Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 174 of 310
Found at i:56847709 original size:5 final size:5
Alignment explanation
Indices: 56847699--56847723 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56847689 ATTTTTTACC
56847699 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
56847724 GGATATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:56855531 original size:40 final size:38
Alignment explanation
Indices: 56855484--56855620 Score: 141
Period size: 40 Copynumber: 3.5 Consensus size: 38
56855474 GCGTTTGCAT
*
56855484 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTA
1 AAAAAACGCCGCTAAAAAT-GAGTATTAGCGGCGCTTTA
* * * *
56855523 TATAAAACGCCACTAAAGATTGAGTATTAGTGGCGCTTTA
1 -AAAAAACGCCGCTAAA-AATGAGTATTAGCGGCGCTTTA
* * *
56855563 AGGAAAACGCCGCTAATAATGAGTATTAGCGGCGTTTTTA
1 A-AAAAACGCCGCTAAAAATGAGTATTAGCGGCG-CTTTA
56855603 CAAAAAACGCCGC-AAAAA
1 -AAAAAACGCCGCTAAAAA
56855621 GCCTGAACCC
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
39 20 0.25
40 57 0.71
41 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (38 bp):
AAAAAACGCCGCTAAAAATGAGTATTAGCGGCGCTTTA
Found at i:56855794 original size:40 final size:41
Alignment explanation
Indices: 56855653--56855809 Score: 262
Period size: 41 Copynumber: 3.9 Consensus size: 41
56855643 TTCTTACCTT
*
56855653 TCAGGGCTTTAGCGGCGTTTTTGTAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGC
* *
56855694 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGC
*
56855735 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGC
*
56855776 TCA-GGCTTTAGCGACGTTTTTGTAAAAGCGCCGC
1 TCAGGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGC
56855810 AAAAACATTT
Statistics
Matches: 111, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
40 29 0.26
41 82 0.74
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGC
Found at i:56856165 original size:21 final size:21
Alignment explanation
Indices: 56856131--56856246 Score: 76
Period size: 21 Copynumber: 5.5 Consensus size: 21
56856121 AAGGTTTTTG
*
56856131 GTTTAGGGTATATGGTATAGA
1 GTTTAGGGTTTATGGTATAGA
* *
56856152 GTTTAAGGTTTATGG-ATTATGG
1 GTTTAGGGTTTATGGTA-TA-GA
* * *
56856174 GTTTAGGGGTTATGGTTTACA
1 GTTTAGGGTTTATGGTATAGA
* *
56856195 GTTTAGGGTTTAGGGGT-TATA
1 GTTTAGGGTTTA-TGGTATAGA
* *
56856216 GTTTATGGTTTAATGTTATAGA
1 GTTTAGGGTTT-ATGGTATAGA
*
56856238 -TTAAGGGTT
1 GTTTAGGGTT
56856247 GGGGTTTAAG
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
20 1 0.01
21 48 0.67
22 23 0.32
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (21 bp):
GTTTAGGGTTTATGGTATAGA
Found at i:56856205 original size:7 final size:7
Alignment explanation
Indices: 56856130--56856312 Score: 68
Period size: 7 Copynumber: 26.0 Consensus size: 7
56856120 TAAGGTTTTT
56856130 GGTTTAG
1 GGTTTAG
* *
56856137 GGTATAT
1 GGTTTAG
*
56856144 GGTATAG
1 GGTTTAG
* *
56856151 AGTTTAA
1 GGTTTAG
*
56856158 GGTTTAT
1 GGTTTAG
*
56856165 GGATTATG
1 GGTTTA-G
56856173 GGTTTAG
1 GGTTTAG
* *
56856180 GGGTTAT
1 GGTTTAG
*
56856187 GGTTTAC
1 GGTTTAG
*
56856194 AGTTTAG
1 GGTTTAG
56856201 GGTTTAG
1 GGTTTAG
* *
56856208 GGGTTAT
1 GGTTTAG
* *
56856215 AGTTTAT
1 GGTTTAG
*
56856222 GGTTTAA
1 GGTTTAG
*
56856229 TGTTATA-
1 GGTT-TAG
* *
56856236 GATTAAG
1 GGTTTAG
*
56856243 GG-TTGG
1 GGTTTAG
*
56856249 GGTTTAA
1 GGTTTAG
56856256 GGTTTAG
1 GGTTTAG
56856263 TGG-TTAGG
1 -GGTTTA-G
*
56856271 GGTTGAG
1 GGTTTAG
*
56856278 GGTTAAG
1 GGTTTAG
*
56856285 AG-TTAGG
1 GGTTTA-G
56856292 GGTTTAG
1 GGTTTAG
*
56856299 GATTTAG
1 GGTTTAG
56856306 GGTTTAG
1 GGTTTAG
56856313 ATTAATTAGT
Statistics
Matches: 126, Mismatches: 41, Indels: 18
0.68 0.22 0.10
Matches are distributed among these distances:
6 7 0.06
7 104 0.83
8 15 0.12
ACGTcount: A:0.22, C:0.01, G:0.37, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:56856226 original size:28 final size:29
Alignment explanation
Indices: 56856159--56856227 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
56856149 AGAGTTTAAG
* *
56856159 GTTTATGGATTATGGGTTTAGGGGTTATG
1 GTTTATGGTTTATGGGTTTAGGGGTTATA
**
56856188 GTTTACAGTTTA-GGGTTTAGGGGTTATA
1 GTTTATGGTTTATGGGTTTAGGGGTTATA
56856216 GTTTATGGTTTA
1 GTTTATGGTTTA
56856228 ATGTTATAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 25 0.74
29 9 0.26
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.46
Consensus pattern (29 bp):
GTTTATGGTTTATGGGTTTAGGGGTTATA
Found at i:56856438 original size:16 final size:17
Alignment explanation
Indices: 56856419--56856460 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
56856409 AAATTATTTA
56856419 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
