Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_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: 4584045
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 21
Found at i:2956768 original size:13 final size:13
Alignment explanation
Indices: 2956752--2956800 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
2956742 TTAATTCTTG
2956752 AATATAATAAATA
1 AATATAATAAATA
*
2956765 AATAAAATAAA-A
1 AATATAATAAATA
*
2956777 AATAATAATATATA
1 AAT-ATAATAAATA
*
2956791 AAAATAATAA
1 AATATAATAA
2956801 GTAATAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.14
13 22 0.76
14 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AATATAATAAATA
Found at i:2956779 original size:16 final size:15
Alignment explanation
Indices: 2956755--2956810 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
2956745 ATTCTTGAAT
*
2956755 ATAATAAATAAATAAA
1 ATAAAAAAT-AATAAA
*
2956771 ATAAAAAATAATAAT
1 ATAAAAAATAATAAA
2956786 ATATAAAAATAATAAGTA
1 ATA-AAAAATAATAA--A
2956804 ATAAAAA
1 ATAAAAA
2956811 CTTTGAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 8 0.24
16 19 0.56
17 4 0.12
18 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
ATAAAAAATAATAAA
Found at i:2956794 original size:23 final size:23
Alignment explanation
Indices: 2956755--2956808 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
2956745 ATTCTTGAAT
2956755 ATAATAAATAAATAAAATAAAAA
1 ATAATAAATAAATAAAATAAAAA
* *
2956778 ATAAT-AATATATAAAAATAATAA
1 ATAATAAATAAAT-AAAATAAAAA
*
2956801 GTAATAAA
1 ATAATAAA
2956809 AACTTTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 6 0.23
23 18 0.69
24 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAATAAATAAATAAAATAAAAA
Found at i:2957591 original size:3 final size:3
Alignment explanation
Indices: 2957583--2957642 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
2957573 TATGAATAAG
*
2957583 ATA ATA ATA ATA A-A ATA ATT ATGA A-A ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
*
2957626 ATT ATGA A-A ATA ATA AT
1 ATA AT-A ATA ATA ATA AT
2957643 TTAAAATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
2 8 0.17
3 37 0.79
4 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2957619 original size:26 final size:26
Alignment explanation
Indices: 2957583--2957650 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
2957573 TATGAATAAG
2957583 ATAATAATAATAAAATAATTATGAAA
1 ATAATAATAATAAAATAATTATGAAA
2957609 ATAATAATAATAAAATAATTATGAAA
1 ATAATAATAATAAAATAATTATGAAA
*
2957635 ATAATAAT-TTAAAATA
1 ATAATAATAATAAAATA
2957651 TAAATAAACA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 7 0.17
26 34 0.83
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (26 bp):
ATAATAATAATAAAATAATTATGAAA
Found at i:2958967 original size:3 final size:3
Alignment explanation
Indices: 2958959--2959070 Score: 145
Period size: 3 Copynumber: 36.7 Consensus size: 3
2958949 TTTGGGCTTG
* *
2958959 TAA TAA TAA TTAA TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * *
2959006 TAA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2959054 TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA T-AA TAA TA
2959071 TTTAAATGAA
Statistics
Matches: 95, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.02
3 85 0.89
4 8 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2959434 original size:42 final size:42
Alignment explanation
Indices: 2959375--2959466 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
2959365 GAAACGATCT
* * *
2959375 AAATCGCAACCTGATCTCTTTGGTACTGAAATGTCAATA-TCC
1 AAATCGCAACCTGATCTCTTTGGTACCGAAATGCCAACAGT-C
2959417 AAATCGCAACCTGATCTCTTTGGTACCGAAATGCCAACAGTC
1 AAATCGCAACCTGATCTCTTTGGTACCGAAATGCCAACAGTC
2959459 AAATCGCA
1 AAATCGCA
2959467 CCTCTACTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
AAATCGCAACCTGATCTCTTTGGTACCGAAATGCCAACAGTC
Found at i:2960407 original size:17 final size:16
Alignment explanation
Indices: 2960357--2960407 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
2960347 CTAATGTTCC
2960357 AAAATATT-TAAACATAT
1 AAAATATTATAAA-A-AT
* *
2960374 TAAATATTATCAAAAT
1 AAAATATTATAAAAAT
2960390 AAAATATTAATAAAAAT
1 AAAATATT-ATAAAAAT
2960407 A
1 A
2960408 GGTAATAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 9 0.32
17 16 0.57
18 3 0.11
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATATTATAAAAAT
Found at i:2962760 original size:59 final size:59
Alignment explanation
Indices: 2962662--2963082 Score: 637
Period size: 59 Copynumber: 7.1 Consensus size: 59
2962652 ATTCTCTAAA
* * *
2962662 ATGAAAGGTTAAATGCCTAATTGTGCATTTAGCAAAAAGGTGCCAATAATGCAAGTTAG
1 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
* *
2962721 ATGAAAGGTTAAATGCCTAATTGTGTATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
1 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
* * * *
2962780 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGAAGAAAAGGTTCCAATAATGTATGTTAG
1 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAG-AAAGGTGCCAATAATGCAAGTTAG
*
2962840 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAAGTTAG
1 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
2962899 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
1 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
* * * * *
2962958 ATGAAAGGTTAAATGCCTAATTGTGCATTTGGCAGAAAAGTACCACTAATGCATGTTAG
1 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
* * * *
2963017 ATGAAAAGTTAAATG-CTAACGGTGCCTTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAG
1 ATGAAAGGTTAAATGCCTAACTGTG-C-ATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
2963077 ATGAAA
1 ATGAAA
2963083 TGGTGCATTT
Statistics
Matches: 332, Mismatches: 27, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
58 7 0.02
59 235 0.71
60 90 0.27
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (59 bp):
ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
Found at i:2962872 original size:119 final size:118
Alignment explanation
Indices: 2962662--2963082 Score: 646
Period size: 119 Copynumber: 3.6 Consensus size: 118
2962652 ATTCTCTAAA
* * *
2962662 ATGAAAGGTTAAATGCCTAATTGTGCATTTAGCAAAAAGGTGCCAATAATGCAAGTTAGATGAAA
1 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
*
2962727 GGTTAAATGCCTAATTGTGTATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
66 GGTTAAATGCCTAATTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
* * * *
2962780 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGAAGAAAAGGTTCCAATAATGTATGTTAGATGAA
1 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAG-AAAGGTGCCAATAATGCAAGTTAGATGAA
* *
2962845 AGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAAGTTAG
65 AGGTTAAATGCCTAATTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
2962899 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
1 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
* * * *
2962964 GGTTAAATGCCTAATTGTGCATTTGGCAGAAAAGTACCACTAATGCATGTTAG
66 GGTTAAATGCCTAATTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
* * * *
2963017 ATGAAAAGTTAAATG-CTAACGGTGCCTTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
1 ATGAAAGGTTAAATGCCTAACTGTG-C-ATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGA
2963081 AA
64 AA
2963083 TGGTGCATTT
Statistics
Matches: 276, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
117 8 0.03
118 120 0.43
119 148 0.54
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (118 bp):
ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
GGTTAAATGCCTAATTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
Found at i:2962961 original size:178 final size:177
Alignment explanation
Indices: 2962662--2963082 Score: 673
Period size: 178 Copynumber: 2.4 Consensus size: 177
2962652 ATTCTCTAAA
* * *
2962662 ATGAAAGGTTAAATGCCTAATTGTGCATTTAGCAAAAAGGTGCCAATAATGCAAGTTAGATGAAA
1 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
* *
2962727 GGTTAAATGCCTAATTGTGTATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGTTAA
66 GGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGTTAA
* *
2962792 ATGCCTAACTGTGCATTTGGAAGAAAAGGTTCCAATAATGTATGTTAG
131 ATGCCTAACTGTGCATTTGGAAGAAAA-GTACCAATAATGCATGTTAG
*
2962840 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAA
1 ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
2962905 GGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGTTAA
66 GGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGTTAA
* * *
2962970 ATGCCTAATTGTGCATTTGGCAGAAAAGTACCACTAATGCATGTTAG
131 ATGCCTAACTGTGCATTTGGAAGAAAAGTACCAATAATGCATGTTAG
* * * *
2963017 ATGAAAAGTTAAATG-CTAACGGTGCCTTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
1 ATGAAAGGTTAAATGCCTAACTGTG-C-ATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGA
2963081 AA
64 AA
2963083 TGGTGCATTT
Statistics
Matches: 225, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
176 8 0.04
177 32 0.14
178 185 0.82
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (177 bp):
ATGAAAGGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
GGTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGTTAA
ATGCCTAACTGTGCATTTGGAAGAAAAGTACCAATAATGCATGTTAG
Found at i:2965156 original size:2 final size:2
Alignment explanation
Indices: 2965149--2965201 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
2965139 TGTCAAAAAG
2965149 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
2965191 AT AT AT AT AT A
1 AT AT AT AT AT A
2965202 GTTTTTCTAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2968248 original size:31 final size:31
Alignment explanation
Indices: 2968150--2968240 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
2968140 CAATTTAAGG
2968150 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
*
2968181 AAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
2968212 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
2968241 TTCAAAATTT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
29 11 0.19
30 12 0.21
31 35 0.60
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:2968327 original size:19 final size:19
Alignment explanation
Indices: 2968305--2968370 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
2968295 AATGTTTTCA
*
2968305 TGAATAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
* *
2968324 TGAACAATAAATTACTTTT
1 TGAACAGTAAATTACTATT
* *
2968343 TGAACAGTAAATCACTGTT
1 TGAACAGTAAATTACTATT
2968362 TGAACAGTA
1 TGAACAGTA
2968371 CCCCGAGGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:2968503 original size:21 final size:21
Alignment explanation
Indices: 2968477--2968518 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2968467 ATTTGAATAT
*
2968477 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
