Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008653.1 Hibiscus syriacus cultivar Beakdansim tig00111644_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: 1778368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:598020 original size:20 final size:20
Alignment explanation
Indices: 597958--598021 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
597948 TCCAGAGAAA
*
597958 GTTCATAATGAGAAGAACTT
1 GTTCATAATAAGAAGAACTT
* * ***
597978 -ATC-TGAAGAAGAAGAAGAA
1 GTTCAT-AATAAGAAGAACTT
597997 GTTCATAATAAGAAGAACTT
1 GTTCATAATAAGAAGAACTT
598017 GTTCA
1 GTTCA
598022 ACCTTTTACT
Statistics
Matches: 30, Mismatches: 11, Indels: 6
0.64 0.23 0.13
Matches are distributed among these distances:
18 1 0.03
19 11 0.37
20 17 0.57
21 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.25
Consensus pattern (20 bp):
GTTCATAATAAGAAGAACTT
Found at i:598315 original size:140 final size:135
Alignment explanation
Indices: 598062--598422 Score: 399
Period size: 140 Copynumber: 2.7 Consensus size: 135
598052 ATAGATCAAC
** * * *
598062 ATCAACATTTCCAGATAAAGTTCATAATGAGAAGAACTTATCTG-AAGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAATTCAT
** * * * * *
598126 AATGAGAAGAACTTGTTTGACTTTAGCTTGATTCATCACCTATGGAGTTGAATGAAAGAAGAACC
66 AATGAGAAGAACTTGTTCAACCTTAGCTTAATTCATCACATATGAAGTTGAAT----CAA-AACC
598191 TCATTTGAGG
126 TCATTTGAGG
* *
598201 ATCAACATTTTCAGAGGAAGTTCATAATGAGAAGAACTCGTCTGAAAAAGGAAGAAGAAATTCAT
1 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAATTCAT
* * * *
598266 AATGACAAGAACTTATTCAACCTT-GCCTTAATTCATCACATATGAAGTTGAATCAACACCTCTT
66 AATGAGAAGAACTTGTTCAACCTTAG-CTTAATTCATCACATATGAAGTTGAATCAAAACCTCAT
598330 TTGAGG
130 TTGAGG
* * * * *
598336 ATCATCATTTCCAAAAGG-AGTTCATAATGAGAAGAACTCACCTGAAGAA-GAA-AAAAAAGTTC
1 ATCAACATTTCC-AGAGGAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAA-TTC
*
598398 ATAATAAGAAGAACTTGTTCAACCT
64 ATAATGAGAAGAACTTGTTCAACCT
598423 CTTGTTAGAT
Statistics
Matches: 190, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
133 5 0.03
134 28 0.15
135 50 0.26
136 6 0.03
139 40 0.21
140 61 0.32
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (135 bp):
ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAATTCAT
AATGAGAAGAACTTGTTCAACCTTAGCTTAATTCATCACATATGAAGTTGAATCAAAACCTCATT
TGAGG
Found at i:599072 original size:3 final size:3
Alignment explanation
Indices: 599064--599094 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
599054 TTTGAATCTG
599064 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
599095 TTTCAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:606722 original size:28 final size:27
Alignment explanation
Indices: 606665--606722 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 27
606655 TATATTGAAT
606665 TTATTTCCTTTAAATATTCCTCTTAATC
1 TTATTTCCTTTAAATATTCCTCTT-ATC
* *
606693 TTATTTACTTTTAAATCTTCCTACTT-TC
1 TTATTT-CCTTTAAATATTCCT-CTTATC
606721 TT
1 TT
606723 GTTTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 10 0.38
29 13 0.50
30 3 0.12
ACGTcount: A:0.22, C:0.21, G:0.00, T:0.57
Consensus pattern (27 bp):
TTATTTCCTTTAAATATTCCTCTTATC
Found at i:608619 original size:825 final size:825
Alignment explanation
Indices: 607017--608667 Score: 2845
Period size: 825 Copynumber: 2.0 Consensus size: 825
607007 CAATAATAAC
* *
607017 CCGAAAGAATTAGTAGATTTTAACCCAAAGATCGAAGCACAAGCCCGAGGAATCCACACACAAAT
1 CCGAAAAAATTAGTAGATTTTAACCCAAAGATCGAAGCACAAGCCCAAGGAATCCACACACAAAT
* *
607082 GCTTCAAGAGAAAAGAAAAAGATAAAAAGAATAAGGGAAGAGTTCAGAAACATATCTAGATCTAG
66 GCTTCAAGAGAAAAGAAAAAGACAAAAAGAACAAGGGAAGAGTTCAGAAACATATCTAGATCTAG
*
607147 AGATAAATTCTGAAGTTGATGTATATACCGCGATAAATTACGAAGATCAGATCTTGATGGAAGAA
131 AGATAAATTCTGAAGTTGATGTATATACCGAGATAAATTACGAAGATCAGATCTTGATGGAAGAA
607212 GAACAAATAATTCGGGAGCTAACAGTAGCTCCTACCACTCCACGCCATTATGCATAGCCTTTCCT
196 GAACAAATAATTCGGGAGCTAACAGTAGCTCCTACCACTCCACGCCATTATGCATAGCCTTTCCT
607277 CAAGGCAAAACTATGTTCTAATTGAAGACAAGACTTATTCATCTTCTTCTCACTTTTCGCGGTCT
261 CAAGGCAAAACTATGTTCTAATTGAAGACAAGACTTATTCATCTTCTTCTCACTTTTCGCGGTCT
607342 TCCCAATGAAAATCTGCACAAACACTTGACGGAATTCCAAATGGTTTGCTCTAGAATGAAACCAC
326 TCCCAATGAAAATCTGCACAAACACTTGACGGAATTCCAAATGGTTTGCTCTAGAATGAAACCAC
*
607407 AGGGAGTTACTAAAGATCAAATAAAACTCAGAGCTTTCCCTTTTTACTTGGCCAATTCGACTAAG
391 AGGGAGTTACTAAAGATCAAATAAAACTCAAAGCTTTCCCTTTTTACTTGGCCAATTCGACTAAG
*
607472 GAATGACTATTTTACTTACCTCCAAATTCAGTTAATTCATGGGTTGAAACAAGTCAAATTTTTCT
456 GAATGACTATTTTACTTACCTCCAAATTCAGTTAATTCATGGGCTGAAACAAGTCAAATTTTTCT
*
607537 TGACATGTACTTCCCAGTAGCCAAAGCAAGTAAGTTATGAAGGAGCATCCTCTTAATCCGACAAA
521 TAACATGTACTTCCCAGTAGCCAAAGCAAGTAAGTTATGAAGGAGCATCCTCTTAATCCGACAAA
* * * * *
607602 AGCATGAAGAAAATCTTTATGACTACTAGGAGTGCTTCAAGAAGTTTTGCGCAAGTTTTCCACAA
586 AGCACGAAGAAAATCTTAATGACTAATAGGAGCGCTTCAAGAAGTTTTGCGCAAGTTTTCCAAAA
* *
607667 CACGGATTAACCGAGAAAGTGCTTCTTCAATATTTTTACGAATGTCTTCTCCCATGAAAATAAAT
651 CACGGATTAACCGAGAAAATGCTTCTTCAATATTTTTACGAATGCCTTCTCCCATGAAAATAAAT
607732 ATGATCGATGCTGCTATCAGAGGAGCTCTTATAAAAATGACTCCAACAACAGCGAGGGAATTAAT
716 ATGATCGATGCTGCTATCAGAGGAGCTCTTATAAAAATGACTCCAACAACAGCGAGGGAATTAAT
** *
607797 TTTGACAATGGCAGCTAATGCGCAACAGTTTTTAAGTGAACCCAG
781 TTCAACAATAGCAGCTAATGCGCAACAGTTTTTAAGTGAACCCAG
* * * *
607842 CCGAAAAAATTATTAGATTTTAACCCAGAGATCGAAGCATAAGCCCAAGGAATCCGCACACAAAT
1 CCGAAAAAATTAGTAGATTTTAACCCAAAGATCGAAGCACAAGCCCAAGGAATCCACACACAAAT
* * *
607907 GCTTCAAGAGAAAAGAAAAAGACAAGAAGAACAAGGGCAGAGTTCAGAAACATATCTAGATCTAT
66 GCTTCAAGAGAAAAGAAAAAGACAAAAAGAACAAGGGAAGAGTTCAGAAACATATCTAGATCTAG
* * *
607972 AGATAAATTCTGAAGTTGATGTATATATCGAGATAAATTATGAAGATCAGATCTTGATGGTAGAA
131 AGATAAATTCTGAAGTTGATGTATATACCGAGATAAATTACGAAGATCAGATCTTGATGGAAGAA
* * *
608037 GAACAAATAA-TCTGGGAGCTAGCAGTAGCTCCTTCCACTCCACGCCATTATGCATAGCCTTTTC
196 GAACAAATAATTC-GGGAGCTAACAGTAGCTCCTACCACTCCACGCCATTATGCATAGCCTTTCC
*
608101 TCAAGGCAAAACTCTGTTCTAATTGAAGACAAGACTTATTCATCTTCTTCTCACTTTTCGCGGTC
260 TCAAGGCAAAACTATGTTCTAATTGAAGACAAGACTTATTCATCTTCTTCTCACTTTTCGCGGTC
* *
608166 TTCCCAATGAAAATCTGTACAAACACTTGACGGAATTCCAAATGGTTTGCTCTAGCATGAAACCA
325 TTCCCAATGAAAATCTGCACAAACACTTGACGGAATTCCAAATGGTTTGCTCTAGAATGAAACCA
* *
608231 CAGGGAGTTACTAAAGATCAAATAAAACTCAAAGTTTTCCCTTTTTAGTTGGCCAATTCGACTAA
390 CAGGGAGTTACTAAAGATCAAATAAAACTCAAAGCTTTCCCTTTTTACTTGGCCAATTCGACTAA
*
608296 GGAATGACTATTTTACTTACCTCCAAATTCAGTTAATTCATGGGCTGACACAAGTCAAATTTTTC
455 GGAATGACTATTTTACTTACCTCCAAATTCAGTTAATTCATGGGCTGAAACAAGTCAAATTTTTC
* * * *
608361 TTAACATGTACTTCCTAGTAGCCAAAGTAAGTAAGTTATGAAGGAGTATCCTTTTAATCCGACAA
520 TTAACATGTACTTCCCAGTAGCCAAAGCAAGTAAGTTATGAAGGAGCATCCTCTTAATCCGACAA
*
608426 AAGCACGAAGAAAATCTTAATGACTAATGGGAGCGCTTCAAGAAGTTTTGCGCAAGTTTTCCAAA
585 AAGCACGAAGAAAATCTTAATGACTAATAGGAGCGCTTCAAGAAGTTTTGCGCAAGTTTTCCAAA
* * * *
608491 ACATGGATTAATCGAGAAAATGTTTCTTCAATATTTTTACGAATGCCTTCTTCCATGAAAATAAA
650 ACACGGATTAACCGAGAAAATGCTTCTTCAATATTTTTACGAATGCCTTCTCCCATGAAAATAAA
* * *
608556 TATGATCGATGTTGCTATTAGAGGAGCTCTTATAAACATGACTCCAACAACAGCGAGGGAATTAA
715 TATGATCGATGCTGCTATCAGAGGAGCTCTTATAAAAATGACTCCAACAACAGCGAGGGAATTAA
608621 TTTCAACAATAGCAGCTAATGCGCAACAGTTTTTAAGTGAACCCAG
780 TTTCAACAATAGCAGCTAATGCGCAACAGTTTTTAAGTGAACCCAG
608667 C
1 C
608668 TGACAAGTTC
Statistics
Matches: 776, Mismatches: 49, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
824 2 0.00
825 774 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (825 bp):
CCGAAAAAATTAGTAGATTTTAACCCAAAGATCGAAGCACAAGCCCAAGGAATCCACACACAAAT
GCTTCAAGAGAAAAGAAAAAGACAAAAAGAACAAGGGAAGAGTTCAGAAACATATCTAGATCTAG
AGATAAATTCTGAAGTTGATGTATATACCGAGATAAATTACGAAGATCAGATCTTGATGGAAGAA
GAACAAATAATTCGGGAGCTAACAGTAGCTCCTACCACTCCACGCCATTATGCATAGCCTTTCCT
CAAGGCAAAACTATGTTCTAATTGAAGACAAGACTTATTCATCTTCTTCTCACTTTTCGCGGTCT
TCCCAATGAAAATCTGCACAAACACTTGACGGAATTCCAAATGGTTTGCTCTAGAATGAAACCAC
AGGGAGTTACTAAAGATCAAATAAAACTCAAAGCTTTCCCTTTTTACTTGGCCAATTCGACTAAG
GAATGACTATTTTACTTACCTCCAAATTCAGTTAATTCATGGGCTGAAACAAGTCAAATTTTTCT
TAACATGTACTTCCCAGTAGCCAAAGCAAGTAAGTTATGAAGGAGCATCCTCTTAATCCGACAAA
AGCACGAAGAAAATCTTAATGACTAATAGGAGCGCTTCAAGAAGTTTTGCGCAAGTTTTCCAAAA
CACGGATTAACCGAGAAAATGCTTCTTCAATATTTTTACGAATGCCTTCTCCCATGAAAATAAAT
ATGATCGATGCTGCTATCAGAGGAGCTCTTATAAAAATGACTCCAACAACAGCGAGGGAATTAAT
TTCAACAATAGCAGCTAATGCGCAACAGTTTTTAAGTGAACCCAG
Found at i:610149 original size:55 final size:56
Alignment explanation
Indices: 610031--610136 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 56
610021 CAAAGTGTAC
* * * *
610031 CGATGCACAAGAAGTGCATCGATGTACTCTTTTAAAATACAAACATCGAATGCCAT
1 CGATGCATAAGAAGTGCATCGATGCACCCTATTAAAATACAAACATCGAATGCCAT
*
610087 CGATGCATAAGGAGTGCATCGATGCACCCTATT-AAATACAAACATCGAAT
1 CGATGCATAAGAAGTGCATCGATGCACCCTATTAAAATACAAACATCGAAT
610137 AGGATTTATG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 17 0.38
56 28 0.62
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.24
Consensus pattern (56 bp):
CGATGCATAAGAAGTGCATCGATGCACCCTATTAAAATACAAACATCGAATGCCAT
Found at i:610554 original size:30 final size:30
Alignment explanation
Indices: 610520--610588 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
610510 TTATATGAGT
** *
610520 TATGTGATAAAGGTATGGGAATGATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
610550 TATGTGATAAAGGTATGAAAATAATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
*
610580 TACGTGATA
1 TATGTGATA
610589 CAAATTATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (30 bp):
TATGTGATAAAGGTATGAAAATAATATGTC
Found at i:610834 original size:23 final size:23
Alignment explanation
Indices: 610801--610868 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
610791 ATTATTATAT
*
610801 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* **
610824 GGCACTCCGGTGCAATTCTACAT
1 GGCACTACGGTGCAATTCTACGC
* *
610847 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
610869 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:617454 original size:30 final size:30
Alignment explanation
Indices: 617420--617488 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
617410 TTATATGAGT
** *
617420 TATGTGATAAAGGTATGGGAATGATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
617450 TATGTGATAAAGGTATGAAAATAATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
*
617480 TACGTGATA
1 TATGTGATA
617489 CAAATTATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (30 bp):
TATGTGATAAAGGTATGAAAATAATATGTC
Found at i:617732 original size:23 final size:23
Alignment explanation
Indices: 617699--617789 Score: 119
Period size: 23 Copynumber: 4.0 Consensus size: 23
617689 ATTATTATAT
* *
617699 GGCACTACGGTGAAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
617722 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
**
617745 GGCACTCCGGTGCAATTCTACAT
1 GGCACTCCGGTGCAATTCTACGC
* * *
617768 GGTACTTCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
617790 AACTGTGGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:618985 original size:50 final size:55
Alignment explanation
Indices: 618917--619050 Score: 163
Period size: 59 Copynumber: 2.5 Consensus size: 55
618907 CACACTCCAA
* *
618917 TTTGCCTTTT-ATCGCGACTAGGAGGG-T-T-G-A-TTAGAGCCTTATTATCGAG
1 TTTGCCTTTTCATTGCGACTAGGAGGGTTATAGAACTTAGAGCCATATTATCGAG
*
618966 TTTTCCTTTTCATTGCGACTAGGAGGGTTCGATAAGACACTTAGAGCCATATTATCGAG
1 TTTGCCTTTTCATTGCGACTAGGAGGGTT--AT-AGA-ACTTAGAGCCATATTATCGAG
619025 TTTGCCTTTTCATTGCGACTAGGAGG
1 TTTGCCTTTTCATTGCGACTAGGAGG
619051 TTGGATAGGA
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
49 9 0.13
50 15 0.21
51 1 0.01
54 1 0.01
56 1 0.01
58 1 0.01
59 43 0.61
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.36
Consensus pattern (55 bp):
TTTGCCTTTTCATTGCGACTAGGAGGGTTATAGAACTTAGAGCCATATTATCGAG
Found at i:619039 original size:59 final size:58
Alignment explanation
Indices: 618947--619066 Score: 195
Period size: 59 Copynumber: 2.1 Consensus size: 58
618937 GGAGGGTTGA
* *
618947 TTAGAGCCTTATTATCGAGTTTTCCTTTTCATTGCGACTAGGAGGGTTCGATAAGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGA-GGTTCGATAAGACAC
* *
619006 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGTTGGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGTTCGATAAGACAC
619064 TTA
1 TTA
619067 TCCATCTATT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 16 0.28
59 41 0.72
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (58 bp):
TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGTTCGATAAGACAC
Found at i:622875 original size:120 final size:120
Alignment explanation
Indices: 622657--622885 Score: 361
Period size: 120 Copynumber: 1.9 Consensus size: 120
622647 TTTCAAAAAA
* **
622657 AAAACTTTTGAATCAAACAAAGCTTGCCTTTCTGTCTTTCTCTACTTATCTCCATACAAGAAATC
1 AAAACTTTTGAATCAAACAAAGCTTGCATTGATGTCTTTCTCTACTTATCTCCATACAAGAAATC
*
622722 TACATGGCCTCACTTAAATCTTCTATCTTAAACCCTTAATTTAACTGTTTCAAAC
66 TACATGGCCTCACTTAAATCTTCTATCTAAAACCCTTAATTTAACTGTTTCAAAC
* *
622777 AAAACTTTTGAGTCAAACAAAGCTTGCATTGATGTCTTTTTCTACTTATCTCCATAGCAAG-AAT
1 AAAACTTTTGAATCAAACAAAGCTTGCATTGATGTCTTTCTCTACTTATCTCCATA-CAAGAAAT
* * *
622841 CTTCTTGGCCTCACTTAAATCTTCTTTCTAAAACCCTTAATTTAA
65 CTACATGGCCTCACTTAAATCTTCTATCTAAAACCCTTAATTTAA
622886 TTGAGTCTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
120 95 0.96
121 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.38
Consensus pattern (120 bp):
AAAACTTTTGAATCAAACAAAGCTTGCATTGATGTCTTTCTCTACTTATCTCCATACAAGAAATC
TACATGGCCTCACTTAAATCTTCTATCTAAAACCCTTAATTTAACTGTTTCAAAC
Found at i:627312 original size:23 final size:23
Alignment explanation
Indices: 627280--627324 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
627270 TAAGAATAAT
* *
627280 TCTGCTTGTGTTGCACGTTTATC
1 TCTGCATGTGTTACACGTTTATC
627303 TCTGCATGTGTTACACGTTTAT
1 TCTGCATGTGTTACACGTTTAT
627325 ATATGTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (23 bp):
TCTGCATGTGTTACACGTTTATC
Found at i:629781 original size:20 final size:20
Alignment explanation
Indices: 629740--629782 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
629730 TAAATGTGAA
* * *
629740 AAAAATATTAAATTTAGTTT
1 AAAAATATAAAATTAAGATT
629760 AAAAATATAAAATTAAGATT
