTTG
* * * * *
4408388 AGGCCTAACTATGCAAATAACATAAAGGTGTCATTTATGCCAGTTAGATGAAATGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4408453 TTG
66 TTG
*
4408456 AGGCCTAACTGTGAAAATGACAGAAAGGTGTCA--T-T--TA--T-GA--AAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4408511 TTG
66 TTG
* * * * * * * *
4408514 AGGCCTAACTGTGCAAATGACAGAAAGATGTTATTAATACTAGTTAGATTAAAAGTTGAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4408579 TTG
66 TTG
* *
4408582 AGGCCTAACTGTGCAAATGATAGAAAGGTGTCATTTATGCTAGTTAGACGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4408647 TTG
66 TTG
* * *
4408650 AGGCCTAACTGTTCAAATGACAGAAAGGTGTCATTTACGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4408715 TTG
66 TTG
* * * * * * * *
4408718 AGGTCTAACTATACAAATGAAATAAAGGTGTCATTTACGCTAGTTAGATGAAAGACTAAGTGCTT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4408783 TTG
66 TTG
* * * * * * *
4408786 ATGCCTAATTGTGCAAATAATAGAAATGTGTCATTTATGCCAGTTAGATGAAAGTCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4408851 TTG
66 TTG
* * *
4408854 AGGCCTAACTGTGCAAATGTCAGAAAGATGTCATTTATGTTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4408919 TTG
66 TTG
* * * *
4408922 AGGCCTAACAGTGAAAATGACAGAAATGTGTCATTTATG-TCAGTTAGATGAACGGCTAAGTGCC
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCT-AGTTAGATGAAAGGCTAAGTGCC
4408986 TTTG
65 TTTG
* * * * * *
4408990 AGGCCTAACTGTGCAAATGACAGAAAGATGTTATTTATACTAGTTAGATTAAAGGTTGAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4409055 TTG
66 TTG
* * * *
4409058 AGGCCTAACTATGCAAATGATAGAAA-GTGTCATTTATGCTAGTTAGGTGAAAGGCTAAGTGCAT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4409122 TTG
66 TTG
* * * * * *
4409125 AGGCCTAATTGTTCAAATGACATAAAGGCGTCATTTATTCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4409190 TTG
66 TTG
* * * * * *
4409193 AGGCCTAACTGTGTAAATGACATAAAGGTGTCATTTACGTTAGTTAGATGAAAGACTAAGTGCTT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4409258 TTG
66 TTG
* * * * *
4409261 AGGCCTAACTGTGCAAATAATATAAAGGTGTCATTTATGCCAGTTAGATGAAAGTCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4409326 TTG
66 TTG
* * * * *
4409329 AGGCCTAATTGTGCAAATGTCAGAAAGATGTCATTTATG-TAGTTAGATGAAAGGCTAATTGCTT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4409393 TTG
66 TTG
* * *
4409396 AGTCCTAACTGTGCAAATAACATAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4409461 TTG
66 TTG
*
4409464 AGGCCTAACTGTGAAAATGACAGAAAGGTGTCATTTATG-TCAGTTAGATGAAAGGCTAAGTGCC
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCT-AGTTAGATGAAAGGCTAAGTGCC
4409528 TTTG
65 TTTG
* * * * * *
4409532 AGGCCTAACTGTGCAAATGACAGAAAGTTGTTATTTATACTAGTTAGATTAAAGGTTGAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4409597 TTG
66 TTG
* * *
4409600 AGGCCTAACTGTACAAATGATAGAAAGGTGTCATTTATGCTAGTTAGGTGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4409665 TTG
66 TTG
** *
4409668 AGGCCTAACTGTTTAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
4409733 TTG
66 TTG
** *
4409736 AGGCCTAACTGTGCAAATGACAGAAATATGTTATTTATGCTAGTTAGATGAA
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAA
4409788 CAATTAAATA
Statistics
Matches: 1635, Mismatches: 219, Indels: 42
0.86 0.12 0.02
Matches are distributed among these distances:
58 47 0.03
60 2 0.00
61 2 0.00
63 3 0.00
65 2 0.00
66 3 0.00
67 176 0.11
68 1397 0.85
69 3 0.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:4409929 original size:81 final size:79
Alignment explanation
Indices: 4409739--4409935 Score: 225
Period size: 80 Copynumber: 2.4 Consensus size: 79
4409729 GCCTTTGAGG
* * * * *
4409739 CCTAACTGTGCAAATGACAGAAATATGTTATTTATGCTAGTTAGATGAACAATTAAATACGTTGA
1 CCTAACTGTGCAATTGACAGAAAT-TGTCAATTATGCCAGTTAGATGAACAATTAAACACGTTGA
4409804 GTAAAAGAATAATGA
65 GTAAAAGAATAATGA
* * **
4409819 CCTAACTGTGCAATTAACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACTGTTG
1 CCTAACTGTGCAATTGACAGAAA-TTGTCAATTATGCCAGTTAGATGAACAATTAAACAC-GTTG
4409884 AGTAAAAGAATAATGGA
64 AGTAAAAGAATAAT-GA
* * * *
4409901 -TTAGCTGTGCATTTGACAGGAAATTGTCAAATATG
1 CCTAACTGTGCAATTGACA-GAAATTGTCAATTATG
4409936 TAAGTTAAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 50 0.51
81 42 0.43
82 6 0.06
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (79 bp):
CCTAACTGTGCAATTGACAGAAATTGTCAATTATGCCAGTTAGATGAACAATTAAACACGTTGAG
TAAAAGAATAATGA
Found at i:4409942 original size:81 final size:80
Alignment explanation
Indices: 4409739--4409948 Score: 199
Period size: 81 Copynumber: 2.6 Consensus size: 80
4409729 GCCTTTGAGG
* * ** * ** * *
4409739 CCTAACTGTGCAAATGACAGAAATATGTTATTTATGCTAGTTAGATGAACAATTAAATACGTTGA
1 CCTAACTGTGCAATTAACAGAAAGGTGTCAAATATGCAAGTTAGATGAACAATTAAACACGTTGA
4409804 GTAAAAGAATAATGA
66 GTAAAAGAATAATGA
* * **
4409819 CCTAACTGTGCAATTAACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACTGTTG
1 CCTAACTGTGCAATTAACAGAAAGGTGTCAAATATGCAAGTTAGATGAACAATTAAACAC-GTTG
4409884 AGTAAAAGAATAATGGA
65 AGTAAAAGAATAAT-GA
* * * * * * *
4409901 -TTAGCTGTGCATTTGACAGGAAA-TTGTCAAATATGTAAGTTAAATGAA
1 CCTAACTGTGCAATTAACA-GAAAGGTGTCAAATATGCAAGTTAGATGAA
4409949 AAGCTAAATA
Statistics
Matches: 108, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
80 50 0.46
81 52 0.48
82 6 0.06
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (80 bp):
CCTAACTGTGCAATTAACAGAAAGGTGTCAAATATGCAAGTTAGATGAACAATTAAACACGTTGA
GTAAAAGAATAATGA
Found at i:4410133 original size:46 final size:46
Alignment explanation
Indices: 4410074--4410358 Score: 449
Period size: 46 Copynumber: 6.3 Consensus size: 46
4410064 AACATAATAG
4410074 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTAAGAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTAAGAT
*
4410120 GCATGAAATGATGCATTAAGGCATGAAAGGATGTCATAATTAAGAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTAAGAT
*
4410166 GCATGAAATGATGCATTAAGGCATGAAAGGAT-TCCATAATTAAGAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGT-CATAATTAAGAT
* *
4410212 GCATGAAAGGATGCATTAAAGCATGAAAGGATGCCATAATTAAGAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTAAGAT
* * *
4410258 TCATGAAAGAATGCATTAAGGCATGAAAGGATGTCATGATTAAGAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTAAGAT
4410304 GCATGAAAGGATGCATTAAGGCATGAAAGGATG-C---ATTAAG--
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTAAGAT
4410344 GCATGAAAGGATGCA
1 GCATGAAAGGATGCA
4410359 ATAAATTAAA
Statistics
Matches: 226, Mismatches: 11, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
40 15 0.07
42 6 0.03
45 2 0.01
46 203 0.90
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.24
Consensus pattern (46 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTAAGAT
Found at i:4410397 original size:66 final size:66
Alignment explanation
Indices: 4410072--4410356 Score: 245
Period size: 66 Copynumber: 4.2 Consensus size: 66
4410062 AGAACATAAT
4410072 AGGCATGAAAGGATG-C---ATTAAG--GCATGAAAGGATGTCATAATTAAGATGCATGAAATG-
1 AGGCATGAAAGGATGTCATAATTAAGATGCATGAAAGGATG-C---ATTAAGA--CATGAAA-GA
4410130 ATGCATTA
59 ATGCATTA
* * * *
4410138 AGGCATGAAAGGATGTCATAATTAAGATGCATGAAATGATGCATTAAGGCATGAAAGGATTCCAT
1 AGGCATGAAAGGATGTCATAATTAAGATGCATGAAAGGATGCATTAAGACATGAAA-GAATGC--
4410203 AATTA
63 -ATTA
4410208 AGATGCATGAAAGGATG-C---ATTAA-A-GCATGAAAGGATGCCATAATTAAGATTCATGAAAG
1 AG--GCATGAAAGGATGTCATAATTAAGATGCATGAAAGGATG-C---ATTAAGA--CATGAAAG
4410267 AATGCATTA
58 AATGCATTA
* * *
4410276 AGGCATGAAAGGATGTCATGATTAAGATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCATT
1 AGGCATGAAAGGATGTCATAATTAAGATGCATGAAAGGATGCATTAAGACATGAAAGAATGCATT
4410341 A
66 A