2968498 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
2968519 CCCATTCTGG
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:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:2968586 original size:20 final size:22
Alignment explanation
Indices: 2968548--2968587 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
2968538 TTTGAGTATA
2968548 AAAATCATCCCCAAACGGCTCT
1 AAAATCATCCCCAAACGGCTCT
2968570 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
2968588 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCT
Found at i:2969687 original size:59 final size:59
Alignment explanation
Indices: 2969555--2970498 Score: 1322
Period size: 59 Copynumber: 16.0 Consensus size: 59
2969545 AAAATGTAAA
* *
2969555 GTTAAATGCCTAACTATGCATTTGGCAGAAAGGTGCCAATAAT-CAATTTAGATGAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* * * **
2969613 GTTAAATACCTAACTGTGCATTTGGCAGAAAGATACCAATAATGCAAGTTAGACAAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* * **
2969672 GTTAAATGCCTAACTGTGCATTTGGAAGAAAGATGTAAATAATGCAAGTTAGATGAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* * * * *
2969731 GTTAAATGGCTAACTGTGCATTTGGCAAAAAGTTGCCAGTAATGCAAGTTAGATGAAAA
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
*
2969790 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTTCCAATAATGCAAGTTA-ATTGAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGA-TGAAAG
*
2969849 GTTAAATGCCTAACTGTGCATTTGGAAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* * * * * *
2969908 GTTAAATGACTAATTGTGCATTTGGAAGAAAGTTGCCAGTAATGCAAGTTAGATGAAAT
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
2969967 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGAT-CCAATAATGCAAGTTA-ATTGAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGG-TGCCAATAATGCAAGTTAGA-TGAAAG
* * * *
2970026 GTTAAATGCCTAACTGTGTATTTGGCAGAAAGTTGCCAACAATGCAAGTTAGTTGAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
*
2970085 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATTCAAGTTA-ATTGAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGA-TGAAAG
* *
2970144 GTTAAATTCCTAACTGTGTATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* * * *
2970203 GTTAAATGCTTATCTGTGCATTTGGTAGAAAGGTTCCAATAATGCAAGTTAGATGAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* *
2970262 GTTAAATGCCTAACTGTGCATTTGGCAAAAAGGTTCCAATAATGCAAGTTAGATGAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* * * *
2970321 GTTAAATGCATAACTGTGTATTTGGCAGAAAGGTGCCAATATTGCATGTTAGATGAAAG
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* * * * * ** *
2970380 GTTAAATGTCTAACTGTGCAGTTGGCAGAAAAGTACCACTAATATAAGTTAGATGAAAA
1 GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* * * *
2970439 GTTAAATGCCTAACGGTGCCTTTTTGGCAGAAAGGTGCCACTAAGGCAAGTTAGATGAAA
1 GTTAAATGCCTAACTGTG-C-ATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAA
2970499 TGGTGCATTT
Statistics
Matches: 785, Mismatches: 90, Indels: 19
0.88 0.10 0.02
Matches are distributed among these distances:
58 42 0.05
59 707 0.90
60 4 0.01
61 32 0.04
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (59 bp):
GTTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
Found at i:2978086 original size:19 final size:17
Alignment explanation
Indices: 2978062--2978096 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
2978052 ATAATTCTAA
2978062 TATAATATGACATACTATT
1 TATAATAT-ACA-ACTATT
2978081 TATAATATACAACTAT
1 TATAATATACAACTAT
2978097 ATGATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (17 bp):
TATAATATACAACTATT
Found at i:2978750 original size:43 final size:44
Alignment explanation
Indices: 2978702--2978795 Score: 109
Period size: 44 Copynumber: 2.2 Consensus size: 44
2978692 TATGGGAAAA
* * * * * *
2978702 ATCAAGTGTAAGATTT-TCATTTATCCAACTTATTTTGTGAAGG
1 ATCAAGTGAAAGATTTGTCACTGATCCAACTCATTCTATGAAGG
* *
2978745 ATCAAGTGAAAGGTTTGTCACTGATCCAACTCCTTCTATGAAGG
1 ATCAAGTGAAAGATTTGTCACTGATCCAACTCATTCTATGAAGG
2978789 ATCAAGT
1 ATCAAGT
2978796 AACACAACAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 14 0.33
44 28 0.67
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (44 bp):
ATCAAGTGAAAGATTTGTCACTGATCCAACTCATTCTATGAAGG
Found at i:2980276 original size:16 final size:16
Alignment explanation
Indices: 2980255--2980288 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2980245 ATTTATTCCT
*
2980255 TTTCCTTTTTGTTTTC
1 TTTCCTTTTTCTTTTC
2980271 TTTCCTTTTTCTTTTC
1 TTTCCTTTTTCTTTTC
2980287 TT
1 TT
2980289 CTTCAAGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTCCTTTTTCTTTTC
Found at i:2983392 original size:17 final size:17
Alignment explanation
Indices: 2983366--2983399 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2983356 TATTGATTGA
*
2983366 TGACAAAGAGTTGTCAT
1 TGACAAAGAGATGTCAT
*
2983383 TGACATAGAGATGTCAT
1 TGACAAAGAGATGTCAT
2983400 AATTGATACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (17 bp):
TGACAAAGAGATGTCAT
Found at i:2984253 original size:79 final size:78
Alignment explanation
Indices: 2984158--2984308 Score: 175
Period size: 76 Copynumber: 1.9 Consensus size: 78
2984148 AGTAAGTAAG
*
2984158 CATTAAAAGAATGTAATT-TAGTTTACAACTCTTTTCATTGATATATATAATTCAGAA-TAATTA
1 CATTAAAAGAATGTAATTAT-GATTACAACTC-TTT-ATTG-TATATATAATT-AGAATTAATTA
2984221 AATAA-ATTTTAAATAAA
61 AATAATATTTTAAATAAA
* * * * *
2984238 CATT-AAAGATTGTAATTATGATTATAAGTCTTTATTGTATATTTAATTTGAATTAATTAAATAA
1 CATTAAAAGAATGTAATTATGATTACAACTCTTTATTGTATATATAATTAGAATTAATTAAATAA
2984302 TATTTTA
66 TATTTTA
2984309 TTTATTAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
75 3 0.05
76 21 0.34
77 10 0.16
78 3 0.05
79 20 0.32
80 5 0.08
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.44
Consensus pattern (78 bp):
CATTAAAAGAATGTAATTATGATTACAACTCTTTATTGTATATATAATTAGAATTAATTAAATAA
TATTTTAAATAAA
Found at i:2989247 original size:20 final size:20
Alignment explanation
Indices: 2989222--2989273 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
2989212 CAAGAGCTTG
2989222 GCTCAGTGGAGTTCCTTCTA
1 GCTCAGTGGAGTTCCTTCTA
* *
2989242 GCTCAGTGGAGTTTCTTCTG
1 GCTCAGTGGAGTTCCTTCTA
*
2989262 GCTCAATGGAGT
1 GCTCAGTGGAGT
2989274 CATGGGAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.21, G:0.29, T:0.35
Consensus pattern (20 bp):
GCTCAGTGGAGTTCCTTCTA
Found at i:2997209 original size:98 final size:99
Alignment explanation
Indices: 2997040--2997240 Score: 395
Period size: 98 Copynumber: 2.0 Consensus size: 99
2997030 TTTCTTATGC
2997040 ACGATTTATTTGGTTTGACTAATGCTGCTGAGGAGAAAGGGTCGTTTGGATTATGTTTTTGCAGG
1 ACGATTTATTTGGTTTGACTAATGCTGCTGAGGAGAAAGGGTCGTTTGGATTATGTTTTTGCAGG
2997105 AAACTTACAGGAGAAGAACATTTCA-TCGTGACA
66 AAACTTACAGGAGAAGAACATTTCAGTCGTGACA
2997138 ACGATTTATTTGGTTTGACTAATGCTGCTGAGGAGAAAGGGTCGTTTGGATTATGTTTTTGCAGG
1 ACGATTTATTTGGTTTGACTAATGCTGCTGAGGAGAAAGGGTCGTTTGGATTATGTTTTTGCAGG
2997203 AAACTTACAGGAGAAGAACATTTCAGTCGTGACA
66 AAACTTACAGGAGAAGAACATTTCAGTCGTGACA
2997237 ACGA
1 ACGA
2997241 AAATTTGCAA
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 90 0.88
99 12 0.12
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (99 bp):
ACGATTTATTTGGTTTGACTAATGCTGCTGAGGAGAAAGGGTCGTTTGGATTATGTTTTTGCAGG
AAACTTACAGGAGAAGAACATTTCAGTCGTGACA
Found at i:2997272 original size:98 final size:98
Alignment explanation
Indices: 2997069--2997272 Score: 266
Period size: 98 Copynumber: 2.1 Consensus size: 98
2997059 TAATGCTGCT
2997069 GAGGAGAAAGGGTCGTTTGGATTATGTTTTTGCAGGAAACTTACAGGAGAAGAACATTTCATCGT
1 GAGGAGAAAGGGTCGTTTGGATTATGTTTTTGCAGGAAACTTACAGGAGAAGAACATTTCATCGT
** **** * * ** *
2997134 GACAACGATTTATTTGGTTTGACTAATGCTGCT
66 GACAACGATAAATTTGCAAAGACCAACGCAACA
2997167 GAGGAGAAAGGGTCGTTTGGATTATGTTTTTGCAGGAAACTTACAGGAGAAGAACATTTCAGTCG
1 GAGGAGAAAGGGTCGTTTGGATTATGTTTTTGCAGGAAACTTACAGGAGAAGAACATTTCA-TCG
* *
2997232 TGACAACGA-AAATTTGCAAAGGCCAACGGAACA
65 TGACAACGATAAATTTGCAAAGACCAACGCAACA
*
2997265 GATGAGAA
1 GAGGAGAA
2997273 CGTGAGGAGC
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
98 79 0.87
99 12 0.13
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (98 bp):
GAGGAGAAAGGGTCGTTTGGATTATGTTTTTGCAGGAAACTTACAGGAGAAGAACATTTCATCGT
GACAACGATAAATTTGCAAAGACCAACGCAACA
Found at i:3014932 original size:144 final size:143
Alignment explanation
Indices: 3014672--3014960 Score: 569
Period size: 144 Copynumber: 2.0 Consensus size: 143
3014662 ATACACCCAA
3014672 TTTCACATTCATCCTCTATTTTTTTTCAAAAGTGAGCAACCAAGGAAGTTCAAGAGTCTTCCTTC
1 TTTCACATTCATCCTCTATTTTTTTTCAAAAGTGAGCAACCAAGGAAGTTCAAGAGTCTTCCTTC
3014737 CCTTTGGATGAAATTAAGTCTTAACTCAGTCTCAAAAGTGTCCAAATTCATCCTAGACTGTTGGT
66 CCTTTGGATGAAATTAAGTCTTAACTCAGTCTCAAAAGTGTCCAAATTCATCCTAGACTGTTGGT
3014802 ATTTTCAAACCACT
131 ATTTTC-AACCACT
3014816 TTTCACATTCATCCTCTATTTTTTTTCAAAAGTGAGCAACCAAGGAAGTTCAAGAGTCTTCCTTC
1 TTTCACATTCATCCTCTATTTTTTTTCAAAAGTGAGCAACCAAGGAAGTTCAAGAGTCTTCCTTC
3014881 CCTTTGGATGAAATTAAGTCTTAACTCAGTCTCAAAAGTGTCCAAATTCATCCTAGACTGTTGGT
66 CCTTTGGATGAAATTAAGTCTTAACTCAGTCTCAAAAGTGTCCAAATTCATCCTAGACTGTTGGT
3014946 ATTTTCAACCACT
131 ATTTTCAACCACT
3014959 TT
1 TT
3014961 GAAAGAACAC
Statistics
Matches: 145, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
143 9 0.06
144 136 0.94
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (143 bp):
TTTCACATTCATCCTCTATTTTTTTTCAAAAGTGAGCAACCAAGGAAGTTCAAGAGTCTTCCTTC
CCTTTGGATGAAATTAAGTCTTAACTCAGTCTCAAAAGTGTCCAAATTCATCCTAGACTGTTGGT
ATTTTCAACCACT
Found at i:3016946 original size:46 final size:46
Alignment explanation
Indices: 3016896--3017282 Score: 540
Period size: 46 Copynumber: 8.4 Consensus size: 46
3016886 AAATGAATGA
* *
3016896 ATAAATGAAAATGCATAACGGTGCATTATCGACATGAAATGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
3016942 ATAAATGAAAATGCATAACGGTGCATTATCGGTATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
3016988 ATAAATGAAAATGTATAACGGTGCATTATTGGCATGAAAGGAGGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
3017034 ATAAATGAAAATACATAACGGTGCATTATCGGCATAAAAGGATGCT
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*** *
3017080 ATAAATGAAAATGCATAATAATGCATTATCGGTATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * * * *
3017126 ATTAATGAAAATGCATAACGATGCTTTATTGGCATAAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
3017172 ATAAATGAAAATGCATAACGGTGCATAATCGGCATGAAAGAATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * ** *
3017218 ACAAATAAAAATGCATAACGGTGCAGAATCGGCATGAAATGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
3017264 AGAAATGAAAATGCATAAC
1 ATAAATGAAAATGCATAAC
3017283 AGTATATTAA
Statistics
Matches: 300, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 300 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.23