1 AAAAATATAAAATTAAGATT
629780 AAA
1 AAA
629783 TAGATATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
AAAAATATAAAATTAAGATT
Found at i:632334 original size:3 final size:3
Alignment explanation
Indices: 632326--632406 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
632316 TCGTTGGTTG
632326 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
632374 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
632407 GGATAAAAGA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:634325 original size:6 final size:6
Alignment explanation
Indices: 634314--634354 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
634304 ATCCTCATCT
634314 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTC
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTC
634355 TTCTCCAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.15, C:0.34, G:0.17, T:0.34
Consensus pattern (6 bp):
GCTTCA
Found at i:637967 original size:4 final size:4
Alignment explanation
Indices: 637958--637988 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
637948 CAATGCATGT
637958 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
637989 CATAGTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:638017 original size:13 final size:13
Alignment explanation
Indices: 637999--638025 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
637989 CATAGTTGAA
637999 CAGTCTTCATATG
1 CAGTCTTCATATG
638012 CAGTCTTCATATG
1 CAGTCTTCATATG
638025 C
1 C
638026 GCGTCTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:650224 original size:23 final size:23
Alignment explanation
Indices: 650194--650245 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
650184 AATACCATAT
**
650194 TAGGTAACGCTTATATAATGTAA
1 TAGGTAACGCTTATATAATAAAA
650217 TAGGTAACGCTTATATAATAAAA
1 TAGGTAACGCTTATATAATAAAA
650240 TAGGTA
1 TAGGTA
650246 TTTAACCGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATAAAA
Found at i:650303 original size:87 final size:87
Alignment explanation
Indices: 650157--650319 Score: 308
Period size: 87 Copynumber: 1.9 Consensus size: 87
650147 TGTTATATAT
*
650157 TATTTAACCGGAAATATTATCAAGTACAATACCATATTAGGTAACGCTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
650222 AACGCTTATATAATAAAATAGG
66 AACGCTTATATAATAAAATAGG
650244 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
*
650309 AGCGCTTATAT
66 AACGCTTATAT
650320 TGACCTATTT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (87 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
AACGCTTATATAATAAAATAGG
Found at i:650707 original size:199 final size:196
Alignment explanation
Indices: 650337--651040 Score: 801
Period size: 199 Copynumber: 3.5 Consensus size: 196
650327 TTTTATAAGT
* * *
650337 AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTGCATTATAATTATCGGTTTCAA
1 AAACCGGTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * * * * *
650402 TATTTTTTGGATCGATATTTTTTTTATAAATGTATCGACACTATATGCGTTCACCCTTTTGGGCA
66 TGTTTTTGGGATCGATA---CTTTTAAAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGCA
*
650467 TTCATTCTGGAAAAAAGTATCGACACAACATTAAAAAGTGTCGACACATTATGTAAACGTATTCT
128 TTCATTCTGGAAAAAA-TATCGACACAA-ATTAAAAAGTGTCGATACATTATGTAAACGTATTCT
650532 CACATA
191 CACATA
* * ** * * * * *
650538 AAATCGATATAAATATACCGGTTATATTACAAAATTACGTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
650603 TGTTTTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGAGTGCACCCGTCT-GGCATT
66 TGTTTTTGGGATCGATAC-TTTTAAAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGCATT
* * * * * * * *
650667 CATTATAGATAGAATATATCGACACAAATTTAATAAGTGTCGATACTTTATG-ATGACCTATTTT
130 CATTCTGGA-A-AAAATATCGACACAAA-TTAAAAAGTGTCGATACATTATGTA-AACGTATTCT
*
650731 CTCATA
191 CACATA
*
650737 AAACCGGTATATTTATACCGGTTACATTGCAAATTTACATATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
650802 T-TTTATTGGGATCGATACTTTTAATAATTGTATCGACACTTTATGCGTGCACCCCGTTTGGGCA
66 TGTTT-TTGGGATCGATACTTTTAA-AAATGTATCGACACTTTATGCGTGCA-CCCGTTTGGGCA
* * * *
650866 TTCATTCTGGACAATAAATATCGACACAAATTACACAAGTGTCGATACATTATGTTGACCTGTTT
128 TTCATTCTGGA-AA-AAATATCGACACAAATTA-AAAAGTGTCGATACATTATG-TAAAC-GTAT
650931 TCT-A-AT-
188 TCTCACATA
* ** * *
650937 TAACCGGTATATTTATACCGGTTACATTGTTAATTTACCTATTACAATATAATTATTGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
651002 TGTTTTTTGGG-TCGATACTTTTAGAAAATGTATCGACAC
66 TG-TTTTTGGGATCGATACTTTTA-AAAATGTATCGACAC
651041 ATATTTAGGT
Statistics
Matches: 423, Mismatches: 63, Indels: 35
0.81 0.12 0.07
Matches are distributed among these distances:
198 24 0.06
199 171 0.40
200 98 0.23
201 122 0.29
202 4 0.01
203 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (196 bp):
AAACCGGTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACTTTTAAAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGCATTC
ATTCTGGAAAAAATATCGACACAAATTAAAAAGTGTCGATACATTATGTAAACGTATTCTCACAT
A
Found at i:654673 original size:199 final size:198
Alignment explanation
Indices: 654321--655487 Score: 1275
Period size: 199 Copynumber: 5.8 Consensus size: 198
654311 CGTTATTTAC
* * * ** * **
654321 AAGTATCGAAACAAATCTAAAATGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCAGT
1 AAGTATCGACACAAATTTAAAA-GTGTCGACACATTATGTAGACCTATTTTCACATAAAACTGGT
* * ** * *
654386 ACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTCGATGTTTTTG
65 ATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * *
654451 GGATCGATACTTTTTATAAATGTATCGACACTTTTTGTGTTCACCCTTTTGGGCATTCATTCTGG
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGG
654516 CAAA
195 CAAA
* * *
654520 AAGTATCGACACATCATTTAAAAGTGTCGACAAATTATGTAGACCTATTTTGACATAAAACTGGT
1 AAGTATCGACACA-AATTTAAAAGTGTCGACACATTATGTAGACCTATTTTCACATAAAACTGGT
* * *
654585 ATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTAG
65 ATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * * * ** * *
654650 GTATCGATA-TTGTTTAAAAATGTATCGAAACTTTATGGGTGCAACCTTTTTAG-ATTTTCCTTG
130 GGATCGATACTT-TTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCA--TTCATTC
*
654713 TGGACCAA
192 TGG-CAAA
* * * ** * * *
654721 AAGTATCGACACAAATCTAAAACGTGTCGATATATTATGTTCACCTATTTTCTCAAAAAAATCGG
1 AAGTATCGACACAAATTTAAAA-GTGTCGACACATTATGTAGACCTATTTTCACATAAAACT-GG
* * * ** * *
654786 TACAATTATATCGGTTATATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTT
64 TATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
** * * * *
654851 GATATCTATACTTTTTATAAATGTATCGACACTTTATGCGTTCATCCTTTTGGACATTCATTCTG
129 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTG
654916 GCAAA
194 GCAAA
* * * * *
654921 AAGTATCGACACATCATTCAAAAGTGTCGACACATTATGTAGAACTATTCTAACATAAAACTGGT
1 AAGTATCGACACA-AATTTAAAAGTGTCGACACATTATGTAGACCTATTTTCACATAAAACTGGT
* * * *
654986 ATATTTATACCGTTTATATTACAAAATTACCTATTACATTATATTTAT-GGATTTTGATGTTTCT
65 ATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCGG-TTTCGATGTTTTT
* * * * *
655050 AGGATCGATA-TTGTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGG-ATTTTCCTT
129 GGGATCGATACTT-TTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCA--TTCATT
* *
655113 GTGGACCAA
191 CTGG-CAAA
* * * * * * * *
655122 AAGTATCGACACAAATTCTACAAGTGTCGATACAATATGTATATCTATTTTCTCAAAAAATTGGT
1 AAGTATCGACACAAATT-TAAAAGTGTCGACACATTATGTAGACCTATTTTCACATAAAACTGGT
* * * ** * *
655187 TTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTG
65 ATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * *
655252 GGATCGATACTTTTTATAATTGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTATGA
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGG
655317 CAAA
195 CAAA
*
655321 AAGTATCGACACAACA-TTAACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACTGG
1 AAGTATCGACACAA-ATTTAA-AAGTGTCGACACATTATGTAGACCTATTTTCACATAAAACTGG
* * * *
655385 TATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATTGATTTCGATGTTTCT
64 TATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* *
655450 GGGATCGATACTTTTTAAAATTGTATCGAAACTTTATG
129 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATG
655488 GGAAACTTTA
Statistics
Matches: 791, Mismatches: 156, Indels: 42
0.80 0.16 0.04
Matches are distributed among these distances:
198 9 0.01
199 382 0.48
200 86 0.11
201 209 0.26
202 102 0.13
203 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (198 bp):
AAGTATCGACACAAATTTAAAAGTGTCGACACATTATGTAGACCTATTTTCACATAAAACTGGTA
TATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGG
GATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGGC
AAA
Found at i:655392 original size:400 final size:399
Alignment explanation
Indices: 654321--655489 Score: 1842
Period size: 401 Copynumber: 2.9 Consensus size: 399
654311 CGTTATTTAC
* * * * *
654321 AAGTATCGAAACAAATCTAAAATGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCAGT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCAAAAAATCGGT
**
654386 ACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTCGATGTTTTTG
66 ACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTG
* *
654451 GGATCGATACTTTTTATAAATGTATCGACACTTTTTGTGTTCACCCTTTTGGGCATTCATTCTGG
131 GGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGG
* * *
654516 CAAAAAGTATCGACACATCATTTAAAAGTGTCGACAAATTATGTAGACCTATTTTGACATAAAAC
196 CAAAAAGTATCGACACATCA-TTAAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAAAC
* *
654581 TGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTTGATGTT
260 TGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGATTTTGATGTT
654646 T-TAGGTATCGATATTGTTTAAAAATGTATCGAAACTTTATGGGTGCAACCTTTTTAGATTTTCC
325 TCTAGG-ATCGATATTGTTTAAAAATGTATCGAAACTTTATGGGTGCAACCTTTTTAGATTTTCC
654710 TTGTGGACCAA
389 TTGTGGACCAA
*
654721 AAGTATCGACACAAATCTAAAACGTGTCGATATATTATGTTCACCTATTTTCTCAAAAAAATCGG
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTC-AAAAAATCGG
* * *
654786 TACAATTATATCGGTTATATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTT
65 TACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTT
** * * *
654851 GATATCTATACTTTTTATAAATGTATCGACACTTTATGCGTTCATCCTTTTGGACATTCATTCTG
130 GGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTG
*
654916 GCAAAAAGTATCGACACATCATTCAAAAGTGTCGACACATTATGTAGAACTATTCTAACATAAAA
195 GCAAAAAGTATCGACACATCATT-AAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAAA
*
654981 CTGGTATATTTATACCGTTTATATTACAAAATTACCTATTACATTATATTTATGGATTTTGATGT
259 CTGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGATTTTGATGT
* * *
655046 TTCTAGGATCGATATTGTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGATTTTCC
324 TTCTAGGATCGATATTGTTTAAAAATGTATCGAAACTTTATGGGTGCAACCTTTTTAGATTTTCC
655111 TTGTGGACCAA
389 TTGTGGACCAA
* * * *
655122 AAGTATCGACACAAATTCTACAA-GTGTCGATACAATATGTAT-ATCTATTTTCTCAAAAAATTG
1 AAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGT-TCACCTATTTTCTCAAAAAATCG
** *
655185 GTTTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTT
64 GTACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTT
* *
655250 TGGGATCGATACTTTTTATAATTGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTAT
129 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCT
* * *
655315 GACAAAAAGTATCGACACAACATTAACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAA
194 GGCAAAAAGTATCGACACATCATTAA-AAGTGTCGACACATTATGTAGACCTATTCTAACATAAA
* *
655380 ACTGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATTGATTTCGATG
258 ACTGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGATTTTGATG
* *
655445 TTTCTGGGATCGATACTT-TTTAAAATTGTATCGAAACTTTATGGG
323 TTTCTAGGATCGATA-TTGTTTAAAAATGTATCGAAACTTTATGGG
655490 AAACTTTAAG
Statistics
Matches: 706, Mismatches: 56, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
399 2 0.00
400 337 0.48
401 356 0.50
402 11 0.02
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (399 bp):
AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCAAAAAATCGGT
ACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTG
GGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGG
CAAAAAGTATCGACACATCATTAAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAAACT
GGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGATTTTGATGTTT
CTAGGATCGATATTGTTTAAAAATGTATCGAAACTTTATGGGTGCAACCTTTTTAGATTTTCCTT
GTGGACCAA
Found at i:655508 original size:15 final size:15
Alignment explanation
Indices: 655488--655526 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
655478 AAACTTTATG
*
655488 GGAAACTTTAAGTTT
1 GGAAACTTTAAGTAT
*
655503 GGAAACTTTATGTAT
1 GGAAACTTTAAGTAT
*
655518 GAAAACTTT
1 GGAAACTTT
655527 GTTGTGGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (15 bp):
GGAAACTTTAAGTAT
Found at i:655814 original size:11 final size:11
Alignment explanation
Indices: 655798--655849 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
655788 TACACATAAC
655798 AATGTTCAAAT
1 AATGTTCAAAT
655809 AATGTTCAAAT
1 AATGTTCAAAT
* *
655820 AATTTTTACATAAC
1 AA-TGTT-CA-AAT
655834 AATGTTCAAAT
1 AATGTTCAAAT
655845 AATGT
1 AATGT
655850 ACCCACAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 20 0.59
12 5 0.15
13 5 0.15
14 4 0.12
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (11 bp):
AATGTTCAAAT
Found at i:659067 original size:200 final size:200
Alignment explanation
Indices: 658417--659899 Score: 1521
Period size: 200 Copynumber: 7.5 Consensus size: 200
658407 CTTATTTTCT
* ** * * *
658417 CATAAAACCGGTATATTTATACCGGTTACATTGGAAATTTACCTATTATATTATAATTATCGGTT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTT
* * * * * ** *
658482 TGGATGTTATTGGGATCGACACTTTTTAAAAATGTATAGACACTTTATGCGCGCA--ACTTTTGG
66 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGG
* * * ** * *
658545 -ATTTCCTTCTGGACAAAAAGTATCGAAACAAATTCCACAAGTGTCGATACATGT-TGTAGACAT
131 CA-TTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACAT-TATGTAGACCT
658608 ATTCTCT-
194 ATTCT-TA
* * ** * * **
658615 CATAAAACCGGTAT-TGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATTTATGGGT
1 CATAAAACCGGTATAT-TTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGT
* * * * * *
658679 TTCAATGTTTCTGGTATCAAAACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTT
65 TTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTG
* *
658744 GCATTCATTCTGGACAAAAAATATCGACACAAAAT-AAAAAGTGTCGATATATTATGTAGACCTA
130 GCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTA
658808 TTCTTA
195 TTCTTA
*
658814 CATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTT
658879 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGG
66 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGG
658944 CATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTAT
131 CATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTAT
659009 TCTTA
196 TCTTA
*
659014 CATAAAACCGGTATACTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTT
* * *
659079 TCGATATTTTTGGGATCGACAC--TTTAT---TCGT-TC-ATCA-TTT-TT-G-GCATTCA-TTA
66 TCGATGTTTTTGGGATCGACACTTTTTATAAAT-GTATCGA-CACTTTATTCGTTCA-TCATTTT
*** * * * *** ** ** * *
659132 TGGACAAAAAGTATC-GACACAAAATAAAAAGTGTCGATACGTTATGTAAACCTACTC-TTACA-
128 TGG-CATTCA-T-TCTG-GAC-----AAAAAGTATCGACACAAAATAAAAAAGT-GTCGATACAT
* * *
659194 TA---A-AACTAGT-ATA
183 TATGTAGACCTATTCTTA
* * * * * * * ** * * *
659207 -TTTATACTGGT-TATAT-TA-C---AAAATTAC-CTATTA-C-ATTATAATTAT--TTGTTTCG
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTA-CATTATAATTATCT-G
659260 -TT-G-T-T-TTTGGGATCGACACTTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTT
64 TTTCGATGTTTTTGGGATCGACAC-TTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTT
** * * * *
659320 TTACATGT-ATTCTGGACAAAAAGTATCGACACAACATTAAAACGTATCGATACATTATGTAGAC
128 TGGCAT-TCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGAC
*
659384 CTATTCTCA
192 CTATTCTTA
* * *
659393 CATAAAACCGGTATATTTATACCGATTATATTACAAAATTACCTATTACATTATATTTAT-GGAT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTG-T
*
659457 TTCGATGTTTTTGGGATCGAAACTTTTTA-AAATTGTATCGACACTTTATTCGTTCATCATTTTT
65 TTCGATGTTTTTGGGATCGACACTTTTTATAAA-TGTATCGACACTTTATTCGTTCATCATTTTT
* * * * *
659521 TGCATTCATTCTGGACAAAAAGTATCTATACAAAATAAAAAAGTGTTGATACATTATGTAGACAT
129 GGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCT
*
659586 ATTCTCA
194 ATTCTTA
* * *
659593 CATAAAACTGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATTTGTT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTT
*
659658 TCGATGTTTTTGGGATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGG
66 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGG
659723 CATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTAT
131 CATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTAT
*
659788 TCTCA
196 TCTTA
* * *
659793 CATAAAACCGATATATTTATATCGGTTATATTAGAAAATTACCTATTACATTATAATTATCTGTT
1 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTT
* * * *
659858 TCGATGTTTTTGAGATCAACACGTTTTATAAATTTATCGACA
66 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACA
659900 TATATGCTTA
Statistics
Matches: 1072, Mismatches: 146, Indels: 132
0.79 0.11 0.10
Matches are distributed among these distances:
178 14 0.01
179 3 0.00
180 25 0.02
181 8 0.01
182 6 0.01
183 7 0.01
184 12 0.01
185 17 0.02
186 11 0.01
187 14 0.01
188 9 0.01
189 3 0.00
190 3 0.00
191 10 0.01
192 14 0.01
193 12 0.01
194 17 0.02
195 13 0.01
196 6 0.01
197 6 0.01
198 111 0.10
199 201 0.19
200 533 0.50
201 17 0.02
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (200 bp):
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTT
TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGG
CATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTAT
TCTTA
Found at i:659474 original size:579 final size:581
Alignment explanation
Indices: 658554--659899 Score: 1861
Period size: 579 Copynumber: 2.3 Consensus size: 581
658544 GATTTCCTTC
* * ** * *
658554 TGGACAAAAAGTATCGAAACAAATTCCACAAGTGTCGATACATGT-TGTAGACATATTCTCT-CA
1 TGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACAT-TATGTAGACCTATTCT-TACA
* * ** * * **
658617 TAAAACCGGTAT-TGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATTTATGGGTTT
64 TAAAA-CAGTATAT-TTATACTGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTT
* * * * *
658681 CAATGTTTCTGGTATCAAAACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTTGC
127 CGATGTTTTTGGGATCAACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTTAC
* *
658746 ATTCATTCTGGACAAAAAATATCGACACAAAATAAAAAGTGTCGATATATTATGTAGACCTATTC
192 ATTCATTCTGGACAAAAAATATCGACACAAAATAAAAAGTATCGATACATTATGTAGACCTATTC
* * * *
658811 TTACATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCT
257 TCACATAAAACCGGTATATTTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCG
*
658876 GTTTCGATGTTTTTGGGATCGACACTTTTTATAAA-TGTATCGACACTTTATTCGTTCATCATTT
322 GTTTCGATGTTTTTGGGATCGAAACTTTTTA-AAATTGTATCGACACTTTATTCGTTCATCATTT
658940 TTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGAC
386 TTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGAC
* * *
659005 CTATTCTTACATAAAACCGGTATACTTATACCGGTTATATTACAAAATTACCTATTACATTATAA
451 ATATTCTCACATAAAACCGGTATACTTATACCGGTTATATTACAAAATTACATATTACATTATAA
659070 TTATCTGTTTCGATATTTTT-G-G-G-ATCGACACTTTATTCGTTCATCATTTTTGGCATTCATT
516 TTATCTGTTTCGATATTTTTGGAGTGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATT
659131 A
581 A
* * *
659132 TGGACAAAAAGTATCGACACAAAAT-AAAAAGTGTCGATACGTTATGTAAACCTACTCTTACATA
1 TGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATA
* *
659196 AAACTAGTATATTTATACTGGTTATATTACAAAATTACCTATTACATTATAATTATTTGTTTCGT
66 AAAC-AGTATATTTATACTGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGA
*
659261 TGTTTTTGGGATCGACACTTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTTACAT
130 TGTTTTTGGGATCAACAC-TTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTTACAT
* * *
659326 GT-ATTCTGGACAAAAAGTATCGACACAACATTAAAACGTATCGATACATTATGTAGACCTATTC
194 -TCATTCTGGACAAAAAATATCGACACAA-AATAAAAAGTATCGATACATTATGTAGACCTATTC
*
659390 TCACATAAAACCGGTATATTTATACCGATTATATTACAAAATTACCTATTACATTATATTTAT-G
257 TCACATAAAACCGGTATATTTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCG
659454 GATTTCGATGTTTTTGGGATCGAAACTTTTTAAAATTGTATCGACACTTTATTCGTTCATCATTT
322 G-TTTCGATGTTTTTGGGATCGAAACTTTTTAAAATTGTATCGACACTTTATTCGTTCATCATTT
* * * *
659519 TTTGCATTCATTCTGGACAAAAAGTATCTATACAAAATAAAAAAGTGTTGATACATTATGTAGAC
386 TTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGAC
* *
659584 ATATTCTCACATAAAACTGGTATATTTATACCGGTTATATTACAAAATTACATATTACATTATAA
451 ATATTCTCACATAAAACCGGTATACTTATACCGGTTATATTACAAAATTACATATTACATTATAA
* *
659649 TTATTTGTTTCGATGTTTTTGGGATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCAT
516 TTATCTGTTTCGATATTTTT-GGA--G--------------TGTATCGACACTTTATTCGTTCAT
*
659714 CATTTTTGGCATTCATTC
564 CATTTTTGGCATTCATTA
*
659732 TGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATA
1 TGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATA
* *
659797 AAACCGATATATTTATA-TCGGTTATATTAGAAAATTACCTATTACATTATAATTATCTGTTTCG
66 AAACAG-TATATTTATACT-GGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCG
* * *
659861 ATGTTTTTGAGATCAACACGTTTTATAAATTTATCGACA
129 ATGTTTTTGGGATCAACACTTTTTATAAATGTATCGACA
659900 TATATGCTTA
Statistics
Matches: 677, Mismatches: 58, Indels: 44
0.87 0.07 0.06
Matches are distributed among these distances:
576 3 0.00
577 94 0.14
578 98 0.14
579 288 0.43
581 1 0.00
584 1 0.00
599 1 0.00
600 83 0.12
601 108 0.16
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (581 bp):
TGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATA
AAACAGTATATTTATACTGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGAT
GTTTTTGGGATCAACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTTACATTC
ATTCTGGACAAAAAATATCGACACAAAATAAAAAGTATCGATACATTATGTAGACCTATTCTCAC
ATAAAACCGGTATATTTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCGGTTT
CGATGTTTTTGGGATCGAAACTTTTTAAAATTGTATCGACACTTTATTCGTTCATCATTTTTGGC
ATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACATATT
CTCACATAAAACCGGTATACTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATC
TGTTTCGATATTTTTGGAGTGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTA
Found at i:660188 original size:19 final size:19
Alignment explanation
Indices: 660164--660212 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
660154 TTACATCCAC
660164 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
660183 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
660202 ATACAAAATTA
1 ATACAAAATTA
660213 ACTCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:661788 original size:18 final size:18
Alignment explanation
Indices: 661766--661858 Score: 118
Period size: 18 Copynumber: 5.2 Consensus size: 18
661756 TCCTCCTTAT
* *
661766 TTCCTCCATTTTTTCTTT
1 TTCCTCCCTTTTTTCTTC
*
661784 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTTTTTTCTTC
*
661802 TTCATCCCTCTTTTT-TTC
1 TTCCTCCCT-TTTTTCTTC
661820 TTCCTCCCTTTTTTCTTC
1 TTCCTCCCTTTTTTCTTC
661838 TTCCT-CCTTCTTTTCTTC
1 TTCCTCCCTT-TTTTCTTC
661856 TTC
1 TTC
661859 ATATTTTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.14
18 53 0.80
19 4 0.06
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (18 bp):
TTCCTCCCTTTTTTCTTC
Found at i:662083 original size:33 final size:33
Alignment explanation
Indices: 662042--662108 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
662032 CCATCTTAAG
662042 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
662075 TTCACCCCTCAACATCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
662108 T
1 T
662109 CCATATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.46, G:0.00, T:0.30
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:662169 original size:21 final size:21
Alignment explanation
Indices: 662145--662186 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
662135 ATTATGCCTC
662145 TCAAGTGTCTCTTCGACTCTT
1 TCAAGTGTCTCTTCGACTCTT
*
662166 TCAAGTTTCTCTTCGACTCTT
1 TCAAGTGTCTCTTCGACTCTT
662187 GATTGTCTTT
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:0.14, C:0.29, G:0.12, T:0.45
Consensus pattern (21 bp):
TCAAGTGTCTCTTCGACTCTT
Found at i:662288 original size:15 final size:15
Alignment explanation
Indices: 662268--662300 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
662258 ACTCTGTTTT
662268 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
*
662283 CCCTCATCGTCATCC
1 CCCTCACCGTCATCC
662298 CCC
1 CCC
662301 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.61, G:0.06, T:0.21
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:664940 original size:161 final size:162
Alignment explanation
Indices: 664615--664946 Score: 483
Period size: 161 Copynumber: 2.1 Consensus size: 162
664605 TCATTTAGAG
*
664615 ACCGATTTTATCATATTTTTACATGTTATATCGTTATGCATCGATACATTTTTATAAAGTATCGA
1 ACCGATTTTATCATATTTTTACATGTTATATCGTTATGCATCGATACATATTTATAAAGTATCGA
* *
664680 CACTTTATAGGTGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAATT
66 CACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGT
* *
664745 ATCGACAATTTCAATATATCTGGTAGCACTTT
131 ATCGACAATTGCAATATATCTGGGAGCACTTT
* * *
664777 ACCGATTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAA-TAATCG
1 ACCGATTTTATCATATTTTTACATGTTATATCGTTATGCATCGATACATATTTATAAAGT-ATCG
* *
664841 ACACTTTATA-GCGCTAAAATTGCTTCT-TCTTTAAATTCACAATGTGTCGATACTTATATTAAA
65 ACACTTTATAGGCGCTAAAACTGCTTCTCT-TTTAAATTCACAAAGTGTCGATACTTATATTAAA
* * *
664904 GTATCGACACTTGCAATATAT-TAGGGATCTCTTT
129 GTATCGACAATTGCAATATATCT-GGGAGCACTTT
*
664938 ACCGGTTTT
1 ACCGATTTT
664947 GTCTTTTCCT
Statistics
Matches: 153, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
160 2 0.01
161 83 0.54
162 68 0.44
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (162 bp):
ACCGATTTTATCATATTTTTACATGTTATATCGTTATGCATCGATACATATTTATAAAGTATCGA
CACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGT
ATCGACAATTGCAATATATCTGGGAGCACTTT
Found at i:665118 original size:182 final size:182
Alignment explanation
Indices: 664777--665269 Score: 774
Period size: 182 Copynumber: 2.7 Consensus size: 182
664767 GTAGCACTTT
* *
664777 ACCGATTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAATAATCGA
1 ACCGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGA
* *
664842 CACTTTATA-GCGCTAAAATTGCTTCTTCTTTAAATTCACAATGTGTCGATACTTATATTAAAGT
66 CACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGT
* *
664906 ATCGACACTTGCAATATATTAGGGATCTCTTTACCGGTTTTGTCTTTTCCTG
131 ATCGAAACTTGAAATATATTAGGGATCTCTTTACCGGTTTTGTCTTTTCCTG
* *
664958 ACCGGTTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGATACATATTTATAAAGAATCGA
1 ACCGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGA
* * *
665023 CACTTTATAGGTGCTAAAACTACGTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGT
66 CACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGT
* *
665088 ATCGAAACTTGAAATATATCT-GGTATCTCTTTACCGGTTTTGTCTTTTCTTG
131 ATCGAAACTTGAAATATAT-TAGGGATCTCTTTACCGGTTTTGTCTTTTCCTG
* * * * * *
665140 ACTGATTTTGTCATAATTTTACATGTTATATCGTTGTTGATCGATATATATTTATAAAGAATTGA
1 ACCGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGA
* *
665205 CACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACTATGTGGCGATACTTATATTAAAGT
66 CACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGT
665270 GTTGAAAACA
Statistics
Matches: 284, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
181 70 0.25
182 213 0.75
183 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (182 bp):
ACCGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGA
CACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGT
ATCGAAACTTGAAATATATTAGGGATCTCTTTACCGGTTTTGTCTTTTCCTG
Found at i:671462 original size:23 final size:20
Alignment explanation
Indices: 671390--671470 Score: 108
Period size: 20 Copynumber: 3.9 Consensus size: 20
671380 TTTTGGTGCA
* *
671390 GAGGGAATCGATTGCCCCAT
1 GAGGGAACCGATTCCCCCAT
671410 GAGGGAACCGATTCCCCCAT
1 GAGGGAACCGATTCCCCCAT
*
671430 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-AT
671451 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
671471 CACAGGGGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
20 36 0.65
21 2 0.04
22 1 0.02
23 16 0.29
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.17
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCAT
Found at i:671479 original size:21 final size:20
Alignment explanation
Indices: 671412--671492 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
671402 TGCCCCATGA
*
671412 GGGAACCGATT-CCCCCATG
1 GGGAACCGATTCCCCCCAAG
*
671431 AGGGAACCGATTCCCCCTTTGAAG
1 -GGGAACCGATTCCCCC---CAAG
671455 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCA-AG
* *
671476 GGGAATCGATACCCCCC
1 GGGAACCGATTCCCCCC
671493 TGGGGTTCTG
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
20 12 0.24
21 21 0.41
23 16 0.31
24 2 0.04
ACGTcount: A:0.23, C:0.37, G:0.25, T:0.15
Consensus pattern (20 bp):
GGGAACCGATTCCCCCCAAG
Found at i:671544 original size:9 final size:9
Alignment explanation
Indices: 671518--671546 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
671508 ATCGGGCAAG
671518 AACACCCAA
1 AACACCCAA
671527 AAC-CCCAA
1 AACACCCAA
671535 AACACCCAA
1 AACACCCAA
671544 AAC
1 AAC
671547 CCTTACGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (9 bp):
AACACCCAA
Found at i:681291 original size:21 final size:21
Alignment explanation
Indices: 681262--681335 Score: 51
Period size: 21 Copynumber: 3.4 Consensus size: 21
681252 CCTTTGAATG
* *
681262 TGCATCGATTCATCATGTTGA
1 TGCACCGATTCATCATATTGA
* ***
681283 TGCACCGATGCA-CGCCTTGAA
1 TGCACCGATTCATCATATTG-A
*
681304 TGCGCATCGATTCATCATATTGA
1 T--GCACCGATTCATCATATTGA
681327 TGCACCGAT
1 TGCACCGAT
681336 GCATACCTTG
Statistics
Matches: 38, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
20 4 0.11
21 19 0.50
23 11 0.29
24 4 0.11
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (21 bp):
TGCACCGATTCATCATATTGA
Found at i:681303 original size:44 final size:44
Alignment explanation
Indices: 681255--681358 Score: 172
Period size: 44 Copynumber: 2.4 Consensus size: 44
681245 ATGCATCCCT
* *
681255 TTGAATGTGCATCGATTCATCATGTTGATGCACCGATGCACGCC
1 TTGAATGTGCATCGATTCATCATATTGATGCACCGATGCACACC
* *
681299 TTGAATGCGCATCGATTCATCATATTGATGCACCGATGCATACC
1 TTGAATGTGCATCGATTCATCATATTGATGCACCGATGCACACC
681343 TTGAATGTGCATCGAT
1 TTGAATGTGCATCGAT
681359 GCATGGGGTC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
TTGAATGTGCATCGATTCATCATATTGATGCACCGATGCACACC
Found at i:684157 original size:45 final size:46
Alignment explanation
Indices: 684108--684198 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
684098 AAACATCGAA
* * *
684108 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTTAG
1 TGCATTTGATGCATCAATGCACAATACCATGCATCAATGCACTTAG
684153 TGCATTTGATGCATCAATGCACAATACCATGCATCAATGCACTTAG
1 TGCATTTGATGCATCAATGCACAATACCATGCATCAATGCACTTAG
684199 GCTTTTTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 20 0.48
46 22 0.52
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (46 bp):
TGCATTTGATGCATCAATGCACAATACCATGCATCAATGCACTTAG
Found at i:693339 original size:16 final size:16
Alignment explanation
Indices: 693312--693400 Score: 97
Period size: 16 Copynumber: 5.6 Consensus size: 16
693302 TTATGGTACT
693312 TGTTCGGTTCGAGCTG
1 TGTTCGGTTCGAGCTG
* * **
693328 TGATCAGTTCGAATTG
1 TGTTCGGTTCGAGCTG
*
693344 TGTTCGGTTCAAGCTG
1 TGTTCGGTTCGAGCTG
**
693360 TGTTCGGTTCGAATTG
1 TGTTCGGTTCGAGCTG
**
693376 TGTTCGGTTCGAATTG
1 TGTTCGGTTCGAGCTG
693392 TGTTCGGTT
1 TGTTCGGTT
693401 GTGTCTTATC
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 61 1.00
ACGTcount: A:0.12, C:0.15, G:0.31, T:0.42
Consensus pattern (16 bp):
TGTTCGGTTCGAGCTG
Found at i:693394 original size:32 final size:32
Alignment explanation
Indices: 693312--693400 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 32
693302 TTATGGTACT
* * *
693312 TGTTCGGTTCGAGCTGTGATCAGTTCGAATTG
1 TGTTCGGTTCGAACTGTGTTCGGTTCGAATTG
693344 TGTTCGGTTC-AAGCTGTGTTCGGTTCGAATTG
1 TGTTCGGTTCGAA-CTGTGTTCGGTTCGAATTG
*
693376 TGTTCGGTTCGAATTGTGTTCGGTT
1 TGTTCGGTTCGAACTGTGTTCGGTT
693401 GTGTCTTATC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
31 1 0.02
32 48 0.94
33 2 0.04
ACGTcount: A:0.12, C:0.15, G:0.31, T:0.42
Consensus pattern (32 bp):
TGTTCGGTTCGAACTGTGTTCGGTTCGAATTG
Found at i:693435 original size:6 final size:6
Alignment explanation
Indices: 693424--693449 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
693414 GCACACAAAC
693424 TGTTTG TGTTTG TGTTTG TGTTTG TG
1 TGTTTG TGTTTG TGTTTG TGTTTG TG
693450 GTCATTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (6 bp):
TGTTTG
Found at i:699671 original size:18 final size:18
Alignment explanation
Indices: 699648--699702 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
699638 GTGTAAAATT
699648 TATTTTACATAATATATC
1 TATTTTACATAATATATC
*
699666 TATTTTTC--AA-A-ATC
1 TATTTTACATAATATATC
*
699680 TATTTTACATGATATATC
1 TATTTTACATAATATATC
699698 TATTT
1 TATTT
699703 ACCTTAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
16 3 0.10
17 1 0.03
18 15 0.50
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.53
Consensus pattern (18 bp):
TATTTTACATAATATATC
Found at i:699678 original size:32 final size:32
Alignment explanation
Indices: 699642--699702 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
699632 CAGATTGTGT
*
699642 AAAATTTATTTTACATAATATATCTATTTTTC
1 AAAATCTATTTTACATAATATATCTATTTTTC
*
699674 AAAATCTATTTTACATGATATATCTATTT
1 AAAATCTATTTTACATAATATATCTATTT
699703 ACCTTAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.51
Consensus pattern (32 bp):
AAAATCTATTTTACATAATATATCTATTTTTC
Found at i:709364 original size:116 final size:115
Alignment explanation
Indices: 709146--709534 Score: 417
Period size: 116 Copynumber: 3.4 Consensus size: 115
709136 TGATCGGGCA
* * ** ** * * *
709146 AGTTCTTCTCATTATGAAATCT-TCGCTGGGGATGTCAATTCACTTCCTTCTGTGATGGAATCAC
1 AGTTCTTCTCATTATGAACTCTCT-ACTGGAAATGTTGATCCACCTCCTTCTGTGATGGAATCAA
* * * *
709210 CAAGGTTAAACAAATTCTTCTTATTATGAACTTCTTCTCCCTTATCAGATG
65 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
* *
709261 AGTTCTTCTCATTATGAACTCTCTACTGGAAATGTTGATCTACCTTCTTCTGTGAT-GACATCGA
1 AGTTCTTCTCATTATGAACTCTCTACTGGAAATGTTGATCCACCTCCTTCTGTGATGGA-ATC-A
* * **
709325 ACAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCGCTCGTCGGATTG
64 ACAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGA-TG
* * * * * *
709378 -GTTCTTCTCATTATGAACCCT-TTCATTGAAATGTTGGTCCACCTCCTTCTATGATGGAAACAA
1 AGTTCTTCTCATTATGAACTCTCTAC-TGGAAATGTTGATCCACCTCCTTCTGTGATGGAATCAA
*
709441 GCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTATCGGATG
65 -C-AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
* * * *
709494 AGTTCTTCTCATTACGAACTCTCCATTGGAAATGTTAATCC
1 AGTTCTTCTCATTATGAACTCTCTACTGGAAATGTTGATCC
709535 CTCAAGCGAG
Statistics
Matches: 224, Mismatches: 40, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
114 2 0.01
115 51 0.23
116 93 0.42
117 78 0.35
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (115 bp):
AGTTCTTCTCATTATGAACTCTCTACTGGAAATGTTGATCCACCTCCTTCTGTGATGGAATCAAC
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
Found at i:709926 original size:139 final size:139
Alignment explanation
Indices: 709440--710357 Score: 1124
Period size: 139 Copynumber: 6.7 Consensus size: 139
709430 GATGGAAACA
*
709440 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTATCGGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
* * * * * * *
709505 TTACGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGTGTTGCTG-----ACTCGA-AGTG
66 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCATA-TG
709564 TTG-TGAATCG
130 -TGATGAATCG
* * * * * *
709574 AGCAATAGGTCGAACAAGCTCTTCTCATTATAAACTTCTT-TTCTCTCTATCAGATGAGTTCTTC
1 AGCTA-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCT-TC-ATCGGATGAGTTCTTC
* * *
709638 TCATTATGAACTCTCCATCT-GAAATG-TCATTCCCTCAAGTGAGGTGTCACTGATTCAA----A
63 TCATTATGAACTCTCCA-CTGGAAATGTTGA-TCCCTCGAGTGAGGTGTTACTGATTCAACTCCA
** *
709697 -ATGCCATGAATCA
126 TATGTGATGAATCG
* * **
709710 AG-TGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTGTCGGATGAGTTCTTC
1 AGCT-A-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT-CCTTCATCGGATGAGTTCTTC
* * * *
709774 TCATTATGAACTCTCCACTAGAAATGTTGATTCTTCGAGTGAGGTGTTGCTGATTCAACTCCATA
63 TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCATA
709839 TGTGATGAATCG
128 TGTGATGAATCG
* * *
709851 AGCTAAGGTTGAACAAGTTCTTCTCATTATGGACTTTTTCTCCTTCATCGGATGAGTTATTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
* *
709916 TTATGAACTCTCCACTGGAAAGGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
66 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCATATGT
*
709981 GACGAATCG
131 GATGAATCG
*
709990 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCCTCGGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
* ** * * *
710055 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAAGCATCACTGATTCAA---AATAT-C
66 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCATATGT
710116 G-TGAATCG
131 GATGAATCG
* * * *
710124 AG-TGATAGATCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTC
1 AGCT-A-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTC-ATCGGATGAGTTCTTC
*
710188 TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTAATTCAACTCCATA
63 TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCATA
710253 TGTGATGAATCG
128 TGTGATGAATCG
*
710265 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
* *
710330 TTATGAACTCTCCATTTGAAATGTTGAT
66 TTATGAACTCTCCACTGGAAATGTTGAT
710358 TGGTTCATCT
Statistics
Matches: 680, Mismatches: 73, Indels: 57
0.84 0.09 0.07
Matches are distributed among these distances:
133 1 0.00
134 16 0.02
135 74 0.11
136 233 0.34
137 7 0.01
138 2 0.00
139 249 0.37
140 72 0.11
141 24 0.04
142 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (139 bp):
AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCATATGT
GATGAATCG
Found at i:710179 original size:414 final size:411
Alignment explanation
Indices: 709440--710357 Score: 1362
Period size: 414 Copynumber: 2.2 Consensus size: 411
709430 GATGGAAACA
*
709440 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTATCGGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
* * * *
709505 TTACGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGTGTTGCTGACTCGAAGTGTTGTGA
66 TTATGAACTCTCCATTGGAAATGTTGATCCCTCAAGCGAGGTGTTGCTGACTCGAACTATTGTGA
*
709570 ATCGAGCAATAGGTCGAACAAGCTCTTCTCATTATAAACTTCTTTTCTCTCTATCAGATGAGTTC
131 ATCGAGCAATAGGTCGAACAAGCTCTTCTCATTATAAACTTCTTTCCTCTCTATCAGATGAGTTC
* ** *
709635 TTCTCATTATGAACTCTCCATCTGAAATGTCATTCCCTCAAGTGAGGTGTCACTGATTCAAAATG
196 TTCTCATTATGAACTCTCCATCTGAAATGTCATTCCCTCAAGTGAAGCATCACTGATTCAAAATA
* * *
709700 CCATGAATCAAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTGTCGGAT
261 CCATGAATCAAGTGATAGATCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGAT
* * * *
709765 GAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATTCTTCGAGTGAGGTGTTGCTGATTC
326 GAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTCGAGTGAGGTGTTACTAATTC
709830 AACTCCATATGTGATGAATCG
391 AACTCCATATGTGATGAATCG
* * *
709851 AGCTAAGGTTGAACAAGTTCTTCTCATTATGGACTTTTTCTCCTTCATCGGATGAGTTATTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
* * * * *
709916 TTATGAACTCTCCACTGGAAAGGTTGATCCCTCGAGTGAGGTGTTGCTGATTC-AACTCCATATG
66 TTATGAACTCTCCATTGGAAATGTTGATCCCTCAAGCGAGGTGTTGCTGACTCGAACT--AT-TG
* * * * * *
709980 TGACGAATCGAGCTA-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCT-TC-CTCGGA
128 T---GAATCGAGCAATAGGTCGAACAAGCTCTTCTCATTATAAACTTCTT-TCCTCTCTATCAGA
* *
710042 TGAGTTCTTCTCATTATGAACTCTCCA-CTGGAAATGTTGA-TCCCTCGAGTGAAGCATCACTGA
189 TGAGTTCTTCTCATTATGAACTCTCCATCT-GAAATG-TCATTCCCTCAAGTGAAGCATCACTGA
* * *
710105 TTCAAAATATCGTGAATCGAGTGATAGATCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCT
252 TTCAAAATACCATGAATCAAGTGATAGATCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCT
*
710170 CTATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGT
317 CTATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTCGAGTGAGGTGT
710235 TACTAATTCAACTCCATATGTGATGAATCG
382 TACTAATTCAACTCCATATGTGATGAATCG
*
710265 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
*
710330 TTATGAACTCTCCATTTGAAATGTTGAT
66 TTATGAACTCTCCATTGGAAATGTTGAT
710358 TGGTTCATCT
Statistics
Matches: 454, Mismatches: 44, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
410 3 0.01
411 107 0.24
412 1 0.00
413 5 0.01
414 290 0.64
415 35 0.08
416 13 0.03
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (411 bp):
AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
TTATGAACTCTCCATTGGAAATGTTGATCCCTCAAGCGAGGTGTTGCTGACTCGAACTATTGTGA
ATCGAGCAATAGGTCGAACAAGCTCTTCTCATTATAAACTTCTTTCCTCTCTATCAGATGAGTTC
TTCTCATTATGAACTCTCCATCTGAAATGTCATTCCCTCAAGTGAAGCATCACTGATTCAAAATA
CCATGAATCAAGTGATAGATCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGAT
GAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTCGAGTGAGGTGTTACTAATTC
AACTCCATATGTGATGAATCG
Found at i:710195 original size:275 final size:274
Alignment explanation
Indices: 709440--710357 Score: 1199
Period size: 275 Copynumber: 3.3 Consensus size: 274
709430 GATGGAAACA
*
709440 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTATCGGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
* * * * * * * * *
709505 TTACGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGTGTTGCTGACTCGAAGTGTTGTGA
66 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAAAATATTGTGA
* * * * *
709570 ATCGAGCAATAGGTCGAACAAGCTCTTCTCATTATAAACTTCTTTTCTCTCTATCAGATGAGTTC
131 ATCGAG-TATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTC
* * *
709635 TTCTCATTATGAACTCTCCATCT-GAAATG-TCATTCCCTCAAGTGAGGTGTCACTGATTCAA--
195 TTCTCATTATGAACTCTCCA-CTGGAAATGTTGA-TCCCTCGAGTGAGGTGTTACTGATTCAACT
** *
709696 --A-ATGCCATGAATCA
258 CCATATGTGATGAATCG
* * **
709710 AG-TGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTGTCGGATGAGTTCTTC
1 AGCT-A-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT-CCTTCATCGGATGAGTTCTTC
* * * *
709774 TCATTATGAACTCTCCACTAGAAATGTTGATTCTTCGAGTGAGGTGTTGCTGATTCAACTCCATA
63 TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAA---AATA
* * * * *
709839 TGTGATGAATCGAGCTA-AGGTTGAACAAGTTCTTCTCATTATGGACTTTTTCTCCTTC-ATCGG