4410342 AGGCATGAAAGGATG
1 AGGCATGAAAGGATG
4410357 CAATAAATTA
Statistics
Matches: 184, Mismatches: 11, Indels: 48
0.76 0.05 0.20
Matches are distributed among these distances:
66 79 0.43
67 6 0.03
68 23 0.12
70 23 0.12
71 8 0.04
72 45 0.24
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (66 bp):
AGGCATGAAAGGATGTCATAATTAAGATGCATGAAAGGATGCATTAAGACATGAAAGAATGCATT
A
Found at i:4413832 original size:20 final size:20
Alignment explanation
Indices: 4413807--4413878 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
4413797 GATTCAATCA
*
4413807 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGCAAGG
4413827 GTATCGATACCATGGCAAGG
1 GTATCGATACCATGGCAAGG
4413847 GTATCGATACCATGGCAAGG
1 GTATCGATACCATGGCAAGG
4413867 GTATCGATACCA
1 GTATCGATACCA
4413879 GGTCACATCG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (20 bp):
GTATCGATACCATGGCAAGG
Found at i:4414066 original size:20 final size:21
Alignment explanation
Indices: 4414013--4414072 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
4414003 TACCGGAAGA
*
4414013 GGGTATCAGTACCATAGTATAG
1 GGGTATCAATACCATAG-ATAG
** *
4414035 TAGTATCGATACCATAG-TAG
1 GGGTATCAATACCATAGATAG
*
4414055 GGGTATCAATACTATAGA
1 GGGTATCAATACCATAGA
4414073 GCCAGAAAGG
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
20 16 0.55
22 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (21 bp):
GGGTATCAATACCATAGATAG
Found at i:4414067 original size:95 final size:95
Alignment explanation
Indices: 4413847--4414068 Score: 282
Period size: 95 Copynumber: 2.3 Consensus size: 95
4413837 CATGGCAAGG
* * * ** * *
4413847 GTATCGATACCATGGCAAGGGTATCGATACCAGGTCACATCGAATCTAAAATTGGTATTGATACC
1 GTATCGATACCATAGTAAGGGTATCGATACTAGGAAACATCGAATCAAAAATTGGTATCGATACC
* *
4413912 GCAAGGGGGTATCGGTACCATAATATAGTA
66 GCAAGAGGGTATCAGTACCATAATATAGTA
* * * * *
4413942 CTATCAATGCCATTGTAAGGGTATCGATACTAGGAAACATTGAATCAAAAATTGGTATCGATACC
1 GTATCGATACCATAGTAAGGGTATCGATACTAGGAAACATCGAATCAAAAATTGGTATCGATACC
* *
4414007 GGAAGAGGGTATCAGTACCATAGTATAGTA
66 GCAAGAGGGTATCAGTACCATAATATAGTA
* *
4414037 GTATCGATACCATAGTAGGGGTATCAATACTA
1 GTATCGATACCATAGTAAGGGTATCGATACTA
4414069 TAGAGCCAGA
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
95 106 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (95 bp):
GTATCGATACCATAGTAAGGGTATCGATACTAGGAAACATCGAATCAAAAATTGGTATCGATACC
GCAAGAGGGTATCAGTACCATAATATAGTA
Found at i:4414464 original size:55 final size:55
Alignment explanation
Indices: 4414372--4414486 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 55
4414362 TGATGACCAA
* *
4414372 ATGGCACTATGTGTGCAAAATTTTAAGAAATTCATACTAAGTGTATGAATTTTTGT
1 ATGGCACTATGTGTGCAAAA-TATAAGAAATTCATACTAAGTGTATGAATTTCTGT
* * *
4414428 ATGGCAACTTTGTGTGCAAAA-ATAATAAATTCATACTATGTGTATGAATTTCTGT
1 ATGGC-ACTATGTGTGCAAAATATAAGAAATTCATACTAAGTGTATGAATTTCTGT
4414483 ATGG
1 ATGG
4414487 GAAATAGATG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
55 34 0.64
56 5 0.09
57 14 0.26
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (55 bp):
ATGGCACTATGTGTGCAAAATATAAGAAATTCATACTAAGTGTATGAATTTCTGT
Found at i:4414790 original size:49 final size:49
Alignment explanation
Indices: 4414714--4414814 Score: 175
Period size: 49 Copynumber: 2.1 Consensus size: 49
4414704 ATTGTGCAAA
*
4414714 TGACAGAAATGTGTCATTTATGCCAGTTAAATGAAAGGCTAAGTTCCTT
1 TGACAGAAAGGTGTCATTTATGCCAGTTAAATGAAAGGCTAAGTTCCTT
* *
4414763 TGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTTCCTT
1 TGACAGAAAGGTGTCATTTATGCCAGTTAAATGAAAGGCTAAGTTCCTT
4414812 TGA
1 TGA
4414815 GGCCTAACTC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.33
Consensus pattern (49 bp):
TGACAGAAAGGTGTCATTTATGCCAGTTAAATGAAAGGCTAAGTTCCTT
Found at i:4414890 original size:68 final size:68
Alignment explanation
Indices: 4414763--4415674 Score: 1257
Period size: 68 Copynumber: 13.5 Consensus size: 68
4414753 TAAGTTCCTT
* * * *
4414763 TGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTTCCTTTGAGGCCTAACTCTGC
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4414828 AAA
66 AAA
* * * * * * *
4414831 TGATAAAAATGTGTCATTTATGCCATTTAGATGCAAGTCTAAGTGCCTTTAAGGACTAACTGTGC
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4414896 AAA
66 AAA
* * * *
4414899 TGACATAAATGTGTCATTTATGCCAGTTAGATGAAATGCTAAGTTCCTTTGAGGCCTAACTGTGC
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4414964 AAA
66 AAA
* * *
4414967 TGACATAAAGGTTTCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCTTTGAGGCCTAACTGTGC
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4415032 AAA
66 AAA
* * * * *
4415035 TGACATAAGGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGACTTTGAGGTCTAATTGTGC
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4415100 AAA
66 AAA
* *
4415103 TGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4415168 AAA
66 AAA
* * *
4415171 TGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTTC
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4415236 AAA
66 AAA
* * * * * *
4415239 TGGCATAAAGGTCTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCCTTGAGTCCTAACTATGC
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4415304 AAA
66 AAA
* * * *
4415307 T-TCATAGAAAGGTGTCGTTTATGCCAGTTAGATGAAAGGCTAGGTGCCTTTGAGGCCTAACTCT
1 TGACA-A-AAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
4415371 GCAAA
64 GCAAA
*
4415376 TGACAAAAA--TG----TTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGC
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4415435 AAA
66 AAA
* * * *
4415438 TGACAAAAAGATGTCATTTATGTCAGTTAGATGAAAGGTTGAGTGCCTTTGAGGCCTAACTGTGC
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4415503 AAA
66 AAA
* * * * ** *
4415506 TGA-AAGAATGTGTCATTTATGCCAGTTAGATGAAAGGATAAGTGACTTTGAGGCCTAACCATGA
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4415570 AAA
66 AAA
* * *
4415573 TGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGGCTAACTGCCTTTGAGGCCTAACTGTGC
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
4415638 AAA
66 AAA
*
4415641 TGATAAAAAGGTGTCATTTATG-CAGTTAGATGAA
1 TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAA
4415675 TGGTTAAATA
Statistics
Matches: 750, Mismatches: 84, Indels: 21
0.88 0.10 0.02
Matches are distributed among these distances:
62 57 0.08
64 2 0.00
66 2 0.00
67 70 0.09
68 559 0.75
69 58 0.08
70 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (68 bp):
TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC
AAA
Found at i:4415762 original size:81 final size:80
Alignment explanation
Indices: 4415625--4415787 Score: 245
Period size: 81 Copynumber: 2.0 Consensus size: 80
4415615 CTGCCTTTGA
* * * * *
4415625 GGCCTAACTGTGCAAATGATAAAAAGGTGTCATTTATGCAGTTAGATGAATGGTTAAATACTGTT
1 GGCCTAACTATGCAAATGATAAAAAGGTGGCAATTATCCAGTTAGATGAATGGTTAAACACTGTT
4415690 GAGTAAAAGAATAAT
66 GAGTAAAAGAATAAT
* * *
4415705 GGCCTAACTATGCAATTGATAGAACGGTGGCAATTATACCAGTTAGATGAATGGTTAAACACTGT
1 GGCCTAACTATGCAAATGATAAAAAGGTGGCAATTAT-CCAGTTAGATGAATGGTTAAACACTGT
4415770 TGAGTAAAAGAATAAT
65 TGAGTAAAAGAATAAT
4415786 GG
1 GG
4415788 ATTAGCTGTG
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 31 0.42
81 43 0.58
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.28
Consensus pattern (80 bp):
GGCCTAACTATGCAAATGATAAAAAGGTGGCAATTATCCAGTTAGATGAATGGTTAAACACTGTT
GAGTAAAAGAATAAT
Found at i:4416036 original size:26 final size:26
Alignment explanation
Indices: 4416005--4416298 Score: 256
Period size: 26 Copynumber: 12.5 Consensus size: 26
4415995 AATGTAATAG
4416005 GCATGAAAGGATGTCATAATTAAAAT
1 GCATGAAAGGATGTCATAATTAAAAT
