Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 43
Found at i:6718275 original size:59 final size:59
Alignment explanation
Indices: 6718212--6718548 Score: 530
Period size: 59 Copynumber: 5.7 Consensus size: 59
6718202 GCACTAAGTA
* **
6718212 TGCTAAAATGTTAAGAAATTCATATTAAGTGTATGAATTTTTGTATAGGGCACTTTGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTTGTG
* *
6718271 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAAGGCACTTTGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTTGTG
* * *
6718330 TGCTACAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAAGGCACTTTGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTTGTG
* * * ** *
6718389 TGCTAAAATATTAATAAATTCATACTAAGTGTATGAATTTTCGTATAGGAAACTTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTTGTG
**
6718448 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCATG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTTGTG
6718507 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCC
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCC
6718549 ATATGAGAAA
Statistics
Matches: 257, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 257 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (59 bp):
TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTTGTG
Found at i:6719728 original size:23 final size:24
Alignment explanation
Indices: 6719693--6719737 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
6719683 AATATAATTG
*
6719693 AATTTTAAATTCA-ATTAATGATA
1 AATTTCAAATTCACATTAATGATA
* *
6719716 AATTTCAATTTCACCTTAATGA
1 AATTTCAAATTCACATTAATGA
6719738 ATCATGATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (24 bp):
AATTTCAAATTCACATTAATGATA
Found at i:6720691 original size:22 final size:22
Alignment explanation
Indices: 6720658--6720703 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
6720648 TCCAAACGAC
* *
6720658 TTCCTAACTTAAAATTTCAGCA
1 TTCCTAACTTAAAAATTCAACA
6720680 TTCCATAA-TTAAAAATTCAACA
1 TTCC-TAACTTAAAAATTCAACA
6720702 TT
1 TT
6720704 GAATACCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (22 bp):
TTCCTAACTTAAAAATTCAACA
Found at i:6722313 original size:17 final size:17
Alignment explanation
Indices: 6722291--6722324 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6722281 AATAGACAGG
6722291 TGTGGGCATCGATGAAA
1 TGTGGGCATCGATGAAA
6722308 TGTGGGCATCGATGAAA
1 TGTGGGCATCGATGAAA
6722325 GTCGTTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.24
Consensus pattern (17 bp):
TGTGGGCATCGATGAAA
Found at i:6722913 original size:2 final size:2
Alignment explanation
Indices: 6722906--6722938 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6722896 ATCCCGAATC
6722906 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6722939 AATCTAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6723213 original size:23 final size:23
Alignment explanation
Indices: 6723178--6723228 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6723168 GACTATTTAT
*
6723178 TTGTAGCTATTATAGCAACTTAA
1 TTGTAGCTATTATAACAACTTAA
* * *
6723201 TTGTAGTTGTTATAACAGCTTAA
1 TTGTAGCTATTATAACAACTTAA
6723224 TTGTA
1 TTGTA
6723229 ATTTAATTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (23 bp):
TTGTAGCTATTATAACAACTTAA
Found at i:6725356 original size:40 final size:40
Alignment explanation
Indices: 6725297--6725378 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
6725287 AACTAATATC
* * *
6725297 ATTAGATTTTTCAATTCATGGAACTAATATTTATTAAATT
1 ATTAGACTTTTCAACTCATGGAACTAATATGTATTAAATT
6725337 ATTAGACTTTTCAACTCATGGAACTAATATGTATTAAATT
1 ATTAGACTTTTCAACTCATGGAACTAATATGTATTAAATT
6725377 AT
1 AT
6725379 ATTGTTGGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.44
Consensus pattern (40 bp):
ATTAGACTTTTCAACTCATGGAACTAATATGTATTAAATT
Found at i:6726235 original size:29 final size:28
Alignment explanation
Indices: 6726192--6726257 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
6726182 GATGAGCTAA
* *
6726192 ATTTTTCTTTCAAGTTCGAGGGTCAAATTG
1 ATTTTT-TTTAAAGTTCAAGGGT-AAATTG
* *
6726222 ATTTTTTTTAAAGTTCAAGGGTTATTTG
1 ATTTTTTTTAAAGTTCAAGGGTAAATTG
6726250 ATTTTTTT
1 ATTTTTTT
6726258 GAAATACAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 12 0.38
29 14 0.44
30 6 0.19
ACGTcount: A:0.23, C:0.08, G:0.17, T:0.53
Consensus pattern (28 bp):
ATTTTTTTTAAAGTTCAAGGGTAAATTG
Found at i:6737303 original size:17 final size:18
Alignment explanation
Indices: 6737273--6737312 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
6737263 TTGTTACGTC
6737273 AAAATAATAAATTTTAAT
1 AAAATAATAAATTTTAAT
* *
6737291 AAAA-AATATATTTTATT
1 AAAATAATAAATTTTAAT
6737308 AAAAT
1 AAAAT
6737313 TCATCACGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATAATAAATTTTAAT
Found at i:6737605 original size:23 final size:22
Alignment explanation
Indices: 6737579--6737631 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
6737569 AATTTATACA
* *
6737579 TCTTAAAATTTATAATTTCATAT
1 TCTTAAAATTTATAATAT-AAAT
* *
6737602 TCTTTAAATTTCTAATATAAAT
1 TCTTAAAATTTATAATATAAAT
6737624 TCTTAAAA
1 TCTTAAAA
6737632 ACATATCATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (22 bp):
TCTTAAAATTTATAATATAAAT
Found at i:6739546 original size:27 final size:27
Alignment explanation
Indices: 6739516--6739569 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6739506 GAATCTGATC
*
6739516 TAATATGAAAATCATATACTCTCCACT
1 TAATATGAAAATCATATACTCACCACT
* * * *
6739543 TAATTTGAGAATTATATGCTCACCACT
1 TAATATGAAAATCATATACTCACCACT
6739570 AGATCCAAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.35
Consensus pattern (27 bp):
TAATATGAAAATCATATACTCACCACT
Found at i:6740730 original size:19 final size:19
Alignment explanation
Indices: 6740708--6740763 Score: 80
Period size: 18 Copynumber: 3.0 Consensus size: 19
6740698 CAATCCTAAC
6740708 AATTAGACTATAATTTAGG
1 AATTAGACTATAATTTAGG
*
6740727 AATTA-ATTATAATTTAGG
1 AATTAGACTATAATTTAGG
6740745 AATTATG-CTATAATTTAGG
1 AATTA-GACTATAATTTAGG
6740764 CAACTAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (19 bp):
AATTAGACTATAATTTAGG
Found at i:6740775 original size:19 final size:18
Alignment explanation
Indices: 6740716--6740775 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
6740706 ACAATTAGAC
*
6740716 TATAATTTAGGAATTAAT
1 TATAATTTAGGAATTAAA
**
6740734 TATAATTTAGGAATTATGC
1 TATAATTTAGGAATTA-AA
*
6740753 TATAATTTAGGCAACTAAA
1 TATAATTTAGG-AATTAAA
6740772 TATA
1 TATA
6740776 CAATAGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 16 0.46
19 15 0.43
20 4 0.11
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (18 bp):
TATAATTTAGGAATTAAA
Found at i:6745227 original size:19 final size:19
Alignment explanation
Indices: 6745203--6745240 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6745193 CAATCCTAAC
6745203 AATTAGGCTATAATTTAGG
1 AATTAGGCTATAATTTAGG
6745222 AATTAGGCTATAATTTAGG
1 AATTAGGCTATAATTTAGG
6745241 CAACTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (19 bp):
AATTAGGCTATAATTTAGG
Found at i:6747257 original size:25 final size:25
Alignment explanation
Indices: 6747226--6747297 Score: 126
Period size: 25 Copynumber: 2.9 Consensus size: 25
6747216 CGTGACATGT
* *
6747226 TCTATGCCTTTATGACACGTTTATC
1 TCTATGCATTTGTGACACGTTTATC
6747251 TCTATGCATTTGTGACACGTTTATC
1 TCTATGCATTTGTGACACGTTTATC
6747276 TCTATGCATTTGTGACACGTTT
1 TCTATGCATTTGTGACACGTTT
6747298 TTATATGCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.44
Consensus pattern (25 bp):
TCTATGCATTTGTGACACGTTTATC
Found at i:6750098 original size:26 final size:26
Alignment explanation
Indices: 6750062--6750146 Score: 170
Period size: 26 Copynumber: 3.3 Consensus size: 26
6750052 CAAGCAGGAT
6750062 GAAGCATTGAATGCTGCATTCATCTA
1 GAAGCATTGAATGCTGCATTCATCTA
6750088 GAAGCATTGAATGCTGCATTCATCTA
1 GAAGCATTGAATGCTGCATTCATCTA
6750114 GAAGCATTGAATGCTGCATTCATCTA
1 GAAGCATTGAATGCTGCATTCATCTA
6750140 GAAGCAT
1 GAAGCAT
6750147 GTGTGAACAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 59 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (26 bp):
GAAGCATTGAATGCTGCATTCATCTA
Found at i:6754735 original size:16 final size:17
Alignment explanation
Indices: 6754704--6754739 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6754694 CGTCTCGCCG
*
6754704 ACAAAATTTTACTATTC
1 ACAAAATTTCACTATTC
6754721 ACAAAA-TTCACTATTC
1 ACAAAATTTCACTATTC
6754737 ACA
1 ACA
6754740 TGAATGGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:6758031 original size:16 final size:16
Alignment explanation
Indices: 6758010--6758044 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
6758000 CGTATCGCCG
6758010 ACAAAATTCACTATTC
1 ACAAAATTCACTATTC
6758026 ACAAAATTCACTATTC