125 T-TG-TGAATCGAG-TATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGG
* * *
709902 ATGAGTTATTCTCATTATGAACTCTCCACTGGAAAGGTTGATCCCTCGAGTGAGGTGTTGCTGAT
187 ATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGAT
*
709967 TCAACTCCATATGTGACGAATCG
252 TCAACTCCATATGTGATGAATCG
*
709990 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCCTCGGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
* ** ** *
710055 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAAGCATCACTGATTCAAAATATCGTGA
66 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAAAATATTGTGA
*
710120 ATCGAGTGATAGATCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTC
131 ATCGAGT-ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTC
*
710185 TTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTAATTCAACTCC
195 TTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCC
710250 ATATGTGATGAATCG
260 ATATGTGATGAATCG
*
710265 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
* *
710330 TTATGAACTCTCCATTTGAAATGTTGAT
66 TTATGAACTCTCCACTGGAAATGTTGAT
710358 TGGTTCATCT
Statistics
Matches: 564, Mismatches: 65, Indels: 33
0.85 0.10 0.05
Matches are distributed among these distances:
269 1 0.00
270 3 0.01
271 34 0.06
272 69 0.12
273 10 0.02
274 38 0.07
275 244 0.43
276 37 0.07
277 11 0.02
278 69 0.12
279 35 0.06
280 12 0.02
281 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (274 bp):
AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCA
TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAAAATATTGTGA
ATCGAGTATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCT
TCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCA
TATGTGATGAATCG
Found at i:710948 original size:18 final size:18
Alignment explanation
Indices: 710927--710976 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
710917 GTTGCGAGAG
710927 CAGTCTTCATTGC-TAGAT
1 CAGTCTTCATT-CTTAGAT
710945 CAGTCTTCATTCTTAGAT
1 CAGTCTTCATTCTTAGAT
710963 CAGTCTTCATTCTT
1 CAGTCTTCATTCTT
710977 TTCCTGGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 1 0.03
18 30 0.97
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (18 bp):
CAGTCTTCATTCTTAGAT
Found at i:711178 original size:53 final size:54
Alignment explanation
Indices: 711117--711258 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 54
711107 ATTTACAGTT
*
711117 ATCAAGAAACCCCT-AAAATTAGGCTTAACTTCTCTCAAAAATTCA-AAAAAAAA
1 ATCAAGAAACCCCTAAAAATTAGGCTTAATTTCT-TCAAAAATTCATAAAAAAAA
* ** ** *** *
711170 ATCAAGAAACCCCTGAAAACCAGGCTTAATTTCTTTGAAAATTCATTTGAAAAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTCAAAAATTCATAAAAAAAA
711224 ATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTT
1 ATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTT
711259 TGAACGTTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
53 23 0.31
54 52 0.69
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.27
Consensus pattern (54 bp):
ATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTCAAAAATTCATAAAAAAAA
Found at i:711231 original size:54 final size:54
Alignment explanation
Indices: 711165--711801 Score: 618
Period size: 54 Copynumber: 11.7 Consensus size: 54
711155 AAATTCAAAA
* ** * * * * *
711165 AAAAAATCAAGAAACCCCTGAAAACCAGGCTTAATTTCTTTGAAAATTCATTTG
1 AAAACATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
** * * * * * ***
711219 AAAACATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAACGTTCATTTG
1 AAAACATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
* * * * *
711273 AGAAAAATCAGGAAACTT-TAAAAAATCAGACTTAATTTCTTT-AAAACACATTTG
1 A-AAACATCAAGAAACTTCT-GAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
* * *
711327 AAAAGCGTCAAGAAACTTCTAAAAATTAGACTTAGTTTCTTTAAAAACTCATTTG
1 AAAA-CATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
* * * * *
711382 AAATCATCATGAAACTTCTGAAAATCAGACTTAGTTTCGTTGAAAACTTATTTG
1 AAAACATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
* * *
711436 AAATCATCAAGAAACTTTTGAAAATCAGACTTAGTTTCTTTAAAAACTCACTTG
1 AAAACATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
* * * *
711490 AAAATCATCATGAAACTTCTGAAAATCAGACTTAGTTTCATTGAAAACTTATTTG
1 AAAA-CATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
* * *
711545 AAATCATCAAGAAACTTCTGAAAATAAGACTTAGTTTCTTTAAAAACTCACTTG
1 AAAACATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
* * *
711599 AAAATCGTCAAGAAACTTTTGAAAATAAGACTTAGTTTCTTTAAAAACTCATTT-
1 AAAA-CATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
* * * * *
711653 AAAATGATCAAGAAACTT-TCAAAAATCAGAATTAGTTTC-TAAAAAACTAATTTG
1 AAAA-CATCAAGAAACTTCT-GAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
* * * ***
711707 AAAATCGTCAAGAAACTTCTGAAAATCAAACTTAGTTTCTTTAAAAACTAATAAA
1 AAAA-CATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
* *
711762 AAATACCATGTCAAGAAACCTCTGAAAATCAGACGTAGTT
1 AAA-A-CA--TCAAGAAACTTCTGAAAATCAGACTTAGTT
711802 CCTAAAAACA
Statistics
Matches: 494, Mismatches: 75, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
53 16 0.03
54 294 0.60
55 155 0.31
56 2 0.00
58 27 0.05
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.31
Consensus pattern (54 bp):
AAAACATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG
Found at i:711307 original size:109 final size:108
Alignment explanation
Indices: 711182--711755 Score: 602
Period size: 109 Copynumber: 5.3 Consensus size: 108
711172 CAAGAAACCC
* * **
711182 CTGAAAACCAGGCTTAATTTCTTTGAAAA-TTCATTTGAAAACATCAAGAAACCCCTAAAAATTA
1 CTGAAAATCAGACTTAATTTCTTTGAAAACTT-ATTTGAAAACATCAAGAAACTTCTAAAAATTA
* * * *** * *
711246 GGCTTAATTTCTTTGAACGTTCATTTGAGAAAAATCAGGAAACTT
65 GACTTAGTTTCTTTAAAAACTCATTTGA-AAACATCATGAAACTT
* ** *
711291 -TAAAAAATCAGACTTAATTTCTTT-AAAACACATTTGAAAAGCGTCAAGAAACTTCTAAAAATT
1 CT-GAAAATCAGACTTAATTTCTTTGAAAACTTATTTGAAAA-CATCAAGAAACTTCTAAAAATT
*
711354 AGACTTAGTTTCTTTAAAAACTCATTTGAAATCATCATGAAACTT
64 AGACTTAGTTTCTTTAAAAACTCATTTGAAAACATCATGAAACTT
* * * * * *
711399 CTGAAAATCAGACTTAGTTTCGTTGAAAACTTATTTGAAATCATCAAGAAACTTTTGAAAATCAG
1 CTGAAAATCAGACTTAATTTCTTTGAAAACTTATTTGAAAACATCAAGAAACTTCTAAAAATTAG
*
711464 ACTTAGTTTCTTTAAAAACTCACTTGAAAATCATCATGAAACTT
66 ACTTAGTTTCTTTAAAAACTCATTTGAAAA-CATCATGAAACTT
* * * * *
711508 CTGAAAATCAGACTTAGTTTCATTGAAAACTTATTTGAAATCATCAAGAAACTTCTGAAAATAAG
1 CTGAAAATCAGACTTAATTTCTTTGAAAACTTATTTGAAAACATCAAGAAACTTCTAAAAATTAG
* * *
711573 ACTTAGTTTCTTTAAAAACTCACTTGAAAATCGTCAAGAAACTT
66 ACTTAGTTTCTTTAAAAACTCATTTGAAAA-CATCATGAAACTT
* * * * * * *
711617 TTGAAAATAAGACTTAGTTTCTTTAAAAACTCATTT-AAAATGATCAAGAAACTT-TCAAAAATC
1 CTGAAAATCAGACTTAATTTCTTTGAAAACTTATTTGAAAA-CATCAAGAAACTTCT-AAAAATT
* * * * *
711680 AGAATTAGTTTC-TAAAAAACTAATTTGAAAATCGTCAAGAAACTT
64 AGACTTAGTTTCTTTAAAAACTCATTTGAAAA-CATCATGAAACTT
* * *
711725 CTGAAAATCAAACTTAGTTTCTTTAAAAACT
1 CTGAAAATCAGACTTAATTTCTTTGAAAACT
711756 AATAAAAAAT
Statistics
Matches: 407, Mismatches: 50, Indels: 17
0.86 0.11 0.04
Matches are distributed among these distances:
108 156 0.38
109 251 0.62
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (108 bp):
CTGAAAATCAGACTTAATTTCTTTGAAAACTTATTTGAAAACATCAAGAAACTTCTAAAAATTAG
ACTTAGTTTCTTTAAAAACTCATTTGAAAACATCATGAAACTT
Found at i:711493 original size:163 final size:162
Alignment explanation
Indices: 711170--711755 Score: 644
Period size: 163 Copynumber: 3.6 Consensus size: 162
711160 CAAAAAAAAA
** * * * * * * * *
711170 ATCAAGAAACCCCTGAAAACCAGGCTTAATTTCTTTGAAAATTCATTTGAAAACATCAAGAAACC
1 ATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCATCAAGAAACT
* * * * * * ** * **
711235 CCTAAAAATTAGGCTTAATTTCTTT--GAACGTTCATTTGAGAAAAATCAGGAAACTTTAAAAAA
66 TCTGAAAATCAGACTTAGTTTCTTTAAAAAC-TT-ATTTGA-AATCATCAAGAAACTTTTGAAAA
* *
711298 TCAGACTTAATTTCTTT-AAAACACATTTGAAAAGC
128 TCAGACTTAGTTTCTTTAAAAACTCA-TTGAAAAGC
* * *
711333 GTCAAGAAACTTCTAAAAATTAGACTTAGTTTCTTTAAAAACTCATTTGAAATCATCATGAAACT
1 ATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCATCAAGAAACT
* *
711398 TCTGAAAATCAGACTTAGTTTCGTTGAAAACTTATTTGAAATCATCAAGAAACTTTTGAAAATCA
66 TCTGAAAATCAGACTTAGTTTCTTTAAAAACTTATTTGAAATCATCAAGAAACTTTTGAAAATCA
*
711463 GACTTAGTTTCTTTAAAAACTCACTTGAAAATC
131 GACTTAGTTTCTTTAAAAACTCA-TTGAAAAGC
* * * * *
711496 ATCATGAAACTTCTGAAAATCAGACTTAGTTTCATTGAAAACTTATTTGAAATCATCAAGAAACT
1 ATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCATCAAGAAACT
* * * * *
711561 TCTGAAAATAAGACTTAGTTTCTTTAAAAACTCACTTGAAAATCGTCAAGAAACTTTTGAAAATA
66 TCTGAAAATCAGACTTAGTTTCTTTAAAAACTTATTTG-AAATCATCAAGAAACTTTTGAAAATC
*
711626 AGACTTAGTTTCTTTAAAAACTCATTTAAAATG-
130 AGACTTAGTTTCTTTAAAAACTCATTGAAAA-GC
* * * *
711659 ATCAAGAAACTT-TCAAAAATCAGAATTAGTTTC-TAAAAAACTAATTTGAAAATCGTCAAGAAA
1 ATCAAGAAACTTCT-AAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG-AAATCATCAAGAAA
*
711722 CTTCTGAAAATCAAACTTAGTTTCTTTAAAAACT
64 CTTCTGAAAATCAGACTTAGTTTCTTTAAAAACT
711756 AATAAAAAAT
Statistics
Matches: 361, Mismatches: 55, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
162 47 0.13
163 261 0.72
164 50 0.14
165 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (162 bp):
ATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCATCAAGAAACT
TCTGAAAATCAGACTTAGTTTCTTTAAAAACTTATTTGAAATCATCAAGAAACTTTTGAAAATCA
GACTTAGTTTCTTTAAAAACTCATTGAAAAGC
Found at i:713733 original size:18 final size:18
Alignment explanation
Indices: 713692--713737 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
713682 TGTCTATTTC
*
713692 TTCTTCTTTTTTAATCTTT
1 TTCTTCTTTTTT-ATCTCT
713711 TTCTTCTATTTTT-TCTCT
1 TTCTTCT-TTTTTATCTCT
713729 TTCTT-TTTT
1 TTCTTCTTTT
713738 CTCTTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 3 0.12
17 1 0.04
18 9 0.36
19 7 0.28
20 5 0.20
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCTTCTTTTTTATCTCT
Found at i:713739 original size:22 final size:20
Alignment explanation
Indices: 713695--713786 Score: 89
Period size: 22 Copynumber: 4.5 Consensus size: 20
713685 CTATTTCTTC
** *
713695 TTCTTTTTTAATC-TTTTTC
1 TTCTTTTTTTCTCTTTTTTT
713714 TTCTATTTTTTCTCTTTCTTTT
1 TTCT-TTTTTTCTCTTT-TTTT
713736 TTCTCTTTTTTCTCTTTTTTT
1 TTCT-TTTTTTCTCTTTTTTT
* *
713757 TTCTGTGTTTCTC-TTTTTT
1 TTCTTTTTTTCTCTTTTTTT
713776 TTCTTTCTTTT
1 TTCTTT-TTTT
713787 TTTCTTTCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 15 0.25
20 17 0.28
21 10 0.16
22 19 0.31
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.77
Consensus pattern (20 bp):
TTCTTTTTTTCTCTTTTTTT
Found at i:713742 original size:9 final size:9
Alignment explanation
Indices: 713730--713781 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
713720 TTTTTCTCTT
713730 TCTTTTTTC
1 TCTTTTTTC
713739 TCTTTTTTC
1 TCTTTTTTC
*
713748 TCTTTTTTTT
1 TC-TTTTTTC
*
713758 TCTGTGTTTC
1 TCT-TTTTTC
*
713768 TCTTTTTTT
1 TCTTTTTTC
713777 TCTTT
1 TCTTT
713782 CTTTTTTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 21 0.58
10 15 0.42
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (9 bp):
TCTTTTTTC
Found at i:713752 original size:42 final size:40
Alignment explanation
Indices: 713692--713793 Score: 100
Period size: 42 Copynumber: 2.5 Consensus size: 40
713682 TGTCTATTTC
* *
713692 TTCT-TCTTTTTTAATCTTTTTCTTCTATTTTTTCTCTTTCTTT
1 TTCTCTCTTTTTT--TCTTTTTCTTCT-GTGTTTCTCTTT-TTT
*
713735 TT-TCTCTTTTTTCTCTTTTTTTTTCTGTGTTTCTCTTTTTT
1 TTCTCTCTTTTTT-TC-TTTTTCTTCTGTGTTTCTCTTTTTT
*
713776 TTCTTTCTTTTTTTCTTT
1 TTCTCTCTTTTTTTCTTT
713794 CTTTGTTTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
40 3 0.06
41 7 0.14
42 22 0.43
43 19 0.37
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (40 bp):
TTCTCTCTTTTTTTCTTTTTCTTCTGTGTTTCTCTTTTTT
Found at i:713783 original size:35 final size:35
Alignment explanation
Indices: 713744--713811 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
713734 TTTTCTCTTT
713744 TTTCTCTTTTTT-TTTCTGTGTTTCTCTTTTTTTTC
1 TTTCT-TTTTTTCTTTCTGTGTTTCTCTTTTTTTTC
* * *
713779 TTTCTTTTTTTCTTTCTTTGTTTGTGTTTTTTT
1 TTTCTTTTTTTCTTTCTGTGTTTCTCTTTTTTT
713812 ATATATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 6 0.21
35 23 0.79
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.79
Consensus pattern (35 bp):
TTTCTTTTTTTCTTTCTGTGTTTCTCTTTTTTTTC
Found at i:713808 original size:21 final size:20
Alignment explanation
Indices: 713720--713810 Score: 76
Period size: 21 Copynumber: 4.3 Consensus size: 20
713710 TTTCTTCTAT
*
713720 TTTTTCTCTTTCTTTTTTCTC
1 TTTTT-TCTTTCTTTTTTCTG
*
713741 TTTTTTCTCTTTTTTTTTCTG
1 TTTTTTCT-TTCTTTTTTCTG
* *
713762 TGTTTCTCTTTTTTTTCTTTCT-
1 T-TTTTTC-TTTCTTT-TTTCTG
*
713784 TTTTTTCTTTCTTTGTTTGTG
1 TTTTTTCTTTCTTT-TTTCTG
713805 TTTTTT
1 TTTTTT
713811 TATATATATT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
20 13 0.22
21 27 0.47
22 12 0.21
23 6 0.10
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTTCTTTCTTTTTTCTG
Found at i:713811 original size:22 final size:20
Alignment explanation
Indices: 713708--713793 Score: 82
Period size: 21 Copynumber: 4.1 Consensus size: 20
713698 TTTTTTAATC
* *
713708 TTTTTCTTCTATTTTTTCTCT
1 TTTTTTTTCTCTTTTTT-TCT
713729 TTCTTTTTTCTCTTTTTTCTCT
1 TT-TTTTTTCTCTTTTTT-TCT
* * *
713751 TTTTTTTTCTGTGTTTCTCT
1 TTTTTTTTCTCTTTTTTTCT
*
713771 TTTTTTTCTTTCTTTTTTTCT
1 TTTTTTT-TCTCTTTTTTTCT
713792 TT
1 TT
713794 CTTTGTTTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
20 10 0.19
21 25 0.46
22 19 0.35
ACGTcount: A:0.01, C:0.17, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTTTCTCTTTTTTTCT
Found at i:715216 original size:21 final size:23
Alignment explanation
Indices: 715175--715225 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
715165 ATGCACATGC
715175 AAATG-AAAAGATACAAAAATGG
1 AAATGCAAAAGATACAAAAATGG
* *
715197 GAATGCAAAA-ATAC-AAAATGT
1 AAATGCAAAAGATACAAAAATGG
715218 AAATGCAA
1 AAATGCAA
715226 CAAAAGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 13 0.52
22 8 0.32
23 4 0.16
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (23 bp):
AAATGCAAAAGATACAAAAATGG
Found at i:720697 original size:13 final size:13
Alignment explanation
Indices: 720679--720709 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
720669 TTATAGTTGG
720679 TTTGATCAATTGA