56856435 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
56856452 TAAAATAAT
1 T-AAATAAT
56856461 GATTATAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.42
17 7 0.29
18 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:56861922 original size:36 final size:36
Alignment explanation
Indices: 56861875--56861955 Score: 155
Period size: 36 Copynumber: 2.3 Consensus size: 36
56861865 AGTAAACCCG
56861875 TTTCAGTCTAATTTCAAAGGGTTTTTGAATTTCCAT
1 TTTCAGTCTAATTTCAAAGGGTTTTTGAATTTCCAT
56861911 TTTCAGTCTAATTTCAAAGGGTTTTTGAATTTCCAT
1 TTTCAGTCTAATTTCAAAGGGTTTTTGAATTTCCAT
56861947 TTT-AGTCTA
1 TTTCAGTCTA
56861956 TAAATTTTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 6 0.13
36 39 0.87
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.48
Consensus pattern (36 bp):
TTTCAGTCTAATTTCAAAGGGTTTTTGAATTTCCAT
Found at i:56862297 original size:43 final size:42
Alignment explanation
Indices: 56862266--56862531 Score: 237
Period size: 43 Copynumber: 6.2 Consensus size: 42
56862256 TGGTATTTTC
56862266 AGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGATCATGATTTAT
1 AGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGA-CATGATTTAT
* * * * *
56862309 AGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTAT
1 AGCGGCGTTTGTGGAAAAAGCGTCGCTAAA-GACATGATTTAT
* ** * *
56862352 AGCGGCGTTTGTGAAAAAAGCACCGCTAAAGATCTTGATCTAT
1 AGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGA-CATGATTTAT
* * * * *
56862395 AGCGGCGTTTGTGTAAGAAGCGCCGCTAAAGGTCATGATCTAT
1 AGCGGCGTTTGTGGAAAAAGCGTCGCTAAA-GACATGATTTAT
* * * * *
56862438 AGCGGCGTTTGT-GTAAAAGTGCCGCTAAAGGTCATGATCTAT
1 AGCGGCGTTTGTGGAAAAAGCGTCGCTAAA-GACATGATTTAT
* * * * * *
56862480 AGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCCTGATCTAT
1 AGCGGCGTTTGTGGAAAAAGCGTCGCTAAA-GACATGATTTAT
56862523 AGCGGCGTT
1 AGCGGCGTT
56862532 GACAATGGCG
Statistics
Matches: 198, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
42 39 0.20
43 157 0.79
44 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (42 bp):
AGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGACATGATTTAT
Found at i:56862505 original size:85 final size:85
Alignment explanation
Indices: 56862266--56862531 Score: 388
Period size: 86 Copynumber: 3.1 Consensus size: 85
56862256 TGGTATTTTC
* * **
56862266 AGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGATCATGATTTATAGCGGCGTTTGTGGGAAAAGCG
1 AGCGGCGTTTGT-GAAAAAGCGCCGCTAAAGATCATGATCTATAGCGGCGTTTGTGAAAAAAGCG
*
56862331 CCGCTAAAGGTCTTGATCTAT
65 CCGCTAAAGGTCATGATCTAT
* * * *
56862352 AGCGGCGTTTGTGAAAAAAGCACCGCTAAAGATCTTGATCTATAGCGGCGTTTGTGTAAGAAGCG
1 AGCGGCGTTTGTG-AAAAAGCGCCGCTAAAGATCATGATCTATAGCGGCGTTTGTGAAAAAAGCG
56862417 CCGCTAAAGGTCATGATCTAT
65 CCGCTAAAGGTCATGATCTAT
* * * *
56862438 AGCGGCGTTTGTGTAAAAGTGCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGAAAAAAGTGC
1 AGCGGCGTTTGTGAAAAAGCGCCGCTAAAGATCATGATCTATAGCGGCGTTTGTGAAAAAAGCGC
*
56862503 CGCTAAAGGTCCTGATCTAT
66 CGCTAAAGGTCATGATCTAT
56862523 AGCGGCGTT
1 AGCGGCGTT
56862532 GACAATGGCG
Statistics
Matches: 162, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
85 73 0.45
86 89 0.55
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (85 bp):
AGCGGCGTTTGTGAAAAAGCGCCGCTAAAGATCATGATCTATAGCGGCGTTTGTGAAAAAAGCGC
CGCTAAAGGTCATGATCTAT
Found at i:56866759 original size:16 final size:16
Alignment explanation
Indices: 56866734--56866764 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56866724 ATTTTGATAG
56866734 TAATAAAACTGTAATA
1 TAATAAAACTGTAATA
*
56866750 TAATAGAACTGTAAT
1 TAATAAAACTGTAAT
56866765 CAGTAATTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (16 bp):
TAATAAAACTGTAATA
Found at i:56868398 original size:24 final size:25
Alignment explanation
Indices: 56868371--56868428 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
56868361 GTGTAGGTAA
56868371 ATAAATTATG-TA-ATATAAAAAAAC
1 ATAAA-TATGCTATATATAAAAAAAC
*
56868395 ATAAATATGTCTATATATAAAAAAAT
1 ATAAATATG-CTATATATAAAAAAAC
*
56868421 ATATATAT
1 ATAAATAT
56868429 ATAAAGATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.14
24 5 0.17
25 2 0.07
26 18 0.62
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (25 bp):
ATAAATATGCTATATATAAAAAAAC
Found at i:56868736 original size:6 final size:6
Alignment explanation
Indices: 56868725--56868803 Score: 99
Period size: 6 Copynumber: 13.3 Consensus size: 6
56868715 CAATGTTAGC
*
56868725 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AAGAAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* * *
56868773 AAGAAT AAGAAT AAGAA- AATAAAT AA-AAT AA
