Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009247.1 Hibiscus syriacus cultivar Beakdansim tig00112888_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: 1479039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:615980 original size:21 final size:21
Alignment explanation
Indices: 615950--616032 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
615940 ATTTTCATAT
*
615950 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
615971 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
* *
615992 TCGCATTGTGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
616013 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
616033 CTGATTTGCG
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
20 1 0.02
21 42 0.93
22 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:625184 original size:21 final size:21
Alignment explanation
Indices: 625155--625201 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
625145 ATTCTGACTA
*
625155 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCAATTTCCCAAAT
* * *
625176 TCGCGTTGCAATTTTCCTAAT
1 TCGCATTGCAATTTCCCAAAT
625197 TCGCA
1 TCGCA
625202 ACGCGAATAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (21 bp):
TCGCATTGCAATTTCCCAAAT
Found at i:625222 original size:20 final size:20
Alignment explanation
Indices: 625197--625328 Score: 142
Period size: 20 Copynumber: 6.5 Consensus size: 20
625187 TTTTCCTAAT
625197 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
*
625217 TCGCAACGCGTAT-CTGTAAA
1 TCGCAACGCGAATAC-GTAAA
* *
625237 TCGCAACGAGAATACATAAA
1 TCGCAACGCGAATACGTAAA
* * *
625257 TCGCAATGCGTATCCGTAAA
1 TCGCAACGCGAATACGTAAA
*
625277 TCGCAACGAC-AATAAGTAAAA
1 TCGCAACG-CGAATACGT-AAA
* *
625298 TCGCAACGCGTATCCGTAAA
1 TCGCAACGCGAATACGTAAA
625318 TCGCAACGCGA
1 TCGCAACGCGA
625329 TTTTTAAAGC
Statistics
Matches: 90, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
19 1 0.01
20 72 0.80
21 17 0.19
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAATACGTAAA
Found at i:625241 original size:40 final size:40
Alignment explanation
Indices: 625197--625328 Score: 194
Period size: 40 Copynumber: 3.3 Consensus size: 40
625187 TTTTCCTAAT
*
625197 TCGCAACGCGAATACGTAAATCGCAACGCGTATCTGTAAA
1 TCGCAACGCGAATACGTAAATCGCAACGCGTATCCGTAAA
* * *
625237 TCGCAACGAGAATACATAAATCGCAATGCGTATCCGTAAA
1 TCGCAACGCGAATACGTAAATCGCAACGCGTATCCGTAAA
*
625277 TCGCAACGAC-AATAAGTAAAATCGCAACGCGTATCCGTAAA
1 TCGCAACG-CGAATACGT-AAATCGCAACGCGTATCCGTAAA
625318 TCGCAACGCGA
1 TCGCAACGCGA
625329 TTTTTAAAGC
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
40 50 0.62
41 31 0.38
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (40 bp):
TCGCAACGCGAATACGTAAATCGCAACGCGTATCCGTAAA
Found at i:625910 original size:20 final size:19
Alignment explanation
Indices: 625885--625954 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 19
625875 TTCTAAACTT
625885 AAAATCGCAACATGAAAATG
1 AAAATCGCAACA-GAAAATG
625905 AAAATCGCAACACGAAAATG
1 AAAATCGCAACA-GAAAATG
**
625925 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC-AGA-AAATG
625946 AAAATCGCA
1 AAAATCGCA
625955 TAGAGAATCG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 30 0.70
21 13 0.30
ACGTcount: A:0.51, C:0.19, G:0.17, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACAGAAAATG
Found at i:625978 original size:31 final size:32
Alignment explanation
Indices: 625940--626019 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 32
625930 CGCAACGAGA
625940 GAAATGAAAATCGCAT-AGAGAATCGCAACGC
1 GAAATGAAAATCGCATGAGAGAATCGCAACGC
*
625971 GAAATGAAAATCGCAATGAGATAATCGCAACGC
1 GAAATGAAAATCGC-ATGAGAGAATCGCAACGC
**
626004 GAAACCAAAATCGCAT
1 GAAATGAAAATCGCAT
626020 TGCGATTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 14 0.32
32 4 0.09
33 26 0.59
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (32 bp):
GAAATGAAAATCGCATGAGAGAATCGCAACGC
Found at i:626097 original size:52 final size:52
Alignment explanation
Indices: 626014--626151 Score: 195
Period size: 52 Copynumber: 2.6 Consensus size: 52
626004 GAAACCAAAA
* **
626014 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTAATT
*
626066 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTAATT
** *
626118 TCCGCGTTGCGATAGTCATTCTCTCGTTGCGATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATT
626152 TTCATTTCAA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
52 49 0.64
53 16 0.21
54 12 0.16
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTAATT
Found at i:626156 original size:20 final size:19
Alignment explanation
Indices: 626014--626159 Score: 123
Period size: 19 Copynumber: 8.1 Consensus size: 19
626004 GAAACCAAAA
*
626014 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
626033 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
626047 TCTCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
626066 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
626085 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
626099 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
626118 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
626138 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
626158 TC
1 TC
626160 AACCAAAAGA
Statistics
Matches: 104, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.19
16 4 0.04
17 6 0.06
19 41 0.39
20 32 0.31
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:628016 original size:94 final size:94
Alignment explanation
Indices: 627855--628422 Score: 1014
Period size: 94 Copynumber: 6.1 Consensus size: 94
627845 TAGATTGCTC
* * *
627855 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
627920 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
*
627949 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
628014 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
628043 AGTAAGTTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
628108 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
628137 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
628202 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
628231 AGTAAATTTGTTCGGTTGATGGCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
628296 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
628325 AGTAAATTTGTTCGGTTACTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
628390 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
628418 AGTAA
1 AGTAA
628423 TGCAATCCAT
Statistics
Matches: 459, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
93 26 0.06
94 433 0.94
ACGTcount: A:0.21, C:0.12, G:0.20, T:0.47
Consensus pattern (94 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:628495 original size:20 final size:20
Alignment explanation
Indices: 628470--628579 Score: 113
Period size: 19 Copynumber: 5.8 Consensus size: 20
628460 TAGTTTACTT
* *
628470 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTGAAAA
* * **
628490 TCGCAACGTGAAAATGACTA
1 TCGCAACGCGAAACTGAAAA
628510 TCGCAACGCGAAA-TG--AA
1 TCGCAACGCGAAACTGAAAA
*
628527 TCGCAACGAGAAA-TGAAAA
1 TCGCAACGCGAAACTGAAAA
*
628546 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTGAAAA
628565 TCGCAACGCGAAACT
1 TCGCAACGCGAAACT
628580 ATAATCGCGT
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
17 15 0.20
19 34 0.45
20 26 0.35
ACGTcount: A:0.45, C:0.25, G:0.18, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAACTGAAAA
Found at i:628549 original size:36 final size:37
Alignment explanation
Indices: 628488--628558 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
628478 CGAAACTTAA
* **
628488 AATCGCAACGTGAAAATGACTATCGCAACGCGAAATG
1 AATCGCAACGAGAAAATGAAAATCGCAACGCGAAATG
628525 AATCGCAACGAG-AAATGAAAATCGCAACGCGAAA
1 AATCGCAACGAGAAAATGAAAATCGCAACGCGAAA
628559 CCAAAATCGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 20 0.65
37 11 0.35
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (37 bp):
AATCGCAACGAGAAAATGAAAATCGCAACGCGAAATG
Found at i:628644 original size:34 final size:36
Alignment explanation
Indices: 628586--628689 Score: 106
Period size: 40 Copynumber: 2.9 Consensus size: 36
628576 AACTATAATC
**
628586 GCGTTGCGATTTTCA-TTTCGCATTGCGATTC-TCT
1 GCGTTGCGATAGTCATTTTCGCATTGCGATTCTTCT
*
628620 -CGTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTT
1 GCGTTGCGATAGTCATTTTCGCATTGCGAT--TC--TTCT
* *
628659 GCATTGCGATAGTCATTTTCGCGTTGCGATT
1 GCGTTGCGATAGTCATTTTCGCATTGCGATT
628690 TTAAGTTTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
33 12 0.21
34 14 0.24
36 2 0.03
38 1 0.02
39 2 0.03
40 27 0.47
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.42
Consensus pattern (36 bp):
GCGTTGCGATAGTCATTTTCGCATTGCGATTCTTCT
Found at i:628647 original size:20 final size:20
Alignment explanation
Indices: 628622--628688 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
628612 GATTCTCTCG
628622 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
628642 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
*
628662 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
628682 TTGCGAT
1 TTGCGAT
628689 TTTAAGTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:629269 original size:42 final size:42
Alignment explanation
Indices: 629197--629279 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
629187 CCTCCCCTAT
*
629197 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAC
* *
629239 CGTTCAAGAGGCCACTGTCAT-CGTCGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTC-AAGAGGTCCCTCCCA
629280 ACATTCTAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 3 0.08
42 31 0.86
43 2 0.06
ACGTcount: A:0.22, C:0.40, G:0.19, T:0.19
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:630857 original size:34 final size:33
Alignment explanation
Indices: 630769--630864 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
630759 AAAATAGACT
* **
630769 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
630803 ATCGCAATGCGAAATGAAAATCGCAATGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
630836 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
630865 CGAAACTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:630860 original size:20 final size:19
Alignment explanation
Indices: 630802--630869 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
630792 GCAACGAGAG
630802 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
630821 AATCGCAAT--G-AGTG--
1 AATCGCAATGCGAAATGAA
630835 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
630855 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
630870 CTAATTTCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 9 0.22
16 4 0.10