*
4416031 GCATGAAAGGATG-C---ATT--AAG
1 GCATGAAAGGATGTCATAATTAAAAT
4416051 GCATGAAAGGATG-C---ATT--AAT
1 GCATGAAAGGATGTCATAATTAAAAT
*
4416071 -CATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGTCATAATTAAAAT
*
4416096 GCGTGAAAGGATG-C---ATT-AAA-
1 GCATGAAAGGATGTCATAATTAAAAT
**
4416116 GCATGAAAGGAT-TCCATAATTATGAT
1 GCATGAAAGGATGT-CATAATTAAAAT
*
4416142 GCATGAAAGGATG-C---ATT--AAG
1 GCATGAAAGGATGTCATAATTAAAAT
*
4416162 GCATGAAAGGATGTCATAATTAAGAT
1 GCATGAAAGGATGTCATAATTAAAAT
*
4416188 GCATGAAAGGATGTCATAATTAAGAT
1 GCATGAAAGGATGTCATAATTAAAAT
*
4416214 GCATGAAAGGATGTCATAATTAAGAT
1 GCATGAAAGGATGTCATAATTAAAAT
*
4416240 GCATGAAAGGATG-C---ATT--AAG
1 GCATGAAAGGATGTCATAATTAAAAT
*
4416260 GCATGAAAGGATGTCATAATTAAGAT
1 GCATGAAAGGATGTCATAATTAAAAT
4416286 GCATGAAAGGATG
1 GCATGAAAGGATG
4416299 CATTAAGACA
Statistics
Matches: 227, Mismatches: 14, Indels: 54
0.77 0.05 0.18
Matches are distributed among these distances:
19 12 0.05
20 61 0.27
21 6 0.03
22 12 0.05
23 3 0.01
24 9 0.04
25 8 0.04
26 116 0.51
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (26 bp):
GCATGAAAGGATGTCATAATTAAAAT
Found at i:4416133 original size:46 final size:46
Alignment explanation
Indices: 4416051--4416318 Score: 380
Period size: 46 Copynumber: 5.7 Consensus size: 46
4416041 ATGCATTAAG
* * *
4416051 GCATGAAAGGATGCATT-AATCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCATTAAAGCATGAAAGGATGTCATAATTAAGAT
* *
4416096 GCGTGAAAGGATGCATTAAAGCATGAAAGGAT-TCCATAATTATGAT
1 GCATGAAAGGATGCATTAAAGCATGAAAGGATGT-CATAATTAAGAT
*
4416142 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTAAGAT
1 GCATGAAAGGATGCATTAAAGCATGAAAGGATGTCATAATTAAGAT
4416188 GCATGAAAGGATGTCATAATTAAGATGCATGAAAGGATGTCATAATTAAGAT
1 GCATGAAAGGATG-C---ATTAA-A-GCATGAAAGGATGTCATAATTAAGAT
*
4416240 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTAAGAT
1 GCATGAAAGGATGCATTAAAGCATGAAAGGATGTCATAATTAAGAT
4416286 GCATGAAAGGATGCATT-AAGACATGAAAGGATG
1 GCATGAAAGGATGCATTAAAG-CATGAAAGGATG
4416319 CAATAAATTA
Statistics
Matches: 202, Mismatches: 11, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
45 18 0.09
46 132 0.65
47 2 0.01
48 5 0.02
50 5 0.02
51 1 0.00
52 39 0.19
ACGTcount: A:0.42, C:0.09, G:0.25, T:0.24
Consensus pattern (46 bp):
GCATGAAAGGATGCATTAAAGCATGAAAGGATGTCATAATTAAGAT
Found at i:4416641 original size:21 final size:21
Alignment explanation
Indices: 4416593--4416635 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4416583 ATTTCACGTG
4416593 TAGGTAAAGGCAAGGAGTAGT
1 TAGGTAAAGGCAAGGAGTAGT
*
4416614 TAGGTAAAGGCAAGGATTAGT
1 TAGGTAAAGGCAAGGAGTAGT
4416635 T
1 T
4416636 GCGTAAGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.35, T:0.23
Consensus pattern (21 bp):
TAGGTAAAGGCAAGGAGTAGT
Found at i:4417614 original size:20 final size:20
Alignment explanation
Indices: 4417585--4417622 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4417575 TTTCAAAGTG
4417585 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
4417605 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
4417623 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:4417691 original size:45 final size:46
Alignment explanation
Indices: 4417642--4417732 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
4417632 AAACATCGAA
* *
4417642 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
*
4417687 TGCATTTGATGCATTGATGCACAAGACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
4417733 GTTTTTCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 20 0.48
46 22 0.52
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:4425263 original size:21 final size:21
Alignment explanation
Indices: 4425221--4425264 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4425211 ACCCCGGGAG
*
4425221 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
4425242 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
4425263 CT
1 CT
4425265 CCTCCTCCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:4426500 original size:45 final size:46
Alignment explanation
Indices: 4426451--4426541 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
4426441 AAACATCGAA
* *
4426451 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
* *
4426496 TGCATTTGATGCATTGATGCACAAGACCATGCATCGATGTACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
4426542 GTTTTTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 20 0.49
46 21 0.51
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:4432652 original size:22 final size:22
Alignment explanation
Indices: 4432613--4432654 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4432603 CACATCTTAA
* *
4432613 TCAAAAATCCAAAGGAAATTGC
1 TCAAAAATCAAAAAGAAATTGC
*
4432635 TCAAAAATGAAAAAGAAATT
1 TCAAAAATCAAAAAGAAATT
4432655 TTTCTCTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
TCAAAAATCAAAAAGAAATTGC
Found at i:4435917 original size:64 final size:64
Alignment explanation
Indices: 4435792--4435941 Score: 166
Period size: 64 Copynumber: 2.4 Consensus size: 64
4435782 TTAGTCCCTA
* * * * * *
4435792 AACTTTTAAATGTTTTAATTTCATCCCTAAACTATGTCTGTCATTCTAAATTAGTACTCAAATT
1 AACTTTTGAATATTTCAATTTCATCCCCAAACTATGTCTGTCATTCCAAATTAGTACTCAAACT
*
4435856 AACTTTTGAATATTTCAATTTCATCCCCAAACTATGATCT-TCATTCCAAATTGGT-CTTCAAAC
1 AACTTTTGAATATTTCAATTTCATCCCCAAACTATG-TCTGTCATTCCAAATTAGTAC-TCAAAC
4435919 T
64 T
* *
4435920 ---TTTTGAAAATTCCAATTTCATC
1 AACTTTTGAATATTTCAATTTCATC
4435942 TCAAACTGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
61 20 0.27
63 1 0.01
64 51 0.68
65 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (64 bp):
AACTTTTGAATATTTCAATTTCATCCCCAAACTATGTCTGTCATTCCAAATTAGTACTCAAACT
Found at i:4441222 original size:18 final size:18
Alignment explanation
Indices: 4441199--4441258 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
4441189 AGTGGTATAA
4441199 ACATGATTCTAATAAGTT
1 ACATGATTCTAATAAGTT
* * * *
4441217 ACATGAACTTGTCA-CAGAT
1 ACATG-A-TTCTAATAAGTT
4441236 -CATGATTCTAATAAGTT
1 ACATGATTCTAATAAGTT
4441253 ACATGA
1 ACATGA
4441259 ACTTGTCACA
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 14 0.47
19 4 0.13
20 4 0.13
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (18 bp):
ACATGATTCTAATAAGTT
Found at i:4441240 original size:36 final size:36
Alignment explanation
Indices: 4441200--4441275 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
4441190 GTGGTATAAA
4441200 CATGATTCTAATAAGTTACATGAACTTGTCACAGAT
1 CATGATTCTAATAAGTTACATGAACTTGTCACAGAT
4441236 CATGATTCTAATAAGTTACATGAACTTGTCACAGAT
1 CATGATTCTAATAAGTTACATGAACTTGTCACAGAT
4441272 CATG
1 CATG
4441276 TCAACTAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (36 bp):
CATGATTCTAATAAGTTACATGAACTTGTCACAGAT
Found at i:4442405 original size:23 final size:23
Alignment explanation
Indices: 4442360--4442406 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4442350 TTGAAAATTT
*
4442360 TTATAATATATTATTCTATTAAA
1 TTATAATATATTATTATATTAAA
*
4442383 TTATAATTTATTA-TATATATAAA
1 TTATAATATATTATTATAT-TAAA
4442406 T
1 T
4442407 ATTAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATAATATATTATTATATTAAA
Found at i:4445390 original size:3 final size:3
Alignment explanation
Indices: 4445384--4445464 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
4445374 TATTACCCTT
4445384 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4445432 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4445465 CAAACCAAAC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4446984 original size:9 final size:8
Alignment explanation