1 TTTGATCAATTGA
*
720692 TTTGATTAATTGA
1 TTTGATCAATTGA
720705 TTTGA
1 TTTGA
720710 ATAACTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (13 bp):
TTTGATCAATTGA
Found at i:720807 original size:17 final size:17
Alignment explanation
Indices: 720785--720835 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
720775 CACGTATATG
720785 ATACATTTAGTTGTTA-A
1 ATACATTTAGTT-TTATA
*
720802 ATACATATATGTTTTATA
1 ATACATTTA-GTTTTATA
720820 ATAC-TTTAGTCTTTAT
1 ATACATTTAGT-TTTAT
720836 TAGGGTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 2 0.07
17 19 0.66
18 8 0.28
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (17 bp):
ATACATTTAGTTTTATA
Found at i:720932 original size:21 final size:23
Alignment explanation
Indices: 720897--720940 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
720887 AATTCCTTAA
720897 GAAAATTAGTGAATAT-TTTTTT
1 GAAAATTAGTGAATATATTTTTT
*
720919 GAAAATT-TTGAATATATTTTTT
1 GAAAATTAGTGAATATATTTTTT
720941 AATTTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (23 bp):
GAAAATTAGTGAATATATTTTTT
Found at i:728370 original size:31 final size:32
Alignment explanation
Indices: 728316--728375 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
728306 GACCATTTGA
* * *
728316 ATTATAATATTTTTCAATTAAGTCACTAAACT
1 ATTAAAATAGTTTTCAATCAAGTCACTAAACT
*
728348 ATTAAAATAGTTTT-AATCAAGTCGCTAA
1 ATTAAAATAGTTTTCAATCAAGTCACTAA
728376 CATTTAACTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 12 0.50
32 12 0.50
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (32 bp):
ATTAAAATAGTTTTCAATCAAGTCACTAAACT
Found at i:738128 original size:32 final size:32
Alignment explanation
Indices: 738092--738170 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
738082 AAAGTAATTT
* **
738092 GAACTGAAATTAATTTGAATCA-AAAGCAACCC
1 GAACTGAAAGTAACCTGAA-CAGAAAGCAACCC
*
738124 GAACTGAAAGTAACCTGAACAGAAAGTAACCC
1 GAACTGAAAGTAACCTGAACAGAAAGCAACCC
* *
738156 AAACTGAAAGCAACC
1 GAACTGAAAGTAACC
738171 CGAAATTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
31 2 0.05
32 38 0.95
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (32 bp):
GAACTGAAAGTAACCTGAACAGAAAGCAACCC
Found at i:738138 original size:16 final size:16
Alignment explanation
Indices: 738114--738174 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
738104 ATTTGAATCA
738114 AAAGCAACCCGAACTG
1 AAAGCAACCCGAACTG
* * *
738130 AAAGTAACCTGAACAG
1 AAAGCAACCCGAACTG
* *
738146 AAAGTAACCCAAACTG
1 AAAGCAACCCGAACTG
738162 AAAGCAACCCGAA
1 AAAGCAACCCGAA
738175 ATTTATTTAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.49, C:0.26, G:0.16, T:0.08
Consensus pattern (16 bp):
AAAGCAACCCGAACTG
Found at i:738266 original size:3 final size:3
Alignment explanation
Indices: 738258--738318 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
738248 AATAATTTAT
*
738258 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
738306 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
738319 ACATTTTTAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:739108 original size:2 final size:2
Alignment explanation
Indices: 739101--739128 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
739091 TTTTAATAAA
739101 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
739129 CATCAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:745450 original size:14 final size:14
Alignment explanation
Indices: 745431--745462 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
745421 GGAAGGGGCC
745431 AGGATTCCAACTTA
1 AGGATTCCAACTTA
*
745445 AGGATTCCAATTTA
1 AGGATTCCAACTTA
745459 AGGA
1 AGGA
745463 GGGCAAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (14 bp):
AGGATTCCAACTTA
Found at i:749261 original size:25 final size:24
Alignment explanation
Indices: 749208--749266 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
749198 AAACGTGTCT
*
749208 AAAAT-TTTAAACATATACTATTA
1 AAAATCTTAAAACATATACTATTA
749231 AAAATCCTTAAAACATATAACT-TTA
1 AAAAT-CTTAAAACATAT-ACTATTA
**
749256 GTAATCTTAAA
1 AAAATCTTAAA
749267 TAATACATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.17
24 6 0.20
25 16 0.53
26 3 0.10
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.36
Consensus pattern (24 bp):
AAAATCTTAAAACATATACTATTA
Found at i:749517 original size:2 final size:2
Alignment explanation
Indices: 749512--749548 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
749502 CCCCCCCCCC
749512 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
749549 GTATGGAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:756315 original size:12 final size:11
Alignment explanation
Indices: 756300--756359 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 11
756290 GAGAACAAAG
756300 AAAAGAAAAAATA
1 AAAAG-AAAAA-A
756313 AAAAGAAAGAAA
1 AAAAGAAA-AAA
* *
756325 GAAAG-AAATA
1 AAAAGAAAAAA
756335 AAAAGAAAAAGA
1 AAAAGAAAAA-A
756347 AAAAGAAAAAA
1 AAAAGAAAAAA
756358 AA
1 AA
756360 CTGATCAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 6 0.15
11 8 0.20
12 19 0.47
13 7 0.17
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:756322 original size:22 final size:23
Alignment explanation
Indices: 756296--756357 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
756286 TGGCGAGAAC
756296 AAAGAAAAGAAAAAATAAAAAG-
1 AAAGAAAAGAAAAAATAAAAAGA
756318 AAAG-AAAGAAAGAAATAAAAAGAA
1 AAAGAAAAGAAA-AAATAAAAAG-A
756342 AAAGAAAAAGAAAAAA
1 AAAG-AAAAGAAAAAA
756358 AACTGATCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.20
22 14 0.40
24 4 0.11
25 3 0.09
26 7 0.20
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (23 bp):
AAAGAAAAGAAAAAATAAAAAGA
Found at i:756359 original size:22 final size:23
Alignment explanation
Indices: 756291--756359 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
756281 AATCATGGCG
756291 AGAACAAAG-AAAAGAAAAAATAA
1 AGAACAAAGAAAAAGAAAAAA-AA
* *
756314 A-AAGAAAGAAAGAAAGAAATAAAA
1 AGAACAAAG-AA-AAAGAAAAAAAA
756338 AGAA-AAAGAAAAAGAAAAAAAA
1 AGAACAAAGAAAAAGAAAAAAAA
756360 CTGATCAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 17 0.44
23 3 0.08
24 8 0.21
25 11 0.28
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.03
Consensus pattern (23 bp):
AGAACAAAGAAAAAGAAAAAAAA
Found at i:758231 original size:9 final size:9
Alignment explanation
Indices: 758217--758241 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
758207 TAGATTTTCC
758217 AAAGAAAGA
1 AAAGAAAGA
758226 AAAGAAAGA
1 AAAGAAAGA
758235 AAAGAAA
1 AAAGAAA
758242 ATTCAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:758584 original size:54 final size:54
Alignment explanation
Indices: 758509--758921 Score: 408
Period size: 54 Copynumber: 7.7 Consensus size: 54
758499 AAATTATTTT
* * * * *
758509 AAGAAGTTAAGACTACTTTTTAGGTGTTTCTTGATGTCTTCGAATGAATTTTGA
1 AAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTCAAATGAATTTTGA
* *
758563 AAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTTA
1 AAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTCAAATGAATTTTGA
* * * * * *
758617 AAGGAGCTAAGCATGATTTTTAGAGGTTTCTTGATGT-TTACAAATGGATTTGGA
1 AAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTT-CAAATGAATTTTGA
* * * *
758671 AATG-AGCTAAGCCTGATTTTTAGGGGTTTTTTTATGTCTTCAAATAAATTTTGA
1 AA-GAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTCAAATGAATTTTGA
* * * * *
758725 AAGAAGCTAAGCCTATTTTTTA-TGGTTTCTTGATATTTTCAAATGAATTTTTA
1 AAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTCAAATGAATTTTGA
* * * * *
758778 AATG-AGTTAA-CCTTGATTTTCAGGGGTTTCTTGATGT-TTACAAATGGATTTGGA
1 AA-GAAGCTAAGCC-TAATTTTTAGGGGTTTCTTGATGTCTT-CAAATGAATTTTGA
* * * * * * *
758832 AAGGAGGTAAGCATGATTTTCAGGGGTTTCTTGATGTCTTTAAATAAAGTTTT-A
1 AAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTCAAATGAA-TTTTGA
*
758886 AAGAATCTAAGCCTAATTTTTAGGGGTTTCTTGATG
1 AAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
758922 ATAATTGTAA
Statistics
Matches: 296, Mismatches: 51, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.01
53 43 0.15
54 242 0.82
55 9 0.03
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (54 bp):
AAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTCAAATGAATTTTGA
Found at i:758648 original size:108 final size:108
Alignment explanation
Indices: 758525--758978 Score: 433
Period size: 108 Copynumber: 4.2 Consensus size: 108
758515 TTAAGACTAC
*
758525 TTTTTAG-GTGTTTCTTGATGTCTTCGAATGAATTTTGAAA-GAAGCTAAGCCTAATTTTTAGGG
1 TTTTTAGAG-GTTTCTTGATGTCTTCAAATGAATTTTGAAATG-AGCTAAGCCTAATTTTTAGGG
* *
758588 GTTTCTTGATGTTTTCAAATGAATTTTTAAAGGAGCTAAGCATGA
64 GTTTCTTGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCATGA
* * *
758633 TTTTTAGAGGTTTCTTGATGT-TTACAAATGGATTTGGAAATGAGCTAAGCCTGATTTTTAGGGG
1 TTTTTAGAGGTTTCTTGATGTCTT-CAAATGAATTTTGAAATGAGCTAAGCCTAATTTTTAGGGG
* * * * *
758697 TTTTTTTATGTCTTCAAATAAATTTTGAAAGAAGCTAAGCCT-A
65 TTTCTTGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCATGA
* * * * * * *
758740 TTTTTTA-TGGTTTCTTGATATTTTCAAATGAATTTTTAAATGAGTTAA-CCTTGATTTTCAGGG
1 -TTTTTAGAGGTTTCTTGATGTCTTCAAATGAATTTTGAAATGAGCTAAGCC-TAATTTTTAGGG
* * * * *
758803 GTTTCTTGATGTTTACAAATGGATTTGGAAAGGAGGTAAGCATGA
64 GTTTCTTGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCATGA
* * * * *
758848 TTTTCAGGGGTTTCTTGATGTCTTTAAATAAAGTTTT-AAA-GAATCTAAGCCTAATTTTTAGGG
1 TTTTTAGAGGTTTCTTGATGTCTTCAAATGAA-TTTTGAAATG-AGCTAAGCCTAATTTTTAGGG
* **
758911 GTTTCTTGATGATAATTGT-AAATGAATTTTTG-AAGAAGCCAAGTTTGA
64 GTTTCTTGATG-T--TT-TCAAATGAA-TTTTGAAAGAAGCTAAGCATGA
* *
758959 TTTTCAAAGGTTTCTTGATG
1 TTTTTAGAGGTTTCTTGATG
758979 ATAAATCTTT
Statistics
Matches: 282, Mismatches: 48, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
106 2 0.01
107 85 0.30
108 145 0.51
109 9 0.03
111 37 0.13
112 4 0.01
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (108 bp):
TTTTTAGAGGTTTCTTGATGTCTTCAAATGAATTTTGAAATGAGCTAAGCCTAATTTTTAGGGGT
TTCTTGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCATGA
Found at i:758808 original size:161 final size:162
Alignment explanation
Indices: 758525--758978 Score: 599
Period size: 161 Copynumber: 2.8 Consensus size: 162
758515 TTAAGACTAC
* * *
758525 TTTTTAGGTGTTTCTTGATGTCTTCGAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGT
1 TTTTTAGGGGTTTCTTGATGTCTTCAAATAAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGT
* * *
758590 TTCTTGATGTTTTCAAATGAATTTTTAAAGGAGCTAAGCATGATTTTTAGAGGTTTCTTGATGTT
66 TTCTTGATATTTTCAAATGAATTTTTAAAGGAGCTAACCATGATTTTCAGAGGTTTCTTGATGTT
* *
758655 TACAAATGGATTTGGAAATGAGCTAAGCCTGA
131 TACAAATGGATTTGGAAAGGAGCTAAGCATGA
* * * *
758687 TTTTTAGGGGTTTTTTTATGTCTTCAAATAAATTTTGAAAGAAGCTAAGCCTATTTTTTA-TGGT
1 TTTTTAGGGGTTTCTTGATGTCTTCAAATAAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGT
* * * *
758751 TTCTTGATATTTTCAAATGAATTTTTAAATGAGTTAACCTTGATTTTCAGGGGTTTCTTGATGTT
66 TTCTTGATATTTTCAAATGAATTTTTAAAGGAGCTAACCATGATTTTCAGAGGTTTCTTGATGTT
*
758816 TACAAATGGATTTGGAAAGGAGGTAAGCATGA
131 TACAAATGGATTTGGAAAGGAGCTAAGCATGA
* * *
758848 TTTTCAGGGGTTTCTTGATGTCTTTAAATAAAGTTTT-AAAGAATCTAAGCCTAATTTTTAGGGG
1 TTTTTAGGGGTTTCTTGATGTCTTCAAATAAA-TTTTGAAAGAAGCTAAGCCTAATTTTTAGGGG
* * * *** *
758912 TTTCTTGATGATAATTGT-AAATGAATTTTTGAAGAAGCCAAGTTTGATTTTCAAAGGTTTCTTG
65 TTTCTTGAT-AT--TT-TCAAATGAATTTTTAAAGGAGCTAACCATGATTTTCAGAGGTTTCTTG
758976 ATG
126 ATG
758979 ATAAATCTTT
Statistics
Matches: 253, Mismatches: 33, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
161 139 0.55
162 69 0.27
163 2 0.01
165 42 0.17
166 1 0.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (162 bp):
TTTTTAGGGGTTTCTTGATGTCTTCAAATAAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGT
TTCTTGATATTTTCAAATGAATTTTTAAAGGAGCTAACCATGATTTTCAGAGGTTTCTTGATGTT
TACAAATGGATTTGGAAAGGAGCTAAGCATGA
Found at i:758962 original size:57 final size:56
Alignment explanation
Indices: 758840--758982 Score: 146
Period size: 57 Copynumber: 2.6 Consensus size: 56
758830 GAAAGGAGGT
* * * *
758840 AAGCATGATTTTCAGGGGTTTCTTGATG-T-CTTTAAATAAAGTTTTAAAGAATCT
1 AAGCCTGATTTTCAGGGGTTTCTTGATGATAATTTAAATAAAGTTTTAAAGAAGCC
* * * * *
758894 AAGCCTAATTTTTAGGGGTTTCTTGATGATAATTGTAAATGAATTTTTGAAGAAGCC
1 AAGCCTGATTTTCAGGGGTTTCTTGATGATAATT-TAAATAAAGTTTTAAAGAAGCC
** **
758951 AAGTTTGATTTTCAAAGGTTTCTTGATGATAA
1 AAGCCTGATTTTCAGGGGTTTCTTGATGATAA
758983 ATCTTTCGGG
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
54 25 0.35
55 1 0.01
56 2 0.03
57 43 0.61
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (56 bp):
AAGCCTGATTTTCAGGGGTTTCTTGATGATAATTTAAATAAAGTTTTAAAGAAGCC
Found at i:759680 original size:18 final size:18
Alignment explanation
Indices: 759653--759690 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
759643 CCAGAAAGAG
*
759653 AATGACGACTGCTCTAGC
1 AATGAAGACTGCTCTAGC
*
759671 AATGAAGACTGCTCTTGC
1 AATGAAGACTGCTCTAGC
759689 AA
1 AA
759691 CCATTCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (18 bp):
AATGAAGACTGCTCTAGC
Found at i:760806 original size:282 final size:283
Alignment explanation
Indices: 760297--760806 Score: 688
Period size: 282 Copynumber: 1.8 Consensus size: 283
760287 ACATTTGCTT
** *
760297 GATTCCATCACATAAAGAGTTGGAACAACACTGACCTTGGCTCATCTATCACATAAGGAGCTGGA
1 GATTCCATCACATAAAGAGTTGGAACAACACCAACCTTGGCTCATCTATCACACAAGGAGCTGGA
* *
760362 TTAACATCATCACATTGATCGAATCCATCATAGAAGGAGGTGGATCAACATTTCCAATGAAAAAG
66 TTAACATCATCACATTGATCGAATCCATCACAAAAGGAGGTGGATCAACATTTCCAATGAAAAAG
* *
760427 TTCCTAATGAAAATAACTTGTTCAATATTTCACTCGATTCCATCACAGAAGGAGGTGAATAAACA
131 TTCCTAATGAAAAGAACTTGTTCAATATTTCACTCGATTCCATCACAGAAGGAGGCGAATAAACA
**
760492 TTTCCAAAGGAAGAGTTTGTAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCATAATAAG
196 TTTCCAAAGGAAGAGTTCCTAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCATAATAAG
760557 AACAAATTGTTCAACCTTAGCTC
261 AACAAATTGTTCAACCTTAGCTC
* *
760580 GATT-CATCACATAAGGAGTTGG-ACTAACACCAACCTTGGCTCATGC-AT-AGCACAAGGAGTT
1 GATTCCATCACATAAAGAGTTGGAAC-AACACCAACCTTGGCTCAT-CTATCA-CACAAGGAGCT
* * * * * * * *
760641 GTATTAGCATCATCACTTTGTTCGAATCCATCACAAAATGAGGTGGATCAATATTTCTAATGAAG
63 GGATTAACATCATCACATTGATCGAATCCATCACAAAAGGAGGTGGATCAACATTTCCAATGAAA
* * * * * * *