17 1 0.03
18 3 0.08
19 12 0.30
20 11 0.28
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:631647 original size:20 final size:20
Alignment explanation
Indices: 631624--631671 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
631614 GTCAGAATCT
631624 CGTTGCGATTTACAG-ATTCG
1 CGTTGCGATTTAC-GTATTCG
631644 CGTTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCG
*
631664 CTTTGCGA
1 CGTTGCGA
631672 ATTAGGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTACGTATTCG
Found at i:631692 original size:21 final size:21
Alignment explanation
Indices: 631668--631713 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
631658 TATTCGCTTT
*
631668 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGAAAAATCGCAAC
* *
631689 GCGAATTTGAAAAATCGCAAT
1 GCGAATTAGAAAAATCGCAAC
631710 GCGA
1 GCGA
631714 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGAAAAATCGCAAC
Found at i:633587 original size:14 final size:14
Alignment explanation
Indices: 633568--633599 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
633558 TTTTGCTTCG
633568 TTATAAGTATATTA
1 TTATAAGTATATTA
*
633582 TTATAATTATATTA
1 TTATAAGTATATTA
633596 TTAT
1 TTAT
633600 TATAATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAGTATATTA
Found at i:645896 original size:160 final size:160
Alignment explanation
Indices: 645632--646023 Score: 615
Period size: 160 Copynumber: 2.5 Consensus size: 160
645622 CAGATTTGGT
* * *
645632 CTCCACGAAAGAGTAGTGGAAACAAATCAACTTCAAATCTGATCTTCACGAAAGAGTAGTGAAAT
1 CTCCACGGAAGAGTAGTGGAAACAAATCAACTTCGAATCTGATCTTCACGAAAGAGTAGTGAAAC
* *
645697 AGATTCTTCTCAAGTCAATCCAGCCATCACAAAAGAGTAGAGAAGCAACACGATTCAACCTTTAC
66 AGATTCTTCTCAAGTCAATCCAGCCATAAAAAAAGAGTAGAGAAGCAACACGATTCAACCTTTAC
*
645762 AACAAAGTAGTAAAGTGATTCAAATCCAGC
131 AACAAAGTAGTAAAGTGATTCAAATCCAAC
* *
645792 CTCCACGGAAGAGTAGTGGAAACAATTCAACTTCGAATCTGATCTTCACGAAAGTGTAGTGAAAC
1 CTCCACGGAAGAGTAGTGGAAACAAATCAACTTCGAATCTGATCTTCACGAAAGAGTAGTGAAAC
* * * * *
645857 CGATTCTTCTCAAGTCAATCTAGCCTTAAAAAAAGAGTAGTGAATCAACACGATTCAACCTTTAC
66 AGATTCTTCTCAAGTCAATCCAGCCATAAAAAAAGAGTAGAGAAGCAACACGATTCAACCTTTAC
*
645922 AACAAAGTAGTAAAGTGATTCATATCCAAC
131 AACAAAGTAGTAAAGTGATTCAAATCCAAC
* * *
645952 CTCCACGGAAGAGTAGTGGAAGCAAATCAACTTCGAATATGATCTTCAC-AGAAGAGTAGTAAAA
1 CTCCACGGAAGAGTAGTGGAAACAAATCAACTTCGAATCTGATCTTCACGA-AAGAGTAGTGAAA
646016 CAGATTCT
65 CAGATTCT
646024 CCCCAAGTAG
Statistics
Matches: 211, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
159 1 0.00
160 210 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (160 bp):
CTCCACGGAAGAGTAGTGGAAACAAATCAACTTCGAATCTGATCTTCACGAAAGAGTAGTGAAAC
AGATTCTTCTCAAGTCAATCCAGCCATAAAAAAAGAGTAGAGAAGCAACACGATTCAACCTTTAC
AACAAAGTAGTAAAGTGATTCAAATCCAAC
Found at i:651003 original size:2 final size:2
Alignment explanation
Indices: 650996--651029 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
650986 TGTTTTTGTA
650996 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
651030 ATACATGAAA
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:651991 original size:18 final size:18
Alignment explanation
Indices: 651968--652022 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
651958 GTCGAGGGTA
651968 ATAGTGGTCCTTCGGGAC
1 ATAGTGGTCCTTCGGGAC
651986 ATAGTGGTCCTTCGGGAC
1 ATAGTGGTCCTTCGGGAC
* * *
652004 ATAATGATCATTCGGGAC
1 ATAGTGGTCCTTCGGGAC
652022 A
1 A
652023 AATTCAGTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (18 bp):
ATAGTGGTCCTTCGGGAC
Found at i:656811 original size:24 final size:24
Alignment explanation
Indices: 656766--656849 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
656756 ATGATGAACG
* * **
656766 AACATAAACGAACGGATGTAAACA
1 AACATAAATGAACGAACATAAACA
*
656790 AACATAAATGAACGAACATAAACG
1 AACATAAATGAACGAACATAAACA
* * *
656814 AACA-CAATAAAAGAACATAAACA
1 AACATAAATGAACGAACATAAACA
*
656837 AACGTAAATGAAC
1 AACATAAATGAAC
656850 TTAAATGAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
23 18 0.39
24 28 0.61
ACGTcount: A:0.60, C:0.17, G:0.12, T:0.12
Consensus pattern (24 bp):
AACATAAATGAACGAACATAAACA
Found at i:656813 original size:10 final size:10
Alignment explanation
Indices: 656800--656888 Score: 52
Period size: 10 Copynumber: 8.3 Consensus size: 10
656790 AACATAAATG
656800 AACGAACATA
1 AACGAACATA
656810 AACGAACACAATA
1 AACG-A-AC-ATA
*
656823 AAAGAACATA
1 AACGAACATA
* *
656833 AACAAACGTA
1 AACGAACATA
* *
656843 AATGAACTTA
1 AACGAACATA
* *
656853 AATGAAAAAAATA
1 AACG---AACATA
656866 AACGAACATA
1 AACGAACATA
*
656876 AATGAACATA
1 AACGAACATA
656886 AAC
1 AAC
656889 CACAACAACA
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
10 41 0.68
11 3 0.05
12 3 0.05
13 13 0.22
ACGTcount: A:0.63, C:0.15, G:0.09, T:0.13
Consensus pattern (10 bp):
AACGAACATA
Found at i:656833 original size:23 final size:23
Alignment explanation
Indices: 656803--656883 Score: 69
Period size: 23 Copynumber: 3.7 Consensus size: 23
656793 ATAAATGAAC
656803 GAACATAAACGAACACAATAAAA
1 GAACATAAACGAACACAATAAAA
* *
656826 GAACATAAAC-AA-AC-GTAAAT
1 GAACATAAACGAACACAATAAAA
* * * * *
656846 GAACTTAAATGAAAAAAATAAAC
1 GAACATAAACGAACACAATAAAA
*
656869 GAACATAAATGAACA
1 GAACATAAACGAACA
656884 TAAACCACAA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 12 0.26
21 4 0.09
22 3 0.07
23 27 0.59
ACGTcount: A:0.63, C:0.14, G:0.10, T:0.14
Consensus pattern (23 bp):
GAACATAAACGAACACAATAAAA
Found at i:656878 original size:33 final size:32
Alignment explanation
Indices: 656795--656887 Score: 91
Period size: 33 Copynumber: 2.8 Consensus size: 32
656785 AAACAAACAT
* *
656795 AAATGAACGAACATAAACGAAC-ACAATAAAAG
1 AAATAAACGAACATAAATGAACTA-AATAAAAG
* *
656827 AACATAAACAAACGTAAATGAACTTAAATGAAAA-
1 AA-ATAAACGAACATAAATGAAC-TAAAT-AAAAG
656861 AAATAAACGAACATAAATGAACATAAA
1 AAATAAACGAACATAAATGAAC-TAAA
656888 CCACAACAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
32 2 0.04
33 38 0.76
34 5 0.10
35 5 0.10
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.14
Consensus pattern (32 bp):
AAATAAACGAACATAAATGAACTAAATAAAAG
Found at i:665585 original size:14 final size:15
Alignment explanation
Indices: 665550--665582 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
665540 ATCAACAAAT
665550 ATAATTTTTTTATAA
1 ATAATTTTTTTATAA
665565 ATAATTTTTATT-TAA
1 ATAATTTTT-TTATAA
665580 ATA
1 ATA
665583 TTTAGAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATAATTTTTTTATAA
Found at i:665774 original size:20 final size:20
Alignment explanation
Indices: 665738--665775 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
665728 ATTCTATTTC
**
665738 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
665758 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
665776 ATGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:669518 original size:22 final size:24
Alignment explanation
Indices: 669474--669518 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
669464 TTTGAAACCG
*
669474 TAAAAATTAAATGATTATTTTAAT
1 TAAAAATTAAATGATTATGTTAAT
*
669498 TAAAAA-TAAAT-TTTATGTTAA
1 TAAAAATTAAATGATTATGTTAA
669519 CTGAAAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
TAAAAATTAAATGATTATGTTAAT
Found at i:673989 original size:2 final size:2
Alignment explanation
Indices: 673969--674034 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
673959 CCTTTACATT
* *
673969 TA TA TT TA TT TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
674010 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
674035 TATTTTTTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:674192 original size:23 final size:23
Alignment explanation
Indices: 674142--674203 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
674132 TTCCTTTTTA
*
674142 TTTTTATTTTTATTCT-TAACAT
1 TTTTTATTTTTATTTTCTAACAT
*
674164 TTTTTATTTTTATTTTCTCA-AT
1 TTTTTATTTTTATTTTCTAACAT
674186 TTATTTATTTATT-TTTTC
1 TT-TTTATTT-TTATTTTC
674204 CTCTCTTCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 19 0.54
23 14 0.40
24 2 0.06
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTATTTTTATTTTCTAACAT
Found at i:676931 original size:95 final size:96
Alignment explanation
Indices: 676820--677010 Score: 341
Period size: 95 Copynumber: 2.0 Consensus size: 96
676810 AGATTATAAT
*
676820 ATTATATATATACAATAAAGCTTGAGTTGTCTC-TCTAAAGCAATTGGTTAAACTCCCCGACTTT
1 ATTATATATATACAATAAAGCTTGAGTTGTC-CATCTAAAGCAATTGGTTAAACGCCCCGACTTT
*
676884 ATGGATAATATTCAGCTAGTCTGATAAAGGTG
65 ATGGATAATATTCAGCTAGCCTGATAAAGGTG
676916 ATTATA-ATATACAATAAAGCTTGAGTTGTCCATCTAAAGCAATTGGTTAAACGCCCCGACTTTA
1 ATTATATATATACAATAAAGCTTGAGTTGTCCATCTAAAGCAATTGGTTAAACGCCCCGACTTTA
676980 TGGATAATATTCAGCTAGCCTGATAAAGGTG
66 TGGATAATATTCAGCTAGCCTGATAAAGGTG
677011 TTTACAATGA
Statistics
Matches: 92, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
94 1 0.01
95 85 0.92
96 6 0.07
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (96 bp):
ATTATATATATACAATAAAGCTTGAGTTGTCCATCTAAAGCAATTGGTTAAACGCCCCGACTTTA
TGGATAATATTCAGCTAGCCTGATAAAGGTG
Found at i:678294 original size:85 final size:85
Alignment explanation
Indices: 678151--678963 Score: 968
Period size: 85 Copynumber: 9.5 Consensus size: 85
678141 CATTTAAAGA
* *
678151 AAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTAC
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTAC
* * *
678216 ACTCATCTCAAAGGCATACC
66 ATTCAGCTCAAAGGCATATC
* *
678236 AAATTTACAGGATAGCTCAAGGCGATAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTAC
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTAC
*
678301 ACTCAGCTCAAAGGCATATC
66 ATTCAGCTCAAAGGCATATC
* * * ** *
678321 AAGTTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-TGTGACCTTCGGGTTCGATTA
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAT-ACCTTCGAGTTCGATTA
*
678385 CATTCAGCTCAAAGGCACATC
65 CATTCAGCTCAAAGGCATATC
* * * ** * * *
678406 AAATTTATAACATAACTCAAGGCGAGAAGTATTATCTATTAACAAAAGACCTTCGAGTTCGATTA
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAATACCTTCGAGTTCGATTA
* *
678471 CATTCAGTTCAAATGCATATC
65 CATTCAGCTCAAAGGCATATC
* * * *
678492 AAATTTACAGCATAACTCAAGACGAGAAGGGTTATCTGTCAAC-TATGACCTTCGAGTTGGATTA
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAT-ACCTTCGAGTTCGATTA
*
678556 CATTCAGCTCAAAGGCACATC
65 CATTCAGCTCAAAGGCATATC
* * * * *
678577 AAATTTACAGCATAACTCAAGGCGAAAAGTGTTATCTGTTAACAAAAAACCTTCGAGTTCGATTA
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAATACCTTCGAGTTCGATTA
* **
678642 CATTCAGCTTAAAGGCACGTC
65 CATTCAGCTCAAAGGCATATC
* * * * * * *
678663 AAATTTACATCATAGTTCAAGGCAAGAAGGGTTATATGTCAACCAATACCTTTGAGTTCGATTAT
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTAC
678728 ATTCAGCTCAAAGGCATATC
66 ATTCAGCTCAAAGGCATATC
* *
678748 AAATTTACAGCATAGCTCAAGGCAATG-AGGGCTATCTGTCAACAAATACCTTCGAGTTCGATTA
1 AAATTTACAGCATAGCTCAAGGCGA-GAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTA
* *
678812 CATTTAGCTCAAATGCATATC
65 CATTCAGCTCAAAGGCATATC
* * * * *
678833 AAATTTACAACATAGCTCAAGGCAATG-AGGGCTATCTGTCAACAAATACCTTCAAGTTCGATTC
1 AAATTTACAGCATAGCTCAAGGCGA-GAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTA
* *
678897 CATTCAGCTCAAGGGCATGTC
65 CATTCAGCTCAAAGGCATATC
* * * * * ** *
678918 AAATTCATAGCATAACTTAAGTCGAGAAAAGCTATCTGTCAACAAA
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAA
678964 AATTATCGAG
Statistics
Matches: 629, Mismatches: 91, Indels: 16
0.85 0.12 0.02
Matches are distributed among these distances:
84 3 0.00
85 484 0.77
86 141 0.22
87 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (85 bp):
AAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTAC
ATTCAGCTCAAAGGCATATC
Found at i:678532 original size:171 final size:170
Alignment explanation
Indices: 678151--678963 Score: 986
Period size: 171 Copynumber: 4.8 Consensus size: 170
678141 CATTTAAAGA
* * *
678151 AAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTAC
1 AAATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAATGACCTTCGAGTTCGATTAC
* * * * * *
678216 ACTCATCTCAAAGGCATACCAAATTTACAGGATAGCTCAAGGCGATAAGGGTTATCTGTCAACAA
66 ATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAA
*
678281 ATACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATC
131 ATACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATC
* * ** *
678321 AAGTTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACTGTGACCTTCGGGTTCGATTAC
1 AAATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAATGACCTTCGAGTTCGATTAC
* * * ** * *
678386 ATTCAGCTCAAAGGCACATCAAATTTATAACATAACTCAAGGCGAGAAGTATTATCTATTAACAA
66 ATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-A
* * *
678451 AAGACCTTCGAGTTCGATTACATTCAGTTCAAATGCATATC
130 AATACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATC
* * * * *
678492 AAATTTACAGCATAACTCAAGACGAGAAGGGTTATCTGTCAACTATGACCTTCGAGTTGGATTAC
1 AAATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAATGACCTTCGAGTTCGATTAC
* * * *
678557 ATTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAAAAGTGTTATCTGTTAACAA
66 ATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-A
* * **
678622 AAAACCTTCGAGTTCGATTACATTCAGCTTAAAGGCACGTC
130 AATACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATC
* * * * *
678663 AAATTTACATCATAGTTCAAGGCAAGAAGGGTTATATGTCAACCAAT-ACCTTTGAGTTCGATTA
1 AAATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAA-CAATGACCTTCGAGTTCGATTA
* * * *
678727 TATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCAATG-AGGGCTATCTGTCAAC
65 CATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGA-GAAGGGTTATCTGTCAAC
* *
678791 AAATACCTTCGAGTTCGATTACATTTAGCTCAAATGCATATC
129 AAATACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATC
* * *
678833 AAATTTACAACATAGCTCAAGGCAATG-AGGGCTATCTGTCAACAAAT-ACCTTCAAGTTCGATT
1 AAATTTACAACATAGCTCAAGGCGA-GAAGGGTTATCTGTCAAC-AATGACCTTCGAGTTCGATT
* * * * * * * ** *
678896 CCATTCAGCTCAAGGGCATGTCAAATTCATAGCATAACTTAAGTCGAGAAAAGCTATCTGTCAAC
64 ACATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC
678961 AAA
129 AAA
678964 AATTATCGAG
Statistics
Matches: 554, Mismatches: 83, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
169 2 0.00
170 250 0.45
171 299 0.54
172 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (170 bp):
AAATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAATGACCTTCGAGTTCGATTAC
ATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAA
ATACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATC
Found at i:678722 original size:256 final size:255
Alignment explanation
Indices: 678151--678963 Score: 995
Period size: 256 Copynumber: 3.2 Consensus size: 255
678141 CATTTAAAGA
* *
678151 AAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTAC
1 AAATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTAC
* * * *
678216 ACTCA-TCTCAAAGGCATACCAAATTTACAGGATAGCTCAAGGCGATAAGGGTTATCTGTCAACA
66 ATTCAGT-TCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACA
* *
678280 AATACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAGTTTACAACATAACTCAAGGCG
130 AATACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAACATAACTCAAGGCG
* **** * *
678345 AGAAGGGTTATCTGTCAACTGTGACCTTCGGGTTCGATTACATTCAGCTCAAAGGCACATC
195 AAAAGGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACGTC
* * ** * *
678406 AAATTTATAACATAACTCAAGGCGAGAAGTATTATCTATTAACAAAAGACCTTCGAGTTCGATTA
1 AAATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTA
* * *
678471 CATTCAGTTCAAATGCATATCAAATTTACAGCATAACTCAAGACGAGAAGGGTTATCTGTCAAC-
65 CATTCAGTTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACA
* * * *
678535 TATGACCTTCGAGTTGGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGC
130 AAT-ACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAACATAACTCAAGGC
* * *
678600 GAAAAGTGTTATCTGTTAACAAAAAACCTTCGAGTTCGATTACATTCAGCTTAAAGGCACGTC
194 GAAAAGGGTTATCTGTCAAC-AAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACGTC
* * * * * * * *
678663 AAATTTACATCATAGTTCAAGGCAAGAAGGGTTATATGTCAACCAATACCTTTGAGTTCGATTAT
1 AAATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTAC
* * *
678728 ATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCAATG-AGGGCTATCTGTCAACA
66 ATTCAGTTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGA-GAAGGGTTATCTGTCAACA
* * *
678792 AATACCTTCGAGTTCGATTACATTTAGCTCAAATGCATATCAAATTTACAACATAGCTCAAGGC-
130 AATACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAACATAACTCAAGGCG
* * * * * * *
678856 AATGAGGGCTATCTGTCAACAAATACCTTCAAGTTCGATTCCATTCAGCTCAAGGGCATGTC
195 AA-AAGGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACGTC
* * * * * * ** *
678918 AAATTCATAGCATAACTTAAGTCGAGAAAAGCTATCTGTCAACAAA
1 AAATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAA
678964 AATTATCGAG
Statistics
Matches: 470, Mismatches: 81, Indels: 14
0.83 0.14 0.02
Matches are distributed among these distances:
255 108 0.23
256 290 0.62
257 72 0.15
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (255 bp):
AAATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTAC
ATTCAGTTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAA
ATACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAACATAACTCAAGGCGA
AAAGGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACGTC
Found at i:680711 original size:13 final size:13
Alignment explanation
Indices: 680693--680717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
680683 TCCTTTACAT
680693 TTTTATTTATTTA
1 TTTTATTTATTTA
680706 TTTTATTTATTT
1 TTTTATTTATTT
680718 TTTATTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:680874 original size:23 final size:23
Alignment explanation
Indices: 680824--680885 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
680814 TTCCTCTTTA
*
680824 TTTTTATTTTTATTCT-TAACAT
1 TTTTTATTTTTATTTTCTAACAT
*
680846 TTTTTATTTTTATTTTCTCA-AT
1 TTTTTATTTTTATTTTCTAACAT
680868 TTATTTATTTATT-TTTTC
1 TT-TTTATTT-TTATTTTC
680886 CTTTCTTCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 19 0.54
23 14 0.40
24 2 0.06
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTATTTTTATTTTCTAACAT
Found at i:685682 original size:21 final size:21
Alignment explanation
Indices: 685652--685704 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
685642 ATTATGACTA
685652 TCGCAATGCGATTTT-CCAATT
1 TCGCAATGCGATTTTCCCAA-T
*
685673 TCGCATTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCCCAAT
685694 TCGCAATGCGA
1 TCGCAATGCGA
685705 ATAAGTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCCAAT
Found at i:685737 original size:21 final size:21
Alignment explanation
Indices: 685694--685782 Score: 126
Period size: 21 Copynumber: 4.3 Consensus size: 21
685684 TTTTCCCAAT
** *
685694 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATTTGAAAAA
*
685714 TCGCAATGCGAATTTTAAAAA
1 TCGCAATGCGAATTTGAAAAA
685735 TCGCAATGCGAATTTGAAAAA
1 TCGCAATGCGAATTTGAAAAA
*
685756 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGAAAAA
685777 TCGCAA
1 TCGCAA
685783 CAAAATACTG
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
20 13 0.21
21 49 0.79
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAATTTGAAAAA
Found at i:685739 original size:62 final size:62
Alignment explanation
Indices: 685651--685768 Score: 139
Period size: 62 Copynumber: 1.9 Consensus size: 62
685641 GATTATGACT
* ** * * ** *
685651 ATCGCAATGCGATTTTCCAATTTCGCATTGCGATTTTCCCAATTCGCAATGCGAATAAGTAA
1 ATCGCAATGCGATTTTCAAAAATCGCAATGCGAATTTCAAAAATCGCAATGCGAATAAGTAA
*
685713 ATCGCAATGCGAATTTT-AAAAATCGCAATGCGAATTTGAAAAATCGCAATGCGAAT
1 ATCGCAATGCG-ATTTTCAAAAATCGCAATGCGAATTTCAAAAATCGCAATGCGAAT
685769 TTGGAAAATC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
62 41 0.89
63 5 0.11
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (62 bp):
ATCGCAATGCGATTTTCAAAAATCGCAATGCGAATTTCAAAAATCGCAATGCGAATAAGTAA
Found at i:685818 original size:41 final size:41
Alignment explanation
Indices: 685773--685904 Score: 151
Period size: 41 Copynumber: 3.2 Consensus size: 41
685763 GCGAATTTGG
* *
685773 AAAATCGCAACAAAATACTGACTATCGCAACACGATAATAC
1 AAAATCGCAACACAATACTGACTTTCGCAACACGATAATAC
* * **
685814 AAAATCGCAACTCAATACTGACTTTCGCAACGCGAT-ATTT
1 AAAATCGCAACACAATACTGACTTTCGCAACACGATAATAC
** *
685854 AATTTCGCAACGCAATACTGACTTTCGCAACGA-GATAATAC
1 AAAATCGCAACACAATACTGACTTTCGCAAC-ACGATAATAC
*
685895 ATAATCGCAA
1 AAAATCGCAA
685905 TGCGATTTTC
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 33 0.45
41 41 0.55
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACACAATACTGACTTTCGCAACACGATAATAC
Found at i:685843 original size:20 final size:20
Alignment explanation
Indices: 685818--685885 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
685808 TAATACAAAA
*
685818 TCGCAACTCAATACTGACTT
1 TCGCAACGCAATACTGACTT
* * * *
685838 TCGCAACGCGATATTTAATT
1 TCGCAACGCAATACTGACTT
685858 TCGCAACGCAATACTGACTT
1 TCGCAACGCAATACTGACTT
685878 TCGCAACG
1 TCGCAACG
685886 AGATAATACA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
TCGCAACGCAATACTGACTT
Found at i:686106 original size:22 final size:22
Alignment explanation
Indices: 686078--686121 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
686068 ACTCTCTCAC
686078 CCATCTCCGACGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
*
686100 CCATCTCCGGCGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