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:3022979 original size:46 final size:46
Alignment explanation
Indices: 3022910--3023206 Score: 409
Period size: 46 Copynumber: 6.5 Consensus size: 46
3022900 AAATGAATGA
*
3022910 ATAAATGAAAATGCATAAAGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
3022956 ATAAATGAAAATGCATAACGGTGCATT-TCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
3023001 ATAAATGAAAATGCATAACGGTGCATTTTCGGCGTGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
3023047 ATAAATGAAAATGCATAACGGTGTATTATCGGCAAGAAAGGATACC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * * * *
3023093 ATAAATAAAAATGCATAACGGTGCATAATCGACATGAATGGTTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * * * *
3023139 AGAAATGGAAAA-GCATAAAGGTGCATAATCGACATGAAAGGATGTC
1 ATAAAT-GAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
3023185 ACAAATGAAAATTCATAACGGT
1 ATAAATGAAAATGCATAACGGT
3023207 ATATTAACAC
Statistics
Matches: 224, Mismatches: 24, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
45 50 0.22
46 170 0.76
47 4 0.02
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:3027331 original size:24 final size:24
Alignment explanation
Indices: 3027280--3027331 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
3027270 ATTATAAGCC
* *
3027280 ATTGCCACCAGCAATTCCAACAAC
1 ATTGCCACCAGCAATACCAACAAA
* * *
3027304 ATTGCCACCTGCGATACCACCAAA
1 ATTGCCACCAGCAATACCAACAAA
3027328 ATTG
1 ATTG
3027332 ATGTTGCAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.12, T:0.19
Consensus pattern (24 bp):
ATTGCCACCAGCAATACCAACAAA
Found at i:3028223 original size:17 final size:17
Alignment explanation
Indices: 3028188--3028231 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3028178 TATTTAATTA
**
3028188 ATTTTATTCTATTTTTT
1 ATTTTATTAGATTTTTT
3028205 ATTTT-TTAGATTTTGTT
1 ATTTTATTAGATTTT-TT
3028222 ATTTTATTAG
1 ATTTTATTAG
3028232 TTCCCTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 12 0.52
18 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.70
Consensus pattern (17 bp):
ATTTTATTAGATTTTTT
Found at i:3028968 original size:38 final size:38
Alignment explanation
Indices: 3028913--3029025 Score: 190
Period size: 38 Copynumber: 3.0 Consensus size: 38
3028903 AAATGTATAT
3028913 ATCAAATAAGTTGGAATCTCCAACATTAGTTTTAGGAA
1 ATCAAATAAGTTGGAATCTCCAACATTAGTTTTAGGAA
* *
3028951 ATCGAATAAGTTGGAATCTCCAAAATTAGTTTTAGGAA
1 ATCAAATAAGTTGGAATCTCCAACATTAGTTTTAGGAA
* *
3028989 GTCAAATAAGTTGGAATCTCTAACATTAGTTTTAGGA
1 ATCAAATAAGTTGGAATCTCCAACATTAGTTTTAGGA
3029026 GGGTTCCTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 69 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.33
Consensus pattern (38 bp):
ATCAAATAAGTTGGAATCTCCAACATTAGTTTTAGGAA
Found at i:3077891 original size:20 final size:19
Alignment explanation
Indices: 3077866--3077913 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
3077856 CCGTTCATAT
3077866 TGATACCAACCCTTTAGTAC
1 TGATACCAACCC-TTAGTAC
*
3077886 TGATACTC-ACCCTTGGTAC
1 TGATAC-CAACCCTTAGTAC
*
3077905 CGATACCAA
1 TGATACCAA
3077914 AATTGTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 12 0.50
20 10 0.42
21 1 0.04
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.27
Consensus pattern (19 bp):
TGATACCAACCCTTAGTAC
Found at i:3078598 original size:41 final size:41
Alignment explanation
Indices: 3078507--3078607 Score: 98
Period size: 41 Copynumber: 2.5 Consensus size: 41
3078497 CAATCTTCAG
* ** * *
3078507 TATCGATACCAGTTCATCTGATAAGGATACCAGTCCTCTGG
1 TATCGATACCAATTCATCTGATAAGGATACCAACCCACTGA
* * *
3078548 TAT-GAATACCAATTTATCTGGTATGGATACCAACCCACTGA
1 TATCG-ATACCAATTCATCTGATAAGGATACCAACCCACTGA
3078589 TATCGATACC-ATTCCATCT
1 TATCGATACCAATT-CATCT
3078608 AATATCGATA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
40 4 0.08
41 43 0.90
42 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (41 bp):
TATCGATACCAATTCATCTGATAAGGATACCAACCCACTGA
Found at i:3086318 original size:21 final size:22
Alignment explanation
Indices: 3086292--3086346 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
3086282 ACCCCCTTGC
3086292 TATGTATCGATACA-CCTTGAA
1 TATGTATCGATACATCCTTGAA
*
3086313 TGTGTA-CTGATACATTCCTTGAA
1 TATGTATC-GATACA-TCCTTGAA
3086336 TATGTATCGAT
1 TATGTATCGAT
3086347 GCACTCCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 1 0.04
21 11 0.39
23 15 0.54
24 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (22 bp):
TATGTATCGATACATCCTTGAA
Found at i:3086354 original size:23 final size:22
Alignment explanation
Indices: 3086292--3086354 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
3086282 ACCCCCTTGC
*
3086292 TATGTATCGAT-ACACCTTGAA
1 TATGTATCGATCACTCCTTGAA
* *
3086313 TGTGTA-CTGATACATTCCTTGAA
1 TATGTATC-GAT-CACTCCTTGAA
3086336 TATGTATCGATGCACTCCT
1 TATGTATCGAT-CACTCCT
3086355 AGAGTGTAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
20 1 0.03
21 8 0.25
23 22 0.69
24 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (22 bp):
TATGTATCGATCACTCCTTGAA
Found at i:3087595 original size:15 final size:15
Alignment explanation
Indices: 3087575--3087603 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3087565 TAGGACATTT
3087575 GGTTTAGATAACGAA
1 GGTTTAGATAACGAA
3087590 GGTTTAGATAACGA
1 GGTTTAGATAACGA
3087604 GAGAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (15 bp):
GGTTTAGATAACGAA
Found at i:3087766 original size:30 final size:30
Alignment explanation
Indices: 3087702--3087766 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
3087692 TCTTGGTGGG
* **
3087702 TTAGACCATCTAGAGGTAGATATTGGTTGT
1 TTAGACCATCTAGAGGTAGATATTGCTACT
3087732 TTAGACCATCTAGAGGTAGATATT-CTACT
1 TTAGACCATCTAGAGGTAGATATTGCTACT
3087761 CTTAGA
1 -TTAGA
3087767 GTACTTGACC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (30 bp):
TTAGACCATCTAGAGGTAGATATTGCTACT
Found at i:3091917 original size:16 final size:16
Alignment explanation
Indices: 3091879--3091928 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
3091869 TGTTTATGAG
3091879 GGAATTGGAATCTGTGAA
1 GGAATTGGAATC--TGAA
*
3091897 TGAATTGGAATCTGAA
1 GGAATTGGAATCTGAA
*
3091913 GGAATTGGAATATGAA
1 GGAATTGGAATCTGAA
3091929 TCTGAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.62
18 11 0.38
ACGTcount: A:0.38, C:0.04, G:0.30, T:0.28
Consensus pattern (16 bp):
GGAATTGGAATCTGAA
Found at i:3092575 original size:61 final size:56
Alignment explanation
Indices: 3092485--3092641 Score: 208
Period size: 61 Copynumber: 2.7 Consensus size: 56
3092475 CCTAAACCCG
* *
3092485 AACCCGAC-CAAATTATCACACTTAAAAAAACCCGACCCGAATATCACACTTAAAAAA
1 AACCCGACACGAA-TATCAAACTTAAAAAAACCCGACCCGAATATCACACTT-AAAAA
**
3092542 ACCTGACCCGACACGAATATCAAACTTAAAAAAACCCGACCTAAATATCACACTTAAAAA
1 A----ACCCGACACGAATATCAAACTTAAAAAAACCCGACCCGAATATCACACTTAAAAA
*
3092602 AACCCGACCCGAATATCAAACTTAAAAAAACCCGACCCGA
1 AACCCGACACGAATATCAAACTTAAAAAAACCCGACCCGA
3092642 CCGAACCTGA
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
56 36 0.41
57 1 0.01
60 6 0.07
61 42 0.48
62 3 0.03
ACGTcount: A:0.48, C:0.31, G:0.07, T:0.15
Consensus pattern (56 bp):
AACCCGACACGAATATCAAACTTAAAAAAACCCGACCCGAATATCACACTTAAAAA
Found at i:3092639 original size:89 final size:88
Alignment explanation
Indices: 3092485--3092646 Score: 281
Period size: 89 Copynumber: 1.8 Consensus size: 88
3092475 CCTAAACCCG
* *
3092485 AACCCGACCAAATTATCACACTTAAAAAAACCCGACCCGAATATCACACTTAAAAAAACCTGACC
1 AACCCGACCAAATTATCACACTTAAAAAAACCCGACCCGAATATCAAACTTAAAAAAACCCGACC
3092550 CGACACGAATATCAAACTTAAAAA
66 CGAC-CGAATATCAAACTTAAAAA
3092574 AACCCGACCTAAA-TATCACACTTAAAAAAACCCGACCCGAATATCAAACTTAAAAAAACCCGAC
1 AACCCGACC-AAATTATCACACTTAAAAAAACCCGACCCGAATATCAAACTTAAAAAAACCCGAC
3092638 CCGACCGAA
65 CCGACCGAA
3092647 CCTGATTTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
88 4 0.06
89 63 0.90
90 3 0.04
ACGTcount: A:0.48, C:0.31, G:0.07, T:0.14
Consensus pattern (88 bp):
AACCCGACCAAATTATCACACTTAAAAAAACCCGACCCGAATATCAAACTTAAAAAAACCCGACC
CGACCGAATATCAAACTTAAAAA
Found at i:3092640 original size:28 final size:28
Alignment explanation
Indices: 3092485--3092641 Score: 199
Period size: 28 Copynumber: 5.4 Consensus size: 28
3092475 CCTAAACCCG
*
3092485 AACCCGA-CCAAATTATCACACTTAAAAA
1 AACCCGACCCGAA-TATCACACTTAAAAA
3092513 AACCCGACCCGAATATCACACTTAAAAAA
1 AACCCGACCCGAATATCACACTT-AAAAA
* *
3092542 ACCTGACCCGACACGAATATCAAACTTAAAAA
1 A----ACCCGACCCGAATATCACACTTAAAAA
**
3092574 AACCCGACCTAAATATCACACTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
*
3092602 AACCCGACCCGAATATCAAACTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
3092630 AACCCGACCCGA
1 AACCCGACCCGA
3092642 CCGAACCTGA
Statistics
Matches: 113, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
28 77 0.68
29 10 0.09
32 6 0.05
33 20 0.18
ACGTcount: A:0.48, C:0.31, G:0.07, T:0.15
Consensus pattern (28 bp):
AACCCGACCCGAATATCACACTTAAAAA
Found at i:3092642 original size:33 final size:33
Alignment explanation
Indices: 3092514--3092643 Score: 145
Period size: 33 Copynumber: 4.2 Consensus size: 33
3092504 ACTTAAAAAA
* *
3092514 ACCCGACCCGAATATCACACTTAAAAAAACCTG
1 ACCCGACCCGAATATCAAACTTAAAAAAACCCG
*
3092547 ACCCGACACGAATATCAAACTTAAAAAAACCCG
1 ACCCGACCCGAATATCAAACTTAAAAAAACCCG
* *
3092580 A-CCTA----AATATCACACTT-AAAAAA----
1 ACCCGACCCGAATATCAAACTTAAAAAAACCCG
3092603 ACCCGACCCGAATATCAAACTTAAAAAAACCCG
1 ACCCGACCCGAATATCAAACTTAAAAAAACCCG
3092636 ACCCGACC
1 ACCCGACC
3092644 GAACCTGATT
Statistics
Matches: 80, Mismatches: 7, Indels: 20
0.75 0.07 0.19
Matches are distributed among these distances:
23 1 0.01
24 3 0.04
27 6 0.08
28 22 0.28
29 6 0.08
32 3 0.04
33 39 0.49
ACGTcount: A:0.46, C:0.32, G:0.08, T:0.14
Consensus pattern (33 bp):
ACCCGACCCGAATATCAAACTTAAAAAAACCCG
Found at i:3092673 original size:31 final size:30
Alignment explanation
Indices: 3092638--3092705 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
3092628 AAAACCCGAC
* *
3092638 CCGACCGAACCTGATTTTTTAAAAAAAAAAT
1 CCGACCGAACCCGATATTTT-AAAAAAAAAT
* *
3092669 CCGACCCGATCCCGATATTTTAAAACAAAAT
1 CCGA-CCGAACCCGATATTTTAAAAAAAAAT
3092700 CCGACC
1 CCGACC
3092706 CGAATACCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 2 0.06
31 17 0.53
32 13 0.41
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (30 bp):
CCGACCGAACCCGATATTTTAAAAAAAAAT
Found at i:3095384 original size:4 final size:4
Alignment explanation
Indices: 3095375--3095408 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
3095365 TGTCCTTGTC
3095375 TTTA TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
3095409 GTGTGTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:3095547 original size:5 final size:5