Indices: 4446918--4446985 Score: 61
Period size: 8 Copynumber: 8.5 Consensus size: 8
4446908 GTACTTGTGT
4446918 TTATTTTA
1 TTATTTTA
4446926 TT-TTTTA
1 TTATTTTA
*
4446933 TTATATTA
1 TTATTTTA
4446941 TGT-TTTTA
1 T-TATTTTA
*
4446949 CTATTTT-
1 TTATTTTA
*
4446956 TTATTATTG
1 TTATT-TTA
4446965 TTATTTTA
1 TTATTTTA
4446973 TTATTTTAA
1 TTATTTT-A
4446982 TTAT
1 TTAT
4446986 GCTTATTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
7 12 0.24
8 26 0.53
9 11 0.22
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (8 bp):
TTATTTTA
Found at i:4446985 original size:26 final size:25
Alignment explanation
Indices: 4446918--4446985 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
4446908 GTACTTGTGT
4446918 TTATTTTATT-TTTTATTA-TATTA
1 TTATTTTATTATTTTATTATTATTA
* *
4446941 TGT-TTTTACTATTTT-TTATTATTG
1 T-TATTTTATTATTTTATTATTATTA
4446965 TTATTTTATTATTTTAATTAT
1 TTATTTTATTATTTT-ATTAT
4446986 GCTTATTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
23 11 0.31
24 21 0.58
26 4 0.11
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (25 bp):
TTATTTTATTATTTTATTATTATTA
Found at i:4446992 original size:23 final size:21
Alignment explanation
Indices: 4446918--4446985 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 21
4446908 GTACTTGTGT
4446918 TTATTTTATTTTTTATTATATTATG
1 TTATTTTATTTTTTA-T-TA-T-TG
4446943 TT-TTTACTATTTTTTATTATTG
1 TTATTT--TATTTTTTATTATTG
4446965 TTATTTTATTATTTTAATTAT
1 TTATTTTATT-TTTT-ATTAT
4446986 GCTTATTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
21 4 0.11
22 8 0.21
23 9 0.24
24 5 0.13
25 3 0.08
26 9 0.24
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (21 bp):
TTATTTTATTTTTTATTATTG
Found at i:4448568 original size:21 final size:21
Alignment explanation
Indices: 4448527--4448570 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4448517 TTTACATCCG
*
4448527 ATTCTTTAAATTTTTCTAATT
1 ATTCTTTAAATTTTTATAATT
*
4448548 ATTCTTT-GATTTTTATGAATT
1 ATTCTTTAAATTTTTAT-AATT
4448569 AT
1 AT
4448571 GCTAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (21 bp):
ATTCTTTAAATTTTTATAATT
Found at i:4456056 original size:81 final size:81
Alignment explanation
Indices: 4455968--4456320 Score: 453
Period size: 81 Copynumber: 4.4 Consensus size: 81
4455958 CATTTACCCT
* * **
4455968 TTCATCTAATTGGCATAATTGACACCTTTCTGCCATATTTATAAG-TAAGCCATTTAT-TCTTTA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA-AAGCTAAGCCATTTATCT-TTTA
*
4456031 CTCAATGGTCTTTAACCG
64 CTCAACGGTCTTTAACCG
* * * *
4456049 TTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGTACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAAAGCTAAGCCATTTATCTTTTACT
* * *
4456114 CAAAGGTCTTTAATCA
66 CAACGGTCTTTAACCG
* ** *
4456130 TTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAAG-TGGGCCTTTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA-AAGCTAAGCCATTTATCTTTTAC
*
4456194 TCAACGGTCTTTAATCG
65 TCAACGGTCTTTAACCG
* * *
4456211 TTCATCTAATTGGCATAATTGACACCTTTCTGCCAAATGCACAGCT-AGACCATTTGTCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAAAGCTAAG-CCATTTATCTTTTAC
*
4456275 TCAACAGTCTTTAACCG
65 TCAACGGTCTTTAACCG
4456292 TTCATCTAACTGGCATAATTGACACCTTT
1 TTCATCTAACTGGCATAATTGACACCTTT
4456321 ATTGAAGACT
Statistics
Matches: 241, Mismatches: 26, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
80 5 0.02
81 233 0.97
82 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAAAGCTAAGCCATTTATCTTTTACT
CAACGGTCTTTAACCG
Found at i:4456195 original size:162 final size:162
Alignment explanation
Indices: 4455968--4456320 Score: 512
Period size: 162 Copynumber: 2.2 Consensus size: 162
4455958 CATTTACCCT
* * * ** *
4455968 TTCATCTAATTGGCATAATTGACACCTTTCTGCCATATTTATAAGTAAGCCATTTATTCTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAAGTAAGCCATTTATTCTTTACT
* * *
4456033 CAATGGTCTTTAACCGTTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGTACAGCTAGG
66 CAACGGTCTTTAACCGTTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCACAGCTAGA
*
4456098 CCATTTATCTTTTACTCAA-AGGTCTTTAATCA
131 CCATTTATCTTTTACTCAACA-GTCTTTAACCA
** *
4456130 TTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAAGTGGGCCTTTTA-TCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAAGTAAGCCATTTATTC-TTTAC
* * *
4456194 TCAACGGTCTTTAATCGTTCATCTAATTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAG
65 TCAACGGTCTTTAACCGTTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCACAGCTAG
* *
4456259 ACCATTTGTCTTTTACTCAACAGTCTTTAACCG
130 ACCATTTATCTTTTACTCAACAGTCTTTAACCA
4456292 TTCATCTAACTGGCATAATTGACACCTTT
1 TTCATCTAACTGGCATAATTGACACCTTT
4456321 ATTGAAGACT
Statistics
Matches: 171, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
161 2 0.01
162 168 0.98
163 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (162 bp):
TTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAAGTAAGCCATTTATTCTTTACT
CAACGGTCTTTAACCGTTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCACAGCTAGA
CCATTTATCTTTTACTCAACAGTCTTTAACCA
Found at i:4465248 original size:28 final size:28
Alignment explanation
Indices: 4465216--4465277 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
4465206 AAAACATCGA
4465216 ATGCATTTGATGCATCGATGCACCAGCC
1 ATGCATTTGATGCATCGATGCACCAGCC
*
4465244 ATGCATTTGATGCATCGATGGACCAGCC
1 ATGCATTTGATGCATCGATGCACCAGCC
4465272 ATGCAT
1 ATGCAT
4465278 CGATGCACTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (28 bp):
ATGCATTTGATGCATCGATGCACCAGCC
Found at i:4465261 original size:93 final size:91
Alignment explanation
Indices: 4465151--4465330 Score: 222
Period size: 93 Copynumber: 1.9 Consensus size: 91
4465141 TAAACTTCGA
*
4465151 ATGCATTTCATGCATCGAT-ACACATACTATGCATCGATGCACTCAAAGT-T-TTATGAAAACAT
1 ATGCATTTCATGCATCGATGAC-CA-ACCATGCATCGATGCACTC--AGTCTATTATG-AAACAT
*
4465213 CGAATGCATTTGATGCATCGATGCACCAGCC
61 CGAATGCATTTCATGCATCGATGCACCAGCC
* * * * *
4465244 ATGCATTTGATGCATCGATGGACCAGCCATGCATCGATGCACTCTGTCTATTTTGAAACATCTAA
1 ATGCATTTCATGCATCGAT-GACCAACCATGCATCGATGCACTCAGTCTATTATGAAACATCGAA
4465309 TGCATTTCATGCATCGATGCAC
65 TGCATTTCATGCATCGATGCAC
4465331 TATTAGTGAA
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
91 2 0.03
92 31 0.41
93 39 0.51
94 2 0.03
95 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (91 bp):
ATGCATTTCATGCATCGATGACCAACCATGCATCGATGCACTCAGTCTATTATGAAACATCGAAT
GCATTTCATGCATCGATGCACCAGCC
Found at i:4466412 original size:55 final size:55
Alignment explanation
Indices: 4466339--4466462 Score: 142
Period size: 55 Copynumber: 2.3 Consensus size: 55
4466329 AAATTCACCT
* * * * *
4466339 ACTTATTATGAACTTCTTAAATTTGAACATC-TATTTCCCATATGGAAATTCATAC
1 ACTTAGTATGAATTTCTTAAATTTGAACA-CATAGTGCCCATATGAAAATTCATAC
* ** *
4466394 ACTTTGTATGAATTTCTTAGTTTTGCACACATAGTGCCCATATGAAAATTCATAC
1 ACTTAGTATGAATTTCTTAAATTTGAACACATAGTGCCCATATGAAAATTCATAC
*
4466449 ACTTAGCATGAATT
1 ACTTAGTATGAATT
4466463 CTTTAGTTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 1 0.02
55 56 0.98
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (55 bp):
ACTTAGTATGAATTTCTTAAATTTGAACACATAGTGCCCATATGAAAATTCATAC
Found at i:4466469 original size:55 final size:55
Alignment explanation
Indices: 4466375--4466486 Score: 172
Period size: 55 Copynumber: 2.0 Consensus size: 55
4466365 ACATCTATTT
* * *
4466375 CCCATATGGAAATTCATACACTTTGTATGAATTTCTTAGTTTTGCACACATAGTG
1 CCCATATGAAAATTCATACACTTAGCATGAATTTCTTAGTTTTGCACACATAGTG
*
4466430 CCCATATGAAAATTCATACACTTAGCATGAA-TTCTTTAGTTTTGCACACATATTG
1 CCCATATGAAAATTCATACACTTAGCATGAATTTC-TTAGTTTTGCACACATAGTG
4466485 CC
1 CC