686122 ATCTCCATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.41, G:0.16, T:0.23
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCGTCT
Found at i:686414 original size:20 final size:20
Alignment explanation
Indices: 686386--686434 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
686376 TTTATTCTCT
*
686386 CGTTACGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
686406 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
686426 TGTTGCGAT
1 CGTTGCGAT
686435 TTTCATTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:686435 original size:20 final size:20
Alignment explanation
Indices: 686402--686444 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
686392 GATAGTCAAA
686402 TTCGCGTTGCGATTGTCATT
1 TTCGCGTTGCGATTGTCATT
* *
686422 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTGTCATT
686442 TTC
1 TTC
686445 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.19, G:0.21, T:0.51
Consensus pattern (20 bp):
TTCGCGTTGCGATTGTCATT
Found at i:686635 original size:25 final size:24
Alignment explanation
Indices: 686581--686635 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
686571 TGTTTATTAT
* *
686581 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
686605 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
686631 TGTTT
1 TGTTT
686636 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:689365 original size:14 final size:14
Alignment explanation
Indices: 689346--689415 Score: 77
Period size: 14 Copynumber: 4.6 Consensus size: 14
689336 GGAAATGACT
689346 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
689360 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
* *
689374 ATCACAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
689393 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
689407 ATCGCAACG
1 ATCGCAACG
689416 CGAAATGAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
14 32 0.68
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 9 0.19
ACGTcount: A:0.44, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:689397 original size:47 final size:48
Alignment explanation
Indices: 689325--689415 Score: 148
Period size: 47 Copynumber: 1.9 Consensus size: 48
689315 AGATAATGAA
* **
689325 AATCACAATGCGGAAATGACTATCGCAACGAGAGAATCGCAACGAGAG
1 AATCACAACGCGGAAATGAAAATCGCAACGAGAGAATCGCAACGAGAG
689373 AATCACAACGC-GAAATGAAAATCGCAACGAGAGAATCGCAACG
1 AATCACAACGCGGAAATGAAAATCGCAACGAGAGAATCGCAACG
689416 CGAAATGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 30 0.75
48 10 0.25
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (48 bp):
AATCACAACGCGGAAATGAAAATCGCAACGAGAGAATCGCAACGAGAG
Found at i:689400 original size:19 final size:19
Alignment explanation
Indices: 689373--689437 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
689363 GCAACGAGAG
*
689373 AATCACAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
689392 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
689406 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
689425 AATCGCAATGCGA
1 AATCGCAACGCGA
689438 TTTTGGTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 21 0.57
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:689401 original size:33 final size:33
Alignment explanation
Indices: 689359--689432 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
689349 GCAACGAGAG
689359 AATCGCAACGAGAGAATCACAACGCGAAATGAA
1 AATCGCAACGAGAGAATCACAACGCGAAATGAA
*
689392 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGAGAGAATCACAACGCGAAATGAA
689425 AATCGCAA
1 AATCGCAA
689433 TGCGATTTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCACAACGCGAAATGAA
Found at i:689481 original size:33 final size:33
Alignment explanation
Indices: 689444--689525 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
689434 GCGATTTTGG
*
689444 TTTCGCGTTGCGATTATCTCGTTGAGAT-TTTCA
1 TTTCGCGTTGCGATTATCTCGTTGAGATAGTT-A
* *
689477 TTTCGCGTTGCGATTCTCTCGTTGCGATAGTTA
1 TTTCGCGTTGCGATTATCTCGTTGAGATAGTTA
689510 TTTCCGCGTTGCGATT
1 TTT-CGCGTTGCGATT
689526 TTCATTCTCG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 30 0.68
34 14 0.32
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.44
Consensus pattern (33 bp):
TTTCGCGTTGCGATTATCTCGTTGAGATAGTTA
Found at i:690091 original size:20 final size:20
Alignment explanation
Indices: 690050--690284 Score: 131
Period size: 20 Copynumber: 11.6 Consensus size: 20
690040 GCTATGTAAA
* *
690050 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
690070 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* * *
690090 TCGTATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
*
690111 TCGCATTGCGATTTACTTAAT
1 TCGCATTGCGATTTACGT-AT
*
690132 T-GCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* * *
690151 TCGCATTGCGAATTT-TGAAAA
1 TCGCATTGCG-ATTTACG-TAT
** * *
690172 TCGCAACGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGT-AT
* * * * *
690192 TCGCAATGCGAATTAGGAAAA
1 TCGCATTGCGATTTACG-TAT
*
690213 TCGCATTGCGATAGT-CAGTA-
1 TCGCATTGCGAT-TTAC-GTAT
* *
690233 TCGCATTGCGATTTTCATAAT
1 TCGCATTGCGATTTACGT-AT
*
690254 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACGTAT
690274 TCGCATTGCGA
1 TCGCATTGCGA
690285 ATTGGGAAAA
Statistics
Matches: 169, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
19 9 0.05
20 92 0.54
21 66 0.39
22 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:690175 original size:21 final size:21
Alignment explanation
Indices: 690151--690326 Score: 83
Period size: 21 Copynumber: 8.5 Consensus size: 21
690141 ATTTACGTAT
*
690151 TCGCATTGCGAATTTTGAAAA
1 TCGCATTGCGAATTTGGAAAA
** ** *
690172 TCGCAACGCGAA-TACGTAAA
1 TCGCATTGCGAATTTGGAAAA
* *
690192 TCGCAATGCGAATTAGGAAAA
1 TCGCATTGCGAATTTGGAAAA
* * **
690213 TCGCATTGCG-A-TAGTCAGTA
1 TCGCATTGCGAATTTG-GAAAA
** *
690233 TCGCATTGCG-ATTTTCATAAT
1 TCGCATTGCGAATTTGGA-AAA
**** *
690254 TCGCATTGCG-ATTTACTTAT
1 TCGCATTGCGAATTTGGAAAA
*
690274 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATTTGGAAAA
** *
690295 TCGCAACGCGAAATTGGAAAA
1 TCGCATTGCGAATTTGGAAAA
690316 TCGCATTGCGA
1 TCGCATTGCGA
690327 TAGTCATAAT
Statistics
Matches: 118, Mismatches: 32, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
19 3 0.03
20 44 0.37
21 71 0.60
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (21 bp):
TCGCATTGCGAATTTGGAAAA
Found at i:690176 original size:61 final size:60
Alignment explanation
Indices: 690047--690299 Score: 170
Period size: 61 Copynumber: 4.1 Consensus size: 60
690037 GGCGCTATGT
* * * * *
690047 AAATCGCATTGCGA--TAGTAAGATTCGCATTGCGATTTACGTATTCGTATTGCGATTTTCCT
1 AAATCGCATTGCGATTTACTTA-ATT-GCATTGCGATTTACGTATTCGCATTGCGATTGT-CA
* * * *
690108 AATTCGCATTGCGATTTACTTAATTGCGTTGCGATTTACGTATTCGCATTGCGAATTTTGA
1 AAATCGCATTGCGATTTACTTAATTGCATTGCGATTTACGTATTCGCATTGCG-ATTGTCA
** * * * * * * * * *
690169 AAATCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAAAATCGCATTGCGATAGTCA
1 AAATCGCATTGCGATTTAC-TTAATTGCATTGCGATTTACG-TATTCGCATTGCGATTGTCA
** * * * **
690230 GTATCGCATTGCGATTTTCATAATTCGCATTGCGATTTACTTATTCGCATTGCGAATTGGGA
1 AAATCGCATTGCGATTTACTTAATT-GCATTGCGATTTACGTATTCGCATTGCG-ATTGTCA
690292 AAATCGCA
1 AAATCGCA
690300 ACGCGAAATT
Statistics
Matches: 142, Mismatches: 42, Indels: 15
0.71 0.21 0.08
Matches are distributed among these distances:
60 3 0.02
61 93 0.65
62 42 0.30
63 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (60 bp):
AAATCGCATTGCGATTTACTTAATTGCATTGCGATTTACGTATTCGCATTGCGATTGTCA
Found at i:690278 original size:41 final size:41
Alignment explanation
Indices: 690068--690284 Score: 135
Period size: 41 Copynumber: 5.3 Consensus size: 41
690058 CGATAGTAAG
* * *
690068 ATTCGCATTGCGATTTACGT-ATTCGTATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACATAATTCGCATTGCGA-TTTACTA
* *
690109 ATTCGCATTGCGATTTACTTAATT-GCGTTGCGATTTACGT-
1 ATTCGCATTGCGATTTACATAATTCGCATTGCGATTTAC-TA
** * ** *
690149 ATTCGCATTGCGAATTTTGA-AAATCGCAACGCGA-ATACGTA
1 ATTCGCATTGCG-ATTTACATAATTCGCATTGCGATTTAC-TA
* * * * * *
690190 AATCGCAATGCGAATTAGGA-AAATCGCATTGCGA--TAGTCA
1 ATTCGCATTGCGATTTA-CATAATTCGCATTGCGATTTACT-A
* * *
690230 GTATCGCATTGCGATTTTCATAATTCGCATTGCGATTTACTT
1 AT-TCGCATTGCGATTTACATAATTCGCATTGCGATTTACTA
690272 ATTCGCATTGCGA
1 ATTCGCATTGCGA
690285 ATTGGGAAAA
Statistics
Matches: 136, Mismatches: 29, Indels: 22
0.73 0.16 0.12
Matches are distributed among these distances:
39 1 0.01
40 31 0.23
41 97 0.71
42 4 0.03
43 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACATAATTCGCATTGCGATTTACTA
Found at i:690799 original size:21 final size:20
Alignment explanation
Indices: 690713--690870 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
690703 AAATGACCAA
**
690713 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
690732 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
690752 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
690772 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
690793 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
690814 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
690834 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
690855 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
690871 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:690899 original size:20 final size:20
Alignment explanation
Indices: 690837--691066 Score: 214
Period size: 20 Copynumber: 11.5 Consensus size: 20
690827 CGATTTTCCA
* ** *
690837 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
690857 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
690877 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
690897 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
690917 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
690937 AAATCGCAATGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
690957 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
690977 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
690997 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
* *
691017 AAATCGCAACG-ATAATTCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
691037 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
691057 AAATCACAAC
1 AAATCGCAAC
691067 ACTGAAATTT
Statistics
Matches: 172, Mismatches: 32, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 168 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:691788 original size:24 final size:24
Alignment explanation
Indices: 691749--691795 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
691739 AAATTTGGTC
691749 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