1 ACAAAATTCACTATTC
6758042 ACA
1 ACA
6758045 TGAATAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (16 bp):
ACAAAATTCACTATTC
Found at i:6766552 original size:24 final size:24
Alignment explanation
Indices: 6766520--6766570 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
6766510 ACTAAGAGAT
*
6766520 AATGTGCTATGGAGTCTTCAATCC
1 AATGCGCTATGGAGTCTTCAATCC
6766544 AATGCGCTATGGAGTCTTCAATCC
1 AATGCGCTATGGAGTCTTCAATCC
6766568 AAT
1 AAT
6766571 TCACATGGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (24 bp):
AATGCGCTATGGAGTCTTCAATCC
Found at i:6771685 original size:2 final size:2
Alignment explanation
Indices: 6771678--6771727 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
6771668 ATGTAGCATG
*
6771678 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6771719 AT AT AT AT A
1 AT AT AT AT A
6771728 ACAAACATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6772090 original size:2 final size:2
Alignment explanation
Indices: 6772083--6772129 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
6772073 TAGCTGATTA
6772083 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6772125 AT AT A
1 AT AT A
6772130 AACCAAACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6772872 original size:20 final size:18
Alignment explanation
Indices: 6772823--6772874 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
6772813 TATCAAGTAC
6772823 ATTTTAATAT-ATTTTAT
1 ATTTTAATATCATTTTAT
*
6772840 -TTATAAATATCATTTTAAT
1 ATT-TTAATATCATTTT-AT
6772859 ATTTTAACTATCATTT
1 ATTTTAA-TATCATTT
6772875 AGCATTGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 2 0.07
17 6 0.21
18 5 0.18
19 5 0.18
20 10 0.36
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTAATATCATTTTAT
Found at i:6775859 original size:21 final size:21
Alignment explanation
Indices: 6775833--6775886 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
6775823 GAAGGGTAAG
6775833 TATCGATATTGATTCAAACAT
1 TATCGATATTGATTCAAACAT
*
6775854 TATCGATATTGATTCAAGCAT
1 TATCGATATTGATTCAAACAT
6775875 TATCGATATTGA
1 TATCGATATTGA
6775887 AAGCTCAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (21 bp):
TATCGATATTGATTCAAACAT
Found at i:6782763 original size:24 final size:24
Alignment explanation
Indices: 6782731--6782784 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
6782721 GCCACCATTA
6782731 TAGTTCACAACTGAGGCTCGGTAC
1 TAGTTCACAACTGAGGCTCGGTAC
6782755 TAGTTCACAACTGAGGCTCGGTAC
1 TAGTTCACAACTGAGGCTCGGTAC
*
6782779 TGGTTC
1 TAGTTC
6782785 GAGGTGAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (24 bp):
TAGTTCACAACTGAGGCTCGGTAC
Found at i:6783208 original size:21 final size:18
Alignment explanation
Indices: 6783166--6783211 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
6783156 GTCATTTTTT
*
6783166 GTATCGATACTTATAGGG
1 GTATCGATACTTATAGGA
6783184 GTATCGATACTTGACATAGGA
1 GTATCGATACTT---ATAGGA
6783205 GTATCGA
1 GTATCGA
6783212 CACTGCTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 12 0.50
21 12 0.50
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (18 bp):
GTATCGATACTTATAGGA
Found at i:6787999 original size:2 final size:2
Alignment explanation
Indices: 6787992--6788021 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6787982 TTAAATTTAA
6787992 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6788022 GATAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6788092 original size:2 final size:2
Alignment explanation
Indices: 6788076--6788118 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
6788066 ATATGGTAAT
6788076 TA TA TA GTA TA -A TA 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
6788118 T
1 T
6788119 GATTTTATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6794032 original size:21 final size:21
Alignment explanation
Indices: 6794003--6794056 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
6793993 ATTCTGACTA
6794003 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
6794024 TCGCGTTGCGATTTTCCAACT
1 TCGCATTGCGATTTTCCAAAT
*
6794045 ATCGCAATGCGA
1 -TCGCATTGCGA
6794057 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:6794117 original size:20 final size:21
Alignment explanation
Indices: 6794042--6794131 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
6794032 CGATTTTCCA
*
6794042 ACTATCGCAATGCGAATATGT
1 ACTATCGCAATGCGATTATGT
*
6794063 A-AATCGCAATGCGAGTT-TGT
1 ACTATCGCAATGCGA-TTATGT
*
6794083 A-AATCGCAATGCGATTATG-
1 ACTATCGCAATGCGATTATGT
*
6794102 ACTATCGCAATGCGATTCTG-
1 ACTATCGCAATGCGATTATGT
6794122 ACTATCGCAA
1 ACTATCGCAA
6794132 CGTGATTCTG
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.05
20 57 0.92
21 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (21 bp):
ACTATCGCAATGCGATTATGT
Found at i:6794138 original size:20 final size:20
Alignment explanation
Indices: 6794085--6794152 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
6794075 GAGTTTGTAA
* *
6794085 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
6794105 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
6794125 ATCGCAACGTGATTCTGATT
1 ATCGCAACGCGATTCTGACT
*
6794145 GTCGCAAC
1 ATCGCAAC
6794153 ACTGAATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:6797303 original size:18 final size:18
Alignment explanation
Indices: 6797280--6797314 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6797270 AGAAAAAGGC
6797280 AATCAAAA-CCGCAATCAA
1 AATCAAAATCC-CAATCAA
6797298 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
6797315 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.29, G:0.03, T:0.14
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:6797626 original size:140 final size:140
Alignment explanation
Indices: 6797374--6797639 Score: 487
Period size: 140 Copynumber: 1.9 Consensus size: 140
6797364 AAACGTTGTA
* *
6797374 TTATGTGTAAACTTTTAATATTTTCATTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
* *
6797439 TGATCTGTTCAGTTGTTATCACTTATTATACATTCATTTGAATATCGCAACGCGAAGTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAAGTTGACTAT
6797504 TATGTGTATT
131 TATGTGTATT
6797514 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
*
6797579 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGA
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAAGTTGA
6797640 TTATCGCAAT
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 121 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAAGTTGACTAT
TATGTGTATT
Found at i:6797682 original size:20 final size:20
Alignment explanation
Indices: 6797659--6797852 Score: 180
Period size: 20 Copynumber: 10.3 Consensus size: 20
6797649 TTCAAAAATT
6797659 GCAACGCGAATTTGACTATC
1 GCAACGCGAATTTGACTATC
* *
6797679 GCAACACGAATATGACTATC
1 GCAACGCGAATTTGACTATC
*
6797699 GCAACGC-AA----A-AATC
1 GCAACGCGAATTTGACTATC
* *
6797713 GCAACGGGAATTTGTCTATC
1 GCAACGCGAATTTGACTATC
6797733 GCAACGCGAATTTGACTATC
1 GCAACGCGAATTTGACTATC
* *
6797753 GTAACGAC-TATTTGACTATC
1 GCAACG-CGAATTTGACTATC
*
6797773 GCAACGAGAA----A--ATC
1 GCAACGCGAATTTGACTATC
6797787 GCAACGCGAATTTGACTATC
1 GCAACGCGAATTTGACTATC
* * *
6797807 GCAACACAAATTTGAGTATC
1 GCAACGCGAATTTGACTATC
*
6797827 GCAACGCGAATTTGATTATC
1 GCAACGCGAATTTGACTATC
6797847 GCAACG
1 GCAACG
6797853 AGAAAATCGC
Statistics
Matches: 139, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
14 21 0.15
15 3 0.02
16 1 0.01
18 1 0.01
19 2 0.01
20 110 0.79
21 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
GCAACGCGAATTTGACTATC
Found at i:6797699 original size:54 final size:54
Alignment explanation
Indices: 6797614--6797758 Score: 200
Period size: 54 Copynumber: 2.7 Consensus size: 54
6797604 TTACACATTC
* * ** *
6797614 ATTTGAATATCGCAACGCGAATTTGATTATCGCAATTCAAAAATTGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCGA
* * *
6797668 ATTTGACTATCGCAACACGAATATGACTATCGCAACGCAAAAATCGCAACGGGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCGA
* *
6797722 ATTTGTCTATCGCAACGCGAATTTGACTATCGTAACG
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACG
6797759 ACTATTTGAC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 79 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (54 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCGA
Found at i:6797737 original size:74 final size:74
Alignment explanation
Indices: 6797659--6797901 Score: 312
Period size: 74 Copynumber: 3.3 Consensus size: 74
6797649 TTCAAAAATT
* *
6797659 GCAACGCGAATTTGACTATCGCAACACGAATATGACTATCGCAACGCA-AAAATCGCAACGGGAA
1 GCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACG-AGAAAATCGCAACGCGAA
*
6797723 TTTGTCTATC
65 TTTGACTATC
* *
6797733 GCAACGCGAATTTGACTATCGTAACGAC-TATTTGACTATCGCAACGAGAAAATCGCAACGCGAA