1 AATAAT AATAAT AATAAT AAT-AAT AATAAT AA
56868804 CAAAAGGACT
Statistics
Matches: 69, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
5 7 0.10
6 60 0.87
7 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (6 bp):
AATAAT
Found at i:56868737 original size:9 final size:9
Alignment explanation
Indices: 56868725--56868803 Score: 99
Period size: 9 Copynumber: 8.9 Consensus size: 9
56868715 CAATGTTAGC
56868725 AATAATAAT
1 AATAATAAT
56868734 AATAATAAT
1 AATAATAAT
56868743 AATAATAAT
1 AATAATAAT
56868752 AATAATAAT
1 AATAATAAT
*
56868761 AATAATAAG
1 AATAATAAT
*
56868770 AATAAGAAT
1 AATAATAAT
* *
56868779 AAGAATAAG
1 AATAATAAT
56868788 AA-AATAAAT
1 AATAAT-AAT
56868797 AA-AATAA
1 AATAATAA
56868804 CAAAAGGACT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
8 5 0.08
9 57 0.92
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (9 bp):
AATAATAAT
Found at i:56870721 original size:9 final size:9
Alignment explanation
Indices: 56870698--56870765 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
56870688 TTAAAAAATA
*
56870698 TTTTTTAAT
1 TTTTTTATT
*
56870707 TCTTTTATT
1 TTTTTTATT
56870716 TTTTTTATT
1 TTTTTTATT
*
56870725 TTATTTTATA
1 TT-TTTTATT
*
56870735 TTATTTATCT
1 TTTTTTAT-T
56870745 TTCTTTT-TT
1 TT-TTTTATT
*
56870754 TTTTCTATT
1 TTTTTTATT
56870763 TTT
1 TTT
56870766 CTTCTTCCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
8 3 0.06
9 30 0.64
10 11 0.23
11 3 0.06
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTATT
Found at i:56874094 original size:3 final size:3
Alignment explanation
Indices: 56874088--56874113 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
56874078 ATGGTGGTCG
56874088 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
56874114 GAGAGGAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:56880710 original size:6 final size:6
Alignment explanation
Indices: 56880699--56880724 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
56880689 TGCCCTTCCT
56880699 CCTCCG CCTCCG CCTCCG CCTCCG CC
1 CCTCCG CCTCCG CCTCCG CCTCCG CC
56880725 AGCGGCGTAG
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:0.69, G:0.15, T:0.15
Consensus pattern (6 bp):
CCTCCG
Found at i:56883772 original size:16 final size:18
Alignment explanation
Indices: 56883746--56883778 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56883736 TTTAATTAAC
56883746 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
56883763 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
56883779 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:56884222 original size:113 final size:114
Alignment explanation
Indices: 56883926--56884240 Score: 359
Period size: 113 Copynumber: 2.8 Consensus size: 114
56883916 AAGAACATCA
* * * * * * * *
56883926 TTAGCGGCG-TTTACAACCACGCGCCGCAAAATTTCCTATCCAAAACGCAACG-TTTTCGTCTTT
1 TTAGCGACGCTTTACAACAACGCGCCGCAAAATATCCTAACCAAAACGCATCGTTTTTAGTGTTG
* * * * *
56883989 ATGTATGCAAGAATTAGTGGCGCTTCAAAAAACACGCCGCTAAAGTGTC
66 ATGTATCCTAGAATTAGTGGCGCTTCAAAAAACACGCCCCGAAAGCGTC
* ** *
56884038 TTAGCGACGCTTTACAACAACGCGCCGTAATTTCTCCTAACCAAAACGCATCGTTTTTAGTGTTG
1 TTAGCGACGCTTTACAACAACGCGCCGCAAAATATCCTAACCAAAACGCATCGTTTTTAGTGTTG
*
56884103 ATGTATCCTAGAATTAGTGGCGCTTCTAAAAAA-AGGCCCCGAAAGCGTC
66 ATGTATCCTAGAATTAGTGGCGCTTC-AAAAAACACGCCCCGAAAGCGTC
* * * * * * *
56884152 TTAGCGGCGTTTTACGA-TATGCGCCGCAAAATATCTTAACCAAAACGCATCGTTTTTGGTGTTG
1 TTAGCGACGCTTTACAACAACGCGCCGCAAAATATCCTAACCAAAACGCATCGTTTTTAGTGTTG
*
56884216 ATGTATCCTAGATTTAGTGGCGCTT
66 ATGTATCCTAGAATTAGTGGCGCTT
56884241 TGTGATATGC
Statistics
Matches: 171, Mismatches: 29, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
112 8 0.05
113 99 0.58
114 58 0.34
115 6 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (114 bp):
TTAGCGACGCTTTACAACAACGCGCCGCAAAATATCCTAACCAAAACGCATCGTTTTTAGTGTTG
ATGTATCCTAGAATTAGTGGCGCTTCAAAAAACACGCCCCGAAAGCGTC
Found at i:56884835 original size:242 final size:253
Alignment explanation
Indices: 56884295--56885072 Score: 1119
Period size: 266 Copynumber: 3.0 Consensus size: 253
56884285 AAAGCGCCGT
* * *
56884295 AAAATATCTTTACTAAAACGCGTAGTTTTAATTTTGATGTATATTTATATTACTGGCGCTTACTA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTT-ATG--TACTTATATTAGTGGCGCTTACTA
* * *
56884360 GAAAACGCCGTTAAAGAATAGCTTTAGCGGCGCTTGAGCCAAAGCGCGGCAACGTATCTTAACAA
63 GAAAACGCCGTTAAAGAATA-C--T--CAG-GCTT-A---TAAGCGCCGCAACGTATCTTAACAA
*
56884425 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAAAA
118 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATA
*
56884490 TCTGAACCAAAATGCATCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAAC
183 TCTGAACCAAAATGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAAC
56884555 GCCGCA
248 GCCGCA
56884561 AAAATATCTTAACTAAAACGCGTAGTTTTAA-TTT-TG-A-TTATATTAGTGGCGCTTACTAGAA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTATGTACTTATATTAGTGGCGCTTACTAGAA
*
56884622 AACGCCGTTAAAG-A-A-T-A-GCTT-T-AGCGCCGTAACGTATCTTAACAAAACGCAGTGTTTG
66 AACGCCGTTAAAGAATACTCAGGCTTATAAGCGCCGCAACGTATCTTAACAAAACGCAGTGTTTG
* *
56884680 GTCTCAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATATCTGAACCAAAAC
131 GTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATATCTGAACCAAAAT
56884745 GCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAACGCCGCA
196 GCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAACGCCGCA
56884803 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGCTTACTA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTT-ATG--TACTTATATTAGTGGCGCTTACTA
*
56884868 GAAAACGTCGTTAAAGAATAGCTTCAGCGGCGCTTGATCCAAAGCGCCGCAACGTATCTTAACAA
63 GAAAACGCCGTTAAAGAATA-C-TCA---G-GCTT-AT---AAGCGCCGCAACGTATCTTAACAA
*
56884933 AACGCAGTGTTTTGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATA
118 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATA
*
56884998 TCTGAACCAAAATGCACCGTTTTGGTCTCGATATATACTTCAATTAGTGGCGCTGACGTTAAAAC
183 TCTGAACCAAAATGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAAC
56885063 GCCGCA
248 GCCGCA
56885069 AAAA
1 AAAA
56885073 AGCAAAATAT
Statistics
Matches: 472, Mismatches: 16, Indels: 48
0.88 0.03 0.09
Matches are distributed among these distances:
242 184 0.39
243 3 0.01
245 2 0.00
248 5 0.01
249 36 0.08
250 1 0.00
251 1 0.00
253 1 0.00
254 1 0.00
255 1 0.00
257 1 0.00
258 1 0.00
259 36 0.08
260 5 0.01
262 1 0.00
263 2 0.00
265 3 0.01
266 188 0.40
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (253 bp):
AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTATGTACTTATATTAGTGGCGCTTACTAGAA
AACGCCGTTAAAGAATACTCAGGCTTATAAGCGCCGCAACGTATCTTAACAAAACGCAGTGTTTG
GTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATATCTGAACCAAAAT
GCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAACGCCGCA
Found at i:56884873 original size:77 final size:76
Alignment explanation
Indices: 56884699--56884874 Score: 196
Period size: 77 Copynumber: 2.3 Consensus size: 76
56884689 TATGTTACAT
* **
56884699 TTAGTGGCGCTTA-TAGGAAAACGCCGCAAAATATCTGAACCAAAACGCACCGTTTTGGTCTCGA
1 TTAGTGGCGCTTACTA-GAAAACGCCGCAAAATATCTGAACCAAAACGCACAGTTTTAATCTCGA
56884763 TGTATACTTCAA
65 TGTATACTTCAA
* * * * ** * *
56884775 TTAGTGGCGCTGACGT-TAAAACGCCGCAAAAATATCTTAACTAAAACGCGTAGTTTTAATTTTG
1 TTAGTGGCGCTTAC-TAGAAAACGCCGC-AAAATATCTGAACCAAAACGCACAGTTTTAATCTCG
56884839 ATGTATACTT-ATA
64 ATGTATACTTCA-A
56884852 TTAGTGGCGCTTACTAGAAAACG
1 TTAGTGGCGCTTACTAGAAAACG
56884875 TCGTTAAAGA
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
76 24 0.29
77 57 0.70
78 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (76 bp):
TTAGTGGCGCTTACTAGAAAACGCCGCAAAATATCTGAACCAAAACGCACAGTTTTAATCTCGAT
GTATACTTCAA
Found at i:56885150 original size:84 final size:84
Alignment explanation
Indices: 56884990--56885155 Score: 190
Period size: 84 Copynumber: 2.0 Consensus size: 84
56884980 GGAAAACGCC
* * * **
56884990 GCAAAATATCTGAACCAAAATGCACCGTTTTGGTCTCGATATATACTTCAATTAGTGGCGCTGAC
1 GCAAAATATCTGAAACAAAACGCAACGTTTTGGTCTCGATATATACTAAAATTAGTGGCGCTGAC
* *
56885055 GTTAAAACGCCGCAAAAAA
66 CTGAAAACGCCGCAAAAAA
* * * * **
56885074 GCAAAATATCTTAAACAAAACGCAACGTTTTTGTCGT-TATGTATACTAAAATTAGTGGCGCTTT
1 GCAAAATATCTGAAACAAAACGCAACGTTTTGGTC-TCGATATATACTAAAATTAGTGGCGCTGA
*
56885138 CCTGAAAGCGCCGCAAAA
65 CCTGAAAACGCCGCAAAA
56885156 TATGTTAACA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
84 66 0.99
85 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (84 bp):
GCAAAATATCTGAAACAAAACGCAACGTTTTGGTCTCGATATATACTAAAATTAGTGGCGCTGAC
CTGAAAACGCCGCAAAAAA
Found at i:56885671 original size:15 final size:14
Alignment explanation
Indices: 56885651--56885700 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
56885641 TAAGGTTTGT
56885651 AGTTTAGGGTTTAA
1 AGTTTAGGGTTTAA
**
56885665 GAGTTTAAAGTTTAA
1 -AGTTTAGGGTTTAA
*
56885680 AGGTTACGGGTTTAA
1 AGTTTA-GGGTTTAA
56885695 AGTTTA
1 AGTTTA
56885701 AAGGTTACGG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 5 0.18
15 23 0.82
ACGTcount: A:0.32, C:0.02, G:0.26, T:0.40
Consensus pattern (14 bp):
AGTTTAGGGTTTAA
Found at i:56885676 original size:22 final size:21
Alignment explanation
Indices: 56885651--56885707 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
56885641 TAAGGTTTGT
*
56885651 AGTTTAGGGTTTAAGAGTTTAA