4466487 ATTTAGTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 3 0.06
55 49 0.94
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (55 bp):
CCCATATGAAAATTCATACACTTAGCATGAATTTCTTAGTTTTGCACACATAGTG
Found at i:4466872 original size:19 final size:21
Alignment explanation
Indices: 4466828--4466879 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
4466818 CCCCCACCAT
*
4466828 GGTATCGATACTACTATACTAT
1 GGTATCGATACTACTATA-TAC
4466850 GGTATCGATACT-CTAT-TAC
1 GGTATCGATACTACTATATAC
*
4466869 GGTACCGATAC
1 GGTATCGATAC
4466880 CATTTTTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.43
21 4 0.14
22 12 0.43
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (21 bp):
GGTATCGATACTACTATATAC
Found at i:4466926 original size:20 final size:20
Alignment explanation
Indices: 4466901--4466956 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
4466891 TCTATGATCA
*
4466901 ATGGTATCGATACCATCATC
1 ATGGTATCGATACCACCATC
* *
4466921 ATGGTATAGATACTC-CCCTC
1 ATGGTATCGATAC-CACCATC
*
4466941 TTGGTATCGATACCAC
1 ATGGTATCGATACCAC
4466957 TTGAATCGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (20 bp):
ATGGTATCGATACCACCATC
Found at i:4471009 original size:48 final size:45
Alignment explanation
Indices: 4470895--4471018 Score: 126
Period size: 46 Copynumber: 2.6 Consensus size: 45
4470885 TTCATTTGGG
* *
4470895 CATCATTTCATACTCATTATGTACTATTTACATTTTTCCTTTATGA
1 CATCATTTCATAC-CATTATGCACTATTTACATTTTTCCTATATGA
* *
4470941 CATCCA-TTCATACCAATTATGCATTATTGTACATTTTATATCTATATGA
1 CAT-CATTTCATACC-ATTATGCACTATT-TACATTTT-T-CCTATATGA
*
4470990 CATCATTTC-TACCACTTATGCACCATTTA
1 CATCATTTCATACCA-TTATGCACTATTTA
4471019 TATCCAAATG
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
45 1 0.02
46 21 0.32
47 13 0.20
48 17 0.26
49 13 0.20
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.44
Consensus pattern (45 bp):
CATCATTTCATACCATTATGCACTATTTACATTTTTCCTATATGA
Found at i:4471159 original size:81 final size:81
Alignment explanation
Indices: 4471039--4471859 Score: 1097
Period size: 81 Copynumber: 10.1 Consensus size: 81
4471029 AATTATAATT
* * ** *
4471039 CATTTAGTCTTTTACCCAAAGG-CATTTAACATTTCATCTAACTAGCATAATTGACACCTTTCTG
1 CATTTA-TCTTTTACTCAACGGTC-TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTG
*
4471103 CAAAATGCACAGCTAGGC
64 CCAAATGCACAGCTAGGC
* * *
4471121 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGAATAATTGACACATTTCTTCC
1 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
* *
4471186 AAATGAACAACTAGGC
66 AAATGCACAGCTAGGC
** * * ** * *
4471202 CATTTATCTTTTACTCAAATGTCTTTAATCGTTCATATAACAAGCATAATTGACACATTTCTGCT
1 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
* *
4471267 AAATACACAGCTAGAC
66 AAATGCACAGCTAGGC
* * *
4471283 CATTTATCATTTACTCAACGGTCTTTAACTGTTCATCTAACTGGCATAATTGACACATTTCTGCC
1 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
*
4471348 AAATGCACAACTAGGC
66 AAATGCACAGCTAGGC
* ** *
4471364 CATTTATCTTTTACTTAACATTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACC
1 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
* *
4471429 AAATGTACATCTAGGC
66 AAATGCACAGCTAGGC
** * * * *
4471445 CATTTATCTTTTACTCAATAGTCTTTAGCCCTTCATCTAACTGGCGTAATTAACACCTTTCTGCC
1 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
* *
4471510 AAATGTACAGCTAGAC
66 AAATGCACAGCTAGGC
* *
4471526 CATTTATCTTTTACTCAACAGTCTTTAACCGTTCATCTAACTGGCATAATTCACACCTTTCTGCC
1 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
* *
4471591 AAATGGACAACTAGGC
66 AAATGCACAGCTAGGC
* * *
4471607 CTTTTATCTTTTACTCAACGGTCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTTTGCC
1 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
4471672 AAATGCACAGCTAGGC
66 AAATGCACAGCTAGGC
** * * * * *
4471688 CATTTATCTTTTACTCAACGGTCTTTAACAATTCATCTAACTGACATAATTGGCACATTTATTCC
1 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
*
4471753 AAATGCACAACTAGGC
66 AAATGCACAGCTAGGC
* *
4471769 CATTTATCTTTTACTCAACGATCTTTAACCCTTCATCTAACT-GCATAATTGACACCTTTCTGCC
1 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
*
4471833 AAATGCACAGCTAGGT
66 AAATGCACAGCTAGGC
4471849 CATTTATCTTT
1 CATTTATCTTT
4471860 CAATCTTAGA
Statistics
Matches: 648, Mismatches: 90, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
80 42 0.06
81 599 0.92
82 7 0.01
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (81 bp):
CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
AAATGCACAGCTAGGC
Found at i:4472078 original size:54 final size:54
Alignment explanation
Indices: 4472017--4472138 Score: 154
Period size: 55 Copynumber: 2.2 Consensus size: 54
4472007 ACCAATACCG
** *
4472017 AAATTTCTTAGTTCGCACACCGAGTGCCAATACGAAAATTCATACACTTAGTAT
1 AAATTTCTTAGTTCAAACACAGAGTGCCAATACGAAAATTCATACACTTAGTAT
* * * *
4472071 AAATTTCTTAGTTTTAAACACATAGTGCCCATACGAAAATTCATACACTTGGTAT
1 AAATTTCTTAG-TTCAAACACAGAGTGCCAATACGAAAATTCATACACTTAGTAT
* *
4472126 GAATTCCTTAGTT
1 AAATTTCTTAGTT
4472139 TTGCACACAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 13 0.22
55 45 0.78
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (54 bp):
AAATTTCTTAGTTCAAACACAGAGTGCCAATACGAAAATTCATACACTTAGTAT
Found at i:4472107 original size:55 final size:55
Alignment explanation
Indices: 4472039--4472151 Score: 172
Period size: 55 Copynumber: 2.1 Consensus size: 55
4472029 TCGCACACCG
*
4472039 AGTGCCAATACGAAAATTCATACACTTAGTATAAATTTCTTAGTTTTAAACACAT
1 AGTGCCAATACGAAAATTCATACACTTAGTATAAATTCCTTAGTTTTAAACACAT
* * * **
4472094 AGTGCCCATACGAAAATTCATACACTTGGTATGAATTCCTTAGTTTTGCACACAT
1 AGTGCCAATACGAAAATTCATACACTTAGTATAAATTCCTTAGTTTTAAACACAT
4472149 AGT
1 AGT
4472152 ACCATTTAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (55 bp):
AGTGCCAATACGAAAATTCATACACTTAGTATAAATTCCTTAGTTTTAAACACAT
Found at i:4475797 original size:4 final size:4
Alignment explanation
Indices: 4475788--4475839 Score: 63
Period size: 4 Copynumber: 12.8 Consensus size: 4
4475778 CTAAGAAGAA
4475788 AAAG AAAG -AA- AAAG AAAG AAAAG AAAG AAAAG AAAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG -AAAG AAAG -AAAG -AAAG AAAG AAAG AAAG
4475837 AAA
1 AAA
4475840 AAATAAGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 4 0.09
4 27 0.61
5 13 0.30
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:4475798 original size:10 final size:10
Alignment explanation
Indices: 4475783--4475855 Score: 89
Period size: 10 Copynumber: 7.2 Consensus size: 10
4475773 TACGCCTAAG
4475783 AAGAAAAAGA
1 AAGAAAAAGA
4475793 AAGAAAAAGA
1 AAGAAAAAGA
4475803 AAG-AAAAGA
1 AAGAAAAAGA
4475812 AAG-AAAAGAA
1 AAGAAAAAG-A
4475822 AAGAAAGAAAGA
1 AAG-AA-AAAGA
4475834 AAGAAAAA-A
1 AAGAAAAAGA
4475843 TAAGAAAAAGA
1 -AAGAAAAAGA
4475854 AA
1 AA
4475856 ATGAGAGGTT
Statistics
Matches: 57, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
9 15 0.26
10 30 0.53
11 3 0.05
12 5 0.09
13 4 0.07
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:4475807 original size:14 final size:13
Alignment explanation
Indices: 4475780--4475849 Score: 70
Period size: 13 Copynumber: 5.2 Consensus size: 13
4475770 TACTACGCCT
*
4475780 AAGAAGAAAAAGA
1 AAGAAAAAAAAGA
4475793 AAGAAAAAGAAAGAA
1 AAGAAAAA-AAAG-A
*
4475808 AAGAAAGAAAAGA
1 AAGAAAAAAAAGA
*
4475821 AA-AGAAAGAAAGA
1 AAGA-AAAAAAAGA
4475834 AAGAAAAAATAAGA
1 AAGAAAAAA-AAGA
4475848 AA
1 AA
4475850 AAGAAAATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
12 1 0.02
13 23 0.49
14 15 0.32
15 8 0.17
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (13 bp):
AAGAAAAAAAAGA
Found at i:4475820 original size:18 final size:17
Alignment explanation