1 GCAACGCGAATTTGACTATCGCAAC-ACGAATTTGACTATCGCAACGAGAAAATCGCAACGCGAA
6797797 TTTGACTATC
65 TTTGACTATC
* * * * * * *
6797807 GCAACACAAATTTGAGTATCGCAACGCGAATTTGATTATCGCAACGAGAAAATCGCAAAGCGTAT
1 GCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGAGAAAATCGCAACGCGAAT
*
6797872 TAGACTATC
66 TTGACTATC
* *
6797881 GCAACGC-AAATTGACTTTCGC
1 GCAACGCGAATTTGACTATCGC
6797902 GTTGCGATTT
Statistics
Matches: 147, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
73 13 0.09
74 132 0.90
75 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (74 bp):
GCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGAGAAAATCGCAACGCGAAT
TTGACTATC
Found at i:6797788 original size:54 final size:54
Alignment explanation
Indices: 6797730--6797832 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
6797720 GAATTTGTCT
* *
6797730 ATCGCAACGCGAATTTGACTATCGTAACGAC-TATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAAC-ACAAATTTGACTATCGCAACGAGAAA
*
6797784 ATCGCAACGCGAATTTGACTATCGCAACACAAATTTGAGTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACACAAATTTGACTATCGCAACG
6797833 CGAATTTGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 2 0.04
54 43 0.96
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACACAAATTTGACTATCGCAACGAGAAA
Found at i:6797920 original size:20 final size:20
Alignment explanation
Indices: 6797895--6797948 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
6797885 CGCAAATTGA
*
6797895 CTTTCGCGTTGCGATTTTGT
1 CTTTCGCATTGCGATTTTGT
*
6797915 CTTTCGCATTGCGATTTTGA
1 CTTTCGCATTGCGATTTTGT
* *
6797935 GTTTAGCATTGCGA
1 CTTTCGCATTGCGA
6797949 AAGTGTACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.13, C:0.19, G:0.24, T:0.44
Consensus pattern (20 bp):
CTTTCGCATTGCGATTTTGT
Found at i:6798107 original size:14 final size:14
Alignment explanation
Indices: 6798047--6798108 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
6798037 CACAAATAAG
*
6798047 AATTATTTACACATC
1 AATT-TTTACAAATC
**
6798062 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
6798077 AACTTTTACAAATC
1 AATTTTTACAAATC
*
6798091 AATTTTTATAAATC
1 AATTTTTACAAATC
6798105 AATT
1 AATT
6798109 AAACAAGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:6799538 original size:42 final size:42
Alignment explanation
Indices: 6799487--6799593 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
6799477 AATGTTGGGA
* * *
6799487 GGGACCTCTTCAACGATGACAGTGGCCTCTTGAATGGTAGGAG
1 GGGA-CTCTTGAACGATGACAGGGGCCTCTTGAATGATAGGAG
** *
6799530 GGGACTCTTGAGGGATGATAGGGGCCTCTTGAATGATAGGAG
1 GGGACTCTTGAACGATGACAGGGGCCTCTTGAATGATAGGAG
* *
6799572 AGGCCTCTTGAACGATGACAGG
1 GGGACTCTTGAACGATGACAGG
6799594 TGAGTCGGGC
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 49 0.92
43 4 0.08
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (42 bp):
GGGACTCTTGAACGATGACAGGGGCCTCTTGAATGATAGGAG
Found at i:6799567 original size:18 final size:21
Alignment explanation
Indices: 6799510--6799583 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
6799500 CGATGACAGT
* *
6799510 GGCCTCTTGAATGGTAGGAGG
1 GGCCTCTTGAATGATAGGAGA
*
6799531 GGACTCTTGAGGGATGATA-G-G-
1 GGCCTCTTGA---ATGATAGGAGA
6799552 GGCCTCTTGAATGATAGGAGA
1 GGCCTCTTGAATGATAGGAGA
6799573 GGCCTCTTGAA
1 GGCCTCTTGAA
6799584 CGATGACAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
18 6 0.14
19 1 0.02
20 1 0.02
21 29 0.66
22 1 0.02
23 1 0.02
24 5 0.11
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.24
Consensus pattern (21 bp):
GGCCTCTTGAATGATAGGAGA
Found at i:6800100 original size:18 final size:19
Alignment explanation
Indices: 6800077--6800119 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
6800067 GAAACTTAAA
6800077 ATCGCAACACG-AATGACT
1 ATCGCAACACGAAATGACT
*
6800095 ATCGCAACGCGAAAATGACT
1 ATCGCAACACG-AAATGACT
6800115 ATCGC
1 ATCGC
6800120 GTTACGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.16
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:6800158 original size:20 final size:20
Alignment explanation
Indices: 6800133--6800180 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
6800123 ACGATTCTCT
6800133 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
6800153 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
6800173 CGATGCGA
1 CGTTGCGA
6800181 AAGTAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:6801121 original size:15 final size:16
Alignment explanation
Indices: 6801101--6801130 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6801091 ATATCCAAAT
6801101 ACAAACAATA-TAATA
1 ACAAACAATAGTAATA
6801116 ACAAACAATAGTAAT
1 ACAAACAATAGTAAT
6801131 TGTTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.20
Consensus pattern (16 bp):
ACAAACAATAGTAATA
Found at i:6802135 original size:20 final size:20
Alignment explanation
Indices: 6802092--6802159 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
6802082 GAAACTTAAA
**
6802092 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
6802112 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* * **
6802132 ATCGTAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
6802152 ATCGCAAC
1 ATCGCAAC
6802160 GCAAAACTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.18
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:6802809 original size:20 final size:20
Alignment explanation
Indices: 6802780--6802856 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
6802770 CGCTTTGAAA
6802780 ATCGCATTGCGATAGTCAGC
1 ATCGCATTGCGATAGTCAGC
* *
6802800 ATCGCGTTGCGATAGTCA-T
1 ATCGCATTGCGATAGTCAGC
*
6802819 ACTCGCATTGCGAT-TTACA-C
1 A-TCGCATTGCGATAGT-CAGC
6802839 ATTCGCATTGCGATAGTC
1 A-TCGCATTGCGATAGTC
6802857 GGAAAATCGC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.04
20 44 0.94
21 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGC
Found at i:6810874 original size:28 final size:28
Alignment explanation
Indices: 6810834--6810910 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 28
6810824 TAAGCTATAT
*
6810834 ATATATATATAATCATTAAATTAATTTTTA
1 ATATATATATAATAATT-AA-TAATTTTTA
6810864 ATATA-AT-TAATAATTAATAA-TTTTA
1 ATATATATATAATAATTAATAATTTTTA
* *
6810889 AT-TTTATTTAATAATTATATAA
1 ATATATATATAATAATTA-ATAA
6810911 AAATATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
24 1 0.02
25 9 0.21
26 12 0.29
27 6 0.14
28 7 0.17
29 2 0.05
30 5 0.12
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
ATATATATATAATAATTAATAATTTTTA
Found at i:6810933 original size:33 final size:33
Alignment explanation
Indices: 6810866--6810930 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
6810856 AATTTTTAAT
* * *
6810866 ATAATTAATAATTAATAATTTTAATTTTATTTA
1 ATAATTAATAATAAATAATTTAAATATTATTTA
6810899 ATAATTATATAA-AAATATATTTAAATATTATT
1 ATAATTA-ATAATAAATA-ATTTAAATATTATT
6810931 AATTATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
ATAATTAATAATAAATAATTTAAATATTATTTA
Found at i:6816259 original size:25 final size:25
Alignment explanation
Indices: 6816229--6816277 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6816219 AGGCCACATG
6816229 AAGATAGAGGAGGCTAA-TCATTTGA
1 AAGATA-AGGAGGCTAACTCATTTGA
**
6816254 AAGATAAGGTTGCTAACTCATTTG
1 AAGATAAGGAGGCTAACTCATTTG
6816278 GTTAATTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (25 bp):
AAGATAAGGAGGCTAACTCATTTGA
Found at i:6828248 original size:60 final size:60
Alignment explanation
Indices: 6828155--6828312 Score: 221
Period size: 60 Copynumber: 2.6 Consensus size: 60
6828145 GTCATTGACT
* * * **
6828155 ATTTTGTAACTTTTAATAGTCGA-ATGACTCAACAAAGTGACATTCTATAGTTGGGTGATC
1 ATTTTGTAACTTTTAATAGTAGATA-AACTCAACAAAGTGACATCCTATAGTTGGACGATC
6828215 ATTTTGTAACTTTTAATAGTAGATAAACTCAACAAAGTGACATCCTATAGTTGGACGATC
1 ATTTTGTAACTTTTAATAGTAGATAAACTCAACAAAGTGACATCCTATAGTTGGACGATC
* *
6828275 ATTTTGTAACTTTAAATAGTCA-ATGAACTCAACAAAGT
1 ATTTTGTAACTTTTAATAGT-AGATAAACTCAACAAAGT
6828313 AGTGTCATAT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
60 87 0.98
61 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTAGATAAACTCAACAAAGTGACATCCTATAGTTGGACGATC
Found at i:6830626 original size:11 final size:11
Alignment explanation
Indices: 6830610--6830642 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
6830600 CTGACCTGAT
6830610 TGCCTCATCTA
1 TGCCTCATCTA
6830621 TGCCTCATCTA
1 TGCCTCATCTA
6830632 TGCCTCATCTA
1 TGCCTCATCTA
6830643 AACGTCATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.18, C:0.36, G:0.09, T:0.36
Consensus pattern (11 bp):
TGCCTCATCTA
Found at i:6830650 original size:22 final size:22
Alignment explanation
Indices: 6830610--6830651 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6830600 CTGACCTGAT
**
6830610 TGCCTCATCTATGCCTCATCTA
1 TGCCTCATCTAAACCTCATCTA