760706 ATGTTCCTAATGATAAGGACTTGTTCAATGTTTCAGTCGATTCCATCACATAAGGAGGCGAATCA
128 AAGTTCCTAATGAAAAGAACTTGTTCAATATTTCACTCGATTCCATCACAGAAGGAGGCGAATAA
* * *
760771 ATATTT-CTAATGAAGAAGTTCCTAATGAGAAGAACT
193 ACATTTCCAAAGGAAG-AGTTCCTAATGAGAAGAACT
760807 TGTTCAATAT
Statistics
Matches: 194, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
281 10 0.05
282 179 0.92
283 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (283 bp):
GATTCCATCACATAAAGAGTTGGAACAACACCAACCTTGGCTCATCTATCACACAAGGAGCTGGA
TTAACATCATCACATTGATCGAATCCATCACAAAAGGAGGTGGATCAACATTTCCAATGAAAAAG
TTCCTAATGAAAAGAACTTGTTCAATATTTCACTCGATTCCATCACAGAAGGAGGCGAATAAACA
TTTCCAAAGGAAGAGTTCCTAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCATAATAAG
AACAAATTGTTCAACCTTAGCTC
Found at i:760808 original size:80 final size:80
Alignment explanation
Indices: 760662--760833 Score: 245
Period size: 80 Copynumber: 2.1 Consensus size: 80
760652 ATCACTTTGT
* * * * * * *
760662 TCGAATCCATCACAAAATGAGGTGGATCAATATTTCTAATGAAGATGTTCCTAATGATAAGGACT
1 TCGATTCCATCACAAAAGGAGGCGAATCAATATTTCTAATGAAGAAGTTCCTAATGAGAAGAACT
* *
760727 TGTTCAATGTTTCAG
66 TGTTCAATATTTCAC
*
760742 TCGATTCCATCACATAAGGAGGCGAATCAATATTTCTAATGAAGAAGTTCCTAATGAGAAGAACT
1 TCGATTCCATCACAAAAGGAGGCGAATCAATATTTCTAATGAAGAAGTTCCTAATGAGAAGAACT
760807 TGTTCAATATTTCAC
66 TGTTCAATATTTCAC
*
760822 TCGATTCAATCA
1 TCGATTCCATCA
760834 TTGGAAGTGG
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (80 bp):
TCGATTCCATCACAAAAGGAGGCGAATCAATATTTCTAATGAAGAAGTTCCTAATGAGAAGAACT
TGTTCAATATTTCAC
Found at i:760882 original size:77 final size:79
Alignment explanation
Indices: 760683--760883 Score: 237
Period size: 80 Copynumber: 2.6 Consensus size: 79
760673 ACAAAATGAG
* * * * *
760683 GTGGATCAATATTTCTAATGAAGATGTTCCTAATGATAAGGACTTGTTCAATGTTTCAGTCGATT
1 GTGGATCAATATTTCTAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAATATTTCACTCGATT
* *
760748 CCATCACATAAGGAG
66 CAAT-ACATAAGGAA
* *
760763 GCGAATCAATATTTCTAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAATATTTCACTCGATT
1 GTGGATCAATATTTCTAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAATATTTCACTCGATT
*
760828 CAAT-CAT-TGGAA
66 CAATACATAAGGAA
* * * *
760840 GTGGATCAACATTTCCAATAGAAG-GGTTCGTAATGAGAAGAACT
1 GTGGATCAATATTTCTAAT-GAAGAAGTTCCTAATGAGAAGAACT
760884 CATTCGATGA
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
77 36 0.35
78 7 0.07
80 61 0.59
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (79 bp):
GTGGATCAATATTTCTAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAATATTTCACTCGATT
CAATACATAAGGAA
Found at i:761323 original size:14 final size:15
Alignment explanation
Indices: 761301--761329 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
761291 TTTATCCAAA
761301 AATATTTATTATTAT
1 AATATTTATTATTAT
761316 AATA-TTATTATTAT
1 AATATTTATTATTAT
761330 TACCAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATATTTATTATTAT
Found at i:762903 original size:2 final size:2
Alignment explanation
Indices: 762898--762928 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
762888 ATATACACAC
762898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
762929 CGATTAGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:764443 original size:3 final size:3
Alignment explanation
Indices: 764435--764498 Score: 69
Period size: 3 Copynumber: 21.7 Consensus size: 3
764425 TATGTAACAT
* * **
764435 TAA TAA TAA TAA TAA TAA TAA TATA TTA TAA T-A TAA TAG TTG TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
764480 TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TA
764499 TTTATAATTC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
2 4 0.08
3 46 0.88
4 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:764459 original size:36 final size:36
Alignment explanation
Indices: 764418--764499 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 36
764408 GGGCCTGTAA
*
764418 AATATAATATGTAACATTAATA-ATAATAATAATAAT
1 AATATAATATATAACA-TAATATATAATAATAATAAT
* *
764454 AATAT-AT-TATAATATAATAGTTGTAATAATAATAAT
1 AATATAATATATAACATAATA--TATAATAATAATAAT
764490 AATATAATAT
1 AATATAATAT
764500 TTATAATTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
33 5 0.13
34 5 0.13
35 2 0.05
36 23 0.61
37 2 0.05
38 1 0.03
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (36 bp):
AATATAATATATAACATAATATATAATAATAATAAT
Found at i:766503 original size:55 final size:55
Alignment explanation
Indices: 766285--767172 Score: 1006
Period size: 55 Copynumber: 16.3 Consensus size: 55
766275 CACCTAAGTA
* * * ** *
766285 CCAATATGGAAATTCACAAACTCATTTTGAAATCCT-TGGGG-TGCACATATAGTG
1 CCAATACGGAAATTCATAAACTCATTATG-AATTTTGTGGGGTTGCACACATAGTG
* ** * * ** *
766339 CCGATACGGTCATTCACAAACTCATTGTGAATTACGT-AGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
** * * * *
766393 TAAATACGGTAATTCACAAACTCATTATAAATTACTTAT---GTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATT--TTGTGGGGTTGCACACATAGTG
**
766447 CCAATATAGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* * *
766502 CCAATACAGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACACAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* *
766557 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGATTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* *
766612 CCAATACGAAAATTCATAAACTCATTTTGAATTTTGTGGGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* *
766667 CCAATACGAAAATTCATAAACTCATTATGAATTTGGTGGGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* * * * ** * *
766722 CCAATACGAAAATTCACAAACTCATTTTAAAATCCT-TGGGG-TGTACATATAGTG
1 CCAATACGGAAATTCATAAACTCATTAT-GAATTTTGTGGGGTTGCACACATAGTG
* * ** * * ** * * * *
766776 TCGATACGGTCATTCACAAACTCATTGTGAATTACGT-AGCTTGCACAAATAATG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* * * * * * **
766830 TCAATACGGTAATTCACAAACTCATTATAAATTACT-T-AGGTTATACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATT-TTGTGGGGTTGCACACATAGTG
**
766884 CCAATATAGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* *
766939 CCAATACGGAAATTCATAAAATCATTATGAATTTTGTGGGGTTGCACACACAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* * *
766994 CCAATATGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACATATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* *
767049 CCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* *
767104 CCAATACAGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* *
767159 ACAATACGAAAATT
1 CCAATACGGAAATT
767173 GCAACATATA
Statistics
Matches: 721, Mismatches: 100, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
52 3 0.00
53 10 0.01
54 219 0.30
55 485 0.67
56 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (55 bp):
CCAATACGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
Found at i:766893 original size:437 final size:437
Alignment explanation
Indices: 766285--767172 Score: 1562
Period size: 437 Copynumber: 2.0 Consensus size: 437
766275 CACCTAAGTA
* * *
766285 CCAATATGGAAATTCACAAACTCATTTTGAAATCCTTGGGGTGCACATATAGTGCCGATACGGTC
1 CCAATACGAAAATTCACAAACTCATTTTAAAATCCTTGGGGTGCACATATAGTGCCGATACGGTC
* * *
766350 ATTCACAAACTCATTGTGAATTACGTAGGTTGCACACATAGTGTAAATACGGTAATTCACAAACT
66 ATTCACAAACTCATTGTGAATTACGTAGCTTGCACAAATAATGTAAATACGGTAATTCACAAACT
* *
766415 CATTATAAATTACTTATGTTGCACACATAGTGCCAATATAGAAATTCATAAACTCATTATGAATT
131 CATTATAAATTACTTAGGTTACACACATAGTGCCAATATAGAAATTCATAAACTCATTATGAATT
*
766480 TTGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGGGGTT
196 TTGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATAAAATCATTATGAATTTCGTGGGGTT
766545 GCACACACAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGATTGCACACATAG
261 GCACACACAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGATTGCACACATAG
* *
766610 TGCCAATACGAAAATTCATAAACTCATTTTGAATTTTGTGGGGTTGCACACATAGTGCCAATAC-
326 TGCCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACA
*
766674 GAAAATTCATAAACTCATTATGAATTTGGTGGGGTTGCACACATAGTG
391 G-AAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* *
766722 CCAATACGAAAATTCACAAACTCATTTTAAAATCCTTGGGGTGTACATATAGTGTCGATACGGTC
1 CCAATACGAAAATTCACAAACTCATTTTAAAATCCTTGGGGTGCACATATAGTGCCGATACGGTC
*
766787 ATTCACAAACTCATTGTGAATTACGTAGCTTGCACAAATAATGTCAATACGGTAATTCACAAACT
66 ATTCACAAACTCATTGTGAATTACGTAGCTTGCACAAATAATGTAAATACGGTAATTCACAAACT
*
766852 CATTATAAATTACTTAGGTTATACACATAGTGCCAATATAGAAATTCATAAACTCATTATGAATT
131 CATTATAAATTACTTAGGTTACACACATAGTGCCAATATAGAAATTCATAAACTCATTATGAATT
* *
766917 TTGTGGGGTTGCACACATAGTGCCAATACGGAAATTCATAAAATCATTATGAATTTTGTGGGGTT
196 TTGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATAAAATCATTATGAATTTCGTGGGGTT
* * *
766982 GCACACACAGTGCCAATATGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACATATAG
261 GCACACACAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGATTGCACACATAG
767047 TGCCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACA
326 TGCCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACA
767112 GAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
391 GAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
*
767159 ACAATACGAAAATT
1 CCAATACGAAAATT
767173 GCAACATATA
Statistics
Matches: 428, Mismatches: 22, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
437 427 1.00
438 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (437 bp):
CCAATACGAAAATTCACAAACTCATTTTAAAATCCTTGGGGTGCACATATAGTGCCGATACGGTC
ATTCACAAACTCATTGTGAATTACGTAGCTTGCACAAATAATGTAAATACGGTAATTCACAAACT
CATTATAAATTACTTAGGTTACACACATAGTGCCAATATAGAAATTCATAAACTCATTATGAATT
TTGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATAAAATCATTATGAATTTCGTGGGGTT
GCACACACAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGATTGCACACATAG
TGCCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACA
GAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
Found at i:767902 original size:13 final size:13
Alignment explanation
Indices: 767886--767942 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 13
767876 TCTATGGCGT
767886 GCATTTATGACAC
1 GCATTTATGACAC
*
767899 GCATTTATGACGC
1 GCATTTATGACAC
* *
767912 GTATTTATGACGC
1 GCATTTATGACAC
*
767925 ACATTTATGACAC
1 GCATTTATGACAC
*
767938 TCATT
1 GCATT
767943 GCACGTCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (13 bp):
GCATTTATGACAC
Found at i:768078 original size:2 final size:2
Alignment explanation
Indices: 768071--768192 Score: 123
Period size: 2 Copynumber: 63.0 Consensus size: 2
768061 TTTCGTAAAT
768071 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
768112 TA TA T- TA -A TGA CA AA TA -A TCA TA AA TA CA AA TA TA -A TA TA
1 TA TA TA TA TA T-A TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
768152 -A TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
768193 AGCAATCCAT
Statistics
Matches: 102, Mismatches: 8, Indels: 20
0.78 0.06 0.15
Matches are distributed among these distances:
1 7 0.07
2 90 0.88
3 5 0.05
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (2 bp):
TA
Found at i:777855 original size:4 final size:4
Alignment explanation
Indices: 777846--777871 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
777836 TGTATATATT
777846 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
777872 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:777876 original size:2 final size:2
Alignment explanation
Indices: 777869--777911 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
777859 ACATACATAC
777869 AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
777910 AT
1 AT
777912 TAAATTTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:778535 original size:34 final size:33
Alignment explanation
Indices: 778487--778560 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
778477 TATTATTTTT
*
778487 TTAA-GTTAGTGTTTAGG-GTTTAATGTTTAGGGG
1 TTAAGGTTAGAGTTTAGGAGTTTAA-G-TTAGGGG
* *
778520 TTAGGGTTAGAGTTTAGGATTTTAAGTTAGGGG
1 TTAAGGTTAGAGTTTAGGAGTTTAAGTTAGGGG
778553 TTAAGGTT
1 TTAAGGTT
778561 TAGGGTGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 17 0.49
34 13 0.37
35 5 0.14
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (33 bp):
TTAAGGTTAGAGTTTAGGAGTTTAAGTTAGGGG
Found at i:783536 original size:104 final size:104
Alignment explanation
Indices: 783350--783566 Score: 292
Period size: 104 Copynumber: 2.1 Consensus size: 104
783340 CTGGACTACA
* * * * *
783350 TATGAAGGTTTCGATTAAAAGTTTAATTACTGATTTAGGTAATCATTGTTATTTATGAGAAATCA
1 TATGGAGGTTTCGACTAAAAGTTTAATTACCGATTTAGGTAATCACTGTTACTTATGAGAAATCA
* * * *
783415 AGGAAACTAATGTTTGAACGTTCGGATGACTT-GACGACT
66 AAGAAACTAATGCTTGAACGTTCGGAGGACTTGGA-GACC
* *
783454 TATGGAGGTTTCGACTAAAAGTTTAATTACCGATTTAGGTAATCACTGTTACTTATGGGAAATTA
1 TATGGAGGTTTCGACTAAAAGTTTAATTACCGATTTAGGTAATCACTGTTACTTATGAGAAATCA
* * *
783519 AAGAAATTAATGCTTGAACGTTTGGAGGATTTGGAGACC
66 AAGAAACTAATGCTTGAACGTTCGGAGGACTTGGAGACC
783558 TATGGAGGT
1 TATGGAGGT
783567 CACCCAGAAG
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
104 96 0.98
105 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (104 bp):
TATGGAGGTTTCGACTAAAAGTTTAATTACCGATTTAGGTAATCACTGTTACTTATGAGAAATCA
AAGAAACTAATGCTTGAACGTTCGGAGGACTTGGAGACC
Found at i:783813 original size:30 final size:29
Alignment explanation
Indices: 783766--783832 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
783756 TAAAGTTTTT
*
783766 TTAAAATA-ATATCTAAAATTATCTTCTTAG
1 TTAAAATAGATATCTAAAATAAT-TT-TTAG
* *
783796 TTAAAATAGAT-TTTAAAATAATTTTTTG
1 TTAAAATAGATATCTAAAATAATTTTTAG
783824 TTAAAATAG
1 TTAAAATAG
783833 TATTCAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.36
29 2 0.06
30 17 0.52
31 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (29 bp):
TTAAAATAGATATCTAAAATAATTTTTAG
Found at i:783988 original size:31 final size:30
Alignment explanation
Indices: 783921--783989 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
783911 AAATATTTTA
*
783921 AGTACTTATTTTGATCAAAAAATAAGTTTG
1 AGTACTTATTTTGATCAAAAAATAAATTTG
*
783951 AATACTTATTTTGA-CAAAAAA-AAATATTG
1 AGTACTTATTTTGATCAAAAAATAAAT-TTG
783980 CAGGTACTTA
1 -A-GTACTTA
783990 GATAAAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 3 0.09
29 10 0.30