1 AGTTTAAGG-TTAAGAGTTTAA
* *
56885673 AGTTTAAAGGTTACGGGTTTAA
1 AGTTT-AAGGTTAAGAGTTTAA
56885695 AGTTTAAAGGTTA
1 AGTTT-AAGGTTA
56885708 CGGGTTAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (21 bp):
AGTTTAAGGTTAAGAGTTTAA
Found at i:56885677 original size:29 final size:30
Alignment explanation
Indices: 56885621--56885703 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 30
56885611 TTTTGAGTGT
* * *
56885621 AAGGTTACGGGTTT-AGAGTGTAAGGTTTG
1 AAGGTTACGGGTTTAAGAGTTTAAAGTTTA
* *
56885650 TAGTTTA-GGGTTTAAGAGTTTAAAGTTTA
1 AAGGTTACGGGTTTAAGAGTTTAAAGTTTA
56885679 AAGGTTACGGGTTTAA-AGTTTAAAG
1 AAGGTTACGGGTTTAAGAGTTTAAAG
56885704 GTTACGGGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
28 6 0.13
29 31 0.69
30 8 0.18
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.37
Consensus pattern (30 bp):
AAGGTTACGGGTTTAAGAGTTTAAAGTTTA
Found at i:56885706 original size:15 final size:15
Alignment explanation
Indices: 56885658--56885706 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
56885648 TGTAGTTTAG
56885658 GGTTTAAGAGTTTAAA
1 GGTTTAA-AGTTTAAA
* **
56885674 -GTTTAAAGGTTACG
1 GGTTTAAAGTTTAAA
56885688 GGTTTAAAGTTTAAA
1 GGTTTAAAGTTTAAA
56885703 GGTT
1 GGTT
56885707 ACGGGTTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.39
Consensus pattern (15 bp):
GGTTTAAAGTTTAAA
Found at i:56885708 original size:22 final size:22
Alignment explanation
Indices: 56885667--56885719 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
56885657 GGGTTTAAGA
56885667 GTTTAAAGTTTAAAGGTTACGG
1 GTTTAAAGTTTAAAGGTTACGG
56885689 GTTTAAAGTTTAAAGGTTACGG
1 GTTTAAAGTTTAAAGGTTACGG
56885711 G-TTAAAGTT
1 GTTTAAAGTT
56885720 AGGGGCCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 8 0.26
22 23 0.74
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (22 bp):
GTTTAAAGTTTAAAGGTTACGG
Found at i:56886761 original size:242 final size:253
Alignment explanation
Indices: 56886221--56886998 Score: 1128
Period size: 266 Copynumber: 3.0 Consensus size: 253
56886211 AAAGCGCCGT
* *
56886221 AAAATATCTTTACTAAAACGCGTAGTTTTAATTTTGATGTATATTTATATTAGTGGCGCTTACTA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTT-ATG--TACTTATATTAGTGGCGCTTACTA
* * *
56886286 GAAAACGCCGTTAAAGAATAGCTTTAGCGGCGCTTGAGCCAAAGCGCGGCAACGTATCTTAACAA
63 GAAAACGCCGTTAAAGAATA-C--T--CAG-GCTT-A---TAAGCGCCGCAACGTATCTTAACAA
*
56886351 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAAAA
118 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATA
*
56886416 TCTGAACCAAAACGCATCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAAC
183 TCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAAC
56886481 GCCGCA
248 GCCGCA
56886487 AAAATATCTTAACTAAAACGCGTAGTTTTAA-TTT-TG-A-TTATATTAGTGGCGCTTACTAGAA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTATGTACTTATATTAGTGGCGCTTACTAGAA
*
56886548 AACGCCGTTAAAG-A-A-T-A-GCTT-T-AGCGCCGTAACGTATCTTAACAAAACGCAGTGTTTG
66 AACGCCGTTAAAGAATACTCAGGCTTATAAGCGCCGCAACGTATCTTAACAAAACGCAGTGTTTG
*
56886606 GTCTCAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATATCTGAACCAAAAC
131 GTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATATCTGAACCAAAAC
56886671 GCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAACGCCGCA
196 GCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAACGCCGCA
56886729 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGCTTACTA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTT-ATG--TACTTATATTAGTGGCGCTTACTA
*
56886794 GAAAACGTCGTTAAAGAATAGCTTCAGCGGCGCTTGATCCAAAGCGCCGCAACGTATCTTAACAA
63 GAAAACGCCGTTAAAGAATA-C-TCA---G-GCTT-AT---AAGCGCCGCAACGTATCTTAACAA
*
56886859 AACGCAGTGTTTTGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATA
118 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATA
* *
56886924 TCTGAACCAAAATGCACCGTTTTGGTCTCGATATATACTTCAATTAGTGGCGCTGACGTTAAAAC
183 TCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAAC
56886989 GCCGCA
248 GCCGCA
56886995 AAAA
1 AAAA
56886999 AGCAAAATAT
Statistics
Matches: 474, Mismatches: 14, Indels: 48
0.88 0.03 0.09
Matches are distributed among these distances:
242 185 0.39
243 3 0.01
245 2 0.00
248 5 0.01
249 36 0.08
250 1 0.00
251 1 0.00
253 1 0.00
254 1 0.00
255 1 0.00
257 1 0.00
258 1 0.00
259 37 0.08
260 5 0.01
262 1 0.00
263 2 0.00
265 3 0.01
266 188 0.40
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (253 bp):
AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTATGTACTTATATTAGTGGCGCTTACTAGAA
AACGCCGTTAAAGAATACTCAGGCTTATAAGCGCCGCAACGTATCTTAACAAAACGCAGTGTTTG
GTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATATCTGAACCAAAAC
GCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAACGCCGCA
Found at i:56886799 original size:77 final size:76
Alignment explanation
Indices: 56886625--56886800 Score: 196
Period size: 77 Copynumber: 2.3 Consensus size: 76
56886615 TATGTTACAT
* **
56886625 TTAGTGGCGCTTA-TAGGAAAACGCCGCAAAATATCTGAACCAAAACGCACCGTTTTGGTCTCGA
1 TTAGTGGCGCTTACTA-GAAAACGCCGCAAAATATCTGAACCAAAACGCACAGTTTTAATCTCGA
56886689 TGTATACTTCAA
65 TGTATACTTCAA
* * * * ** * *
56886701 TTAGTGGCGCTGACGT-TAAAACGCCGCAAAAATATCTTAACTAAAACGCGTAGTTTTAATTTTG
1 TTAGTGGCGCTTAC-TAGAAAACGCCGC-AAAATATCTGAACCAAAACGCACAGTTTTAATCTCG
56886765 ATGTATACTT-ATA
64 ATGTATACTTCA-A
56886778 TTAGTGGCGCTTACTAGAAAACG
1 TTAGTGGCGCTTACTAGAAAACG
56886801 TCGTTAAAGA
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
76 24 0.29
77 57 0.70
78 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (76 bp):
TTAGTGGCGCTTACTAGAAAACGCCGCAAAATATCTGAACCAAAACGCACAGTTTTAATCTCGAT
GTATACTTCAA
Found at i:56887076 original size:84 final size:84
Alignment explanation
Indices: 56886916--56887081 Score: 190
Period size: 84 Copynumber: 2.0 Consensus size: 84
56886906 GGAAAACGCC
* * * **
56886916 GCAAAATATCTGAACCAAAATGCACCGTTTTGGTCTCGATATATACTTCAATTAGTGGCGCTGAC
1 GCAAAATATCTGAAACAAAACGCAACGTTTTGGTCTCGATATATACTAAAATTAGTGGCGCTGAC
* *
56886981 GTTAAAACGCCGCAAAAAA
66 CTGAAAACGCCGCAAAAAA
* * * * **
56887000 GCAAAATATCTTAAACAAAACGCAACGTTTTTGTCGT-TATGTATACTAAAATTAGTGGCGCTTT
1 GCAAAATATCTGAAACAAAACGCAACGTTTTGGTC-TCGATATATACTAAAATTAGTGGCGCTGA
*
56887064 CCTGAAAGCGCCGCAAAA
65 CCTGAAAACGCCGCAAAA
56887082 TATGTTAACA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
84 66 0.99
85 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (84 bp):
GCAAAATATCTGAAACAAAACGCAACGTTTTGGTCTCGATATATACTAAAATTAGTGGCGCTGAC
CTGAAAACGCCGCAAAAAA
Found at i:56887597 original size:15 final size:14
Alignment explanation
Indices: 56887577--56887626 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
56887567 TAAGGTTTGT
56887577 AGTTTAGGGTTTAA
1 AGTTTAGGGTTTAA
**
56887591 GAGTTTAAAGTTTAA
1 -AGTTTAGGGTTTAA
*
56887606 AGGTTACGGGTTTAA
1 AGTTTA-GGGTTTAA
56887621 AGTTTA
1 AGTTTA
56887627 AAGGTTACGG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 5 0.18
15 23 0.82
ACGTcount: A:0.32, C:0.02, G:0.26, T:0.40
Consensus pattern (14 bp):
AGTTTAGGGTTTAA
Found at i:56887602 original size:22 final size:21
Alignment explanation
Indices: 56887577--56887633 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
56887567 TAAGGTTTGT
*
56887577 AGTTTAGGGTTTAAGAGTTTAA
1 AGTTTAAGG-TTAAGAGTTTAA
* *
56887599 AGTTTAAAGGTTACGGGTTTAA
1 AGTTT-AAGGTTAAGAGTTTAA
56887621 AGTTTAAAGGTTA
1 AGTTT-AAGGTTA
56887634 CGGGTTAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (21 bp):
AGTTTAAGGTTAAGAGTTTAA
Found at i:56887603 original size:29 final size:30
Alignment explanation
Indices: 56887547--56887629 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 30
56887537 TTTTGAGTGT
* * *
56887547 AAGGTTACGGGTTT-AGAGTGTAAGGTTTG
1 AAGGTTACGGGTTTAAGAGTTTAAAGTTTA
* *
56887576 TAGTTTA-GGGTTTAAGAGTTTAAAGTTTA
1 AAGGTTACGGGTTTAAGAGTTTAAAGTTTA
56887605 AAGGTTACGGGTTTAA-AGTTTAAAG
1 AAGGTTACGGGTTTAAGAGTTTAAAG
56887630 GTTACGGGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
28 6 0.13
29 31 0.69
30 8 0.18
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.37
Consensus pattern (30 bp):
AAGGTTACGGGTTTAAGAGTTTAAAGTTTA
Found at i:56887632 original size:15 final size:15
Alignment explanation
Indices: 56887584--56887632 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
56887574 TGTAGTTTAG
56887584 GGTTTAAGAGTTTAAA
1 GGTTTAA-AGTTTAAA
* **
56887600 -GTTTAAAGGTTACG
1 GGTTTAAAGTTTAAA
56887614 GGTTTAAAGTTTAAA
1 GGTTTAAAGTTTAAA
56887629 GGTT
1 GGTT
56887633 ACGGGTTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.39
Consensus pattern (15 bp):
GGTTTAAAGTTTAAA
Found at i:56887634 original size:22 final size:22
Alignment explanation
Indices: 56887593--56887645 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
56887583 GGGTTTAAGA
56887593 GTTTAAAGTTTAAAGGTTACGG
1 GTTTAAAGTTTAAAGGTTACGG
56887615 GTTTAAAGTTTAAAGGTTACGG
1 GTTTAAAGTTTAAAGGTTACGG
56887637 G-TTAAAGTT
1 GTTTAAAGTT
56887646 AGGGGCCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 8 0.26
22 23 0.74
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (22 bp):
GTTTAAAGTTTAAAGGTTACGG
Found at i:56888697 original size:22 final size:21
Alignment explanation
Indices: 56888676--56888727 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
56888666 ATTCGGTTTG
56888676 TGGTTTGTAAACTA-TGAA-TT