*
6830632 TGCCTCATCTAAACGTCATC
1 TGCCTCATCTAAACCTCATC
6830652 GTTTTGACGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.10, T:0.33
Consensus pattern (22 bp):
TGCCTCATCTAAACCTCATCTA
Found at i:6833344 original size:6 final size:6
Alignment explanation
Indices: 6833337--6833368 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
6833327 CAGATCGAAG
*
6833337 AAGAAG AAGAAA AAGAAA AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AA
6833369 CAAGAATCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:6833373 original size:21 final size:21
Alignment explanation
Indices: 6833334--6833374 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6833324 CAACAGATCG
*
6833334 AAGAAGAAGAAGAAAAAGAAA
1 AAGAAAAAGAAGAAAAAGAAA
6833355 AAGAAAAAGAA-AAACAAGAA
1 AAGAAAAAGAAGAAA-AAGAA
6833375 TCCGAGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (21 bp):
AAGAAAAAGAAGAAAAAGAAA
Found at i:6838143 original size:32 final size:31
Alignment explanation
Indices: 6838108--6838211 Score: 127
Period size: 32 Copynumber: 3.3 Consensus size: 31
6838098 CTAGGCGCTG
* *
6838108 GAGCCAACCTAAAGGAATACCTTGGGGCCTCG
1 GAGCCTACC-AAAGGAATACCTTGGGGCCTCA
* *
6838140 GAGCCTACCCAATGAATACCTTGGGGCCTCA
1 GAGCCTACCAAAGGAATACCTTGGGGCCTCA
* * *
6838171 GAGCTTACCCAAGGGAGTACCTTGGGGCCTCA
1 GAGCCTA-CCAAAGGAATACCTTGGGGCCTCA
6838203 GAGCCTACC
1 GAGCCTACC
6838212 CAAATGAACA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
31 27 0.44
32 34 0.56
ACGTcount: A:0.25, C:0.31, G:0.27, T:0.17
Consensus pattern (31 bp):
GAGCCTACCAAAGGAATACCTTGGGGCCTCA
Found at i:6838158 original size:31 final size:31
Alignment explanation
Indices: 6838122--6838246 Score: 142
Period size: 32 Copynumber: 4.0 Consensus size: 31
6838112 CAACCTAAAG
*
6838122 GAATACCTTGGGGCCTCGGAGCCTACCCAAT
1 GAATACCTTGGGGCCTCAGAGCCTACCCAAT
* *
6838153 GAATACCTTGGGGCCTCAGAGCTTACCCAAGG
1 GAATACCTTGGGGCCTCAGAGCCTACCCAA-T
*
6838185 GAGTACCTTGGGGCCTCAGAGCCTACCCAAAT
1 GAATACCTTGGGGCCTCAGAGCCTACCC-AAT
* * * * * *
6838217 GAACATCTCGAGTCCTTAGAGCCTACCCAA
1 GAATACCTTGGGGCCTCAGAGCCTACCCAA
6838247 ATGTCACCAT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
31 30 0.38
32 47 0.59
33 2 0.03
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.19
Consensus pattern (31 bp):
GAATACCTTGGGGCCTCAGAGCCTACCCAAT
Found at i:6838212 original size:32 final size:31
Alignment explanation
Indices: 6838119--6838214 Score: 147
Period size: 31 Copynumber: 3.1 Consensus size: 31
6838109 AGCCAACCTA
*
6838119 AAGGAATACCTTGGGGCCTCGGAGCCTACCC
1 AAGGAATACCTTGGGGCCTCAGAGCCTACCC
* *
6838150 AATGAATACCTTGGGGCCTCAGAGCTTACCC
1 AAGGAATACCTTGGGGCCTCAGAGCCTACCC
*
6838181 AAGGGAGTACCTTGGGGCCTCAGAGCCTACCC
1 AA-GGAATACCTTGGGGCCTCAGAGCCTACCC
6838213 AA
1 AA
6838215 ATGAACATCT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 30 0.52
32 28 0.48
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (31 bp):
AAGGAATACCTTGGGGCCTCAGAGCCTACCC
Found at i:6842641 original size:31 final size:32
Alignment explanation
Indices: 6842580--6842652 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
6842570 TCCCATGATT
* * * *
6842580 TACCCAAGTGAGTGCCTTGGGGCCTTAGAGCC
1 TACCCAAGGGAGTACCTTCGGGCCTAAGAGCC
6842612 TACCCAAGGGAGTACC-TCGGGCCTAAGAGCC
1 TACCCAAGGGAGTACCTTCGGGCCTAAGAGCC
6842643 TACCCAAGGG
1 TACCCAAGGG
6842653 TCACCTTAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 23 0.62
32 14 0.38
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (32 bp):
TACCCAAGGGAGTACCTTCGGGCCTAAGAGCC
Found at i:6845941 original size:29 final size:29
Alignment explanation
Indices: 6845909--6845987 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
6845899 TTTTCTCAAT
6845909 CTTATATTAATCGTTTGTATTTTAGACTC
1 CTTATATTAATCGTTTGTATTTTAGACTC
*
6845938 CTTATATTAATCGATTGTATTTTAGACTC
1 CTTATATTAATCGTTTGTATTTTAGACTC
*
6845967 CTTATATTAATCATTTGTATT
1 CTTATATTAATCGTTTGTATT
6845988 CGAGTTTAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.52
Consensus pattern (29 bp):
CTTATATTAATCGTTTGTATTTTAGACTC
Found at i:6846426 original size:17 final size:18
Alignment explanation
Indices: 6846380--6846545 Score: 123
Period size: 17 Copynumber: 9.6 Consensus size: 18
6846370 ATTCTAAATG
*
6846380 TTTACAATTATCAGATGA
1 TTTACAGTTATCAGATGA
*
6846398 TTTTCAGTTATCAGAT-A
1 TTTACAGTTATCAGATGA
*
6846415 TTTACA-TATATCAGCTGA
1 TTTACAGT-TATCAGATGA
*
6846433 -TTACAGTTATAAGAT-A
1 TTTACAGTTATCAGATGA
6846449 TTTACAGTTATCAGATGA
1 TTTACAGTTATCAGATGA
* *
6846467 -TTATAGTTATCAAAT-A
1 TTTACAGTTATCAGATGA
* * * *
6846483 TTTAAAGATATTAGAGGA
1 TTTACAGTTATCAGATGA
* * *
6846501 -TTACAATTTTTAGAT-A
1 TTTACAGTTATCAGATGA
* * *
6846517 TTTACAGATATAAGATGT
1 TTTACAGTTATCAGATGA
6846535 TTTACAGTTAT
1 TTTACAGTTAT
6846546 TAGTTACAAA
Statistics
Matches: 114, Mismatches: 25, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.04
17 82 0.72
18 28 0.25
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (18 bp):
TTTACAGTTATCAGATGA
Found at i:6846448 original size:34 final size:34
Alignment explanation
Indices: 6846380--6846545 Score: 156
Period size: 34 Copynumber: 4.8 Consensus size: 34
6846370 ATTCTAAATG
* *
6846380 TTTACA-ATTATCAGATGATTTTCAGTTATCAGATA
1 TTTACAGA-TATCAGATGA-TTACAGTTATAAGATA
* *
6846415 TTTACATATATCAGCTGATTACAGTTATAAGATA
1 TTTACAGATATCAGATGATTACAGTTATAAGATA
* *
6846449 TTTACAGTTATCAGATGATTATAGTTATCAA-ATA
1 TTTACAGATATCAGATGATTACAGTTAT-AAGATA
* * * * * *
6846483 TTTAAAGATATTAGAGGATTACAATTTTTAGATA
1 TTTACAGATATCAGATGATTACAGTTATAAGATA
* *
6846517 TTTACAGATATAAGATGTTTTACAGTTAT
1 TTTACAGATATCAGATG-ATTACAGTTAT
6846546 TAGTTACAAA
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
33 1 0.01
34 79 0.75
35 25 0.24
36 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (34 bp):
TTTACAGATATCAGATGATTACAGTTATAAGATA
Found at i:6846503 original size:68 final size:69
Alignment explanation
Indices: 6846380--6846533 Score: 184
Period size: 68 Copynumber: 2.2 Consensus size: 69
6846370 ATTCTAAATG
* * * * * ** *
6846380 TTTACAATTATCAGATGATTTTCAGTTATCAGATATTTACATATATCAGCTGATTACAGTTATAA
1 TTTACAGTTATCAGATGATTATCAGTTATCAAATATTTAAAGATATCAGAGGATTACAATTATAA
6846445 GATA
66 GATA
* * *
6846449 TTTACAGTTATCAGATGATTAT-AGTTATCAAATATTTAAAGATATTAGAGGATTACAATTTTTA
1 TTTACAGTTATCAGATGATTATCAGTTATCAAATATTTAAAGATATCAGAGGATTACAATTATAA
6846513 GATA
66 GATA
* *
6846517 TTTACAGATATAAGATG
1 TTTACAGTTATCAGATG
6846534 TTTTACAGTT
Statistics
Matches: 72, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
68 52 0.72
69 20 0.28
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.40
Consensus pattern (69 bp):
TTTACAGTTATCAGATGATTATCAGTTATCAAATATTTAAAGATATCAGAGGATTACAATTATAA
GATA
Found at i:6848293 original size:26 final size:26
Alignment explanation
Indices: 6848244--6848294 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
6848234 TCTTGCTGCA
* * *
6848244 AAATTTTGCAATTTGGTGTAATGGGC
1 AAATTTAGCAATTGGGTATAATGGGC
*
6848270 AAATTTAGCAATTGGGTATGATGGG
1 AAATTTAGCAATTGGGTATAATGGG
6848295 TAGAATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (26 bp):
AAATTTAGCAATTGGGTATAATGGGC
Found at i:6856592 original size:15 final size:15
Alignment explanation
Indices: 6856572--6856602 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6856562 CAACAAATAG
6856572 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
6856587 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
6856602 A
1 A
6856603 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:6858464 original size:29 final size:28
Alignment explanation
Indices: 6858422--6858485 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
6858412 TAGGCCCCCT
* *
6858422 AATTTTTTGTATTTATAATTATGTCTCCC
1 AATTTTTTATATTTATAATTAAGTCT-CC
*
6858451 AATTTTTTATATTTATAATTAAGTCTCT
1 AATTTTTTATATTTATAATTAAGTCTCC
6858479 AATTTTT
1 AATTTTT
6858486 ATAATCTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (28 bp):
AATTTTTTATATTTATAATTAAGTCTCC
Found at i:6860503 original size:37 final size:36
Alignment explanation
Indices: 6860428--6860503 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
6860418 TTTTTATATT
*
6860428 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
6860464 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
6860501 TTT
1 TTT
6860504 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:6863485 original size:23 final size:23
Alignment explanation
Indices: 6863458--6863525 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
6863448 AACCTTATAT
*
6863458 GGCACTTTGGTGCATTTATACGC
1 GGCACTTCGGTGCATTTATACGC
* * * * *
6863481 GGCACTACGGTACAATTCTACGT
1 GGCACTTCGGTGCATTTATACGC
6863504 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTATACG
6863526 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTATACGC
Found at i:6876477 original size:11 final size:11
Alignment explanation
Indices: 6876461--6876490 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
6876451 TAAGGGAAGT
6876461 TCAAAATATGC
1 TCAAAATATGC
6876472 TCAAAATATGC
1 TCAAAATATGC
6876483 TCAAAATA
1 TCAAAATA
6876491 GCATCTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.27
Consensus pattern (11 bp):
TCAAAATATGC
Found at i:6877969 original size:28 final size:28
Alignment explanation
Indices: 6877937--6877995 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
6877927 AAATAAAAAG
*
6877937 AAAATTA-CTGTAACTAAATAGAACTTCA
1 AAAATTATC-GTAACTAAATAGAACATCA
6877965 AAAATTATCGTAACTAAATAGAACATCA
1 AAAATTATCGTAACTAAATAGAACATCA
6877993 AAA
1 AAA
6877996 CAATACCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (28 bp):
AAAATTATCGTAACTAAATAGAACATCA
Found at i:6881116 original size:2 final size:2
Alignment explanation
Indices: 6881109--6881133 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6881099 TTTAGAGTAA
6881109 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6881134 AGTGCTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6881799 original size:23 final size:23
Alignment explanation
Indices: 6881768--6881816 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6881758 AAAAGATTAA
6881768 AAACATGCCACAAAGACAGAGAT
1 AAACATGCCACAAAGACAGAGAT
* * * *
6881791 AAACGTGCCATAAAGGCATAGAT
1 AAACATGCCACAAAGACAGAGAT
6881814 AAA
1 AAA
6881817 TACACAACAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.12
Consensus pattern (23 bp):
AAACATGCCACAAAGACAGAGAT
Found at i:6883490 original size:30 final size:30
Alignment explanation
Indices: 6883454--6883554 Score: 184
Period size: 30 Copynumber: 3.4 Consensus size: 30
6883444 AATGAATAAT
*
6883454 AGCTTAGCAAAGCTATTAGAGAGAGGGTAA
1 AGCTTAGCAAAACTATTAGAGAGAGGGTAA
6883484 AGCTTAGCAAAACTATTAGAGAGAGGGTAA
1 AGCTTAGCAAAACTATTAGAGAGAGGGTAA
*
6883514 AGCTTAGCAAAACTATTAGAGAGAGGGTGA
1 AGCTTAGCAAAACTATTAGAGAGAGGGTAA
6883544 AGCTTAGCAAA
1 AGCTTAGCAAA
6883555 GCTTAGAATA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.20
Consensus pattern (30 bp):
AGCTTAGCAAAACTATTAGAGAGAGGGTAA
Found at i:6884473 original size:24 final size:20
Alignment explanation
Indices: 6884446--6884503 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
6884436 GCATGGGTAG
6884446 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
6884470 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
6884490 TGTATCGATGCACT
1 TGCATCGATGCACT
6884504 TCAAGGGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:6885721 original size:2 final size:2
Alignment explanation
Indices: 6885684--6885713 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6885674 CAAATAGGGA
*
6885684 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6885714 GTTATATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6886827 original size:2 final size:2
Alignment explanation
Indices: 6886820--6886855 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
6886810 AAAATATGGA
*
6886820 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6886856 TGCTAAACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6895681 original size:3 final size:3
Alignment explanation
Indices: 6895673--6895717 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
6895663 TTTGTAAATC
* * *
6895673 AAT AAT AAT AAT ATT AAT AAT AAT AAT -AT AAC GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6895718 TTATTAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6896183 original size:28 final size:28
Alignment explanation
Indices: 6896159--6896224 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
6896149 AGGGAAACCG
6896159 ACTCAAAGATTTGTTTCAAAAGAAACAA
1 ACTCAAAGATTTGTTTCAAAAGAAACAA
*
6896187 AC-CTAACGATTTGTTTCAAGAA-AAACAA
1 ACTC-AAAGATTTGTTTCAA-AAGAAACAA
6896215 ACTCAAAGAT
1 ACTCAAAGAT
6896225 GATATGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 1 0.03
28 29 0.88
29 3 0.09
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (28 bp):
ACTCAAAGATTTGTTTCAAAAGAAACAA
Found at i:6896679 original size:27 final size:26
Alignment explanation
Indices: 6896649--6896719 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 26
6896639 CCTCAGAGAT
6896649 GATTTTGTTAAGAGAAACAAACTCAAA
1 GATTTT-TTAAGAGAAACAAACTCAAA
* * * *
6896676 GATTTTTCAAAAGGAACATACTCAAA
1 GATTTTTTAAGAGAAACAAACTCAAA
6896702 GATTTATTTCAAGAGAAA
1 GATTT-TTT-AAGAGAAA
6896720 TTGTCTCAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
26 21 0.60
27 8 0.23
28 6 0.17
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.28
Consensus pattern (26 bp):
GATTTTTTAAGAGAAACAAACTCAAA
Found at i:6896769 original size:64 final size:64
Alignment explanation
Indices: 6896680--6896848 Score: 207
Period size: 64 Copynumber: 2.6 Consensus size: 64
6896670 CTCAAAGATT
* * * *
6896680 TTTCAAAAGGAACATACTCAAAGATTTATTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTCAT
1 TTTC-AAAGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTCAAGAGAGACAAAATT-AT
6896745 -
64 G
* * *
6896745 TTT-AAGAGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTTAAGAGAGACACAATTTTG
1 TTTCAA-AGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTCAAGAGAGACAAAATTATG
* *
6896809 TTTCCAAAGAAATAGACTCAAAGATTTTTTTCAAAAGAAA
1 TTT-CAAAGAAACAAACTCAAAGATTTTTTTCAAAAGAAA
6896849 CAACTCAAAG
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
63 3 0.03
64 52 0.57
65 34 0.37
66 2 0.02
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (64 bp):
TTTCAAAGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTCAAGAGAGACAAAATTATG
Found at i:6896845 original size:28 final size:28
Alignment explanation
Indices: 6896803--6896906 Score: 138
Period size: 29 Copynumber: 3.6 Consensus size: 28
6896793 GAGAGACACA
* *
6896803 ATTTTGTTTCCAAAGAAATAGACTCAAAG
1 ATTTT-TTTCAAAAGAAACAGACTCAAAG
6896832 ATTTTTTTCAAAAGAAACA-ACTCAAAG
1 ATTTTTTTCAAAAGAAACAGACTCAAAG
* *
6896859 ATTTTTATTCACAAGGAACAGACTCAAAG
1 ATTTTT-TTCAAAAGAAACAGACTCAAAG
6896888 ATTTTTTTTCAAAAGAAAC
1 A-TTTTTTTCAAAAGAAAC
6896907 TGTTTCGATA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
27 14 0.21
28 23 0.35
29 24 0.36
30 5 0.08
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (28 bp):
ATTTTTTTCAAAAGAAACAGACTCAAAG
Found at i:6897237 original size:105 final size:105
Alignment explanation
Indices: 6897024--6897325 Score: 401
Period size: 105 Copynumber: 2.9 Consensus size: 105
6897014 CGGTTTTGAA
* * * * * *
6897024 AATCTCAAGTGAGATTAATTTTGTTTCAAATAAAACAACTTTGAAATTTGTAT-TCT-GAGGGAA
1 AATCTCAAGTGAGATTAATTTTGTTTCAAGTAAAGCAAATTCGAAATTTGTATCT-TAAAGGAAA
* *
6897087 AATGTCTCAAGTGAGACGAAATTTGTTTTGAAATAAACAAC
65 AATGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAC
* * *
6897128 AATCTCAAGTGAGATTAATTTTGTTTCATGTTAAGCAAATTCGAAATTTATATCTTAAAGGAAAA
1 AATCTCAAGTGAGATTAATTTTGTTTCAAGTAAAGCAAATTCGAAATTTGTATCTTAAAGGAAAA
* *
6897193 ATGTCTCAAGCAAGACGAAATTTGTTTTGAAAGAAACAAT
66 ATGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAC
* * * **
6897233 AATCTCAAGTGAGATTAATTTTGTTTTAAGTGAAGCAAATTCAAAATTTGTATCACAAAGGAAAA
1 AATCTCAAGTGAGATTAATTTTGTTTCAAGTAAAGCAAATTCGAAATTTGTATCTTAAAGGAAAA
* *
6897298 ATGTCTCAAGCGAGACGAAGTTTTTTTT
66 ATGTCTCAAGCGAGACGAAATTTGTTTT
6897326 AAGATAAATT
Statistics
Matches: 173, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
104 47 0.27
105 126 0.73
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (105 bp):
AATCTCAAGTGAGATTAATTTTGTTTCAAGTAAAGCAAATTCGAAATTTGTATCTTAAAGGAAAA
ATGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAC
Found at i:6898912 original size:14 final size:14
Alignment explanation
Indices: 6898893--6898925 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6898883 TCCTTGTTTT
6898893 CTTTTTGCTCTTTG
1 CTTTTTGCTCTTTG
6898907 CTTTTTGCTCTTTG
1 CTTTTTGCTCTTTG
6898921 -TTTTT
1 CTTTTT
6898926 TTCTTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.00, C:0.18, G:0.12, T:0.70
Consensus pattern (14 bp):
CTTTTTGCTCTTTG
Found at i:6898926 original size:14 final size:13
Alignment explanation
Indices: 6898894--6898950 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
6898884 CCTTGTTTTC
*
6898894 TTTTTGCTCTTTGC
1 TTTTTG-TCTTTGT
6898908 TTTTTGCTCTTTGT
1 TTTTTG-TCTTTGT
6898922 TTTTT-TCTTT-T
1 TTTTTGTCTTTGT
* *
6898933 TCTTTGTTTTTGT
1 TTTTTGTCTTTGT
6898946 TTTTT
1 TTTTT
6898951 TCCTCTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 5 0.14
12 9 0.24
13 5 0.14
14 18 0.49
ACGTcount: A:0.00, C:0.12, G:0.11, T:0.77
Consensus pattern (13 bp):
TTTTTGTCTTTGT