691773 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
691796 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:691987 original size:12 final size:12
Alignment explanation
Indices: 691970--691994 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
691960 ATATAATCCT
691970 GAAGAAGAAAAA
1 GAAGAAGAAAAA
691982 GAAGAAGAAAAA
1 GAAGAAGAAAAA
691994 G
1 G
691995 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:694329 original size:33 final size:34
Alignment explanation
Indices: 694278--694478 Score: 204
Period size: 33 Copynumber: 5.9 Consensus size: 34
694268 CGGAAATTAC
*
694278 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
694311 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
694345 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
* *
694378 AATCGCAATGCGAAATGAAAATCACAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
694411 AATCGCAACGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
694449 AATCGCAACGA-GAGAATCGCAATGCGAAAT
1 AATCGCAACGATGAAAATCGCAATGCGAAAT
694479 TATAAACGCA
Statistics
Matches: 144, Mismatches: 11, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
32 1 0.01
33 82 0.57
34 31 0.22
35 5 0.03
36 4 0.03
37 2 0.01
38 19 0.13
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:694383 original size:19 final size:19
Alignment explanation
Indices: 694292--694456 Score: 171
Period size: 19 Copynumber: 9.4 Consensus size: 19
694282 GCAACGAGAG
694292 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
694311 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
694325 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
694345 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
694359 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
694378 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
694397 AATCACAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
694411 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
694430 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
694449 AATCGCAA
1 AATCGCAA
694457 CGAGAGAATC
Statistics
Matches: 121, Mismatches: 9, Indels: 32
0.75 0.06 0.20
Matches are distributed among these distances:
14 31 0.26
15 2 0.02
16 5 0.04
17 4 0.03
18 3 0.02
19 63 0.52
20 13 0.11
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:694494 original size:52 final size:52
Alignment explanation
Indices: 694320--694478 Score: 291
Period size: 52 Copynumber: 3.0 Consensus size: 52
694310 AAATCCCAAC
694320 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
694373 ATGAAAATCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAACGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
694425 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
694477 AT
1 AT
694479 TATAAACGCA
Statistics
Matches: 102, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 86 0.84
53 16 0.16
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.13
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:694557 original size:39 final size:39
Alignment explanation
Indices: 694503--694606 Score: 192
Period size: 39 Copynumber: 2.7 Consensus size: 39
694493 GATTCTCTCG
694503 TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCA
*
694542 TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCA
694581 TTGCGATTTTCATTT-CGCATTGCGAT
1 TTGCGATTTTCATTTCCGCATTGCGAT
694607 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
38 11 0.17
39 53 0.83
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.47
Consensus pattern (39 bp):
TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCA
Found at i:694614 original size:19 final size:19
Alignment explanation
Indices: 694503--694606 Score: 181
Period size: 19 Copynumber: 5.4 Consensus size: 19
694493 GATTCTCTCG
694503 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
694523 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
694542 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
694562 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
694581 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
694600 TTGCGAT
1 TTGCGAT
694607 AGTCATTTTT
Statistics
Matches: 81, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
19 47 0.58
20 34 0.42
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:694732 original size:14 final size:13
Alignment explanation
Indices: 694704--694761 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
694694 TTATGTTCGC
*
694704 ATCAATTACACAA
1 ATCAATTATACAA
694717 ATCAACTTATACAA
1 ATCAA-TTATACAA
* *
694731 ATCATCTTTTACAA
1 ATCA-ATTATACAA
*
694745 ATCAATTAAAC-A
1 ATCAATTATACAA
694757 ATCAA
1 ATCAA
694762 AAAATAAGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
12 6 0.16
13 9 0.24
14 22 0.59
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (13 bp):
ATCAATTATACAA
Found at i:696717 original size:19 final size:19
Alignment explanation
Indices: 696672--696786 Score: 106
Period size: 19 Copynumber: 6.6 Consensus size: 19
696662 TAGTTTACTT
* **
696672 TCGCAACACGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
696691 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
696710 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
696724 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
696743 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
696757 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
696776 TCGCAATGCGA
1 TCGCAACGCGA
696787 TTTTGGTTTC
Statistics
Matches: 80, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
14 16 0.20
16 11 0.14
17 11 0.14
19 42 0.52
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:696727 original size:14 final size:14
Alignment explanation
Indices: 696708--696764 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
696698 GCGAAATGAA
*
696708 AATCGCAACGACAG
1 AATCGCAACGAAAG
696722 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
696739 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
696755 AATCGCAACG
1 AATCGCAACG
696765 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:696735 original size:33 final size:33
Alignment explanation
Indices: 696689--696781 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
696679 ACGAAACCAA
*
696689 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
696722 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
696755 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
696782 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:696804 original size:19 final size:18
Alignment explanation
Indices: 696782--696891 Score: 83
Period size: 19 Copynumber: 6.3 Consensus size: 18
696772 AAAATCGCAA
696782 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
696801 TGCGATCTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
696815 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
696834 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
696848 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
696867 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT--GTTTCGCGT
696887 TGCGA
1 TGCGA
696892 AAGTAAACTA
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
14 22 0.31
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 31 0.43
20 12 0.17
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.45
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:696824 original size:33 final size:33
Alignment explanation
Indices: 696782--696873 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
696772 AAAATCGCAA
696782 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
696815 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
696848 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
696874 TTAAGTTTCG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:697055 original size:93 final size:93
Alignment explanation
Indices: 696939--697407 Score: 895
Period size: 93 Copynumber: 5.1 Consensus size: 93
696929 ATGGATTGCA
*
696939 TTAC-TTCAACCAAAAGACAAAACAAATACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
697003 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
697031 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
697096 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
697124 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
697189 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
697217 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
697282 TAGCAGAATTGACAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
697310 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
697375 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
697403 TTACT
1 TTACT
697408 AAGCAATCTA
Statistics
Matches: 371, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 367 0.99
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:699127 original size:14 final size:14
Alignment explanation
Indices: 699108--699197 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
699098 TTGAAATGAA
699108 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
699122 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
699141 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
699155 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
699174 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
699188 AATCTCAACG
1 AATCGCAACG
699198 CGAAATGAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
14 29 0.48
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.33
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:699145 original size:33 final size:33
Alignment explanation
Indices: 699100--699214 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
699090 TCTTTTGGTT
699100 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
699133 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
699166 GAAATGAAAATCGCAACGAGAGAATCTCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
699199 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
699215 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:699146 original size:19 final size:19
Alignment explanation
Indices: 699122--699219 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
699112 GCAACGAGAG
*
699122 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
699141 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
699155 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
699174 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
699188 AATCTCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
699207 AATCGCAATGCGA
1 AATCGCAACGCGA
699220 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:699248 original size:19 final size:19