30 14 0.42
31 6 0.18
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (30 bp):
AGTACTTATTTTGATCAAAAAATAAATTTG
Found at i:786360 original size:17 final size:17
Alignment explanation
Indices: 786340--786374 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
786330 ATAGTCACTT
786340 CTGTTAAGTGTTAACAA
1 CTGTTAAGTGTTAACAA
786357 CTGTTAAGTGTTAACAA
1 CTGTTAAGTGTTAACAA
786374 C
1 C
786375 ATGTGGCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (17 bp):
CTGTTAAGTGTTAACAA
Found at i:789134 original size:23 final size:23
Alignment explanation
Indices: 789108--789161 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
789098 AAATGCACCT
789108 AAGTGCCACGTAAAATTGTACCG
1 AAGTGCCACGTAAAATTGTACCG
* * *
789131 AAGTGCCGCGTAGAATTGTATCG
1 AAGTGCCACGTAAAATTGTACCG
789154 AAGTGCCA
1 AAGTGCCA
789162 TATAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (23 bp):
AAGTGCCACGTAAAATTGTACCG
Found at i:789499 original size:82 final size:82
Alignment explanation
Indices: 789362--789535 Score: 339
Period size: 82 Copynumber: 2.1 Consensus size: 82
789352 ATTATTATCT
789362 ATGTCATTTCATATTCACACATTTATAACACTTATTTCTTATCGCATGTTTGGTCTCTTATAATC
1 ATGTCATTTCATATTCACACATTTATAACACTTATTTCTTATCGCATGTTTGGTCTCTTATAATC
789427 ATGTAATCACATAGTTC
66 ATGTAATCACATAGTTC
789444 ATGTCATTTCATATTCACACATTTATAACACTTATTTCTTATCGCATGTTTGGTCTCTTATAATC
1 ATGTCATTTCATATTCACACATTTATAACACTTATTTCTTATCGCATGTTTGGTCTCTTATAATC
*
789509 ATGTATTCACATAGTTC
66 ATGTAATCACATAGTTC
789526 ATGTCATTTC
1 ATGTCATTTC
789536 TTGTGAAATC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 91 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.45
Consensus pattern (82 bp):
ATGTCATTTCATATTCACACATTTATAACACTTATTTCTTATCGCATGTTTGGTCTCTTATAATC
ATGTAATCACATAGTTC
Found at i:790838 original size:24 final size:20
Alignment explanation
Indices: 790784--790821 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
790774 TTCCCCTTGA
790784 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
790804 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
790822 TTAACATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:793540 original size:2 final size:2
Alignment explanation
Indices: 793533--793557 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
793523 ACCTATATTT
793533 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
793558 GTGCGTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:798608 original size:228 final size:228
Alignment explanation
Indices: 797899--798808 Score: 1651
Period size: 228 Copynumber: 4.0 Consensus size: 228
797889 AGTAATAAAA
* *
797899 AGTCAATTTTTATACTGAATAATATCATAACTGAAATCTATCATTAATATGCTCATATACTTCAT
1 AGTCAATTTTTATACTGAATAATATCATAACTGAAATCTACCATCAATATGCTCATATACTTCAT
* *
797964 AAACTCGTGTATGCTAACTAAAAACATCTAGTAATTCTTAAGTGGTATAGAAGAGTTAAAAATAT
66 AAACTCGTGTATGCTAACTAAAAACATCTAGTAACTCTTAAGTGGTATAGAAGAGTTAGAAATAT
798029 GTTATCTTGATACTAGGTTGTTGAAAAGTGTTCTCACTCAACCAAGAATTAATTTCTCTTTATCT
131 GTTATCTTGATACTAGGTTGTTGAAAAGTGTTCTCACTCAACCAAGAATTAATTTCTCTTTATCT
*
798094 TTGGTCTTAGAGATTTTTCCATCCTTTTTCACC
196 TTGGTCTTAGAGATTTTTCCAACCTTTTTCACC
*
798127 AGTCAATTTTTATACTGAATAATATCATAACTGAAATCTATCATCAATATGCTCATATACTTCAT
1 AGTCAATTTTTATACTGAATAATATCATAACTGAAATCTACCATCAATATGCTCATATACTTCAT
*
798192 AAACTCGTGTATGCTAACTAAAAACATCTAGTAATTCTTAAGTGGTATAGAAGAGTTAG-AATAT
66 AAACTCGTGTATGCTAACTAAAAACATCTAGTAACTCTTAAGTGGTATAGAAGAGTTAGAAATAT
*
798256 GTTATCTTGATACTAGGTTGTTGGAAAGTGTTCTCACTCAACCAAGAATTAATTTCTCTTTATCT
131 GTTATCTTGATACTAGGTTGTTGAAAAGTGTTCTCACTCAACCAAGAATTAATTTCTCTTTATCT
*
798321 TTGGTCTTAGAGATTTTTCCAACCATTTTCACC
196 TTGGTCTTAGAGATTTTTCCAACCTTTTTCACC
*
798354 AGTCAATTTTTATACTGAATAATATCATAACTGAAATCTACCATCAATATGCTCATATATTTCAT
1 AGTCAATTTTTATACTGAATAATATCATAACTGAAATCTACCATCAATATGCTCATATACTTCAT
* *
798419 AAACTCGTGTATGCTAACTAAAAATATCTAGTAACTATTAAGTGGTATAGAAGAGTTAGAAATAT
66 AAACTCGTGTATGCTAACTAAAAACATCTAGTAACTCTTAAGTGGTATAGAAGAGTTAGAAATAT
*
798484 GTTATCTTGATACTAGGTTGTTGGAAAGTGTTCTCACTCAACCAAGAATTAATTTCTCTTTATCT
131 GTTATCTTGATACTAGGTTGTTGAAAAGTGTTCTCACTCAACCAAGAATTAATTTCTCTTTATCT
*
798549 TTGGTCATAGAGATTTTTCCAACCTTTTTCACC
196 TTGGTCTTAGAGATTTTTCCAACCTTTTTCACC
798582 AGTCAATTTTTATACTGAATAATATCATAACTGAAATCTACCATCAATATGCTCATATACTTCAT
1 AGTCAATTTTTATACTGAATAATATCATAACTGAAATCTACCATCAATATGCTCATATACTTCAT
*
798647 AAACTCGTGTATGCTAACTAAAAATATCTAGTAACTCTTAAGTGGTATAGAAGAGTTAGAAATAT
66 AAACTCGTGTATGCTAACTAAAAACATCTAGTAACTCTTAAGTGGTATAGAAGAGTTAGAAATAT
*
798712 GTTATCTTGATACTAGGTTGTTGAAAAGTATTCTCACTCAACCAAGAATTAATTTCTCTTTATCT
131 GTTATCTTGATACTAGGTTGTTGAAAAGTGTTCTCACTCAACCAAGAATTAATTTCTCTTTATCT
* *
798777 TTGATCTTAGAGATTTTTCTAACCTTTTTCAC
196 TTGGTCTTAGAGATTTTTCCAACCTTTTTCAC
798809 TAATCATGGG
Statistics
Matches: 662, Mismatches: 19, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
227 219 0.33
228 443 0.67
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (228 bp):
AGTCAATTTTTATACTGAATAATATCATAACTGAAATCTACCATCAATATGCTCATATACTTCAT
AAACTCGTGTATGCTAACTAAAAACATCTAGTAACTCTTAAGTGGTATAGAAGAGTTAGAAATAT
GTTATCTTGATACTAGGTTGTTGAAAAGTGTTCTCACTCAACCAAGAATTAATTTCTCTTTATCT
TTGGTCTTAGAGATTTTTCCAACCTTTTTCACC
Found at i:801737 original size:19 final size:20
Alignment explanation
Indices: 801713--801750 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
801703 CATTATGAGA
801713 TGGGGGG-AATCGGTACCCC
1 TGGGGGGTAATCGGTACCCC
801732 TGGGGGGTAATCGGTACCC
1 TGGGGGGTAATCGGTACCC
801751 TCCGAGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.16, C:0.24, G:0.42, T:0.18
Consensus pattern (20 bp):
TGGGGGGTAATCGGTACCCC
Found at i:802285 original size:2 final size:2
Alignment explanation
Indices: 802278--802302 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
802268 AAGCCAATTG
802278 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
802303 AAGCGTAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:804429 original size:21 final size:23
Alignment explanation
Indices: 804405--804487 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
804395 CAGACCCCGT
*
804405 GGGGGGTATCGATT-CCCT-AAA
1 GGGGGGAATCGATTCCCCTCAAA
804426 GGGGGGAATCGATTCCCACTCAAA
1 GGGGGGAATCGATTCCC-CTCAAA
804450 -GGGGGAATC-AGTTCCCCTGC-AA
1 GGGGGGAATCGA-TTCCCCT-CAAA
*
804472 GGGGGGTATCGATTCC
1 GGGGGGAATCGATTCC
804488 TCTTGCACTA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
21 13 0.25
22 7 0.13
23 29 0.55
24 4 0.08
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.20
Consensus pattern (23 bp):
GGGGGGAATCGATTCCCCTCAAA
Found at i:806729 original size:24 final size:24
Alignment explanation
Indices: 806702--806755 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 24
806692 CAAGATTTTC
806702 TTTACCGTTGTTTAAAACAAAACA
1 TTTACCGTTGTTTAAAACAAAACA
*
806726 TTTATACGTTGTTTAAAACAAAACA
1 TTTA-CCGTTGTTTAAAACAAAACA
806751 TTTAC
1 TTTAC
806756 ATCCAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (24 bp):
TTTACCGTTGTTTAAAACAAAACA
Found at i:806735 original size:25 final size:25
Alignment explanation
Indices: 806707--806754 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
806697 TTTTCTTTAC
806707 CGTTGTTTAAAACAAAACATTTATA
1 CGTTGTTTAAAACAAAACATTTATA
806732 CGTTGTTTAAAACAAAACATTTA
1 CGTTGTTTAAAACAAAACATTTA
806755 CATCCAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (25 bp):
CGTTGTTTAAAACAAAACATTTATA
Found at i:808345 original size:21 final size:22
Alignment explanation
Indices: 808321--808363 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
808311 AAGACTATTT
808321 TCATTTTTCAATTTTGA-AATA
1 TCATTTTTCAATTTTGACAATA
**
808342 TCATTTTTGTATTTTGACAATA
1 TCATTTTTCAATTTTGACAATA
808364 GAGTCTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.53
Consensus pattern (22 bp):
TCATTTTTCAATTTTGACAATA
Found at i:808868 original size:24 final size:24
Alignment explanation
Indices: 808836--808889 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
808826 CCTTTGGTGT
808836 CTCATCAATCTTATCGAGGTCTAC
1 CTCATCAATCTTATCGAGGTCTAC
808860 CTCATCAATCTTATCGAGGTCTAC
1 CTCATCAATCTTATCGAGGTCTAC
808884 CTCATC
1 CTCATC
808890 TTGAAGCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.33
Consensus pattern (24 bp):
CTCATCAATCTTATCGAGGTCTAC
Found at i:818093 original size:19 final size:19
Alignment explanation
Indices: 818069--818109 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
818059 AAAACCAGAA
*
818069 CCCTAGGGGGTATCGATTC
1 CCCTAGGGGGAATCGATTC
*
818088 CCCTAGGGGGAATCGGTTC
1 CCCTAGGGGGAATCGATTC
818107 CCC
1 CCC
818110 ATCAAAAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.32, G:0.32, T:0.22
Consensus pattern (19 bp):
CCCTAGGGGGAATCGATTC
Found at i:826976 original size:138 final size:136
Alignment explanation
Indices: 826619--827139 Score: 581
Period size: 136 Copynumber: 3.8 Consensus size: 136
826609 AATTTAGGTT
* *
826619 AATTTTTTATTTGGTCCTCGCATTTATG-TCCGAGGTTCCATTTCAATTATTTGATCCATAATTG
1 AATTTTTTATTTGGTCCTCGCATTTATGCT-CAAGGTTCCATTTCAATTATTCGATCCATAATTG
* *
826683 ATTAAAATTGGTTAGGATTAATAATATAGCCTCTATTTTAGGTTTAATTTCACTTTAATCCTTAA
65 -TTAAAATTGGTTAGGATTAATATTAGAGCCTCTATTTTAGGTTT-ATTTCACTTTAATCCTTAA
*
826748 AATTGGGAG
128 AATTAGGAG
* * * * * *
826757 -ACTTTTT-TTTGGTCCTTGTATTTATGCCCAAGGTTCCATCTCAATTATTC-AACCAATAATTG
1 AATTTTTTATTTGGTCCTCGCATTTATGCTCAAGGTTCCATTTCAATTATTCGATCC-ATAATT-
* * * *
826819 GTTAAAATTGGTTAGGATTAATATTAGAGCCTCCATTTTAGGCTTAGTTTCAGTTTAGTCCTTAA
64 GTTAAAATTGGTTAGGATTAATATTAGAGCCTCTATTTTAGGTTTA-TTTCACTTTAATCCTTAA
*
826884 AATTATGAG
128 AATTAGGAG
* *
826893 AATTTTTTATTTGGTCCTCGCATTTATGCTCGATGTTCCATTTCAATTATTCGATCCATAATTAG
1 AATTTTTTATTTGGTCCTCGCATTTATGCTCAAGGTTCCATTTCAATTATTCGATCCATAATT-G
* * *
826958 TTAAAAGTGGTTAAGATTAATATTAGAGCCTCTATTTTAGGTTTTATTTCACTTTAAT-CTTTAA
65 TTAAAATTGGTTAGGATTAATATTAGAGCCTCTATTTTAGG-TTTATTTCACTTTAATCCTTAAA
* *
827022 TTTAGGTG
129 ATTAGGAG
* * *** * * * *
827030 ATTTTTTTATTTAGTCCTCATTTTTATGC-CTAAAGTTTCATTTCAATTATTCGATTCAAAATTT
1 AATTTTTTATTTGGTCCTCGCATTTATGCTC-AAGGTTCCATTTCAATTATTCGATCCATAA-TT
*
827094 GTTAAAATTGGTTAGGATTAATAATTAGAG--TCTATATTCAGGTTTA
64 GTTAAAATTGGTTAGGATTAAT-ATTAGAGCCTCTAT-TTTAGGTTTA
827140 ACTTCTAGGT
Statistics
Matches: 323, Mismatches: 48, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
135 4 0.01
136 115 0.36
137 97 0.30
138 101 0.31
139 6 0.02
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (136 bp):
AATTTTTTATTTGGTCCTCGCATTTATGCTCAAGGTTCCATTTCAATTATTCGATCCATAATTGT
TAAAATTGGTTAGGATTAATATTAGAGCCTCTATTTTAGGTTTATTTCACTTTAATCCTTAAAAT
TAGGAG
Found at i:829321 original size:36 final size:36
Alignment explanation
Indices: 829276--829410 Score: 193
Period size: 36 Copynumber: 3.8 Consensus size: 36
829266 AGAAGTACGA
829276 AAGGAAGCATCAGCACTTTCGATTCAAAGTGAACGG
1 AAGGAAGCATCAGCACTTTCGATTCAAAGTGAACGG
* * * *
829312 AAGGAAGCATCGGTACTTTCGATTC-AAGAAGAACGA
1 AAGGAAGCATCAGCACTTTCGATTCAAAG-TGAACGG
829348 AAGGAAGCATC-GACACTTTCGATTCAAAGTGAACGG
1 AAGGAAGCATCAG-CACTTTCGATTCAAAGTGAACGG
*
829384 AAGGAAGCATCAGCACTTTCGACTCAA
1 AAGGAAGCATCAGCACTTTCGATTCAA
829411 TTGTTCATCT
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
35 4 0.05
36 79 0.91
37 4 0.05
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (36 bp):
AAGGAAGCATCAGCACTTTCGATTCAAAGTGAACGG
Found at i:829382 original size:72 final size:72
Alignment explanation
Indices: 829265--829410 Score: 240
Period size: 72 Copynumber: 2.0 Consensus size: 72
829255 GAAGGTGAAT
* * *
829265 AAGAAGTACGAAAGGAAGCATCAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCGGTACTT
1 AAGAAGAACGAAAGGAAGCATCAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCAGCACTT
*
829330 TCGATTC
66 TCGACTC
829337 AAGAAGAACGAAAGGAAGCATC-GACACTTTCGATTCAAAGTGAACGGAAGGAAGCATCAGCACT
1 AAGAAGAACGAAAGGAAGCATCAG-CACTTTCGATTCAAAGTGAACGGAAGGAAGCATCAGCACT
829401 TTCGACTC
65 TTCGACTC
829409 AA
1 AA
829411 TTGTTCATCT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 1 0.01
72 68 0.99
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.18
Consensus pattern (72 bp):
AAGAAGAACGAAAGGAAGCATCAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCAGCACTT
TCGACTC
Found at i:829428 original size:16 final size:16
Alignment explanation
Indices: 829407--829439 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
829397 CACTTTCGAC
*
829407 TCAATTGTTCATCTTT
1 TCAATTGTTCAGCTTT
829423 TCAATTGTTCAGCTTT
1 TCAATTGTTCAGCTTT
829439 T
1 T
829440 GAAATGTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.55
Consensus pattern (16 bp):
TCAATTGTTCAGCTTT
Found at i:837376 original size:12 final size:12
Alignment explanation
Indices: 837349--837402 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
837339 ATTGCAACTG
* *
837349 CTAACTAATCAG
1 CTAACTAATGAA
837361 CTAACTAATGAA
1 CTAACTAATGAA
837373 CTAACT--TGAA
1 CTAACTAATGAA
*
837383 CTAACTGAT-AA
1 CTAACTAATGAA
*
837394 CAAACTAAT
1 CTAACTAAT
837403 TACAATCATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 10 0.28
11 9 0.25
12 17 0.47
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.26
Consensus pattern (12 bp):
CTAACTAATGAA
Found at i:844954 original size:5 final size:5
Alignment explanation
Indices: 844946--845329 Score: 444
Period size: 5 Copynumber: 76.8 Consensus size: 5
844936 AATTTTTAAA
* * * * * * * * * *
844946 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
* * * * * * * * * *
844996 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
*
845046 TATAA TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
845096 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
845146 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
845196 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
* * * * * * * * *
845246 TATAG TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
* * * * * *
845296 TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAG TATAG TATAG TATAG TATAG TATAG TATA
845330 TTGTGTAGTT
Statistics
Matches: 377, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 377 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.40
Consensus pattern (5 bp):
TATAG
Done.