Found at i:6898949 original size:24 final size:26
Alignment explanation
Indices: 6898917--6898967 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
6898907 CTTTTTGCTC
6898917 TTTGTTTTTTT-CT-TTTTCTTTGTT
1 TTTGTTTTTTTCCTCTTTTCTTTGTT
6898941 TTTGTTTTTTTCCTCTTTTCTTTGTT
1 TTTGTTTTTTTCCTCTTTTCTTTGTT
6898967 T
1 T
6898968 CTTTCTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 11 0.44
25 2 0.08
26 12 0.48
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (26 bp):
TTTGTTTTTTTCCTCTTTTCTTTGTT
Found at i:6898966 original size:20 final size:19
Alignment explanation
Indices: 6898925--6898977 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
6898915 TCTTTGTTTT
* *
6898925 TTTCTTTTTCTTTGTTTTTG
1 TTTCTTTCTCTTT-TCTTTG
*
6898945 TTTTTTTCCTCTTTTCTTTG
1 TTTCTTT-CTCTTTTCTTTG
6898965 TTTCTTTCTCTTT
1 TTTCTTTCTCTTT
6898978 GTTTTTCTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 6 0.21
20 17 0.61
21 5 0.18
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (19 bp):
TTTCTTTCTCTTTTCTTTG
Found at i:6898979 original size:40 final size:39
Alignment explanation
Indices: 6898908--6898983 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
6898898 TGCTCTTTGC
* *
6898908 TTTTTGCTCTTTGTTTTTTTCTTTTTCTTTGTTTTTGTT
1 TTTTTCCTCTTTGTTTTTTTCTTTCTCTTTGTTTTTGTT
6898947 TTTTTCCTCTTT-TCTTTGTTTCTTTCTCTTTGTTTTT
1 TTTTTCCTCTTTGT-TTT-TTTCTTTCTCTTTGTTTTT
6898984 CTTGTCTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 1 0.03
39 14 0.42
40 18 0.55
ACGTcount: A:0.00, C:0.14, G:0.08, T:0.78
Consensus pattern (39 bp):
TTTTTCCTCTTTGTTTTTTTCTTTCTCTTTGTTTTTGTT
Found at i:6899672 original size:46 final size:45
Alignment explanation
Indices: 6899596--6899689 Score: 143
Period size: 46 Copynumber: 2.1 Consensus size: 45
6899586 ATAAATGCAG
* * *
6899596 TGTTTCAAGGTGGAAAGAATGTTTCGAGGTCTCAAAGAGAGAGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
6899641 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
6899687 TGT
1 TGT
6899690 CAAAAATTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 11 0.25
46 33 0.75
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:6899686 original size:26 final size:26
Alignment explanation
Indices: 6899608--6899689 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 26
6899598 TTTCAAGGTG
*
6899608 GAAAGAATGTTTCGAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
6899634 GAGAGAATGTTTCAAGG--TC---GA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
6899655 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
6899680 GATAGAATGT
1 GAAAGAATGT
6899690 CAAAAATTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
20 14 0.32
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 22 0.50
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (26 bp):
GAAAGAATGTTTCAAGGTCTCAAAGA
Found at i:6899804 original size:20 final size:20
Alignment explanation
Indices: 6899779--6899819 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6899769 TAAGAAAGGT
6899779 ATAATCTTGCCATATGTCAA
1 ATAATCTTGCCATATGTCAA
6899799 ATAATCTTGCCATATGTCAA
1 ATAATCTTGCCATATGTCAA
6899819 A
1 A
6899820 ATCTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (20 bp):
ATAATCTTGCCATATGTCAA
Found at i:6903288 original size:2 final size:2
Alignment explanation
Indices: 6903281--6903314 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6903271 TGTTTTGCGT
6903281 TA TA TA 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
6903315 ATTTAAAGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6904385 original size:3 final size:3
Alignment explanation
Indices: 6904377--6904421 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
6904367 TTTGTAAATC
* * *
6904377 AAT AAT AAT AAT ATT AAT AAT AAT AAT -AT AAC GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6904422 TTATTAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6906554 original size:12 final size:13
Alignment explanation
Indices: 6906537--6906566 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6906527 AAACTGTAAA
6906537 TTTAATTT-ATTT
1 TTTAATTTGATTT
6906549 TTTAATTTGATTT
1 TTTAATTTGATTT
6906562 TTTAA
1 TTTAA
6906567 GTTCTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (13 bp):
TTTAATTTGATTT
Found at i:6911384 original size:57 final size:58
Alignment explanation
Indices: 6911275--6911387 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 58
6911265 CCAGTTTCTT
* **
6911275 TTAATTATTAAGAACCTCTTCTTTTTTCAATTTTATAAACTTGTCCACACTTTCTAGA
1 TTAATTATTAAGAACCTCTTCTTTTTTCAATTTTATAAAATAATCCACACTTTCTAGA
** *
6911333 TTAATTATTAAGGGCCTCTAT-TTTTTT-AATTTTATAAAATAATCCTCACTTTCTA
1 TTAATTATTAAGAACCTCT-TCTTTTTTCAATTTTATAAAATAATCCACACTTTCTA
6911388 CCTTTACAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 24 0.50
58 23 0.48
59 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.48
Consensus pattern (58 bp):
TTAATTATTAAGAACCTCTTCTTTTTTCAATTTTATAAAATAATCCACACTTTCTAGA
Found at i:6911468 original size:56 final size:58
Alignment explanation
Indices: 6911352--6911472 Score: 160
Period size: 56 Copynumber: 2.1 Consensus size: 58
6911342 AAGGGCCTCT
*
6911352 ATTTTTTTAATTTTATAAAATAATCCTCACTTTCTACCTTTACAATTGAGGGTCCTTA
1 ATTTTTTAAATTTTATAAAATAATCCTCACTTTCTACCTTTACAATTGAGGGTCCTTA
* * *
6911410 ATTTTTTAAATTTTAT-AAA-AATGGCTCACTTTTTACC-TTATAATTGAGGGCTCC-TA
1 ATTTTTTAAATTTTATAAAATAAT-CCTCACTTTCTACCTTTACAATTGAGGG-TCCTTA
6911466 ATTTTTT
1 ATTTTTT
6911473 TACAATTCCA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
56 24 0.42
57 18 0.32
58 15 0.26
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (58 bp):
ATTTTTTAAATTTTATAAAATAATCCTCACTTTCTACCTTTACAATTGAGGGTCCTTA
Found at i:6911473 original size:57 final size:59
Alignment explanation
Indices: 6911352--6911488 Score: 160
Period size: 57 Copynumber: 2.4 Consensus size: 59
6911342 AAGGGCCTCT
6911352 ATTTTTTT-AATTTTATAAAATAATCCTCACTTTCTACCTTTACAATTGAGGGTCCTTA
1 ATTTTTTTAAATTTTATAAAATAATCCTCACTTTCTACCTTTACAATTGAGGGTCCTTA
* * *
6911410 A-TTTTTTAAATTTTAT-AAA-AATGGCTCACTTTTTACC-TTATAATTGAGGGCTCC-TA
1 ATTTTTTTAAATTTTATAAAATAAT-CCTCACTTTCTACCTTTACAATTGAGGG-TCCTTA
**
6911466 ATTTTTTTACAATTCCATAAAAT
1 ATTTTTTTA-AATTTTATAAAAT
6911489 TATCAATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
56 18 0.27
57 31 0.46
58 15 0.22
59 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.46
Consensus pattern (59 bp):
ATTTTTTTAAATTTTATAAAATAATCCTCACTTTCTACCTTTACAATTGAGGGTCCTTA
Found at i:6912521 original size:21 final size:20
Alignment explanation
Indices: 6912435--6912592 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
6912425 AAATGACCAA
**
6912435 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
6912454 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
6912474 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
6912494 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
6912515 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
6912536 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
6912556 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
6912577 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
6912593 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:6912585 original size:20 final size:20
Alignment explanation
Indices: 6912560--6912808 Score: 288
Period size: 20 Copynumber: 12.4 Consensus size: 20
6912550 GATTTTCCAG
* ** *
6912560 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
6912580 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
*
6912600 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
6912620 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
6912640 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
6912660 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
6912680 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
6912700 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6912720 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
6912740 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
6912760 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
6912780 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
6912800 AATCACAAC
1 AATCGCAAC
6912809 ACTGAAATTT
Statistics
Matches: 199, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.01
20 195 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:6913544 original size:24 final size:24
Alignment explanation
Indices: 6913500--6913546 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6913490 AAATTTGGTC
*
6913500 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCAGGACTTTGATA
*
6913524 TTGGTCAATA-CAAGGATTTTGAT
1 TTGGTCAATATC-AGGACTTTGAT