Alignment explanation
Indices: 699215--699321 Score: 73
Period size: 19 Copynumber: 5.7 Consensus size: 19
699205 AAAATCGCAA
**
699215 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
699234 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
699253 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
*
699267 TGCGATTTTCATTTCTCTCGT
1 TGCGATTTTCA-TT-TCGCGT
***
699288 TGCGACAGTCA-TTCAGTCGT
1 TGCGATTTTCATTTC-G-CGT
699308 TGCGATTTTCATTT
1 TGCGATTTTCATTT
699322 ATCTCGTTGC
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
14 10 0.15
16 3 0.04
17 3 0.04
18 2 0.03
19 23 0.34
20 11 0.16
21 16 0.24
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:699284 original size:21 final size:21
Alignment explanation
Indices: 699258--699333 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
699248 CGCGTTGCGA
699258 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
699279 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
**
699299 TTCAGTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
699320 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
699334 CTCTTCTGCA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:699461 original size:33 final size:33
Alignment explanation
Indices: 699419--699489 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
699409 AATATTAACT
*
699419 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
699452 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
699485 TGAAA
1 TGAAA
699490 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:699723 original size:22 final size:22
Alignment explanation
Indices: 699671--699725 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
699661 TGGTTGTGAG
**
699671 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
699693 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
699715 GGATTTCTTCG
1 GGATTTCTTCG
699726 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:699897 original size:20 final size:20
Alignment explanation
Indices: 699872--700065 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
699862 CTTTAAATAT
699872 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
699892 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
699914 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
699933 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
699953 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
699973 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
699993 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
700013 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
700033 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
700053 CGCGTTGCGATTT
1 CGCGTTGCGATTT
700066 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:700037 original size:60 final size:60
Alignment explanation
Indices: 699874--700045 Score: 245
Period size: 60 Copynumber: 2.9 Consensus size: 60
699864 TTAAATATCG
** *
699874 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACA
* * *** *
699935 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
*
699995 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTT
700046 TCATATTCGC
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 69 0.73
61 26 0.27
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
Found at i:700059 original size:60 final size:60
Alignment explanation
Indices: 699871--700188 Score: 241
Period size: 60 Copynumber: 5.2 Consensus size: 60
699861 GCTTTAAATA
* ** * *
699871 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTTCAGAT
* * *** * * *
699932 ACGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * * *
699992 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * * * *
700052 TCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TGTACTATCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTACGG-ATA-CGCATTGCGATTTATGTA-T-TCGCGTTGCGATTTTC-AGAT
** * * * * *
700115 TCGCGTTGCGATTTTTGGAAACTG-ATTTGCGATTCTAGGGA-TCGCGTTGCGATTTTTA-TT
1 TCGCGTTGCGATTTACGGATAC-GCA-TTGCGATT-TATGTATTCGCGTTGCGATTTTCAGAT
700175 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
700189 TGTTGGTCAT
Statistics
Matches: 208, Mismatches: 39, Indels: 21
0.78 0.15 0.08
Matches are distributed among these distances:
59 2 0.01
60 103 0.50
61 40 0.19
62 31 0.15
63 26 0.12
64 4 0.02
65 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
Found at i:700082 original size:21 final size:21
Alignment explanation
Indices: 700052--700135 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
700042 ATTTTCATAT
*
700052 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
700073 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
700094 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
700115 TCGCGTTGCGATTTTTGGAAA
1 TCGCATTGCGA-TTTTGGAAA
700136 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
20 1 0.02
21 39 0.83
22 5 0.11
23 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:700125 original size:42 final size:42
Alignment explanation
Indices: 700032--700130 Score: 98
Period size: 42 Copynumber: 2.4 Consensus size: 42
700022 ATTTATGTGT
* *
700032 TCGCGTTGCG-ATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTTCATATTCGCATTGCGATTTTGCAAAA
**
700073 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTT-TCA-TATTCGCATTGCGATTTTGCAA-AA
*
700115 TCGCGTTGCGATTTTT
1 TCGCGTTGCGAATTTT
700131 GGAAACTGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
41 11 0.23
42 33 0.70
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (42 bp):
TCGCGTTGCGAATTTTCATATTCGCATTGCGATTTTGCAAAA
Found at i:712765 original size:24 final size:24
Alignment explanation
Indices: 712720--712766 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
712710 AAATGAAGTG
*
712720 CAAAATGTAAATTTTCTGAAATTT
1 CAAAATGTAAATTTTCTCAAATTT
* * *
712744 CAAATTGTCAATTTTTTCAAATT
1 CAAAATGTAAATTTTCTCAAATT
712767 AAAGAAACTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (24 bp):
CAAAATGTAAATTTTCTCAAATTT
Found at i:714578 original size:11 final size:11
Alignment explanation
Indices: 714555--714583 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
714545 AGATCGAATG
714555 GACTCGA-CTC
1 GACTCGAGCTC
714565 GACTCGAGCTC
1 GACTCGAGCTC
714576 GACTCGAG
1 GACTCGAG
714584 TTCTTAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.17
Consensus pattern (11 bp):
GACTCGAGCTC
Found at i:716154 original size:21 final size:21
Alignment explanation
Indices: 716130--716172 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
716120 TCACAGTCAT
716130 AGTCGAAGTCCTCTTCATCAG
1 AGTCGAAGTCCTCTTCATCAG
****
716151 AGTCTTCTTCCTCTTCATCAG
1 AGTCGAAGTCCTCTTCATCAG
716172 A
1 A
716173 ATCTCTGTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (21 bp):
AGTCGAAGTCCTCTTCATCAG
Found at i:718247 original size:220 final size:221
Alignment explanation
Indices: 717824--718269 Score: 741
Period size: 220 Copynumber: 2.0 Consensus size: 221
717814 TTTTCTACAA
717824 TTTAAAATCCTAGTACTTATTTTCCAAACAAGATAACCTCACCAAACTCCCAGTGACCCTGAAAT
1 TTTAAAATCCTAGTACTTATTTTCCAAACAAGATAACCTCACCAAACTCCCAGTGACCCTGAAAT
** *
717889 GATATAGCTAATAAATAAACACATATGACGTATGGTACTCGTCAACAATAAAAGATAACATTTCC
66 GATATAGCTAATAAATAAACACA-ATGACGTACAGTACTCATCAACAATAAAAGATAACATTTCC
* * *
717954 ACAAGACTCGAGTCGGTTACAGCATTTCCACTAGCATGTCTACTTCAAATAAAATGAATCAAGGA
130 ACAAGACTCGAGTCGATTACAGCATTTCCAATAGCATGTCTACTCCAAATAAAATGAATCAAGGA
718019 CTAAAATGCTATACTAACTCTAACCTC
195 CTAAAATGCTATACTAACTCTAACCTC
* * *
718046 TTTAAAATCCTAGTACTTATTTTCCAAACAAGATAATCTCACCAAACTCTCAGTGTCCCTGAAAT
1 TTTAAAATCCTAGTACTTATTTTCCAAACAAGATAACCTCACCAAACTCCCAGTGACCCTGAAAT
* *
718111 GATATAGCTAATAAATAAACAC-ATGGCGTACAGTACTCATCGACAATAAAAGATAACATTTCCA
66 GATATAGCTAATAAATAAACACAATGACGTACAGTACTCATCAACAATAAAAGATAACATTTCCA
* * * *
718175 CAAGACTTGGGTCGATTCCAGCATTTCCAATAGCATGTCTACTCCAAATAAAATGAATCAAGGAT
131 CAAGACTCGAGTCGATTACAGCATTTCCAATAGCATGTCTACTCCAAATAAAATGAATCAAGGAC
718240 TAAAATGCTATACTAACTCTAACCTC
196 TAAAATGCTATACTAACTCTAACCTC
718266 TTTA
1 TTTA
718270 TTCCCTATAA
Statistics
Matches: 209, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
220 125 0.60
222 84 0.40
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (221 bp):
TTTAAAATCCTAGTACTTATTTTCCAAACAAGATAACCTCACCAAACTCCCAGTGACCCTGAAAT
GATATAGCTAATAAATAAACACAATGACGTACAGTACTCATCAACAATAAAAGATAACATTTCCA
CAAGACTCGAGTCGATTACAGCATTTCCAATAGCATGTCTACTCCAAATAAAATGAATCAAGGAC
TAAAATGCTATACTAACTCTAACCTC
Found at i:719800 original size:6 final size:6
Alignment explanation
Indices: 719789--719813 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
719779 TGAAGAAAGT
719789 GGAGAA GGAGAA GGAGAA GGAGAA G
1 GGAGAA GGAGAA GGAGAA GGAGAA G
719814 CATAGTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GGAGAA
Found at i:730361 original size:6 final size:6
Alignment explanation
Indices: 730350--730392 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
730340 TGCATTGTAT
*
730350 TTTATC TTTATC TTTATC TTTA-- -TTATC TTTATC TTTATT TTTA
1 TTTATC TTTATC TTTATC TTTATC TTTATC TTTATC TTTATC TTTA
730393 ATTTCATTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
3 3 0.09
6 30 0.91
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTATC
Found at i:730376 original size:21 final size:21
Alignment explanation
Indices: 730351--730392 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
730341 GCATTGTATT
730351 TTATCTTTATCTTTATCTTTA
1 TTATCTTTATCTTTATCTTTA
*
730372 TTATCTTTATCTTTATTTTTA
1 TTATCTTTATCTTTATCTTTA
730393 ATTTCATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (21 bp):
TTATCTTTATCTTTATCTTTA
Found at i:730377 original size:15 final size:15
Alignment explanation
Indices: 730357--730388 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
730347 TATTTTATCT
730357 TTATCTTTATCTTTA
1 TTATCTTTATCTTTA
730372 TTATCTTTATCTTTA
1 TTATCTTTATCTTTA
730387 TT
1 TT
730389 TTTAATTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATCTTTATCTTTA
Found at i:731104 original size:27 final size:28
Alignment explanation
Indices: 731046--731106 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 28
731036 GACATAACTG
731046 ATTATTTTGTTTGATATTAAGGACTTAGTTA
1 ATTATTTTGTTTGATATTAAGGAC-T--TTA
731077 ATTATTTTGTTTGATATTAAGGAC-TTA
1 ATTATTTTGTTTGATATTAAGGACTTTA
731104 ATT
1 ATT
731107 TAATACAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 6 0.20
31 24 0.80
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (28 bp):
ATTATTTTGTTTGATATTAAGGACTTTA
Found at i:731127 original size:9 final size:9
Alignment explanation
Indices: 731113--731200 Score: 57