Indices: 4475780--4475842 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 17
4475770 TACTACGCCT
4475780 AAGAAGAAAAAGAAAGAAA
1 AAGAA-AAAAAGAAAG-AA
4475799 AAGAAAGAAAAGAAAGAA
1 AAGAAA-AAAAGAAAGAA
4475817 AAGAAAAGAAAGAAAG-A
1 AAGAAAA-AAAGAAAGAA
4475834 AAGAAAAAA
1 AAGAAAAAA
4475843 TAAGAAAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.05
17 9 0.21
18 17 0.40
19 14 0.33
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAGAAAGAA
Found at i:4475850 original size:9 final size:8
Alignment explanation
Indices: 4475780--4475856 Score: 66
Period size: 9 Copynumber: 8.9 Consensus size: 8
4475770 TACTACGCCT
4475780 AAGAAGAAA
1 AAGAA-AAA
4475789 AAGAAAGAAA
1 AAG-AA-AAA
4475799 AAGAAAGAA
1 AAGAAA-AA
4475808 AAGAAAGAA
1 AAGAAA-AA
4475817 AAGAAAAGA
1 AAGAAAA-A
*
4475826 AAGAAAGA
1 AAGAAAAA
4475834 AAGAAAAA
1 AAGAAAAA
*
4475842 ATA-AGAAA
1 A-AGAAAAA
4475850 AAGAAAA
1 AAGAAAA
4475857 TGAGAGGTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
7 1 0.02
8 19 0.32
9 30 0.51
10 9 0.15
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (8 bp):
AAGAAAAA
Found at i:4475857 original size:14 final size:15
Alignment explanation
Indices: 4475789--4475855 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 15
4475779 TAAGAAGAAA
4475789 AAGAAAGAA-AAAGA-
1 AAGAAA-AAGAAAGAT
*
4475803 AAG-AAAAGAAAGAA
1 AAGAAAAAGAAAGAT
4475817 AAG-AAAAGAAAGA-
1 AAGAAAAAGAAAGAT
4475830 AAGAAAGAA-AAA-AT
1 AAGAAA-AAGAAAGAT
4475844 AAGAAAAAGAAA
1 AAGAAAAAGAAA
4475856 ATGAGAGGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
12 2 0.04
13 13 0.28
14 30 0.64
15 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (15 bp):
AAGAAAAAGAAAGAT
Found at i:4477009 original size:91 final size:91
Alignment explanation
Indices: 4476895--4477127 Score: 348
Period size: 91 Copynumber: 2.6 Consensus size: 91
4476885 GAATGAGGTA
**
4476895 GATCAACATTT-TCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTC
1 GATCAACATTTCT-AGTGGGGAGTTCATAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTC
4476959 ATAATGAGAAGAACTTGTTCAACCTTG
65 ATAATGAGAAGAACTTGTTCAACCTTG
* * *
4476986 GATCAACATTTCTAGTGGGGAGTTCTTAATGAGAAGAACTCATCC-AACGAAGGAGGAGAAGTTC
1 GATCAACATTTCTAGTGGGGAGTTCATAATGAGAAGAACTCATCCGAA-GAGGGAGAAGAAGTTC
4477050 ATAATGAGAAGAACTTGTTCAACCTTG
65 ATAATGAGAAGAACTTGTTCAACCTTG
* *
4477077 GCTCAACATTTCCAG-GGGAGAGTTCATAATGAGAAGAACTCATCCG-AGAGG
1 GATCAACATTTCTAGTGGG-GAGTTCATAATGAGAAGAACTCATCCGAAGAGG
4477128 TGGATCAACA
Statistics
Matches: 129, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
90 8 0.06
91 120 0.93
92 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (91 bp):
GATCAACATTTCTAGTGGGGAGTTCATAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTG
Found at i:4477415 original size:3 final size:3
Alignment explanation
Indices: 4477409--4477451 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
4477399 TACCCTTTTG
* * *
4477409 TTA TTA TTA TTA TTA ATA TTA TTA TAA ATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4477452 AAACCAAACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:4477452 original size:18 final size:18
Alignment explanation
Indices: 4477409--4477454 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
4477399 TACCCTTTTG
* *
4477409 TTATTATTATTATTAATA
1 TTATTATAAATATTAATA
*
4477427 TTATTATAAATATTATTA
1 TTATTATAAATATTAATA
4477445 TTATTATAAA
1 TTATTATAAA
4477455 CCAAACCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTATAAATATTAATA
Found at i:4478913 original size:7 final size:7
Alignment explanation
Indices: 4478901--4478966 Score: 51
Period size: 7 Copynumber: 8.3 Consensus size: 7
4478891 CTTGTGTTTA
4478901 TTTTATT
1 TTTTATT
4478908 TTTTATT
1 TTTTATT
*
4478915 CTATTATGT
1 -TTTTAT-T
4478924 CTTTACTATT
1 -TTT--TATT
4478934 TTTTATT
1 TTTTATT
4478941 TTTTATT
1 TTTTATT
4478948 ATTGTTATT
1 -TT-TTATT
4478957 TTATTATT
1 TT-TTATT
4478965 TT
1 TT
4478967 AATTATATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
7 18 0.36
8 16 0.32
9 12 0.24
10 1 0.02
11 3 0.06
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (7 bp):
TTTTATT
Found at i:4478980 original size:9 final size:8
Alignment explanation
Indices: 4478898--4478980 Score: 57
Period size: 8 Copynumber: 10.4 Consensus size: 8
4478888 GTACTTGTGT
4478898 TTATTTTA
1 TTATTTTA
4478906 TT-TTTTA
1 TTATTTTA
* *
4478913 TTCTATTA
1 TTATTTTA
*
4478921 TGT-CTTTA
1 T-TATTTTA
*
4478929 CTATTTT-
1 TTATTTTA
4478936 TTATTTT-
1 TTATTTTA
*
4478943 TTATTATTG
1 TTATT-TTA
4478952 TTATTTTA
1 TTATTTTA
4478960 TTATTTTAA
1 TTATTTT-A
4478969 TTATATTTA
1 TTAT-TTTA
4478978 TTA
1 TTA
4478981 ATTGTTTTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
7 19 0.31
8 24 0.39
9 15 0.25
10 3 0.05
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (8 bp):
TTATTTTA
Found at i:4480262 original size:14 final size:14
Alignment explanation
Indices: 4480243--4480270 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4480233 ATTATGTGCC
4480243 TTTTAAATTCAAGG
1 TTTTAAATTCAAGG
4480257 TTTTAAATTCAAGG
1 TTTTAAATTCAAGG
4480271 AATTGTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TTTTAAATTCAAGG
Found at i:4481804 original size:30 final size:31
Alignment explanation
Indices: 4481770--4481838 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
4481760 ACAAGCCTTA
* *
4481770 GAAAAATTTGGTGACCATTTTG-TAATTTTT
1 GAAAAATTTGGGGACCAATTTGATAATTTTT
* *
4481800 GAAAAGTTGGGGGACCAATTTGATAATTTTT
1 GAAAAATTTGGGGACCAATTTGATAATTTTT
4481831 -AAAAATTT
1 GAAAAATTT
4481839 ATGAATGGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (31 bp):
GAAAAATTTGGGGACCAATTTGATAATTTTT
Found at i:4482727 original size:25 final size:26
Alignment explanation
Indices: 4482695--4482754 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
4482685 TGAAAGGATA
*
4482695 CTAA-GTGTA-TATGGTGGGCATGAC
1 CTAATGTGTATTATGGTGGGCACGAC
*
4482719 CTTATGTGTATTATGGTGGGCACGAC
1 CTAATGTGTATTATGGTGGGCACGAC
4482745 CTAATGTGTA
1 CTAATGTGTA
4482755 ATGTACTTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 3 0.10
25 5 0.16
26 23 0.74
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.33
Consensus pattern (26 bp):
CTAATGTGTATTATGGTGGGCACGAC
Found at i:4482786 original size:40 final size:38
Alignment explanation
Indices: 4482730--4482810 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 38
4482720 TTATGTGTAT
* * *
4482730 TATGGTGGGCACGACCTAATGTGTAATGTACTTCGGTGCA
1 TATGGTGGGAACGACCTAATGTGT-A-GCACTACGGTGCA
* *
4482770 TATGGTGGGAATGACCTTATGTGTAGCACTACGGTGCA
1 TATGGTGGGAACGACCTAATGTGTAGCACTACGGTGCA
4482808 TAT
1 TAT
4482811 ATTACTCGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
38 14 0.39
39 1 0.03
40 21 0.58
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (38 bp):
TATGGTGGGAACGACCTAATGTGTAGCACTACGGTGCA
Found at i:4483545 original size:172 final size:173
Alignment explanation
Indices: 4483306--4483743 Score: 473
Period size: 172 Copynumber: 2.6 Consensus size: 173
4483296 AGGGAATCCA
* * * * * * *
4483306 TTCTCACAAG-AGCGCTTTCACCTTTTACAGGGAATCTTTACCATTTCACAGTCTCTCATCCCAT
1 TTCTCACAAGAAGTGCTTTCACCTTTTATAGGGAATCTCTACCATGTCATAGTGTCTCATTCCAT
*
4483370 CAGACATATAAAA-TGTTTG-CATGAATAGTTCCCCGACTATGAACATCAACTGTGCATATAATT
66 CAGACATATAAAAGTG-TTGACATGAATAGTTCCCCGACTAGGAACATCAACTGTGCATATAATT
* *
4483433 G-ACTTAAAAA-TACAGA-GAATCTCTAA-AACTAAAAATGAAGACTC
130 GTA-TGAAAAACT-CA-ACGAATCTCTAACAA-TAAAAAGGAAGACTC
* * * *
4483477 TTCTCACAAGAAGTGCTTTCACCTTTTGTATGGATTCTCTACCATGTCATAGTGTCTCATTTCAT
1 TTCTCACAAGAAGTGCTTTCACCTTTTATAGGGAATCTCTACCATGTCATAGTGTCTCATTCCAT