6913547 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCAGGACTTTGATA
Found at i:6916085 original size:19 final size:19
Alignment explanation
Indices: 6916016--6916223 Score: 234
Period size: 19 Copynumber: 11.7 Consensus size: 19
6916006 GCAACGAGAG
6916016 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6916035 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
6916049 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
6916069 AATTGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6916088 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6916107 AATCGCAAT--G--A-GAG
1 AATCGCAATGCGAAATGAA
6916121 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
6916141 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6916160 AATCGCAA--CG--A-G--
1 AATCGCAATGCGAAATGAA
6916172 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
6916192 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6916211 AATCGCATTGCGA
1 AATCGCAATGCGA
6916224 TTCTCTCGTT
Statistics
Matches: 162, Mismatches: 7, Indels: 40
0.78 0.03 0.19
Matches are distributed among these distances:
12 8 0.05
14 25 0.15
15 3 0.02
16 1 0.01
17 6 0.04
18 1 0.01
19 79 0.49
20 39 0.24
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:6916101 original size:72 final size:71
Alignment explanation
Indices: 6916016--6916223 Score: 282
Period size: 72 Copynumber: 2.9 Consensus size: 71
6916006 GCAACGAGAG
* *
6916016 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATTGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAA-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
6916081 AAATGAA
65 AAATGAA
6916088 AATCGCAATGCGAAATGAAAATCGC-AATGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAAATGA-A-AATCGCAATGCGGAAATGAAAATCGCAATGC
6916152 GAAATGAA
64 GAAATGAA
* * *
6916160 AATCGCAA--CGAGAATCG-CAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCATTG
1 AATCGCAATGCGA-AAT-GAAAAT-CGCAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATG
6916221 CGA
63 CGA
6916224 TTCTCTCGTT
Statistics
Matches: 125, Mismatches: 5, Indels: 14
0.87 0.03 0.10
Matches are distributed among these distances:
70 27 0.22
71 19 0.15
72 74 0.59
73 5 0.04
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGA
AATGAA
Found at i:6916137 original size:53 final size:52
Alignment explanation
Indices: 6916002--6916217 Score: 266
Period size: 53 Copynumber: 4.1 Consensus size: 52
6915992 CGGAAATTAC
* *
6916002 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAATGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
6916049 AATCGCAATGCGGAAATGAAAATTGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAAT---G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
6916107 AATCGCAATGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
*
6916160 AATCGCAA--CGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
6916211 AATCGCA
1 AATCGCA
6916218 TTGCGATTCT
Statistics
Matches: 150, Mismatches: 7, Indels: 20
0.85 0.04 0.11
Matches are distributed among these distances:
47 8 0.05
50 1 0.01
51 49 0.33
52 13 0.09
53 63 0.42
55 2 0.01
58 14 0.09
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAATGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:6916272 original size:19 final size:19
Alignment explanation
Indices: 6916232--6916349 Score: 165
Period size: 19 Copynumber: 6.4 Consensus size: 19
6916222 GATTCTCTCG
6916232 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
6916252 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
6916271 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
6916285 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
6916304 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
6916323 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
6916343 TTGCGAT
1 TTGCGAT
6916350 AGTCATTTTT
Statistics
Matches: 88, Mismatches: 4, Indels: 12
0.85 0.04 0.12
Matches are distributed among these distances:
14 6 0.07
16 7 0.08
17 7 0.08
19 43 0.49
20 25 0.28
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:6916280 original size:53 final size:52
Alignment explanation
Indices: 6916213--6916330 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 52
6916203 GAAATGAAAA
6916213 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
6916266 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
*
6916318 TCGCGTTGCGATT
1 TCGCATTGCGATT
6916331 TTCATTTCCG
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:6916294 original size:33 final size:34
Alignment explanation
Indices: 6916252--6916349 Score: 135
Period size: 33 Copynumber: 2.8 Consensus size: 34
6916242 CATTTCCGCA
*
6916252 TTGCGATTTTCATTTCGCATTGCGATTC-TCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTTCGCG
6916285 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC--TTCGCG
6916323 TTGCGATTTTCATTTCCGCATTGCGAT
1 TTGCGATTTTCATTT-CGCATTGCGAT
6916350 AGTCATTTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
33 25 0.43
35 3 0.05
37 1 0.02
38 19 0.33
39 10 0.17
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (34 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTTCGCG
Found at i:6918426 original size:19 final size:19
Alignment explanation
Indices: 6918384--6918569 Score: 143
Period size: 19 Copynumber: 10.6 Consensus size: 19
6918374 TAGTTTACTT
* *
6918384 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
6918404 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
6918423 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
6918442 TCACAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
6918461 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
6918475 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
6918494 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
6918508 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
6918527 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
6918541 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
6918559 TCGCAATGCGA
1 TCGCAACGCGA
6918570 TTTTGGTTTC
Statistics
Matches: 132, Mismatches: 19, Indels: 32
0.72 0.10 0.17
Matches are distributed among these distances:
14 28 0.21
15 2 0.02
16 9 0.07
17 9 0.07
18 14 0.11
19 58 0.44
20 12 0.09
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:6918478 original size:14 final size:14
Alignment explanation
Indices: 6918459--6918548 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
6918449 GCGAAATGAA
*
6918459 AATCGCAACGACAG
1 AATCGCAACGAAAG
6918473 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
6918490 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
6918506 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
*
6918523 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
6918539 AATCGCAACG
1 AATCGCAACG
6918549 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 26 0.42
16 10 0.16
17 10 0.16
19 16 0.26
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:6918491 original size:33 final size:33
Alignment explanation
Indices: 6918402--6918564 Score: 220
Period size: 33 Copynumber: 4.8 Consensus size: 33
6918392 CGAAACTTAA
* *
6918402 AATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G--A-CAG
*
6918440 AATCACAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
6918473 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
*
6918506 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
6918539 AATCGCAACGCGAAATG-AAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
6918565 TGCGATTTTG
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
32 9 0.08
33 81 0.69
34 1 0.01
36 1 0.01
38 26 0.22
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:6918529 original size:52 final size:51
Alignment explanation
Indices: 6918401--6918537 Score: 132
Period size: 52 Copynumber: 2.6 Consensus size: 51
6918391 ACGAAACTTA
* *
6918401 AAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAATCACAACGCG
1 AAATCGCAACGCGAAATGAAAATCGCAACGAGAAACCAAAATCACAACGAG
* ** * * * * ** *
6918452 AAAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AAATCGCAACGCGAAATGA-A-AATCGCAACGAGAAACCAAAATCACAACGAG
6918504 AGAATCGCAACGCGAAATGAAAATCGCAACGAGA
1 A-AATCGCAACGCGAAATGAAAATCGCAACGAGA
6918538 GAATCGCAAC
Statistics
Matches: 63, Mismatches: 19, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
50 9 0.14
51 4 0.06
52 37 0.59
53 4 0.06
54 9 0.14
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.09
Consensus pattern (51 bp):
AAATCGCAACGCGAAATGAAAATCGCAACGAGAAACCAAAATCACAACGAG
Found at i:6918587 original size:19 final size:19
Alignment explanation
Indices: 6918565--6918660 Score: 103
Period size: 19 Copynumber: 5.3 Consensus size: 19