Alignment explanation
Indices: 3095537--3095564 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
3095527 TCTTTCGAGA
3095537 CGACC CGACC CGACC CGACC CGACC CGA
1 CGACC CGACC CGACC CGACC CGACC CGA
3095565 GACGAGACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.57, G:0.21, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:3102265 original size:121 final size:121
Alignment explanation
Indices: 3102116--3102398 Score: 458
Period size: 121 Copynumber: 2.3 Consensus size: 121
3102106 AGGGTAATCT
* * *
3102116 ATGCATTTAGCACCTAAACAATCAGTTTTGATTCGTTTTAGTACTTAAACTTTTATTTTTTCATA
1 ATGCATTTAGCACCTAAACTATCAGTTTTGATTCGTTTTAGTACTTAAACTTTTAATTTTTCAAA
3102181 AGCATATCTAATATTTAGTTTTCATTTCATTTTAGTACCCGATCGTTAAAAAATTA
66 AGCATATCTAATATTTAGTTTTCATTTCATTTTAGTACCCGATCGTTAAAAAATTA
* * *
3102237 ATGCATTTAGTACCTAAACTATCAGTTTTGATTCTTTTTAGTACTTAAAGTTTTAATTTTTCAAA
1 ATGCATTTAGCACCTAAACTATCAGTTTTGATTCGTTTTAGTACTTAAACTTTTAATTTTTCAAA
* *
3102302 AGCATATCTAATATTTAGTTTTCATTTCATTTTAGTACCCGGTCGTTAAAAACTTA
66 AGCATATCTAATATTTAGTTTTCATTTCATTTTAGTACCCGATCGTTAAAAAATTA
* * * *
3102358 ATGCGTTTAGCACCTAAACTATTAGTTTTGGTTTGTTTTAG
1 ATGCATTTAGCACCTAAACTATCAGTTTTGATTCGTTTTAG
3102399 CACCTAAAAT
Statistics
Matches: 148, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
121 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (121 bp):
ATGCATTTAGCACCTAAACTATCAGTTTTGATTCGTTTTAGTACTTAAACTTTTAATTTTTCAAA
AGCATATCTAATATTTAGTTTTCATTTCATTTTAGTACCCGATCGTTAAAAAATTA
Found at i:3104040 original size:2 final size:2
Alignment explanation
Indices: 3104014--3104057 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
3104004 TAAATAAATG
* * *
3104014 TA TA T- TA TA TG TA TC TA TC 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
3104055 TA T
1 TA T
3104058 GATTTTATAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3104570 original size:7 final size:7
Alignment explanation
Indices: 3104558--3104598 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
3104548 AGTTGCAATA
3104558 GCAAGTG
1 GCAAGTG
3104565 GCAAGTG
1 GCAAGTG
3104572 GCAAGTG
1 GCAAGTG
*
3104579 ACAAGTG
1 GCAAGTG
*
3104586 ACAAGTGG
1 GCAAGT-G
3104594 GCAAG
1 GCAAG
3104599 CACGCTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 26 0.84
8 5 0.16
ACGTcount: A:0.34, C:0.15, G:0.39, T:0.12
Consensus pattern (7 bp):
GCAAGTG
Found at i:3105886 original size:23 final size:24
Alignment explanation
Indices: 3105858--3105920 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
3105848 TTAACAGTCT
*
3105858 CAAACATGTTCATTTA-ACGTTTA
1 CAAACATGTTCATTTATACGTTCA
* * *
3105881 CGAACATGTTCGTTTATATGTTCA
1 CAAACATGTTCATTTATACGTTCA
*
3105905 CAAACATGCTCATTTA
1 CAAACATGTTCATTTA
3105921 GCATTCAGGA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 14 0.44
24 18 0.56
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (24 bp):
CAAACATGTTCATTTATACGTTCA
Found at i:3106167 original size:12 final size:12
Alignment explanation
Indices: 3106138--3106194 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
3106128 AGTCGTTAAG
*
3106138 CGAGCTCATACA
1 CGAGCTCATAAA
* *
3106150 CAAGCTTATAAA
1 CGAGCTCATAAA
*
3106162 CGAGCTCATACA
1 CGAGCTCATAAA
* *
3106174 CAAGCTTATAAA
1 CGAGCTCATAAA
*
3106186 CGAGGTCAT
1 CGAGCTCAT
3106195 GCATGAAAAT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (12 bp):
CGAGCTCATAAA
Found at i:3106170 original size:24 final size:24
Alignment explanation
Indices: 3106138--3106194 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
3106128 AGTCGTTAAG
3106138 CGAGCTCATACACAAGCTTATAAA
1 CGAGCTCATACACAAGCTTATAAA
3106162 CGAGCTCATACACAAGCTTATAAA
1 CGAGCTCATACACAAGCTTATAAA
*
3106186 CGAGGTCAT
1 CGAGCTCAT
3106195 GCATGAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (24 bp):
CGAGCTCATACACAAGCTTATAAA
Found at i:3111049 original size:90 final size:90
Alignment explanation
Indices: 3110896--3111078 Score: 366
Period size: 90 Copynumber: 2.0 Consensus size: 90
3110886 TTCATAATTC
3110896 GGAGGTCTCCTACAGAAGCTGCTCTCAACCTAGTGTTGGGGGCAGCCTATTATCTTACCTCCCCC
1 GGAGGTCTCCTACAGAAGCTGCTCTCAACCTAGTGTTGGGGGCAGCCTATTATCTTACCTCCCCC
3110961 TTACCCCATTACATATGGGAACAAG
66 TTACCCCATTACATATGGGAACAAG
3110986 GGAGGTCTCCTACAGAAGCTGCTCTCAACCTAGTGTTGGGGGCAGCCTATTATCTTACCTCCCCC
1 GGAGGTCTCCTACAGAAGCTGCTCTCAACCTAGTGTTGGGGGCAGCCTATTATCTTACCTCCCCC
3111051 TTACCCCATTACATATGGGAACAAG
66 TTACCCCATTACATATGGGAACAAG
3111076 GGA
1 GGA
3111079 CAACCATTTT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (90 bp):
GGAGGTCTCCTACAGAAGCTGCTCTCAACCTAGTGTTGGGGGCAGCCTATTATCTTACCTCCCCC
TTACCCCATTACATATGGGAACAAG
Found at i:3112504 original size:20 final size:20
Alignment explanation
Indices: 3112481--3112545 Score: 51
Period size: 20 Copynumber: 3.0 Consensus size: 20
3112471 CATATTATGA
3112481 AAATATTTATTATTTAAAAT
1 AAATATTTATTATTTAAAAT
*
3112501 AAATAATTAATTGGATTTTAAAATT
1 AAAT-ATTTATT--A-TTTAAAA-T
**
3112526 AAATAAATATT-TTTAAAAT
1 AAATATTTATTATTTAAAAT
3112545 A
1 A
3112546 TTATAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
19 2 0.06
20 11 0.31
21 6 0.17
23 1 0.03
24 11 0.31
25 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AAATATTTATTATTTAAAAT
Found at i:3113132 original size:29 final size:28
Alignment explanation
Indices: 3113078--3113134 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
3113068 GTCAATGATT
3113078 TAAAAAAATAAAATTTAAATACTAAAAC
1 TAAAAAAATAAAATTTAAATACTAAAAC
*
3113106 TAAAAAAAGTAATAGTTTAAATA-TAAAAC
1 TAAAAAAA-TAA-AATTTAAATACTAAAAC
3113135 GTATAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.31
29 9 0.35
30 9 0.35
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (28 bp):
TAAAAAAATAAAATTTAAATACTAAAAC
Found at i:3113500 original size:26 final size:27
Alignment explanation
Indices: 3113471--3113528 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
3113461 CCGCTTAATT
*
3113471 TAAAATTTATAAAATTTTAGAG-AAAA
1 TAAAATTTAAAAAATTTTAGAGAAAAA
* *
3113497 T-AAACTTAAAAAATTTTATAGAAAAA
1 TAAAATTTAAAAAATTTTAGAGAAAAA
3113523 TAAAAT
1 TAAAAT
3113529 AAATTACCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 17 0.65
26 6 0.23
27 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (27 bp):
TAAAATTTAAAAAATTTTAGAGAAAAA
Found at i:3114836 original size:23 final size:23
Alignment explanation
Indices: 3114801--3114882 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 23
3114791 AGTTTACATA
* *
3114801 TATGATACATTTTTATCTGTCTT
1 TATGACACGTTTTTATCTGTCTT
*
3114824 TATGACACGTTTTCATCT-TCCTT
1 TATGACACGTTTTTATCTGT-CTT
* *
3114847 TATGACAC-TTTTTCTTTTGT-TT
1 TATGACACGTTTTT-ATCTGTCTT
*
3114869 TTTGACACGTTTTT
1 TATGACACGTTTTT
3114883 CGATTGTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
22 14 0.29
23 33 0.69
24 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.56
Consensus pattern (23 bp):
TATGACACGTTTTTATCTGTCTT
Found at i:3114889 original size:23 final size:22
Alignment explanation
Indices: 3114849--3114891 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
3114839 TCTTCCTTTA
**
3114849 TGACACTTTTTCTTTTGTTTTT
1 TGACACTTTTTCGATTGTTTTT
3114871 TGACACGTTTTTCGATTGTTT
1 TGACAC-TTTTTCGATTGTTT
3114892 GTCTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.12, C:0.14, G:0.14, T:0.60
Consensus pattern (22 bp):
TGACACTTTTTCGATTGTTTTT
Found at i:3115853 original size:2 final size:2
Alignment explanation
Indices: 3115834--3115974 Score: 102
Period size: 2 Copynumber: 74.0 Consensus size: 2
3115824 AAAAATAATA
* * * *
3115834 AT AT AT AC AT AT AG AT AT AT AGG AT AT A- AT A- AG A- AT A- AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * * *
3115873 AT AT AT AT AT AT AC ACT A- AA AT A- AT AT AG AA AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3115914 AT AT A- AT AT AT AT AT AT AT AG AT A- AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
3115953 AT AT AT AT AT GT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
3115975 GTAATAGAAT
Statistics
Matches: 110, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
1 9 0.08
2 99 0.90
3 2 0.02
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (2 bp):
AT
Found at i:3115928 original size:19 final size:19
Alignment explanation
Indices: 3115904--3115980 Score: 100
Period size: 19 Copynumber: 3.9 Consensus size: 19
3115894 TAATATAGAA
3115904 ATATATATATATATAATAT
1 ATATATATATATATAATAT
*
3115923 ATATATATATAGATAATAT
1 ATATATATATATATAATAT
3115942 ATATATATTATATATATATAT
1 ATATATA-TATATATA-ATAT
* * *
3115963 GTAAATATATATGTAATA
1 ATATATATATATATAATA
3115981 GAATAAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 28 0.55
20 14 0.27
21 9 0.18
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
ATATATATATATATAATAT
Found at i:3116096 original size:2 final size:2
Alignment explanation
Indices: 3116086--3116130 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
3116076 AAAAAATAAA
*
3116086 AT AT A- AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT GT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3116125 AT AT AT
1 AT AT AT
3116131 GTAATAGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3116129 original size:23 final size:22
Alignment explanation
Indices: 3116086--3116130 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
3116076 AAAAAATAAA
3116086 ATATAATATATTATATATATAT
1 ATATAATATATTATATATATAT
3116108 ATATATATATATGTA-ATATATAT
1 ATATA-ATATAT-TATATATATAT
3116131 GTAATAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 14 0.67
24 2 0.10
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATATAATATATTATATATATAT
Found at i:3116136 original size:11 final size:12
Alignment explanation
Indices: 3116086--3116133 Score: 64
Period size: 11 Copynumber: 4.1 Consensus size: 12
3116076 AAAAAATAAA
3116086 ATATAATATAT-T
1 ATAT-ATATATGT
*
3116098 ATATATATATAT
1 ATATATATATGT
3116110 ATATATATATGT
1 ATATATATATGT
3116122 A-ATATATATGT
1 ATATATATATGT
3116133 A
1 A
3116134 ATAGAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
11 17 0.50
12 17 0.50
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (12 bp):
ATATATATATGT
Found at i:3116238 original size:23 final size:22
Alignment explanation
Indices: 3116209--3116261 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
3116199 ATACATAAGG
* * *
3116209 AAATAATTAAATATAGATATAAA
1 AAATAATAAAAAATA-AAATAAA
*
3116232 AACTAATAAAAAATAAAATAAA
1 AAATAATAAAAAATAAAATAAA
3116254 AAATAATA
1 AAATAATA
3116262 TTTAAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (22 bp):
AAATAATAAAAAATAAAATAAA
Found at i:3116246 original size:163 final size:158
Alignment explanation
Indices: 3115939--3116251 Score: 533