* * * * * * ** **
4483542 CAGACATA-AGAAGTGTTGACATGGATAATTCCTCGGCTGGGAGTATCAGTTGTGCATATAATTG
66 CAGACATATAAAAGTGTTGACATGAATAGTTCCCCGACTAGGAACATCAACTGTGCATATAATTG
* *
4483606 TATGAAAAACTCAACGAATCTCTAACAATAAAAGGGAAGGCTC
131 TATGAAAAACTCAACGAATCTCTAACAATAAAAAGGAAGACTC
* * * *
4483649 TTCTCACAAGAAGCT-CTTTCACCTTTTTTAGGGAGTCTCTGCCATGTCATAATGTCTCATTCCA
1 TTCTCACAAGAAG-TGCTTTCACCTTTTATAGGGAATCTCTACCATGTCATAGTGTCTCATTCCA
*
4483713 TCAGACATA-AAAGGTGTTGACATGAATAGTT
65 TCAGACATATAAAAGTGTTGACATGAATAGTT
4483744 TCTCAAATTG
Statistics
Matches: 223, Mismatches: 36, Indels: 15
0.81 0.13 0.05
Matches are distributed among these distances:
171 17 0.08
172 201 0.90
173 5 0.02
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (173 bp):
TTCTCACAAGAAGTGCTTTCACCTTTTATAGGGAATCTCTACCATGTCATAGTGTCTCATTCCAT
CAGACATATAAAAGTGTTGACATGAATAGTTCCCCGACTAGGAACATCAACTGTGCATATAATTG
TATGAAAAACTCAACGAATCTCTAACAATAAAAAGGAAGACTC
Found at i:4487307 original size:41 final size:42
Alignment explanation
Indices: 4487254--4487333 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
4487244 ACAACTGTTC
* *
4487254 CATATTCTTTTTCATTAATATACTTTTCATAATTTTCATTTT
1 CATATTCTTTTTCATTAAGATACTTTTCATAAATTTCATTTT
* *
4487296 CATATTC-TTTTCTTTCAGATACTTTTCATAAATTTCAT
1 CATATTCTTTTTCATTAAGATACTTTTCATAAATTTCAT
4487334 ATTTACCTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 27 0.79
42 7 0.21
ACGTcount: A:0.26, C:0.16, G:0.01, T:0.56
Consensus pattern (42 bp):
CATATTCTTTTTCATTAAGATACTTTTCATAAATTTCATTTT
Found at i:4492734 original size:20 final size:20
Alignment explanation
Indices: 4492705--4492757 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
4492695 GCAGCCTTCG
*
4492705 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
*
4492725 TGCATCGATGTACAGCAGGA
1 TGCATCGATGCACAGCAGGA
4492745 TGCATCGATGCAC
1 TGCATCGATGCAC
4492758 TAAGTGCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:4492847 original size:21 final size:21
Alignment explanation
Indices: 4492821--4492876 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
4492811 TAGTGGAAGT
4492821 TGCATGGATGCACTGCAGGAG
1 TGCATGGATGCACTGCAGGAG
4492842 TGCATGGATGCACTGCAGGAG
1 TGCATGGATGCACTGCAGGAG
*
4492863 TGCATGGATACACT
1 TGCATGGATGCACT
4492877 TTGACACCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGAG
Found at i:4493122 original size:18 final size:18
Alignment explanation
Indices: 4493099--4493135 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4493089 ATTTTTAATG
*
4493099 AAAAAGATATCAATTGTT
1 AAAAAGATACCAATTGTT
*
4493117 AAAAAGATGCCAATTGTT
1 AAAAAGATACCAATTGTT
4493135 A
1 A
4493136 CAAATTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.30
Consensus pattern (18 bp):
AAAAAGATACCAATTGTT
Found at i:4501711 original size:20 final size:20
Alignment explanation
Indices: 4501682--4501734 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
4501672 TGCAGCCTCG
* *
4501682 TGCATGGATGCACAGTAGGA
1 TGCATCGATGCACAGCAGGA
* *
4501702 TGCATTGATGCATAGCAGGA
1 TGCATCGATGCACAGCAGGA
4501722 TGCATCGATGCAC
1 TGCATCGATGCAC
4501735 TAAGTGTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:4507219 original size:16 final size:16
Alignment explanation
Indices: 4507200--4507233 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4507190 GATTAATATC
*
4507200 AAATCTACATGAAAAA
1 AAATCTACAGGAAAAA
4507216 AAATCTACAGGAAAAA
1 AAATCTACAGGAAAAA
4507232 AA
1 AA
4507234 TCACAGCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATCTACAGGAAAAA
Found at i:4507239 original size:14 final size:15
Alignment explanation
Indices: 4507200--4507239 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
4507190 GATTAATATC
*
4507200 AAATCTACATGAAAAA
1 AAATCTACA-GGAAAA
4507216 AAATCTACAGGAAAA
1 AAATCTACAGGAAAA
4507231 AAATC-ACAG
1 AAATCTACAG
4507240 CATCAAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.17
15 10 0.43
16 9 0.39
ACGTcount: A:0.60, C:0.15, G:0.10, T:0.15
Consensus pattern (15 bp):
AAATCTACAGGAAAA
Found at i:4508806 original size:20 final size:20
Alignment explanation
Indices: 4508781--4508833 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
4508771 TTATGAACAG
4508781 TAGGGGAATCGGTTCCCTGT
1 TAGGGGAATCGGTTCCCTGT
4508801 TAGGGGAATCGGTTCCCTGT
1 TAGGGGAATCGGTTCCCTGT
4508821 TAGGGGAATCGGT
1 TAGGGGAATCGGT
4508834 ACCCCAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.17, G:0.38, T:0.28
Consensus pattern (20 bp):
TAGGGGAATCGGTTCCCTGT
Found at i:4509523 original size:59 final size:59
Alignment explanation
Indices: 4509429--4509550 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 59
4509419 CAATCCGGAG
* * **
4509429 TATGACACATAAGGTCATGTCCACCATCTGTACTAGGTATCCTTAAGTACAGTCCCGAA
1 TATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAGTCCCGAA
** * ** *
4509488 TATGACACATAAGGTTGTGCCCACCATATACACTAGGTATCCTTTAGTGTATTCCCGAA
1 TATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAGTCCCGAA
4509547 TATG
1 TATG
4509551 CAGCCTGCTG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (59 bp):
TATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAGTCCCGAA
Found at i:4514957 original size:15 final size:15
Alignment explanation
Indices: 4514937--4514970 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
4514927 TCAATCGCAA
4514937 CCATTCGATACGAAC
1 CCATTCGATACGAAC
4514952 CCATTCGATACGAAC
1 CCATTCGATACGAAC
4514967 CCAT
1 CCAT
4514971 AGATATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.35, G:0.12, T:0.21
Consensus pattern (15 bp):
CCATTCGATACGAAC
Found at i:4516778 original size:60 final size:60
Alignment explanation
Indices: 4516685--4516798 Score: 210
Period size: 60 Copynumber: 1.9 Consensus size: 60
4516675 TAGGGGAATT
*
4516685 GGTACCCCAAATACATTTTGGAAAATTTTGCTTAAAATCGTGGTTACTGTTCATGATATC
1 GGTACCCCAAATACATTCTGGAAAATTTTGCTTAAAATCGTGGTTACTGTTCATGATATC
*
4516745 GGTACCCCAAATGCATTCTGGAAAATTTTGCTTAAAATCGTGGTTACTGTTCAT
1 GGTACCCCAAATACATTCTGGAAAATTTTGCTTAAAATCGTGGTTACTGTTCAT
4516799 ACTATAGCAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (60 bp):
GGTACCCCAAATACATTCTGGAAAATTTTGCTTAAAATCGTGGTTACTGTTCATGATATC
Found at i:4516906 original size:13 final size:13
Alignment explanation
Indices: 4516890--4516919 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4516880 AAATTTATTC
4516890 AACAAATAAATTG
1 AACAAATAAATTG
4516903 AACAAATAAATTG
1 AACAAATAAATTG
4516916 AACA
1 AACA
4516920 TTTTCAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (13 bp):
AACAAATAAATTG
Found at i:4517466 original size:59 final size:59
Alignment explanation
Indices: 4517374--4517502 Score: 159
Period size: 59 Copynumber: 2.2 Consensus size: 59
4517364 CGTAATGCAA
* * * ** *
4517374 TCCCGAGTATGACACATAAGGTCATGTCCACCATCTGTACTATGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAG
* * ** *
4517433 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAG
4517492 TCCCGAATATG
1 TCCCGAATATG
4517503 CAGCCTGCTG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:4521396 original size:81 final size:81
Alignment explanation
Indices: 4521283--4521760 Score: 670
Period size: 81 Copynumber: 5.9 Consensus size: 81
4521273 TCCTTTAGTA
* * * *
4521283 TTTTACTCAATGGTATTTGACCGTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCAC
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* *
4521348 AACTAGGTCATTTATC
66 AGCTAGGCCATTTATC
* * *
4521364 TTTTATTCAACGATATTTAATCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCAC
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
4521429 AGCT-GGTCATTTATC
66 AGCTAGGCCATTTATC