1 TGGTTTGTAAACTACT-AATTT
* *
56888696 TGGTTTATAAACTACTCATTT
1 TGGTTTGTAAACTACTAATTT
56888717 ATGGTTTGTAA
1 -TGGTTTGTAA
56888728 TCTGATTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 14 0.54
21 3 0.12
22 9 0.35
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (21 bp):
TGGTTTGTAAACTACTAATTT
Found at i:56889098 original size:15 final size:15
Alignment explanation
Indices: 56889074--56889106 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
56889064 AAGGTTTCTA
*
56889074 TATTAGTATTAAATT
1 TATTACTATTAAATT
56889089 TATTACTATTAAATT
1 TATTACTATTAAATT
56889104 TAT
1 TAT
56889107 AAATAATTAT
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:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:56889307 original size:24 final size:26
Alignment explanation
Indices: 56889280--56889334 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
56889270 TATATATCTT
* *
56889280 ACATAATACATAAC-TACATAACAA-
1 ACATAATAAAGAACTTACATAACAAC
*
56889304 ACATAATAAAGAACTTACATAATAAC
1 ACATAATAAAGAACTTACATAACAAC
56889330 ACATA
1 ACATA
56889335 CCGTACATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 12 0.46
25 9 0.35
26 5 0.19
ACGTcount: A:0.58, C:0.18, G:0.02, T:0.22
Consensus pattern (26 bp):
ACATAATAAAGAACTTACATAACAAC
Found at i:56889456 original size:9 final size:9
Alignment explanation
Indices: 56889424--56889674 Score: 194
Period size: 9 Copynumber: 29.8 Consensus size: 9
56889414 TACATAATAA
56889424 TACAT-ACT
1 TACATAACT
*
56889432 TACATAAAT
1 TACATAACT
* *
56889441 TAAATAAGT
1 TACATAACT
56889450 TACATAA--
1 TACATAACT
* *
56889457 TACACAAAT
1 TACATAACT
56889466 TACATAACT
1 TACATAACT
56889475 TACATAA--
1 TACATAACT
*
56889482 TACATAATT
1 TACATAACT
56889491 TACATAA--
1 TACATAACT
*
56889498 TACACAACT
1 TACATAACT
*
56889507 GACATAACT
1 TACATAACT
56889516 TACATAA--
1 TACATAACT
*
56889523 TACATAATT
1 TACATAACT
56889532 TACATAACT
1 TACATAACT
56889541 TACATAA--
1 TACATAACT
*
56889548 GACATAACT
1 TACATAACT
*
56889557 TACATAAGT
1 TACATAACT
*
56889566 TTCATAA--
1 TACATAACT
*
56889573 TACACAACT
1 TACATAACT
*
56889582 GACATAACT
1 TACATAACT
56889591 TACATAA--
1 TACATAACT
*
56889598 TACACAACT
1 TACATAACT
*
56889607 TACATAAGT
1 TACATAACT
*
56889616 TTCATAA--
1 TACATAACT
*
56889623 TACACAACT
1 TACATAACT
* *
56889632 TACACAGCT
1 TACATAACT
56889641 TACATAACT
1 TACATAACT
*
56889650 TACACAACT
1 TACATAACT
56889659 TACATAACT
1 TACATAACT
56889668 TACATAA
1 TACATAA
56889675 TAAATAACTT
Statistics
Matches: 194, Mismatches: 32, Indels: 33
0.75 0.12 0.13
Matches are distributed among these distances:
7 48 0.25
8 5 0.03
9 141 0.73
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (9 bp):
TACATAACT
Found at i:56889493 original size:25 final size:24
Alignment explanation
Indices: 56889420--56889681 Score: 177
Period size: 25 Copynumber: 10.5 Consensus size: 24
56889410 AAATTACATA
* *
56889420 ATAATACATACTTACATAAATTAA
1 ATAATACATAATTACATAAATTAC
*
56889444 ATAAGTTACATAA-TACACAAATTAC
1 ATAA--TACATAATTACATAAATTAC
*
56889469 ATAACTTACATAA-TACATAATTTAC
1 ATAA--TACATAATTACATAAATTAC
* * *
56889494 ATAATACACAACTGACATAACTTAC
1 ATAATACATAA-TTACATAAATTAC
*
56889519 ATAATACATAATTTACATAACTTAC
1 ATAATACATAA-TTACATAAATTAC
* * *
56889544 ATAAGACATAACTTACATAAGTTTC
1 ATAATACATAA-TTACATAAATTAC
* * *
56889569 ATAATACACAACTGACATAACTTAC
1 ATAATACATAA-TTACATAAATTAC
* * *
56889594 ATAATACACAACTTACATAAGTTTC
1 ATAATACATAA-TTACATAAATTAC
* * **
56889619 ATAATACACAACTTACACAGCTTAC
1 ATAATACATAA-TTACATAAATTAC
* *
56889644 ATAACTTACACAACTTACATAACTTAC
1 ATAA--TACATAA-TTACATAAATTAC
*
56889671 ATAATAAATAA
1 ATAATACATAA
56889682 CTTATTCCTA
Statistics
Matches: 200, Mismatches: 32, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
23 6 0.03
24 4 0.02
25 161 0.81
26 6 0.03
27 23 0.12
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.30
Consensus pattern (24 bp):
ATAATACATAATTACATAAATTAC
Found at i:56889499 original size:41 final size:41
Alignment explanation
Indices: 56889424--56889613 Score: 186
Period size: 41 Copynumber: 4.8 Consensus size: 41
56889414 TACATAATAA
* * *
56889424 TACAT-ACTTACATAAATTAAATAAGTTACATAATACACAAAT
1 TACATAACTTACAT-AA-TACATAATTTACATAATACACAACT
56889466 TACATAACTTACATAATACATAATTTACATAATACACAACT
1 TACATAACTTACATAATACATAATTTACATAATACACAACT
*
56889507 GACATAACTTACATAATACATAATTTAC---AT----AACT
1 TACATAACTTACATAATACATAATTTACATAATACACAACT
*
56889541 TACATAA--GACATAACTTACATAAGTTT-CATAATACACAACT
1 TACATAACTTACATAA--TACATAA-TTTACATAATACACAACT
* * *
56889582 GACATAACTTACATAATACACAACTTACATAA
1 TACATAACTTACATAATACATAATTTACATAA
56889614 GTTTCATAAT