Period size: 9 Copynumber: 10.3 Consensus size: 9
731103 AATTTAATAC
731113 AAATTATAA
1 AAATTATAA
731122 AAATTATAA
1 AAATTATAA
*
731131 AAATAATATA
1 AAATTATA-A
731141 AAA-TATAA
1 AAATTATAA
731149 AAGA--ATAA
1 AA-ATTATAA
*
731157 GAA-TA-AA
1 AAATTATAA
731164 AATATT-TAA
1 AA-ATTATAA
*
731173 CAATTAT-A
1 AAATTATAA
731181 AAA-TATAA
1 AAATTATAA
*
731189 AAATTACAA
1 AAATTATAA
731198 AAA
1 AAA
731201 ATAATATTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
7 7 0.11
8 20 0.32
9 32 0.51
10 4 0.06
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (9 bp):
AAATTATAA
Found at i:732610 original size:22 final size:22
Alignment explanation
Indices: 732585--732677 Score: 125
Period size: 22 Copynumber: 4.3 Consensus size: 22
732575 AATGATTTTT
* *
732585 AATCAGCATTCAGACGAATTCC
1 AATCAACATTCAGACCAATTCC
*
732607 AATCAACATTCAGACGAATTCC
1 AATCAACATTCAGACCAATTCC
* *
732629 AATCAGCATTCAGACCAAGTCC
1 AATCAACATTCAGACCAATTCC
*
732651 AATCAACATTCATACCAA-TCC
1 AATCAACATTCAGACCAATTCC
732672 AATCAA
1 AATCAA
732678 TGTTAAAGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
21 9 0.14
22 56 0.86
ACGTcount: A:0.41, C:0.29, G:0.09, T:0.22
Consensus pattern (22 bp):
AATCAACATTCAGACCAATTCC
Found at i:733929 original size:95 final size:95
Alignment explanation
Indices: 733803--734023 Score: 243
Period size: 95 Copynumber: 2.3 Consensus size: 95
733793 ACCAAGCGAT
* * * * *
733803 GTAGTATCG--ACCATAGTAAGGGTTTCAATACCAAGAAACGTCGAATCTAATTTTGATATCGAT
1 GTAGTATCGATACCATAGTAGGGGTATCGATACCAAGAAACATCGAAGCTAATTTTGATATCGAT
* * *
733866 AC-CGAAGGGGGGTATAGGTACCATACTATA
66 ACTCGAA-GGGGGTATAGATACCATAATAGA
* * * ** *
733896 GTAGTATCGATACCATGGT-GAGGGTATTGATACCAGGCTACATCGAAGCTAATTTTGGTATCGA
1 GTAGTATCGATACCATAGTAG-GGGTATCGATACCAAGAAACATCGAAGCTAATTTTGATATCGA
* * *
733960 TACTGGAAGGGGGTATCGATACCATAATAGG
65 TACTCGAAGGGGGTATAGATACCATAATAGA
733991 GTAGTATCGATACCATAGTAGGGGTATCGATAC
1 GTAGTATCGATACCATAGTAGGGGTATCGATAC
734024 TGAAGGGCCA
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
93 9 0.09
95 91 0.88
96 4 0.04
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (95 bp):
GTAGTATCGATACCATAGTAGGGGTATCGATACCAAGAAACATCGAAGCTAATTTTGATATCGAT
ACTCGAAGGGGGTATAGATACCATAATAGA
Found at i:734019 original size:20 final size:20
Alignment explanation
Indices: 733969--734023 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 20
733959 ATACTGGAAG
733969 GGGGTATCGATACCATAATA
1 GGGGTATCGATACCATAATA
*
733989 GGGTAGTATCGATACCATAGTA
1 GGG--GTATCGATACCATAATA
734011 GGGGTATCGATAC
1 GGGGTATCGATAC
734024 TGAAGGGCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 13 0.41
22 19 0.59
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (20 bp):
GGGGTATCGATACCATAATA
Found at i:734520 original size:45 final size:45
Alignment explanation
Indices: 734470--734778 Score: 379
Period size: 45 Copynumber: 6.9 Consensus size: 45
734460 AAAGGATGCC
*
734470 ATAGTTGAAATGTATATGGGTACATTATCAATAGAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * * *
734515 TTAGTTGAAATGTATATGAGTACTTTATCAACATAAAAGTATGCT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * * *
734560 AGAGTTGAAAT-TCATATGGGTGCATTATCAACAGAAGAGCATGCT
1 ATAGTTGAAATGT-ATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
734605 AGAGTTGAAATGTATATGGGTAAATTATCAATAGAAAAATATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
734650 ATGGTTGAAATGTATATGGGTAAATTATCAATAGAAAAATATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
734695 ATGGTTGAAATGTATATGGGTACATTATCAAC-GAAAAAGTATATT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAG-AAAAGTATACT
* *
734740 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAG
734779 AGGTTATAGT
Statistics
Matches: 230, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
44 2 0.01
45 226 0.98
46 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (45 bp):
ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:734679 original size:135 final size:135
Alignment explanation
Indices: 734433--734777 Score: 401
Period size: 135 Copynumber: 2.6 Consensus size: 135
734423 TGAAAATACT
*** * *
734433 AATG-CATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGGTACATTA
1 AATGTCATATGGGTGCATTATCAACA-GAAAGCATGCTATAGTTGAAATGTATATGGGTACATTA
* * ** * * *
734497 TCAATAGAAAAGTATACTTTAGTTGAAATGTATATGAGTACTTTATCAACATAAAAGTATGCTA-
65 TCAATAGAAAAATATACTATAGTTGAAATGTATATGAGTAAATTATCAACAGAAAAATATACTAT
734561 GAGTTGA
130 G-GTTGA
* *
734568 AAT-TCATATGGGTGCATTATCAACAGAAGAGCATGCTAGAGTTGAAATGTATATGGGTAAATTA
1 AATGTCATATGGGTGCATTATCAACAGAA-AGCATGCTATAGTTGAAATGTATATGGGTACATTA
* * *
734632 TCAATAGAAAAATATACTATGGTTGAAATGTATATGGGTAAATTATCAATAGAAAAATATACTAT
65 TCAATAGAAAAATATACTATAGTTGAAATGTATATGAGTAAATTATCAACAGAAAAATATACTAT
734697 GGTTGA
130 GGTTGA
* * * ** * *
734703 AATGT-ATATGGGTACATTATCAACGAAAAAGTATATTATAGTTGAAATGCATATGGGTGCATTA
1 AATGTCATATGGGTGCATTATCAAC-AGAAAGCATGCTATAGTTGAAATGTATATGGGTACATTA
*
734767 TCAACAGAAAA
65 TCAATAGAAAA
734778 GAGGTTATAG
Statistics
Matches: 178, Mismatches: 27, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
134 3 0.02
135 170 0.96
136 5 0.03
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (135 bp):
AATGTCATATGGGTGCATTATCAACAGAAAGCATGCTATAGTTGAAATGTATATGGGTACATTAT
CAATAGAAAAATATACTATAGTTGAAATGTATATGAGTAAATTATCAACAGAAAAATATACTATG
GTTGA
Found at i:740889 original size:34 final size:34
Alignment explanation
Indices: 740846--740920 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
740836 GGTAAGGGTG
*
740846 TCGATACCAGGAAACATCAAATCTAATTTTGGTA
1 TCGATACCAGGAAACATCAAAGCTAATTTTGGTA
** *
740880 TCGATACCAGGCTACATCGAAGCTAATTTTGGTA
1 TCGATACCAGGAAACATCAAAGCTAATTTTGGTA
740914 TCGATAC
1 TCGATAC
740921 TATATTGGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (34 bp):
TCGATACCAGGAAACATCAAAGCTAATTTTGGTA
Found at i:740934 original size:19 final size:19
Alignment explanation
Indices: 740910--740981 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 19
740900 AGCTAATTTT
* *
740910 GGTATCGATACTATATTGG
1 GGTATCGATACCATATAGG
740929 GGTATCGATACCATAATAGG
1 GGTATCGATACCAT-ATAGG
*
740949 GTAGTATTGATACCATAGTAGG
1 G--GTATCGATACCATA-TAGG
740971 GGTATCGATAC
1 GGTATCGATAC
740982 TGAAGGGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
19 13 0.29
20 14 0.31
21 1 0.02
22 17 0.38
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (19 bp):
GGTATCGATACCATATAGG
Found at i:741478 original size:45 final size:45
Alignment explanation
Indices: 741429--741736 Score: 402
Period size: 45 Copynumber: 6.8 Consensus size: 45
741419 AAGGATGCCC
** *
741429 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAACATACTT
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
* **
741474 TAGTTGAAATTTATATGGGTACATTATCAACAGAAAAGTATGTTA
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
* * *
741519 GAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATGCTA
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
* * * * *
741564 GAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAGCT-TGCTA
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAG-TATACTA
* * * * *
741609 GAGTTGAAATGTATATGAGTATATTATCAATAGAAAAATATACTA
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
*
741654 TGGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
* *
741699 TAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
1 TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAG
741737 ATGTTATAGT
Statistics
Matches: 232, Mismatches: 29, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
44 1 0.00
45 230 0.99
46 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (45 bp):
TAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA
Found at i:741770 original size:90 final size:88
Alignment explanation
Indices: 741430--741779 Score: 307
Period size: 90 Copynumber: 3.9 Consensus size: 88
741420 AGGATGCCCT
* * * ** *
741430 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAACATACTT-TAGTTGAAATTTATA-TGGG
1 AGTTGAAATGTATATGGGTGCATTATCAACAG-AAAAGAT-GTTATAGTTGAAATGCATATTGTG
*
741493 TACATTATCAACAGAAAAGTATGTTAG
64 T--ATTATCAACAGAAAAGTATGCTAG
* * *
741520 AGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTG
1 AGTTGAAATGTATATGGGTGCATTATCAACAGAAAAG-ATGTTATAGTTGAAATGCATAT-TGTG
* *
741585 CATTATCAACAGAAGAGCT-TGCTAG
64 TATTATCAACAGAAAAG-TATGCTAG
* ** * * * * *
741610 AGTTGAAATGTATATGAGTATATTATCAATAGAAAA-ATATACTATGGTTGAAATGTATA-TGGG
1 AGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGATGT--TATAGTTGAAATGCATATTGTG
* *
741673 TACATTATCAACAGAAAAGTATACTAT
64 T--ATTATCAACAGAAAAGTATGCTAG
* * *
741700 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGATGTTATAGTTTAAAGGGCATAATTGTG
1 AGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGATGTTATAGTTGAAA-TGCAT-ATTGTG
*
741765 TATTATAAACA-AAAA
64 TATTATCAACAGAAAA
741780 TGGAGGTTAC
Statistics
Matches: 207, Mismatches: 39, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
88 4 0.02
89 19 0.09
90 173 0.84
91 5 0.02
92 6 0.03
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (88 bp):
AGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGATGTTATAGTTGAAATGCATATTGTGTA
TTATCAACAGAAAAGTATGCTAG
Found at i:744446 original size:4 final size:4
Alignment explanation
Indices: 744437--744502 Score: 64
Period size: 4 Copynumber: 15.8 Consensus size: 4
744427 CAAAAACCAA
*
744437 AAAT AAAT AAAT AACAT AAAAC AAAT AAAT AACAT AAACT AAAT -AAT
1 AAAT AAAT AAAT AA-AT -AAAT AAAT AAAT AA-AT AAA-T AAAT AAAT
744484 AAA- AAAT AAAT AAAAT AAA
1 AAAT AAAT AAAT -AAAT AAA
744503 AACAAAAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
3 6 0.11
4 30 0.57
5 15 0.28
6 2 0.04
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:744456 original size:36 final size:36
Alignment explanation
Indices: 744438--744513 Score: 68
Period size: 37 Copynumber: 2.1 Consensus size: 36
744428 AAAAACCAAA
* *
744438 AATAAATAA-ATAACATAAA-ACAAATAAATAA-CATAA
1 AATAAATAATAAAAAATAAATA-AAATAAA-AACCA-AA
* *
744474 ACTAAATAATAAAAAATAAATAAAATAAAAACAAAA
1 AATAAATAATAAAAAATAAATAAAATAAAAACCAAA
744510 AATA
1 AATA
744514 GAAACTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
36 15 0.47
37 16 0.50
38 1 0.03
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (36 bp):
AATAAATAATAAAAAATAAATAAAATAAAAACCAAA
Found at i:744464 original size:14 final size:13
Alignment explanation
Indices: 744437--744502 Score: 71
Period size: 14 Copynumber: 4.9 Consensus size: 13
744427 CAAAAACCAA
744437 AAAT-AAATAAAT
1 AAATAAAATAAAT
*
744449 AACATAAAACAAAT
1 AA-ATAAAATAAAT
*
744463 AAATAACATAAACT
1 AAATAAAATAAA-T
*