* * * *
4521444 TTTTACTCAACGATATTTAACCGTTCATCTAATTGGAATAATTAACACCTTTCTACCAAATGCAC
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
4521509 AGCTAGGCCATTTATC
66 AGCTAGGCCATTTATC
* * * *
4521525 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTTTTCCAAATGCAT
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
4521590 AGCTAGGCCATTTATC
66 AGCTAGGCCATTTATC
* * * **
4521606 TTTTACTCACCGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTTTTTCAAATGCAC
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
4521671 AACTAGGCCATTTATC
66 AGCTAGGCCATTTATC
* * * * * * *
4521687 TTTTTCTTAACGTTATTTAACCATTCATCTAACTGGTAGAATTGACACCTTTCTGCCAAATGCAG
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
4521752 AGCTAGGCC
66 AGCTAGGCC
4521761 TCAAAGGCAC
Statistics
Matches: 357, Mismatches: 39, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
80 73 0.20
81 284 0.80
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (81 bp):
TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
AGCTAGGCCATTTATC
Found at i:4522255 original size:55 final size:55
Alignment explanation
Indices: 4522173--4522408 Score: 323
Period size: 55 Copynumber: 4.3 Consensus size: 55
4522163 TATCAAGATA
* * *
4522173 CACACGTAGAGCCTATACGG-TAGTTCATCAACTCATGATGAATTCCATGGTTTTG
1 CACACTTAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCATGGTTTTG
*
4522228 CACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTATGGTTTTG
1 CACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGTTTTG
* * * ***
4522283 CACACTTAGTGCATGTACGATTATTCATCAAATCATGATGAATTTTGTGGTTTTG
1 CACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGTTTTG
* * * *
4522338 CACACTTAGTGCCTATACGGTTTTTCATC-ACTTATTATGAATTCCATGGTTTTG
1 CACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGTTTTG
4522392 CACACTTAGTGCCTGTA
1 CACACTTAGTGCCTGTA
4522409 GTAGACGTAG
Statistics
Matches: 160, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
54 35 0.22
55 123 0.77
56 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (55 bp):
CACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGTTTTG
Found at i:4522851 original size:20 final size:20
Alignment explanation
Indices: 4522812--4522865 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
4522802 TCTATGATCA
*
4522812 ATGGTATCGATACCATCCTC
1 ATGGTATCGATACCACCCTC
4522832 ATGGTATCGATACTC-CCCTC
1 ATGGTATCGATAC-CACCCTC
* *
4522852 TTGGTATTGATACC
1 ATGGTATCGATACC
4522866 TCTTGAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (20 bp):
ATGGTATCGATACCACCCTC
Found at i:4527141 original size:81 final size:81
Alignment explanation
Indices: 4526961--4527521 Score: 713
Period size: 81 Copynumber: 7.0 Consensus size: 81
4526951 TTATAATTCC
* * * * * *
4526961 TTTAGTCTTTTACCCAGCGATATTTAAACGTTCATCTAACTAGCATAATTGACACCTTTGTG-C-
1 TTTA-TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
4527024 ----CACAGCTAGGCCA
65 AATGCACAGCTAGGCCA
* * *
4527037 TTTATCTTTTACTCAACGATATTTATCCGTTCATCTAATTGGCATAATTGACACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
4527102 ATGTACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * * **
4527118 TTTATATTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAATTAACACATTTCTAACAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
* *
4527183 ATGCATAGCTAGGCAA
66 ATGCACAGCTAGGCCA
* * * * * *
4527199 TTTATCTTTTACTCAACAGTATTTAACC-TTTAGTCTAACCGGAAAAATTGACACCTTTCTGCCC
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCA-TCTAACTGGCATAATTGACACCTTTCTGCCA
*
4527263 AATGCATAGCTAGGCCA
65 AATGCACAGCTAGGCCA
* * * *
4527280 TTTATCTTTTACTCAACGATATTTAACCGTTCATCTAACTGTCATAATTGACACATTTCTTCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
4527345 ATGCACAACTAGGCCA
66 ATGCACAGCTAGGCCA
* * * * *
4527361 TTTATCTTTTACTCAACGGTATTTAATCGTTCATCGAACTAGCATAATTGACACCTTTTTTCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
4527426 ATGCACATCTAGGCCA
66 ATGCACAGCTAGGCCA
* *
4527442 TTTATCTTTTACTCAACGGTATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
4527507 ATGCACAGCTAGGCC
66 ATGCACAGCTAGGCC
4527522 TCAAAGGCAC
Statistics
Matches: 417, Mismatches: 60, Indels: 11
0.85 0.12 0.02
Matches are distributed among these distances:
75 50 0.12
76 5 0.01
80 3 0.01
81 356 0.85
82 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (81 bp):
TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
ATGCACAGCTAGGCCA
Found at i:4528000 original size:55 final size:54
Alignment explanation
Indices: 4527933--4528112 Score: 254
Period size: 55 Copynumber: 3.3 Consensus size: 54
4527923 TTTATTAAGA
* * * *
4527933 TGCACACGTAGTGTCTATACGG-TAGTTCATCAACTCATGATGTATTTCGTGGTTT
1 TGCACACTTAGTG-CTGTACGGTTA-TTCATCAACTCATGATGAATTTCATGGTTT
* *
4527988 TGCACACTTAGTGAATGTACGGTTATTCATCAACTCATGATGAATTCCATGGTTT
1 TGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCATGGTTT
*
4528043 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTTTATGGTTT
1 TGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATGGTTT
4528098 TGCACACTTAGTGCT
1 TGCACACTTAGTGCT
4528113 TGTAGTAGAC
Statistics
Matches: 113, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
54 1 0.01
55 110 0.97
56 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.38
Consensus pattern (54 bp):
TGCACACTTAGTGCTGTACGGTTATTCATCAACTCATGATGAATTTCATGGTTT
Found at i:4528032 original size:29 final size:29
Alignment explanation
Indices: 4527999--4528087 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
4527989 GCACACTTAG
4527999 TGAATGTACGGTTATTCATCAACTCATGA
1 TGAATGTACGGTTATTCATCAACTCATGA
* *
4528028 TGAAT-TCCATGGTT-TTGCA-C-ACTTA-G-
1 TGAATGT--ACGGTTATT-CATCAACTCATGA
*
4528054 TGCATGTACGGTTATTCATCAACTCATGA
1 TGAATGTACGGTTATTCATCAACTCATGA
4528083 TGAAT
1 TGAAT
4528088 TTTATGGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
25 7 0.16
26 7 0.16
27 6 0.13
28 6 0.13
29 12 0.27
30 7 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (29 bp):
TGAATGTACGGTTATTCATCAACTCATGA
Found at i:4531511 original size:23 final size:22
Alignment explanation
Indices: 4531481--4531524 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
4531471 ATGTGATGTG
* *
4531481 TACAATAATAAGTCAAATGAATC
1 TACAATAAAAAGT-AAAAGAATC
4531504 TACAATAAAAAGTAAAAGAAT
1 TACAATAAAAAGTAAAAGAAT
4531525 AAAAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.23
Consensus pattern (22 bp):
TACAATAAAAAGTAAAAGAATC
Found at i:4532910 original size:50 final size:51
Alignment explanation
Indices: 4532835--4532973 Score: 153
Period size: 50 Copynumber: 2.8 Consensus size: 51
4532825 TGAACTTAAT
*
4532835 AGAAATCAGGAT-GGAGATAATGCCTTCCCAAAAAGGAT-CTAGTCAGAAAC
1 AGAAATCAGGATGGGAGATAATGCCTT-CCAAAAAGGATCCCAGTCAGAAAC
* * * *
4532885 AGAAATCAAGATGGGA-ATAATGCCTTCCAAAAAGGTTCCCAGTTAGAAAT
1 AGAAATCAGGATGGGAGATAATGCCTTCCAAAAAGGATCCCAGTCAGAAAC
* * *
4532935 AGAAATCAGGATAGG-GAT-ATAGCCCTCCAAAGAGGATCC
1 AGAAATCAGGATGGGAGATAAT-GCCTTCCAAAAAGGATCC
4532974 TAAATAGAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
49 12 0.16
50 60 0.80
51 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (51 bp):
AGAAATCAGGATGGGAGATAATGCCTTCCAAAAAGGATCCCAGTCAGAAAC
Found at i:4533643 original size:13 final size:14
Alignment explanation
Indices: 4533615--4533652 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
4533605 ACGGTTAGTG
*
4533615 ATCAAAGTCTAACA
1 ATCAAAGTCAAACA
4533629 ATCAAAGT-AAACA
1 ATCAAAGTCAAACA
4533642 ATCAAAGTCAA
1 ATCAAAGTCAA
4533653 TGGTAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.18
Consensus pattern (14 bp):
ATCAAAGTCAAACA
Done.