Period size: 163 Copynumber: 1.9 Consensus size: 158
3115929 ATATAGATAA
3115939 TATATATATATTATATATATATATGTAAATATATATGTAATAGAATAAAAAAATAGTACATAAAT
1 TATATATATATTATATATATATATGTAAATATATATGTAATAGAATAAAAAAATAGTACATAAAT
3116004 TAAAATAGAAAGAAGGAAAATAATATAAAGAGATAACATAAGGAATAATTAAATATAGATATAAA
66 TAAAATAGAAAGAAGGAAAATAATATAAAGAGATAACATAAGGAATAATTAAATATAGATATAAA
3116069 AACTAATAAAAAATAAAATATAATATAT
131 AACTAATAAAAAATAAAATATAATATAT
3116097 TATATATATA-TATATATATATATGT-AATATATATGTAATAGAATAAAAAAATAGTACATAAAT
1 TATATATATATTATATATATATATGTAAATATATATGTAATAGAATAAAAAAATAGTACATAAAT
3116160 TAAAAAATAGAAAGAAGGAAAATAATAATGATAAAGAGA-ATACATAAGGAAATAATTAAATATA
66 T--AAAATAGAAAGAAGG--AA-AATAAT-ATAAAGAGATA-ACATAAGG-AATAATTAAATATA
3116224 GATATAAAAACTAATAAAAAATAAAATA
123 GATATAAAAACTAATAAAAAATAAAATA
3116252 AAAAATAATA
Statistics
Matches: 147, Mismatches: 0, Indels: 11
0.93 0.00 0.07
Matches are distributed among these distances:
156 39 0.27
157 15 0.10
158 25 0.17
160 2 0.01
161 7 0.05
162 17 0.12
163 42 0.29
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (158 bp):
TATATATATATTATATATATATATGTAAATATATATGTAATAGAATAAAAAAATAGTACATAAAT
TAAAATAGAAAGAAGGAAAATAATATAAAGAGATAACATAAGGAATAATTAAATATAGATATAAA
AACTAATAAAAAATAAAATATAATATAT
Found at i:3117744 original size:30 final size:33
Alignment explanation
Indices: 3117701--3117784 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 33
3117691 AACTCGAAGG
* *
3117701 TTTTGTGTTTCAAGAGAAATATTTTCAAA-TAT
1 TTTTGTGTTTCAAGAGAAACAATTTCAAAGTAT
*
3117733 TTTT-T-TTTCAAGAGAAACAATTTCAAAGGTTT
1 TTTTGTGTTTCAAGAGAAACAATTTCAAA-GTAT
3117765 TTTTGTGTTTCAAGAGAAAC
1 TTTTGTGTTTCAAGAGAAAC
3117785 TGTCTCAAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
30 20 0.44
31 1 0.02
32 10 0.22
33 1 0.02
34 13 0.29
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.44
Consensus pattern (33 bp):
TTTTGTGTTTCAAGAGAAACAATTTCAAAGTAT
Found at i:3117928 original size:36 final size:37
Alignment explanation
Indices: 3117836--3117945 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
3117826 CAAAGATTGG
3117836 TGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAACTT
* *
3117873 TGTTTGAAGGGAAACTGTCTTAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAACTT
* *
3117909 TGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAACTT
3117946 AGTTACAGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 32 0.48
37 34 0.52
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAACTT
Found at i:3117932 original size:88 final size:88
Alignment explanation
Indices: 3117858--3118030 Score: 211
Period size: 88 Copynumber: 2.0 Consensus size: 88
3117848 AACTGTCTTA
* * *
3117858 AGAGAGACAAAACTTTGTTTGAAGGGAAACTGTCTTAAGAGAGACAAAATTTGTTTCAAGAGAAA
1 AGAGACACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
*
3117923 ATGTCTCAAGAGAGACAAAACTT
66 ATGTCTCAAGAGAAACAAAACTT
** * * * * *
3117946 AGTTACAGAAGATTTTGTTTCAAGTGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
1 AGAGACACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
* * * *
3118011 CTGTTTCAATAGAGACAAAA
66 ATGTCTCAAGAGAAACAAAA
3118031 TTTGTTTCAA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 72 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.26
Consensus pattern (88 bp):
AGAGACACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
ATGTCTCAAGAGAAACAAAACTT
Found at i:3117999 original size:36 final size:36
Alignment explanation
Indices: 3117959--3118313 Score: 289
Period size: 36 Copynumber: 10.2 Consensus size: 36
3117949 TACAGAAGAT
*
3117959 TTTGTTTCAAGTGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
3117995 TTTGTTTCAAGGGAAACTGTTTCAATAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
3118031 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
3118067 TTTGTTTCAAGGGAAACAGAT-TC-A-A-AG----AT
1 TTTGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAA
* * *
3118096 TTTATTTCAAGGGAAACTATCTCAAGAGAGACAAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
** *
3118133 CAT-TTTCAAGAGAAACTGTCTCAAGAGAGACATAAC
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA-AAA
* * * *
3118169 TTTGTTTCAAAAGAAACTGTGTCAAGGGAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *
3118205 TTTATTTCAAG-GAAAATATATTC-A-A-AG----AT
1 TTTGTTTCAAGAGAAACTGT-CTCAAGAGAGACAAAA
3118234 TTTGTTTCAATG-GAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAA-GAGAAACTGTCTCAAGAGAGACAAAA
* *
3118270 TTTGTTCCAATG-GAAACCGTCTCAAGAGAGACAAAA
1 TTTGTTTCAA-GAGAAACTGTCTCAAGAGAGACAAAA
3118306 TTTTGTTT
1 -TTTGTTT
3118314 TGAGTAAATT
Statistics
Matches: 256, Mismatches: 41, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
28 1 0.00
29 31 0.12
30 9 0.04
31 2 0.01
32 4 0.02
33 4 0.02
34 1 0.00
35 9 0.04
36 161 0.63
37 34 0.13
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:3118028 original size:124 final size:125
Alignment explanation
Indices: 3117836--3118313 Score: 396
Period size: 138 Copynumber: 3.6 Consensus size: 125
3117826 CAAAGATTGG
* *
3117836 TGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAACTTTGTTTGAAGGGAAACTGTCTTAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTTAAGAGAG
3117901 ACAAAATTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAACTTAGTTACAGAAGATTT
66 ACAAAATTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAACTTAGTTACAGAAGATTT
* *
3117961 TGTTTCAAGTGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGT-TTCAATAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTT-AAGAGA
* * *
3118024 GACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTTGTTTCAAGGGAAACAGAT
65 GACAAAATTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAACTTAG-TT--------ACAG--
3118088 TCAAAGATTT
119 ---AAGATTT
* * * * * *
3118098 TATTTCAAGGGAAACTATCTCAAGAGAGACAAAAAC-AT-TTTCAAGAGAAACTGTCTCAAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAACTTTGTTTCAAGGGAAACTGTCTTAAGAGA
* * * * * *
3118161 GACATAACTTTGTTTCAAAAGAAACTGTGTCAAGGGAGACGAAATTTATTTCAAGGAAAATATAT
65 GACA-AAATTTGTTTCAAGAGAAAATGTCTCAAGAGAGAC-AAA---ACTT--A-G----T-TA-
3118226 TCA-AAGATTT
116 -CAGAAGATTT
* * * *
3118236 TGTTTCAATG-GAAACTGTCTCAAGAGAGACAAAA-TTTGTTCCAATGGAAACCGTCTCAAGAGA
1 TGTTTCAA-GAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTTAAGAGA
3118299 GACAAAATTTTGTTT
65 GACAAAA-TTTGTTT
3118314 TGAGTAAATT
Statistics
Matches: 287, Mismatches: 29, Indels: 61
0.76 0.08 0.16
Matches are distributed among these distances:
123 5 0.02
124 67 0.23
125 32 0.11
132 4 0.01
137 65 0.23
138 102 0.36
139 3 0.01
142 2 0.01
143 2 0.01
144 2 0.01
146 1 0.00
149 1 0.00
150 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (125 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTTAAGAGAG
ACAAAATTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAACTTAGTTACAGAAGATTT
Found at i:3118076 original size:21 final size:21
Alignment explanation
Indices: 3117980--3118077 Score: 58
Period size: 21 Copynumber: 5.2 Consensus size: 21
3117970 TGAAACTGTC
*
3117980 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACGAAATTTGTT
*
3118001 TC-A-AG-G--GAAA-CTGTT
1 TCAAGAGAGACGAAATTTGTT
* *
3118016 TCAATAGAGACAAAATTTGTT
1 TCAAGAGAGACGAAATTTGTT
* *
3118037 TC---A-AGA-GAAA-CTGTC
1 TCAAGAGAGACGAAATTTGTT
3118052 TCAAGAGAGACGAAATTTGTT
1 TCAAGAGAGACGAAATTTGTT
3118073 TCAAG
1 TCAAG
3118078 GGAAACAGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 24
0.63 0.10 0.27
Matches are distributed among these distances:
15 11 0.20
16 7 0.12
17 5 0.09
18 4 0.07
19 5 0.09
20 8 0.14
21 16 0.29
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (21 bp):
TCAAGAGAGACGAAATTTGTT
Found at i:3118236 original size:138 final size:134
Alignment explanation
Indices: 3117954--3118313 Score: 477
Period size: 138 Copynumber: 2.6 Consensus size: 134
3117944 TTAGTTACAG
* *
3117954 AAGATTTTGTTTCAAGTGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTTTCA
1 AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT-TTTCAA-GGAAACTGTCTCA
* * * *
3118019 ATAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGGAAAC
63 AGAGAGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGAGAGACGAAATTTATTTCAAGGAAAAC
3118084 AGATTCA
128 AGATTCA
* * *
3118091 AAGATTTTATTTCAAGGGAAACTATCTCAAGAGAGACAAAAACATTTTCAAGAGAAACTGTCTCA
1 AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAA-TTTTTCAAG-GAAACTGTCTCA
* * *
3118156 AGAGAGACATAACTTTGTTTCAAAAGAAACTGTGTCAAGGGAGACGAAATTTATTTCAAGGAAAA
63 AGAGAGACA-AAATTTGTTTCAAAAGAAACTGTCTCAAGAGAGACGAAATTTATTTCAAGGAAAA
* *
3118221 TATATTCA
127 CAGATTCA
* *
3118229 AAGATTTTGTTTCAATGGAAACTGTCTCAAGAGAGACAAAATTTGTTCCAATGGAAACCGTCTCA
1 AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT-TT-CAA-GGAAACTGTCTCA
3118294 AGAGAGACAAAATTTTGTTT
63 AGAGAGACAAAA-TTTGTTT
3118314 TGAGTAAATT
Statistics
Matches: 195, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
136 3 0.02
137 67 0.34
138 124 0.64
139 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (134 bp):
AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTTCAAGGAAACTGTCTCAAGA
GAGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGAGAGACGAAATTTATTTCAAGGAAAACAGA
TTCA
Found at i:3120411 original size:95 final size:94
Alignment explanation
Indices: 3120212--3120474 Score: 289
Period size: 95 Copynumber: 2.7 Consensus size: 94
3120202 GGCTAGCTGA
* * * * * *
3120212 ATCCATAAAGCTGGGGCATTTAACCAATTGCTCTAGAGGGACAGCTTAATATCATTGTATAG-AT
1 ATCCATAAAGCCGAGGCA-TTAACCAATTGCTCTAGAGGGACAAC-TCA-AGCTTTGT-T-GTAT
*
3120276 ATTATAATTACCCTTATCAGGCTAGCTGAATATT
61 ATTATAATCACCCTTATCAGGCTAGCTGAATATT
*
3120310 ATCCATAAAGCCGAGGCGATTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTGTTGTACATTA
1 ATCCATAAAGCCGAGGC-ATTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTGTTGTATATTA
* *
3120375 TAATCACCTTTATCAGGCTAGCTGAATCTT
65 TAATCACCCTTATCAGGCTAGCTGAATATT
* * * *
3120405 ATCCATAAAGCC-AGAGCTTTTAACCAATTGCTTTAAAGGGACATA-TCAAGCTTTATTGTATAT
1 ATCCATAAAGCCGAG-GC-ATTAACCAATTGCTCTAGAGGGACA-ACTCAAGCTTTGTTGTATAT
3120468 ATATAAT
63 -TATAAT
3120475 ATTATAATCT
Statistics
Matches: 144, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
94 3 0.02
95 85 0.59
96 13 0.09
97 2 0.01
98 40 0.28
99 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (94 bp):
ATCCATAAAGCCGAGGCATTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTGTTGTATATTAT
AATCACCCTTATCAGGCTAGCTGAATATT
Found at i:3124451 original size:17 final size:18
Alignment explanation
Indices: 3124398--3124467 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 18
3124388 AAAACAGGTG
* * *
3124398 AAATATAGAAAGTAATAAC
1 AAATATA-AAAATAAAAAT
3124417 AAATATAAAAATAAAAAT
1 AAATATAAAAATAAAAAT
* *
3124435 AAAT-TAAAGATAGAAAT