6918555 GAAATCGCAA
6918565 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
6918584 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
6918598 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
6918617 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
6918636 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
6918656 TGCGA
1 TGCGA
6918661 AAGTAAACTA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
14 11 0.17
16 1 0.02
17 1 0.02
18 1 0.02
19 37 0.58
20 13 0.20
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:6920609 original size:20 final size:20
Alignment explanation
Indices: 6920579--6920661 Score: 123
Period size: 20 Copynumber: 4.2 Consensus size: 20
6920569 TTTTGGTTGA
6920579 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
**
6920599 AATGACTATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
6920619 AAATGAAAATCGCAACGCGA-
1 -AATGAAAATCGCAACGAGAG
6920639 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
6920659 AAT
1 AAT
6920662 CGCAACGCGA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
19 18 0.33
20 21 0.38
21 16 0.29
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:6920642 original size:19 final size:19
Alignment explanation
Indices: 6920577--6920690 Score: 112
Period size: 19 Copynumber: 6.1 Consensus size: 19
6920567 TCTTTTGGTT
*
6920577 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
** *
6920596 GAGAATGACTATCGCAACGAGA
1 GA-AATGAAAATCGCAAC--GC
6920618 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
6920637 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
6920654 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
6920670 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
6920689 GA
1 GA
6920691 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 33 0.42
20 13 0.16
21 13 0.16
22 4 0.05
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:6920721 original size:14 final size:14
Alignment explanation
Indices: 6920702--6920758 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6920692 TTTGGTTTCG
6920702 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6920716 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
6920735 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
6920749 CGTTGCGATT
1 CGTTGCGATT
6920759 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6920734 original size:33 final size:33
Alignment explanation
Indices: 6920686--6920766 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
6920676 AAAATCGCAA
**
6920686 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
6920719 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
6920752 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
6920767 TCTCGTTGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:6920769 original size:21 final size:21
Alignment explanation
Indices: 6920743--6920819 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
6920733 CGCGTTGCGA
6920743 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
6920764 TTCTCTCGTTGCAGATAGTCAT
1 TTCTCTCGTTGC-GATTTTCAT
*
6920786 TT-TCGCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
6920806 TTCTCTCGTTGCGA
1 TTCTCTCGTTGCGA
6920820 CTCTTCTGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.19
21 30 0.62
22 9 0.19
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:6920941 original size:33 final size:33
Alignment explanation
Indices: 6920899--6920969 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
6920889 AATACTAATT
6920899 TGAAAATCGCAACGAGAGAAT-AGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATCA-CAACGCGAAA
6920932 TGAAAATCGCAACGAGAGAATCACAACGCGAAA
1 TGAAAATCGCAACGAGAGAATCACAACGCGAAA
6920965 TGAAA
1 TGAAA
6920970 TCTAAGTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 36 0.97
34 1 0.03
ACGTcount: A:0.49, C:0.18, G:0.23, T:0.10
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATCACAACGCGAAA
Found at i:6921361 original size:20 final size:20
Alignment explanation
Indices: 6921336--6921568 Score: 290
Period size: 20 Copynumber: 11.6 Consensus size: 20
6921326 CTTTAAAAAT
6921336 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
6921356 CGCGTTGTGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
6921376 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
6921397 CGCGTTGTGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
6921417 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
6921437 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
6921457 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
6921477 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
6921497 CACGTTACGGTTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
6921517 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
6921537 CGCGTTGCGATTTTCTTATT
1 CGCGTTGCGATTTACGGATA
6921557 CGCGTTGCGATT
1 CGCGTTGCGATT
6921569 CTGGAAAATC
Statistics
Matches: 184, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
20 167 0.91
21 17 0.09
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:6926639 original size:204 final size:203
Alignment explanation
Indices: 6926248--6926650 Score: 529
Period size: 204 Copynumber: 2.0 Consensus size: 203
6926238 CCAACCAAAC
6926248 TCCATTATGCAGTTCCCCTAAACTGCATCCATAGGGCTTACCCTCAGCAAAAGGGAAGCCAACCT
1 TCCATTATGCAGTTCCCCTAAACTGCATCCATAGGGCTTACCCTCAGCAAAAGGGAAGCCAACCT
*
6926313 AAGGATATACCTTGGGGCCTATGGGCCTACTCAAGGATATCCTTAGATCCATAGGGTTACCTTAA
66 AAGGATATACCTTGGGGCCTAT-GGCC-ACTAAAGGATATCCTTAGATCCATAGGGTTACCTTAA
* *
6926378 GCACACATCAAAAGGGAACCAACCTAAGGATATACCTTGGGTCTACCCGAAGGTATCCTT-AGAT
129 GCACACATCAAAAGGAAACCAACCTAAGGATATACCTTGGGCCTACCCGAAGGTATCCTTAAG-T
6926442 CCGTACCATAA
193 CCGTACCATAA
* * *
6926453 TCCATTATGCAGTTCCCC-AGAACTGCATCCGTAGGGCTTGCCCTCAGCACACAACAAAAGGGGA
1 TCCATTATGCAGTTCCCCTA-AACTGCATCCATAGGGCTTACCCTCAG-------CAAAAGGGAA
* * *
6926517 GCCAACCTAAGGATATGCTTTGGGG-CT-T-GCC-C-AAAGG-TATCCTTAGATCCGTAGGGTTA
58 GCCAACCTAAGGATATACCTTGGGGCCTATGGCCACTAAAGGATATCCTTAGATCCATAGGGTTA
*
6926576 CCTTAAGCACACATC-AAAGGAAACCAACCTAAGGATATGCCTTGGGGCCTACCC-AAGGGTATC
123 CCTTAAGCACACATCAAAAGGAAACCAACCTAAGGATATACCTT-GGGCCTACCCGAA-GGTATC
6926639 CTTAAGTCCGTA
186 CTTAAGTCCGTA
6926651 AAGTCTTACC
Statistics
Matches: 177, Mismatches: 10, Indels: 23
0.84 0.05 0.11
Matches are distributed among these distances:
203 28 0.16
204 61 0.34
205 49 0.28
206 1 0.01
208 3 0.02
210 1 0.01
211 2 0.01
212 32 0.18
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (203 bp):
TCCATTATGCAGTTCCCCTAAACTGCATCCATAGGGCTTACCCTCAGCAAAAGGGAAGCCAACCT
AAGGATATACCTTGGGGCCTATGGCCACTAAAGGATATCCTTAGATCCATAGGGTTACCTTAAGC
ACACATCAAAAGGAAACCAACCTAAGGATATACCTTGGGCCTACCCGAAGGTATCCTTAAGTCCG
TACCATAA
Found at i:6930394 original size:6 final size:7
Alignment explanation
Indices: 6930377--6930401 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6930367 GCATCCATTT
6930377 AAAAAAG
1 AAAAAAG
6930384 AAAAAAG
1 AAAAAAG
6930391 AAAAAAG
1 AAAAAAG
6930398 AAAA
1 AAAA
6930402 TGAAGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:6931079 original size:15 final size:15
Alignment explanation
Indices: 6931059--6931088 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6931049 CTTTGCGTTT
6931059 GGAAGTAAATTATAA
1 GGAAGTAAATTATAA
6931074 GGAAGTAAATTATAA
1 GGAAGTAAATTATAA
6931089 TTTTAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (15 bp):
GGAAGTAAATTATAA
Found at i:6936821 original size:2 final size:2
Alignment explanation
Indices: 6936814--6936841 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6936804 GTGAAGAATA
6936814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6936842 TTAGTAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6937846 original size:20 final size:20
Alignment explanation
Indices: 6937823--6937979 Score: 206
Period size: 20 Copynumber: 7.8 Consensus size: 20
6937813 ATTCACGTTG
*
6937823 CATTTCGCGTTGCGATTTTT
1 CATTTCGCGTTGCGATTTTC
6937843 CATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
* * * *
6937863 CAGTTCGCGTTGCAATAGTTG
1 CATTTCGCGTTGCGAT-TTTC
* **
6937884 AAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
6937904 CATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
*
6937924 CATTTCGCGTGGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
* *
6937944 TATTTCGCGTTGCGATTTTT
1 CATTTCGCGTTGCGATTTTC
6937964 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
6937980 AGTCTACAGT
Statistics
Matches: 117, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
20 103 0.88
21 14 0.12
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (20 bp):
CATTTCGCGTTGCGATTTTC
Done.