744477 AAATAATAAAAAAT
1 AAATAA-AATAAAT
744491 AAATAAAATAAA
1 AAATAAAATAAA
744503 AACAAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
12 2 0.05
13 15 0.34
14 23 0.52
15 4 0.09
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:744503 original size:14 final size:14
Alignment explanation
Indices: 744437--744541 Score: 69
Period size: 14 Copynumber: 7.6 Consensus size: 14
744427 CAAAAACCAA
744437 AAAT-AAAT-AAAT
1 AAATAAAATAAAAT
*
744449 AACATAAAA-CAAAT
1 AA-ATAAAATAAAAT
* *
744463 AAATAACATAAACT
1 AAATAAAATAAAAT
744477 AAATAATAA-AAAAT
1 AAATAA-AATAAAAT
744491 AAATAAAATAAAA-
1 AAATAAAATAAAAT
744504 ACAA-AAAATAGAAACT
1 A-AATAAAATA-AAA-T
* * *
744520 AAAAAAAAGAAAAC
1 AAATAAAATAAAAT
744534 AAATAAAA
1 AAATAAAA
744542 GTAGAAAACA
Statistics
Matches: 74, Mismatches: 8, Indels: 20
0.73 0.08 0.20
Matches are distributed among these distances:
12 2 0.03
13 16 0.22
14 44 0.59
15 6 0.08
16 6 0.08
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:744512 original size:18 final size:18
Alignment explanation
Indices: 744412--744541 Score: 74
Period size: 18 Copynumber: 7.1 Consensus size: 18
744402 GATTTGTTAG
* *
744412 AACAATAAATATAAACAAA
1 AACAAAAAATA-AAATAAA
*
744431 AACCAAAAAT-AAATAAA
1 AACAAAAAATAAAATAAA
* *
744448 TAACATAAAA-CAAATAAA
1 -AACAAAAAATAAAATAAA
* *
744466 TAACATAAACT-AAATAATA
1 -AACAAAAAATAAAATAA-A
744485 AA-AAATAAATAAAATAAA
1 AACAAA-AAATAAAATAAA
744503 AACAAAAAATAGAAACTAAA
1 AACAAAAAATA-AAA-TAAA
744523 AA-AAAGAAA-ACAAATAAA
1 AACAAA-AAATA-AAATAAA
744541 A
1 A
744542 GTAGAAAACA
Statistics
Matches: 92, Mismatches: 9, Indels: 21
0.75 0.07 0.17
Matches are distributed among these distances:
17 8 0.09
18 47 0.51
19 28 0.30
20 9 0.10
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (18 bp):
AACAAAAAATAAAATAAA
Found at i:744628 original size:17 final size:17
Alignment explanation
Indices: 744603--744704 Score: 75
Period size: 17 Copynumber: 5.9 Consensus size: 17
744593 AGAATCAACT
744603 AATAAAAAACAAATAAC
1 AATAAAAAACAAATAAC
* *
744620 AATAGAAAACAAATAAT
1 AATAAAAAACAAATAAC
*
744637 AAAAAAAAAC-AA-AA-
1 AATAAAAAACAAATAAC
* *
744651 AATAGAAAATAAGATTGAAC
1 AATAAAAAACAA-A-T-AAC
* *
744671 TTATAAAAAACAAAAAAC
1 -AATAAAAAACAAATAAC
744689 AAATAAAAAACAAATA
1 -AATAAAAAACAAATA
744705 GAAAACAAAA
Statistics
Matches: 64, Mismatches: 14, Indels: 13
0.70 0.15 0.14
Matches are distributed among these distances:
14 7 0.11
15 3 0.05
16 3 0.05
17 23 0.36
18 16 0.25
19 2 0.03
20 1 0.02
21 9 0.14
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.14
Consensus pattern (17 bp):
AATAAAAAACAAATAAC
Found at i:744698 original size:11 final size:11
Alignment explanation
Indices: 744682--744713 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
744672 TATAAAAAAC
744682 AAAAAACAAAT
1 AAAAAACAAAT
744693 AAAAAACAAAT
1 AAAAAACAAAT
*
744704 AGAAAACAAA
1 AAAAAACAAA
744714 AATAGAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.81, C:0.09, G:0.03, T:0.06
Consensus pattern (11 bp):
AAAAAACAAAT
Found at i:744709 original size:13 final size:13
Alignment explanation
Indices: 744682--744740 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
744672 TATAAAAAAC
744682 AAAAAACAAAT--
1 AAAAAACAAATAG
744693 AAAAAACAAATAG
1 AAAAAACAAATAG
744706 AAAACAA-AAATAG
1 AAAA-AACAAATAG
* *
744719 AAAACAAAAAATAT
1 AAAA-AACAAATAG
744733 AAAAAACA
1 AAAAAACA
744741 GAAAATAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
11 11 0.26
13 20 0.48
14 11 0.26
ACGTcount: A:0.80, C:0.08, G:0.03, T:0.08
Consensus pattern (13 bp):
AAAAAACAAATAG
Found at i:744727 original size:29 final size:30
Alignment explanation
Indices: 744672--744853 Score: 100
Period size: 29 Copynumber: 6.3 Consensus size: 30
744662 AGATTGAACT
*
744672 TATAAAAAACAAAAA-ACAAATAAAAAACAA
1 TATAAAAAACAAAAATAGAAATAAAAAA-AA
* *
744702 -ATAGAAAACAAAAATAGAAA-ACAAAAAA
1 TATAAAAAACAAAAATAGAAATAAAAAAAA
* ***
744730 TATAAAAAACAGAAAATAGAACATATAATGTA
1 TATAAAAAACA-AAAATAGAA-ATAAAAAAAA
* * *
744762 TATAGAAAAC--AAATA-AAA-AATAGAAA
1 TATAAAAAACAAAAATAGAAATAAAAAAAA
* *
744788 -A-CAAAAAGAAAAA-AGAAA-ATAAAAAAA
1 TATAAAAAACAAAAATAGAAATA-AAAAAAA
* *
744815 TATAAAATTA-AAAAATAGAAAATAAAAAACA
1 TATAAAA-AACAAAAATAG-AAATAAAAAAAA
744846 TATAAAAA
1 TATAAAAA
744854 CAGAAAACAA
Statistics
Matches: 114, Mismatches: 23, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
24 4 0.04
25 2 0.02
26 10 0.09
27 6 0.05
28 5 0.04
29 40 0.35
30 16 0.14
31 17 0.15
32 14 0.12
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.14
Consensus pattern (30 bp):
TATAAAAAACAAAAATAGAAATAAAAAAAA
Found at i:744730 original size:70 final size:69
Alignment explanation
Indices: 744590--744731 Score: 169
Period size: 70 Copynumber: 2.0 Consensus size: 69
744580 TCACATTAAC
* * *
744590 ATAAGAATCAACTAATAAAAAACAAATAACAATAGAAAACAAATAATAAAAAAAAACAAAAAATA
1 ATAAGAATCAACTAATAAAAAACAAAAAACAATAAAAAACAAATAATAAAAAAAAACAAAAAACA
*
744655 GAAA
66 AAAA
* * * * * *
744659 ATAAGATTGAACTTATAAAAAACAAAAAACAAATAAAAAACAAATAGA-AAACAAAAATAGAAAA
1 ATAAGAATCAACTAATAAAAAACAAAAAAC-AATAAAAAACAAATA-ATAAAAAAAAACAAAAAA
744723 CAAAAA
64 CAAAAA
744729 ATA
1 ATA
744732 TAAAAAACAG
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
69 26 0.43
70 34 0.56
71 1 0.02
ACGTcount: A:0.73, C:0.08, G:0.05, T:0.13
Consensus pattern (69 bp):
ATAAGAATCAACTAATAAAAAACAAAAAACAATAAAAAACAAATAATAAAAAAAAACAAAAAACA
AAAA
Found at i:744782 original size:7 final size:7
Alignment explanation
Indices: 744772--744843 Score: 58
Period size: 7 Copynumber: 10.4 Consensus size: 7
744762 TATAGAAAAC
744772 AAATAAA
1 AAATAAA
*
744779 AAATAGA
1 AAATAAA
*
744786 AAA-CAA
1 AAATAAA
*
744792 AAAGAAA
1 AAATAAA
*
744799 AAAGAAA
1 AAATAAA
*
744806 ATA-AAA
1 AAATAAA
744812 AAATATAA
1 AAATA-AA
*
744820 AATTAAA
1 AAATAAA
*
744827 AAATAGA
1 AAATAAA
744834 AAATAAA
1 AAATAAA
744841 AAA
1 AAA
744844 CATATAAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
6 9 0.17
7 37 0.71
8 6 0.12
ACGTcount: A:0.81, C:0.01, G:0.06, T:0.12
Consensus pattern (7 bp):
AAATAAA
Found at i:744784 original size:18 final size:18
Alignment explanation
Indices: 744763--744885 Score: 81
Period size: 18 Copynumber: 6.8 Consensus size: 18
744753 TATAATGTAT
744763 ATAGAAAACAAATAAAAA
1 ATAGAAAACAAATAAAAA
744781 ATAGAAAACAAA-AAGAAA
1 ATAGAAAACAAATAA-AAA
* * *
744799 AAAGAAAATAAA-AAAAT
1 ATAGAAAACAAATAAAAA
* * *
744816 ATAAAATTAAAAAATAGAAA
1 ATAGAA--AACAAATAAAAA
* *
744836 ATAAAAAACATAT-AAAA
1 ATAGAAAACAAATAAAAA
* * **
744853 ACAGAAAACAATTAGCAA
1 ATAGAAAACAAATAAAAA
*
744871 ATAAAAAACAAATAA
1 ATAGAAAACAAATAA
744886 TAAACAGTGT
Statistics
Matches: 79, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
17 20 0.25
18 45 0.57
19 5 0.06
20 9 0.11
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.13
Consensus pattern (18 bp):
ATAGAAAACAAATAAAAA
Found at i:744828 original size:16 final size:15
Alignment explanation
Indices: 744803--744852 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
744793 AAGAAAAAAG
744803 AAAATAAAAAAATAT
1 AAAATAAAAAAATAT
* *
744818 AAAATTAAAAAATAG
1 AAAATAAAAAAATAT
744833 AAAATAAAAAACATAT
1 AAAATAAAAAA-ATAT
744849 AAAA
1 AAAA
744853 ACAGAAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 23 0.77
16 7 0.23
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAATAAAAAAATAT
Found at i:744837 original size:30 final size:30
Alignment explanation
Indices: 744796--744852 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
744786 AAACAAAAAG
744796 AAAAAAGAAAATAAAAAA-ATATAAAATTA
1 AAAAAAGAAAATAAAAAACATATAAAATTA
744825 AAAAATAGAAAATAAAAAACATATAAAA
1 AAAAA-AGAAAATAAAAAACATATAAAA
744853 ACAGAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 5 0.19
30 13 0.50
31 8 0.31
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (30 bp):
AAAAAAGAAAATAAAAAACATATAAAATTA
Found at i:744849 original size:84 final size:82
Alignment explanation
Indices: 744683--744855 Score: 181
Period size: 84 Copynumber: 2.1 Consensus size: 82
744673 ATAAAAAACA
* * * *
744683 AAAAACAAATAAAAAACAAATAGAAAACAAAAATAGAAAACAAAAAATATAAAAAACAGAAAATA
1 AAAAACAAATAAAAAACAAAAACAAAACAAAAAAAGAAAAAAAAAAATATAAAAAACAGAAAATA
* * ***
744748 GAACATATAATGTATAT
66 GAAAATAAAAAACATAT
* *
744765 AGAAAACAAATAAAAAATAGAAAACAAAA-AGAAAAAAGAAAATAAAAAAATATAAAATTA-A-A
1 A-AAAACAAATAAAAAACA-AAAACAAAACA-AAAAAAGAAAA-AAAAAAATATAAAA-AACAGA
744827 AAATAGAAAATAAAAAACATAT
61 AAATAGAAAATAAAAAACATAT
744849 AAAAACA
1 AAAAACA
744856 GAAAACAATT
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
82 1 0.01
83 23 0.31
84 36 0.48
85 14 0.19
86 1 0.01
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.13
Consensus pattern (82 bp):
AAAAACAAATAAAAAACAAAAACAAAACAAAAAAAGAAAAAAAAAAATATAAAAAACAGAAAATA
GAAAATAAAAAACATAT
Found at i:744859 original size:90 final size:88
Alignment explanation
Indices: 744677--744882 Score: 213
Period size: 90 Copynumber: 2.3 Consensus size: 88
744667 GAACTTATAA
* * *
744677 AAAACAAA-AAACAAATAAAAAACAAATAGAAAACAAAAATAGAAAACAAAAAATATAAAAAACA
1 AAAACAAATAAA-AAATAAAAAACAAAAAGAAAAAAAAAATAGAAAAAAAAAAATATAAAAAACA
* * *
744741 GAAAATAGAACATATAATGTATATAG
65 GAAAATAAAACATATAA--TAAACAG
*
744767 AAAACAAATAAAAAATAGAAAACAAAAAGAAAAAAGAAAATA-AAAAAATATAAAAT-TAAAAAA
1 AAAACAAATAAAAAATAAAAAACAAAAAGAAAAAA-AAAATAGAAAAAA-A-AAAATATAAAAAA
*
744830 TAGAAAATAAAAAACATATAA-AAACAG
63 CAGAAAAT--AAAACATATAATAAACAG
* **
744857 AAAACAATTAGCAAATAAAAAACAAA
1 AAAACAAATAAAAAATAAAAAACAAA
744883 TAATAAACAG
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
90 59 0.60
91 24 0.24
92 5 0.05
93 10 0.10
ACGTcount: A:0.75, C:0.07, G:0.06, T:0.13
Consensus pattern (88 bp):
AAAACAAATAAAAAATAAAAAACAAAAAGAAAAAAAAAATAGAAAAAAAAAAATATAAAAAACAG
AAAATAAAACATATAATAAACAG
Found at i:745005 original size:6 final size:7
Alignment explanation
Indices: 744988--745013 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
744978 TACAACCCTC
744988 AAAAAAT
1 AAAAAAT
744995 AAAAAAT
1 AAAAAAT
745002 AAAAAAT
1 AAAAAAT
745009 AAAAA
1 AAAAA
745014 CAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:745680 original size:12 final size:12
Alignment explanation
Indices: 745650--745704 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
745640 AATAAATAAT
745650 AAATAAAA-AAA
1 AAATAAAACAAA
745661 AACA-AAAACAAA
1 AA-ATAAAACAAA
745673 AAATAAAACAAA
1 AAATAAAACAAA
* *
745685 TAATAAACACAGA
1 AAATAAA-ACAAA
745698 AAATAAA
1 AAATAAA
745705 TAATAAAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 7 0.19
12 20 0.54
13 10 0.27
ACGTcount: A:0.80, C:0.09, G:0.02, T:0.09
Consensus pattern (12 bp):
AAATAAAACAAA
Done.