1 AAATATAAAAATAAAAAT
* *
3124452 AAGTAAAATAAATAAA
1 AAATATAA-AAATAAA
3124468 GTAAAGAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 14 0.35
18 14 0.35
19 12 0.30
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATATAAAAATAAAAAT
Found at i:3124588 original size:15 final size:15
Alignment explanation
Indices: 3124568--3124611 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
3124558 CATAAATTAA
*
3124568 AAAATAGAAATAATG
1 AAAATAAAAATAATG
3124583 AAAATAAAAATAAT-
1 AAAATAAAAATAATG
*
3124597 AATAATAATAATAAT
1 AA-AATAAAAATAAT
3124612 AAAGAGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 2 0.08
15 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
AAAATAAAAATAATG
Found at i:3124599 original size:3 final size:3
Alignment explanation
Indices: 3124576--3124613 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
3124566 AAAAAATAGA
*
3124576 AAT AAT GAA- AAT AAA AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3124614 AGAGAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:3124683 original size:29 final size:30
Alignment explanation
Indices: 3124645--3124701 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
3124635 TTAAATATAG
3124645 ATATAAATATTAATAAAAA-ATA-AAATAAAA
1 ATATAAATATT--TAAAAATATACAAATAAAA
3124675 ATAT-AATATTTAAAAATATACAAATAA
1 ATATAAATATTTAAAAATATACAAATAA
3124702 GTGATAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 6 0.24
28 3 0.12
29 12 0.48
30 4 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (30 bp):
ATATAAATATTTAAAAATATACAAATAAAA
Found at i:3126172 original size:12 final size:13
Alignment explanation
Indices: 3126155--3126183 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3126145 TTTCCCTTCA
3126155 TTTCACCA-TCTT
1 TTTCACCATTCTT
3126167 TTTCACCATTCTT
1 TTTCACCATTCTT
3126180 TTTC
1 TTTC
3126184 TTGGCAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTCACCATTCTT
Found at i:3126901 original size:106 final size:106
Alignment explanation
Indices: 3126754--3126949 Score: 265
Period size: 106 Copynumber: 1.8 Consensus size: 106
3126744 GTTCCATTAT
* *
3126754 TTTTATTTTAAATAGAAATTAATTAGATAATTTATTTTGATTTTACAGATTGAA-CTATATTTGC
1 TTTTATTTTAAATAAAAATTAATTAGATAATTTATTTTGATTTTACAGATT-AAGCTATATTTGA
*
3126818 GTTGTTTGGTAAGTTTAATTTAAATTTTCGTGTAATTTTTAC
65 GTAGTTTGGTAAGTTTAATTTAAATTTTCGTGTAATTTTTAC
* * *
3126860 TTTTATTTTTAAA-AAATAATT-ATTAGACT-ATTTATTTTGATTTTACATATTAAGTTGTATTT
1 TTTTA-TTTTAAATAAA-AATTAATTAGA-TAATTTATTTTGATTTTACAGATTAAGCTATATTT
*
3126922 GAGTAGTTTGGTAAGTTTAGTTTAAATT
63 GAGTAGTTTGGTAAGTTTAATTTAAATT
3126950 ATATTTTTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
105 2 0.03
106 65 0.82
107 12 0.15
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.53
Consensus pattern (106 bp):
TTTTATTTTAAATAAAAATTAATTAGATAATTTATTTTGATTTTACAGATTAAGCTATATTTGAG
TAGTTTGGTAAGTTTAATTTAAATTTTCGTGTAATTTTTAC
Found at i:3129466 original size:21 final size:22
Alignment explanation
Indices: 3129440--3129480 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
3129430 TTTAAGGTGA
3129440 ATTAATATCCATCAT-TTAACT
1 ATTAATATCCATCATATTAACT
3129461 ATTAATATCCATCATATTAA
1 ATTAATATCCATCATATTAA
3129481 TTCAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATCCATCATATTAACT
Found at i:3129506 original size:27 final size:27
Alignment explanation
Indices: 3129457--3129668 Score: 172
Period size: 27 Copynumber: 7.5 Consensus size: 27
3129447 TCCATCATTT
* ** *
3129457 AACTATTAATATCCATCATATTAATTC
1 AACTATTGATATTAATCACATTAATTC
* *
3129484 AAATATTGATATTAATAACATTAATTC
1 AACTATTGATATTAATCACATTAATTC
* *
3129511 AACTATTGATATTATTCACATTCATTC
1 AACTATTGATATTAATCACATTAATTC
* * *
3129538 AACTATTGATATTAATCATATTCATTA
1 AACTATTGATATTAATCACATTAATTC
* ** *
3129565 AAATATATCGTCAACAAATATCCATCATATTAATTC
1 AACTAT-T-G-------ATATTAATCACATTAATTC
* *
3129601 AATTATTGATATTAATCGCATTAATTC
1 AACTATTGATATTAATCACATTAATTC
* *
3129628 AACTATTGATATTATTCACATTCATTC
1 AACTATTGATATTAATCACATTAATTC
3129655 AACTATTGATATTA
1 AACTATTGATATTA
3129669 TCCTTCATAT
Statistics
Matches: 149, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
27 125 0.84
28 1 0.01
29 1 0.01
34 1 0.01
35 1 0.01
36 20 0.13
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.42
Consensus pattern (27 bp):
AACTATTGATATTAATCACATTAATTC
Found at i:3132616 original size:45 final size:45
Alignment explanation
Indices: 3132565--3132699 Score: 191
Period size: 45 Copynumber: 3.0 Consensus size: 45
3132555 TTTCTCATAC
3132565 AACCACCAACCACCAACCTACCCGAGATATTAATGGATAATTAAT
1 AACCACCAACCACCAACCTACCCGAGATATTAATGGATAATTAAT
* * *
3132610 AACCACCAACCACCAACCTACCCGAGTTATTAATAGATAATTATT
1 AACCACCAACCACCAACCTACCCGAGATATTAATGGATAATTAAT
* ** *
3132655 AACCACCAACCACCAACATA-TTGATATTATTAATGGATAATTAAT
1 AACCACCAACCACCAACCTACCCGAGA-TATTAATGGATAATTAAT
3132700 GCTGCAATTA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 2 0.03
45 77 0.97
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.24
Consensus pattern (45 bp):
AACCACCAACCACCAACCTACCCGAGATATTAATGGATAATTAAT
Found at i:3132894 original size:38 final size:38
Alignment explanation
Indices: 3132843--3132918 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
3132833 TTCAACCACC
* * *
3132843 AACCACTAACCTACTCGGGTTATTAATAGATAATTAAT
1 AACCACCAACCTACCCGGATTATTAATAGATAATTAAT
* *
3132881 AACCACCAACCTACCCTGATTATTAATGGATAATTAAT
1 AACCACCAACCTACCCGGATTATTAATAGATAATTAAT
3132919 TATTGGTGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (38 bp):
AACCACCAACCTACCCGGATTATTAATAGATAATTAAT
Found at i:3132957 original size:25 final size:25
Alignment explanation
Indices: 3132929--3132988 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
3132919 TATTGGTGTC
*
3132929 ATTATTTTTTATCATTATAATAAAT
1 ATTATTTTTCATCATTATAATAAAT
*
3132954 ATTATTTTTCGTCATTATAATAAAT
1 ATTATTTTTCATCATTATAATAAAT
3132979 ATTATTTTTC
1 ATTATTTTTC
3132989 TACTACAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (25 bp):
ATTATTTTTCATCATTATAATAAAT
Found at i:3133978 original size:38 final size:40
Alignment explanation
Indices: 3133936--3134019 Score: 95
Period size: 38 Copynumber: 2.2 Consensus size: 40
3133926 GACGATGCCG
* *
3133936 AGAAATTCTGA-AGTATTCCTGGTT-GCCTGAAGACGCCA
1 AGAAATTCTGAGAGTATTCCTGATTGGCCTAAAGACGCCA
* * *
3133974 AGAAA-TCTTAGAGTCTTCCTGATTGGCCTAAAGACGCCG
1 AGAAATTCTGAGAGTATTCCTGATTGGCCTAAAGACGCCA
3134013 A-AAATTC
1 AGAAATTC
3134020 CTGGAGACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
37 4 0.11
38 19 0.50
39 15 0.39
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (40 bp):
AGAAATTCTGAGAGTATTCCTGATTGGCCTAAAGACGCCA
Found at i:3136599 original size:31 final size:31
Alignment explanation
Indices: 3136522--3136587 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
3136512 CCTCTTTTGG
* *
3136522 TCAC-TAAATTT-AAAATATTTTTAATTTAA
1 TCACTTAAATTTCCAAATATTCTTAATTTAA
*
3136551 TTACTTAAATTTCCAAATATTCTTAATTTAA
1 TCACTTAAATTTCCAAATATTCTTAATTTAA
3136582 TCACTT
1 TCACTT
3136588 TAACTTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.10
30 7 0.23
31 21 0.68
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (31 bp):
TCACTTAAATTTCCAAATATTCTTAATTTAA
Found at i:3138720 original size:15 final size:15
Alignment explanation
Indices: 3138682--3138721 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
3138672 ATCCAACGGA
3138682 GGACGGTGGAGATCC
1 GGACGGTGGAGATCC
*
3138697 GGACAGTGGAGATCC
1 GGACGGTGGAGATCC
*
3138712 GGGCGGTGGA
1 GGACGGTGGA
3138722 AGCCAAGGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.50, T:0.12
Consensus pattern (15 bp):
GGACGGTGGAGATCC
Found at i:3138978 original size:24 final size:22
Alignment explanation
Indices: 3138934--3138976 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
3138924 CTCTCTCTAA
*
3138934 AAATTTAAAAAACGGAAAAATG
1 AAATTTAAAAAAAGGAAAAATG
3138956 AAATGTTAAAAAAAGGAAAAA
1 AAAT-TTAAAAAAAGGAAAAA
3138977 ATTTTGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.67, C:0.02, G:0.14, T:0.16
Consensus pattern (22 bp):
AAATTTAAAAAAAGGAAAAATG
Found at i:3143358 original size:10 final size:10
Alignment explanation
Indices: 3143345--3143431 Score: 53
Period size: 10 Copynumber: 8.9 Consensus size: 10
3143335 AGAAGAGAGA
*
3143345 AAAAGAAAAC
1 AAAAGAAAAG
*
3143355 AAAAGATAGAG
1 AAAAGA-AAAG
3143366 AAAA-AAAGAG
1 AAAAGAAA-AG
3143376 AAAAGAGAAA-
1 AAAAGA-AAAG
3143386 AAAGAGAAAAG
1 AAA-AGAAAAG
3143397 AAAAGAAATA-
1 AAAAGAAA-AG
*
3143407 AATA-AAAAG
1 AAAAGAAAAG
3143416 -AAAG-AAAG
1 AAAAGAAAAG
3143424 -AAAGAAAA
1 AAAAGAAAA
3143432 ATAAGAAGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
8 11 0.18
9 7 0.11
10 27 0.44
11 15 0.24
12 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.03
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:3143386 original size:16 final size:16
Alignment explanation
Indices: 3143340--3143397 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
3143330 AATGGAGAAG
3143340 AGAGAAAA-AGAAAACA
1 AGAGAAAAGAGAAAA-A
* *
3143356 AAAG-ATAGAGAAAAAA
1 AGAGAAAAGAG-AAAAA
3143372 AGAGAAAAGAGAAAAA
1 AGAGAAAAGAGAAAAA
3143388 AGAGAAAAGA
1 AGAGAAAAGA
3143398 AAAGAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 2 0.06
16 24 0.69
17 9 0.26
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02
Consensus pattern (16 bp):
AGAGAAAAGAGAAAAA
Found at i:3143388 original size:9 final size:9
Alignment explanation
Indices: 3143362--3143442 Score: 53
Period size: 9 Copynumber: 8.8 Consensus size: 9
3143352 AACAAAAGAT
3143362 AGAGAAAAA
1 AGAGAAAAA
*
3143371 A-AGAGAAA
1 AGAGAAAAA
3143379 AGAGAAAAA
1 AGAGAAAAA
3143388 AGAGAAAAGA
1 AGAGAAAA-A
*
3143398 AAAGAAATAA
1 AGAGAAA-AA
*
3143408 ATA-AAAAGA
1 AGAGAAAA-A
3143417 A-AGAAAGAA
1 AGAGAAA-AA
3143426 AGA-AAAATA
1 AGAGAAAA-A
3143435 AGAAGAAA
1 AG-AGAAA
3143443 TAAAACAGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
8 10 0.17
9 31 0.53
10 13 0.22
11 4 0.07
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.04
Consensus pattern (9 bp):
AGAGAAAAA
Found at i:3143433 original size:24 final size:26
Alignment explanation
Indices: 3143384--3143442 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
3143374 AGAAAAGAGA
*
3143384 AAAAAGAGAAAAGAAAAGAAATAAAT
1 AAAAAGAAAAAAGAAAAGAAATAAAT
3143410 AAAAAGAAAGAAAG-AAAG-AA-AAAT
1 AAAAAGAAA-AAAGAAAAGAAATAAAT
*
3143434 AAGAAGAAA
1 AAAAAGAAA
3143443 TAAAACAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 12 0.40
25 2 0.07
26 12 0.40
27 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (26 bp):
AAAAAGAAAAAAGAAAAGAAATAAAT
Found at i:3144671 original size:58 final size:57
Alignment explanation
Indices: 3144571--3144735 Score: 206
Period size: 58 Copynumber: 2.9 Consensus size: 57
3144561 ATATTTTCAA
* * * * * * * *
3144571 AAAGAATTTTTAAAAAAACTAAGCATGATTTTAAGGGATTTCTTGATG-TTGTTTTTC
1 AAAGAATTTTTAAAAAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATT-ATCTCC
*
3144628 AATGAATTTTTAAAATAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATTATCTCC
1 AAAGAATTTTTAAAA-AAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATTATCTCC
*
3144686 AAAGAATTTTTAAAACAAGATAAGCCTAATTTTTAGGGGTTTCTTGATGA
1 AAAGAATTTTTAAAA-AAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGA
3144736 CAATTGAAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
57 14 0.15
58 78 0.83
59 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (57 bp):
AAAGAATTTTTAAAAAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATTATCTCC
Found at i:3145045 original size:58 final size:59
Alignment explanation
Indices: 3144922--3145045 Score: 133
Period size: 58 Copynumber: 2.1 Consensus size: 59
3144912 CAGGGTGTTT
* * ** *
3144922 TCAACATTTCCTTCACTCGATTCATGACATTTTGAATCAGTGATGCCCCACTAGAGGGG
1 TCAACATTTCCTTCACTCGATTCACGACATTTTGAATCAGCGACACCCCACTAGAGGGA
* ** * * * *
3144981 TTAACATTT-CTTTGCTTGATTCACGATATTTTGAATCAGCGACACCTCACTTGAGGGA
1 TCAACATTTCCTTCACTCGATTCACGACATTTTGAATCAGCGACACCCCACTAGAGGGA
3145039 TCAACAT
1 TCAACAT
3145046 CTCACTTGAG
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
58 44 0.85
59 8 0.15
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (59 bp):
TCAACATTTCCTTCACTCGATTCACGACATTTTGAATCAGCGACACCCCACTAGAGGGA
Found at i:3145135 original size:38 final size:38
Alignment explanation
Indices: 3145044--3145149 Score: 142
Period size: 38 Copynumber: 2.8 Consensus size: 38
3145034 AGGGATCAAC
* * *
3145044 ATCTCACTTGAGATAGTTTCACTCTAAACAAATTTTTTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAAA-TTATTT
*
3145083 ATCTCGCTTAAGATAGTTTCACTCAAAACAGAA-TATTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACA-AATTATTT
*
3145121 ATCTCGCTTGAGATAGTTTCACTCGAAAC
1 ATCTCGCTTGAGATAGTTTCACTCAAAAC
3145150 TGATAAGTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 31 0.52
39 27 0.45
40 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (38 bp):
ATCTCGCTTGAGATAGTTTCACTCAAAACAAATTATTT
Found at i:3145385 original size:39 final size:39
Alignment explanation
Indices: 3145342--3145469 Score: 222
Period size: 39 Copynumber: 3.3 Consensus size: 39
3145332 GCAGGATCGA
3145342 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTT
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTT
*
3145381 TATCTCTCTTGAGATAGTTTCACTCGAAACAGAAGATTT
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTT
*
3145420 TATCTCGCTTGAGATAGTTTCACTCGAAACAGGAGA-TT
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTT
*
3145458 TATCTTGCTTGA
1 TATCTCGCTTGA
3145470 AATTGTTTTT
Statistics
Matches: 85, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 13 0.15
39 72 0.85
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (39 bp):
TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTT
Found at i:3145604 original size:59 final size:58
Alignment explanation
Indices: 3145504--3145667 Score: 256
Period size: 59 Copynumber: 2.8 Consensus size: 58
3145494 TGCTTCACTT
3145504 GAGGGATCAACATTTCATTTGCTCGATTCACAACACTTCGAATCAGCAATGCCCCACCA
1 GAGGGAT-AACATTTCATTTGCTCGATTCACAACACTTCGAATCAGCAATGCCCCACCA
* * * *
3145563 GAGGAGATAACATTTAATTTTCTCGATTCACAGCACTTCGAATCAGCAATGCCCTACCA
1 GAGG-GATAACATTTCATTTGCTCGATTCACAACACTTCGAATCAGCAATGCCCCACCA
*
3145622 GAGGGGATAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAG
1 GA-GGGATAACATTTCATTTGCTCGATTCACAACACTTCGAATCAG
3145668 TGACGTCTCA
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
59 90 0.95
60 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (58 bp):
GAGGGATAACATTTCATTTGCTCGATTCACAACACTTCGAATCAGCAATGCCCCACCA
Found at i:3146765 original size:25 final size:23
Alignment explanation
Indices: 3146712--3146757 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
3146702 TCTCTAAAAC
3146712 ATAAAAAAAGGAAAAAGAAATGT
1 ATAAAAAAAGGAAAAAGAAATGT
3146735 ATAAAAAAAGG-AAAA-AAATGT
1 ATAAAAAAAGGAAAAAGAAATGT
3146756 AT
1 AT
3146758 TTATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 8 0.35
22 4 0.17
23 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (23 bp):
ATAAAAAAAGGAAAAAGAAATGT
Found at i:3147233 original size:11 final size:11
Alignment explanation
Indices: 3147217--3147243 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3147207 AATTAGGCCC
3147217 TTATTTTATAT
1 TTATTTTATAT
3147228 TTATTTTATAT
1 TTATTTTATAT
3147239 TTATT
1 TTATT
3147244 CTTTTTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTTATAT
Found at i:3147277 original size:16 final size:16
Alignment explanation
Indices: 3147217--3147289 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 16
3147207 AATTAGGCCC
*
3147217 TTATTTTATATT-TATT
1 TTATTTTAT-TTGTTTT
*
3147233 TTATATTTA-TTCTTTT
1 TTAT-TTTATTTGTTTT
3147249 TTACTGTTT-TTTGTTTT
1 TTA-T-TTTATTTGTTTT
3147266 TTATTTTATTTGTTATT
1 TTATTTTATTTGTT-TT
*
3147283 TAATTTT
1 TTATTTT
3147290 TAATTAAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
15 5 0.11
16 17 0.36
17 25 0.53
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (16 bp):
TTATTTTATTTGTTTT
Found at i:3149073 original size:21 final size:21
Alignment explanation
Indices: 3149048--3149087 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3149038 GAAATTTTCA
3149048 AAAGTTT-CAAAGAATTTAATT
1 AAAGTTTCCAAA-AATTTAATT
3149069 AAAGTTTCCAAAAATTTAA
1 AAAGTTTCCAAAAATTTAA
3149088 AGGATCTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAGTTTCCAAAAATTTAATT
Found at i:3158403 original size:231 final size:235
Alignment explanation
Indices: 3157981--3158449 Score: 910
Period size: 231 Copynumber: 2.0 Consensus size: 235
3157971 TTAACTTTAA
3157981 ACAAAGAGATAAAAAATAAGCAATTATTTGGCGGTAACATTAAACGTTTAAAATATTAACTTGGT
1 ACAAAGAGATAAAAAATAAGCAATTATTTGGCGGTAACATTAAACGTTTAAAATATTAACTTGGT
3158046 ATAAATTAAAGAGTGATGTCGCTCTCACCTCTTGAGAACCCTAGTTTACTAGATTAGTCAAATGC
66 ATAAATTAAAGAGTGATGTCGCTCTCACCTCTTGAGAACCCTAGTTTACTAGATTAGTCAAATGC
3158111 GGATAGAGTCCACTAAAGAGTCAAAGACGTAACAAATGACTCGAATTTCTTTGACTCAACAAATG
131 GGATAGAGTCCACTAAAGAGTCAAAGACGTAACAAATGACTCGAATTTCTTTGACTCAACAAATG
3158176 ACTCAAAATTTTGAGTTAACGTATAGATTTGACCTTATAT
196 ACTCAAAATTTTGAGTTAACGTATAGATTTGACCTTATAT
3158216 ACAAAGAGAT-AAAAA-AAGCAATTATTTGGCGGTAACATTAAACGTTT-AAA-ATTAACTTGGT
1 ACAAAGAGATAAAAAATAAGCAATTATTTGGCGGTAACATTAAACGTTTAAAATATTAACTTGGT
3158277 ATAAATTAAAGAGTGATGTCGCTCTCACCTCTTGAGAACCCTAGTTTACTAGATTAGTCAAATGC
66 ATAAATTAAAGAGTGATGTCGCTCTCACCTCTTGAGAACCCTAGTTTACTAGATTAGTCAAATGC
3158342 GGATAGAGTCCACTAAAGAGTCAAAGACGTAACAAATGACTCGAATTTCTTTGACTCAACAAATG
131 GGATAGAGTCCACTAAAGAGTCAAAGACGTAACAAATGACTCGAATTTCTTTGACTCAACAAATG
3158407 ACTCAAAATTTTGAGTTAACGTATAGATTTGACCTTATAT
196 ACTCAAAATTTTGAGTTAACGTATAGATTTGACCTTATAT
3158447 ACA
1 ACA
3158450 TATATAATAT
Statistics
Matches: 234, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
231 184 0.79
232 3 0.01
233 32 0.14
234 5 0.02
235 10 0.04
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (235 bp):
ACAAAGAGATAAAAAATAAGCAATTATTTGGCGGTAACATTAAACGTTTAAAATATTAACTTGGT
ATAAATTAAAGAGTGATGTCGCTCTCACCTCTTGAGAACCCTAGTTTACTAGATTAGTCAAATGC
GGATAGAGTCCACTAAAGAGTCAAAGACGTAACAAATGACTCGAATTTCTTTGACTCAACAAATG
ACTCAAAATTTTGAGTTAACGTATAGATTTGACCTTATAT
Found at i:3161063 original size:350 final size:350
Alignment explanation
Indices: 3160419--3161092 Score: 1159
Period size: 350 Copynumber: 1.9 Consensus size: 350
3160409 TGTGTTGAAA
* * **
3160419 TGAAAACTTGTGAAATATTTACAAGGATCAATGTGATGTTTCTTTATACGTTTTAGTCGAGGTTT
1 TGAAAACTTGTGAAACATTTACAAGGATCAAAGTGATGCATCTTTATACGTTTTAGTCGAGGTTT
*
3160484 ATTCTTTGTAGGAACTGATTTCTTGTAGTATTGAAATCCTCTTTAGCATACAAGTCTTGTAATAT
66 ATTCTTTGTAGGAACTAATTTCTTGTAGTATTGAAATCCTCTTTAGCATACAAGTCTTGTAATAT
* *
3160549 GATGTTTAGGTTGAAATTGAACATGGCGCTGACTACTGTTTGCTTTCTTTATGATTGCTTTAGAT
131 GATGTTTAGGTTGAAATTGAACATGGCGCTGACTACTGTTGGCTTTCTTTATGATTGCTTCAGAT
* *
3160614 ATTCTCTCCATGGTTTGACTCATGTGTGGCAAGAATGAGTGTTGAAAAATCATGTCAACTGGTTT
196 ATTCTCTCCATGGATTGACTCATGTGTGGCAAGAATGAGTGTTGAAAAATCATGTCAACTAGTTT
*
3160679 GTGAAAGTAATCCCTTAAGTTTCCTAAATGTGGTTCATGAATTAGGAATTCTCGGGAAGAGATTG
261 GTGAAAGTAATCCCTTAAGTTTCCTAAATGTGGTTCATGAATTAGGAATTATCGGGAAGAGATTG
3160744 ATAGACTGCAGAATATTTGTGGTAG
326 ATAGACTGCAGAATATTTGTGGTAG
* **
3160769 TGAAAACTTGTGAAACATTTACCAGGATCAAAGTGATGCATCTTTATGTGTTTTAGTCGAGGTTT
1 TGAAAACTTGTGAAACATTTACAAGGATCAAAGTGATGCATCTTTATACGTTTTAGTCGAGGTTT
* *
3160834 ATTCTTTGTAGGAACTAATTTCTTGTAGTCTTGAAATTCTCTTTAGCATACAAGTCTTGTAATAT
66 ATTCTTTGTAGGAACTAATTTCTTGTAGTATTGAAATCCTCTTTAGCATACAAGTCTTGTAATAT
* *
3160899 GATGTTTAGGTTGAAATTGAACATGGCGCTGGCTACTGTTGGCTTTCTTTATGATTGCTTCATAT
131 GATGTTTAGGTTGAAATTGAACATGGCGCTGACTACTGTTGGCTTTCTTTATGATTGCTTCAGAT
**
3160964 ATTCTCTCCATGGATTGACTCATGTGTGGTGAGAATGAGTGTTGAAAAATCATGTCAACTAGTTT
196 ATTCTCTCCATGGATTGACTCATGTGTGGCAAGAATGAGTGTTGAAAAATCATGTCAACTAGTTT
* *
3161029 GTGAAAGTAATCCCTTAAGTTTCCTAAGTGTGGTTCATGAATTAGGAATTATCGGGAGGAGATT
261 GTGAAAGTAATCCCTTAAGTTTCCTAAATGTGGTTCATGAATTAGGAATTATCGGGAAGAGATT
3161093 TGTACACTAC
Statistics
Matches: 303, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
350 303 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (350 bp):
TGAAAACTTGTGAAACATTTACAAGGATCAAAGTGATGCATCTTTATACGTTTTAGTCGAGGTTT
ATTCTTTGTAGGAACTAATTTCTTGTAGTATTGAAATCCTCTTTAGCATACAAGTCTTGTAATAT
GATGTTTAGGTTGAAATTGAACATGGCGCTGACTACTGTTGGCTTTCTTTATGATTGCTTCAGAT
ATTCTCTCCATGGATTGACTCATGTGTGGCAAGAATGAGTGTTGAAAAATCATGTCAACTAGTTT
GTGAAAGTAATCCCTTAAGTTTCCTAAATGTGGTTCATGAATTAGGAATTATCGGGAAGAGATTG
ATAGACTGCAGAATATTTGTGGTAG
Found at i:3189508 original size:20 final size:20
Alignment explanation
Indices: 3189458--3189522 Score: 94
Period size: 20 Copynumber: 3.1 Consensus size: 20
3189448 AATCAGATTA
3189458 CCCAGGGGGTACAGATTCCC
1 CCCAGGGGGTACAGATTCCC
*
3189478 TCCCTAGGGGGAACAGATTCCC
1 -CCC-AGGGGGTACAGATTCCC
*
3189500 CCCAGGGGGTACCGATTCCC
1 CCCAGGGGGTACAGATTCCC
3189520 CCC
1 CCC
3189523 TGTCTAACGG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
20 18 0.45
21 6 0.15
22 16 0.40
ACGTcount: A:0.18, C:0.38, G:0.28, T:0.15
Consensus pattern (20 bp):
CCCAGGGGGTACAGATTCCC
Found at i:3190776 original size:3 final size:3
Alignment explanation
Indices: 3190755--3190804 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
3190745 TGAAGAAAGG
* *
3190755 GAA G-A GAA GAA AAA CAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
3190802 GAA
1 GAA
3190805 TGAGGACGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:3192501 original size:115 final size:115
Alignment explanation
Indices: 3192371--3192601 Score: 453
Period size: 115 Copynumber: 2.0 Consensus size: 115
3192361 AAAAGGGGGA
*
3192371 GAAGTGTTAAGGTGTTAAAGGGGAGAAGTGTTAAAGTAAGGGGGAGTAATTTCAAACTTTATTTC
1 GAAGTGTTAAGGTGTTAAAGGGGAGAAGTGTTAAAGTAAGCGGGAGTAATTTCAAACTTTATTTC
3192436 AAAATCTTAAAATTACTCAAATGTTTTGTTATATCAAAAAGGGGGAGATT
66 AAAATCTTAAAATTACTCAAATGTTTTGTTATATCAAAAAGGGGGAGATT
3192486 GAAGTGTTAAGGTGTTAAAGGGGAGAAGTGTTAAAGTAAGCGGGAGTAATTTCAAACTTTATTTC
1 GAAGTGTTAAGGTGTTAAAGGGGAGAAGTGTTAAAGTAAGCGGGAGTAATTTCAAACTTTATTTC
3192551 AAAATCTTAAAATTACTCAAATGTTTTGTTATATCAAAAAGGGGGAGATT
66 AAAATCTTAAAATTACTCAAATGTTTTGTTATATCAAAAAGGGGGAGATT
3192601 G
1 G
3192602 TTAAAAACAT
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 115 1.00
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.32
Consensus pattern (115 bp):
GAAGTGTTAAGGTGTTAAAGGGGAGAAGTGTTAAAGTAAGCGGGAGTAATTTCAAACTTTATTTC
AAAATCTTAAAATTACTCAAATGTTTTGTTATATCAAAAAGGGGGAGATT
Found at i:3192906 original size:19 final size:20
Alignment explanation
Indices: 3192866--3192908 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3192856 AATCAGATTG
3192866 CCCAAGGGGTACAGATTCCC
1 CCCAAGGGGTACAGATTCCC
* *
3192886 CCCAGGGGGTACCGATTCCC
1 CCCAAGGGGTACAGATTCCC
3192906 CCC
1 CCC
3192909 TGTCTAACGG
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:0.19, C:0.42, G:0.26, T:0.14
Consensus pattern (20 bp):
CCCAAGGGGTACAGATTCCC
Found at i:3193827 original size:45 final size:45
Alignment explanation
Indices: 3193723--3194271 Score: 755
Period size: 45 Copynumber: 12.2 Consensus size: 45
3193713 GTTTTTATTA
* **
3193723 CATAAATGAAATGCATAACGGTGCATTAAA-TCATGAAATAATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
3193767 CATAAATGAAATGCATAACGGTGCATTAAAGGCATTAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
3193812 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAATGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
3193857 CATAAATGAAATGCATAACAGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
3193902 CATAAATGAAATGCATAAGGGTGCATTAAAGGTATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
3193947 CATAAATGAAATGCATAACAGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * * *
3193992 CATAAATGAAATGTATAACGGTGCATTAAATG-AGTGAAAGAATGA
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCA-TGAAAGGATGC
* * *
3194037 CATAAATGAAATGCATAATGGTGCATTAAAGTCATGAAAGGATTC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
3194082 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
** * * * *
3194127 TGTAAATGAAAT-CTGTAACTGTGCATTAAAAGCATGAAAGGTTGC
1 CATAAATGAAATGC-ATAACGGTGCATTAAAGGCATGAAAGGATGC
* * * * *
3194172 CATAAATAAAATTCATAACGATGCATTAAAGGCAT-AAATGATAC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* ** * *
3194216 CATAAATGAAATGCACAATTGTGCATTAAATGCATTAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
3194261 CATAAGTGAAA
1 CATAAATGAAA
3194272 ATAGCGAATA
Statistics
Matches: 444, Mismatches: 55, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
44 66 0.15
45 376 0.85
46 2 0.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
Found at i:3200407 original size:21 final size:21
Alignment explanation
Indices: 3200382--3200430 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
3200372 GAACAGTATT
*
3200382 GATACTGATGCAATTAGAATC
1 GATACTGATGCAATTAGAACC
* *
3200403 GATACTGATGTAATTAGTACC
1 GATACTGATGCAATTAGAACC
3200424 GATACTG
1 GATACTG
3200431 TTGTGGGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (21 bp):
GATACTGATGCAATTAGAACC
Found at i:3201042 original size:24 final size:23
Alignment explanation
Indices: 3201013--3201087 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 23
3201003 GTTAACATTA
3201013 CATAAATGAAATGCATAACGGTG
1 CATAAATGAAATGCATAACGGTG
* *
3201036 CAT---T-AAAGGCATGAAAGGATG
1 CATAAATGAAATGCAT-AACGG-TG
*
3201057 CCATAAATGAAAAGCATAACGGTG
1 -CATAAATGAAATGCATAACGGTG
3201081 CAATAAA
1 C-ATAAA
3201088 GGAATTAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
19 7 0.17
20 5 0.12
21 2 0.05
22 3 0.08
23 4 0.10
24 7 0.17
25 5 0.12
26 7 0.17
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (23 bp):
CATAAATGAAATGCATAACGGTG
Found at i:3212309 original size:45 final size:45
Alignment explanation
Indices: 3212204--3212445 Score: 333
Period size: 45 Copynumber: 5.4 Consensus size: 45
3212194 AAGCAATCAT
* * ** *
3212204 GATGCCAAAAATGAAATGCATAACATTGCATTAAACCCACGAAAAG
1 GATGCCATAAATGAAATGCATAACAGTGCATTAAAGGCA-TAAAAG
3212250 GATGCCATAAATGAAATGCATAACAGTGCATTAAAGGCATAAAAG
1 GATGCCATAAATGAAATGCATAACAGTGCATTAAAGGCATAAAAG
* * *
3212295 GATGCCATAAATGAAATGCATAACGGTGCATTAAAGTCATTAAAG
1 GATGCCATAAATGAAATGCATAACAGTGCATTAAAGGCATAAAAG
* *
3212340 GATGCCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAG
1 GATGCCATAAATGAAATGCATAACAGTGCATTAAAGGCATAAAAG
* ** *
3212385 GAT-CGCATAAATGAAATGCACAATTGTGCATTAAAGGCATGAAAG
1 GATGC-CATAAATGAAATGCATAACAGTGCATTAAAGGCATAAAAG
3212430 GATGCCATAAATGAAA
1 GATGCCATAAATGAAA
3212446 ATAGTGAATA
Statistics
Matches: 181, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
44 1 0.01
45 144 0.80
46 36 0.20
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (45 bp):
GATGCCATAAATGAAATGCATAACAGTGCATTAAAGGCATAAAAG
Found at i:3213189 original size:27 final size:27
Alignment explanation
Indices: 3213171--3213248 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
3213161 AATTATACCT
*
3213171 ATTATTTAATTTAAATTAATTAAAAAG
1 ATTAATTAATTTAAATTAATTAAAAAG
*
3213198 ATTAATTAATTTAAATTAATTAAAAAA
1 ATTAATTAATTTAAATTAATTAAAAAG
* *
3213225 ATTAATTAATTCAAAATAA-TAAAA
1 ATTAATTAATTTAAATTAATTAAAA
3213249 TCCCTAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 5 0.11
27 42 0.89
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (27 bp):
ATTAATTAATTTAAATTAATTAAAAAG
Found at i:3213203 original size:13 final size:12
Alignment explanation
Indices: 3213183--3213233 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 12
3213173 TATTTAATTT
3213183 AAATTAATTAAA
1 AAATTAATTAAA
*
3213195 AAGATTAATTAATTT
1 AA-ATTAATTAA--A
3213210 AAATTAATTAAAA
1 AAATTAATT-AAA
3213223 AAATTAATTAA
1 AAATTAATTAA
3213234 TTCAAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
12 4 0.12
13 18 0.55
14 7 0.21
15 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
AAATTAATTAAA
Found at i:3219592 original size:28 final size:29
Alignment explanation
Indices: 3219524--3219595 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 29
3219514 GAAAATTACC
3219524 ATTTTGGTC-CTTGAACTTTCTAAACATTAT
1 ATTTTGGTCAC-T-AACTTTCTAAACATTAT
* * *
3219554 ACTTT-GCCACTAACTTTC-AAACTTTAT
1 ATTTTGGTCACTAACTTTCTAAACATTAT
3219581 ATTTTGGTCACTAAC
1 ATTTTGGTCACTAAC
3219596 CAAAATTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 12 0.34
28 15 0.43
29 3 0.09
30 5 0.14
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (29 bp):
ATTTTGGTCACTAACTTTCTAAACATTAT
Found at i:3220890 original size:34 final size:32
Alignment explanation
Indices: 3220828--3220897 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
3220818 ACCTTACAAG
* *
3220828 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
3220860 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
3220894 TCCC
1 TCCC
3220898 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:3222287 original size:20 final size:20
Alignment explanation
Indices: 3222224--3222291 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
3222214 AATGTAATTA
* *
3222224 GTGCATCGATGCATTCTTCT
1 GTGCATCGATGCATCCTGCT
* * **
3222244 GTACATCGATCCATCAAGGCT
1 GTGCATCGATGCATC-CTGCT
3222265 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
3222285 GTGCATC
1 GTGCATC
3222292 CATGAACGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:3222701 original size:34 final size:32
Alignment explanation
Indices: 3222662--3222731 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
3222652 TTTTGTAAAG
* *
3222662 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
* *
3222696 GGGAAAGGTTGTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
3222728 GGGA
1 GGGA
3222732 GTTCTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:3228412 original size:52 final size:52
Alignment explanation
Indices: 3228355--3228478 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 52
3228345 GACAAAAGAT
3228355 GATCTCTCGATGCTCTTACATTGCCAAGACATGTTTTACCAAAACCACAAGC
1 GATCTCTCGATGCTCTTACATTGCCAAGACATGTTTTACCAAAACCACAAGC
* * * *
3228407 GATCTCTCGATGCTCTTACATTGCCAAGATATGTTTTACCAAATCCCCAGGC
1 GATCTCTCGATGCTCTTACATTGCCAAGACATGTTTTACCAAAACCACAAGC
3228459 GATCTCTCGATGCTCTTACA
1 GATCTCTCGATGCTCTTACA
3228479 GTGTTAAGGC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (52 bp):
GATCTCTCGATGCTCTTACATTGCCAAGACATGTTTTACCAAAACCACAAGC
Found at i:3243246 original size:111 final size:111
Alignment explanation
Indices: 3243052--3243256 Score: 347
Period size: 111 Copynumber: 1.8 Consensus size: 111
3243042 TCCACTAATA
*
3243052 AAAGTTATCGATCGATTTTGTTAAATGCATAACGGTGCATTATAGGCATAAAAGGTGCCACCCAT
1 AAAGTTATCGATCAATTTTGTTAAATGCATAACGGTGCATTATAGGCATAAAAGGTGCCACCCAT
* *
3243117 GGTATTCATAAAAGGTGAATTACCATTTCGGCAAACTTCGTGTATG
66 GGTATTAATAAAAGGTGAATGACCATTTCGGCAAACTTCGTGTATG
* * * *
3243163 AAAGTTATCGATCAATTTTGTTTAATGCATAACGGTGCATTATTGGTATAAAAGGTGCCACTCAT
1 AAAGTTATCGATCAATTTTGTTAAATGCATAACGGTGCATTATAGGCATAAAAGGTGCCACCCAT
3243228 GGTATTAATAAAAGGTGAATGACCATTTC
66 GGTATTAATAAAAGGTGAATGACCATTTC
3243257 AGAACTTCGG
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 87 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (111 bp):
AAAGTTATCGATCAATTTTGTTAAATGCATAACGGTGCATTATAGGCATAAAAGGTGCCACCCAT
GGTATTAATAAAAGGTGAATGACCATTTCGGCAAACTTCGTGTATG
Found at i:3245346 original size:3 final size:3
Alignment explanation
Indices: 3245335--3245386 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
3245325 ATTTTTTTTA
* *
3245335 TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAAA TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
3245380 TAT TAT T
1 TAT TAT T
3245387 TACAAACAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:3245429 original size:26 final size:26
Alignment explanation
Indices: 3245393--3245447 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
3245383 TATTTACAAA
* * *
3245393 CAGTTACAAACCAAACTGGACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
3245419 CAGTTACAAACAAAACAGAACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
3245445 CAG
1 CAG
3245448 ACCAACCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.33, G:0.18, T:0.09
Consensus pattern (26 bp):
CAGTTACAAACAAAACAGAACCGGCC
Done.