Statistics
Matches: 124, Mismatches: 10, Indels: 29
0.76 0.06 0.18
Matches are distributed among these distances:
32 6 0.05
34 18 0.15
35 3 0.02
37 2 0.02
38 2 0.02
40 2 0.02
41 70 0.56
42 7 0.06
43 14 0.11
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.30
Consensus pattern (41 bp):
TACATAACTTACATAATACATAATTTACATAATACACAACT
Found at i:56889519 original size:50 final size:49
Alignment explanation
Indices: 56889465--56889676 Score: 237
Period size: 50 Copynumber: 4.2 Consensus size: 49
56889455 AATACACAAA
* * *
56889465 TTACATAACTTACATAA-TACATAATTTACATAATACACAACTGACATAAC
1 TTACATAA--TACACAATTACATAACTTACATAATACACAACTTACATAAC
* * * *
56889515 TTACATAATACATAATTTACATAACTTACATAAGACATAACTTACATAAG
1 TTACATAATACACAA-TTACATAACTTACATAATACACAACTTACATAAC
* * *
56889565 TTTCATAATACACAACTGACATAACTTACATAATACACAACTTACATAAG
1 TTACATAATACACAA-TTACATAACTTACATAATACACAACTTACATAAC
* * *
56889615 TTTCATAATACACAACTTACACAGCTTACATAACTTACACAACTTACATAAC
1 TTACATAATACACAA-TTACATAACTTACATAA--TACACAACTTACATAAC
56889667 TTACATAATA
1 TTACATAATA
56889677 AATAACTTAT
Statistics
Matches: 142, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
48 7 0.05
50 110 0.77
52 25 0.18
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.30
Consensus pattern (49 bp):
TTACATAATACACAATTACATAACTTACATAATACACAACTTACATAAC
Found at i:56895166 original size:21 final size:21
Alignment explanation
Indices: 56895136--56895204 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
56895126 CAACAACTTA
* * *
56895136 AAGCACAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
** *
56895157 AAGCAGAGGCTACAGTGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
56895178 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
56895199 AAGCAG
1 AAGCAG
56895205 CGAGAGAAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.35, C:0.20, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:56895206 original size:12 final size:12
Alignment explanation
Indices: 56895189--56895215 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56895179 AGCAGAGGCC
56895189 GCAGCGAGAGAA
1 GCAGCGAGAGAA
56895201 GCAGCGAGAGAA
1 GCAGCGAGAGAA
56895213 GCA
1 GCA
56895216 ACGATAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.41, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:56895699 original size:42 final size:44
Alignment explanation
Indices: 56895648--56895753 Score: 164
Period size: 42 Copynumber: 2.5 Consensus size: 44
56895638 GCATTTGTGA
* *
56895648 AACAAGCGCCGCTAAAGAACACTACTTTTAGCGGCG-TTT-TTG
1 AACAAGCGCCGCTAAAGAACACTACTTTTAGAGGCGTTTTCTTC
56895690 AACAAGCGCCGCTAAAGAACACTACTTTTAGAGGCGTTTTCTTC
1 AACAAGCGCCGCTAAAGAACACTACTTTTAGAGGCGTTTTCTTC
*
56895734 TA-AAGCGCCGCTAAAGAACA
1 AACAAGCGCCGCTAAAGAACA
56895754 TGATCTTTAG
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
42 35 0.59
43 21 0.36
44 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (44 bp):
AACAAGCGCCGCTAAAGAACACTACTTTTAGAGGCGTTTTCTTC
Found at i:56895830 original size:43 final size:43
Alignment explanation
Indices: 56895651--56895835 Score: 143
Period size: 43 Copynumber: 4.3 Consensus size: 43
56895641 TTTGTGAAAC
* ** *
56895651 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCG-TTTTTGAAC
1 AAGCGCCGCTAAAGAA-AATGATC-TTTAGCGGCGTTTTTTCTAT
* *
56895693 AAGCGCCGCTAAAGAACACT-A-CTTTTAGAGGCGTTTTCTTCTA-
1 AAGCGCCGCTAAAGAA-AATGATC-TTTAGCGGCGTTTT-TTCTAT
* * *
56895736 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTGTATTTCCT-T
1 AAGCGCCGCTAAAGAAAATGATCTTTAGCGGCGT-T-TTTTCTAT
* *
56895780 -AGTGCCGCTAAAGAAAATGATCGTTAGCGGCGTTTTTTCTAT
1 AAGCGCCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCTAT
*
56895822 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
56895836 TTAGCGACGT
Statistics
Matches: 120, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
41 5 0.04
42 35 0.29
43 70 0.58
44 8 0.07
45 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCTAT
Found at i:56905947 original size:312 final size:303
Alignment explanation
Indices: 56905324--56905949 Score: 681
Period size: 312 Copynumber: 2.0 Consensus size: 303
56905314 TAAAACTAAT
* * * *
56905324 TAATCATAATTACATATGAAATATGTATAATATTAAAAAAAGATTAAATTATGAGTAAAACGAGA
1 TAATTATAATAACATATGAAATATGTATAATATTAAAAAAAGATTAAATTATGAGTAAAACAAAA
* * * * * * *
56905389 TTTAAACACATAAATACATTAGATAAATAATACTAAATGCACTTCATATATTTATCATGGTTTTG
66 ATTAAACACATAAATACATCAAATAAACAATACTAAATGCACTACATATATTAATCATGGCTTTG
* * * *
56905454 TCAACAACTATGAGTTAGTGTTGAGTTTATTTGTGTCACCAACTCAATTAGCAACTTTATTAATA
131 TCAACAACTATGAGTTAGTATCGAGTTGATTTGTGTCACCAACTCAATTAACAACTTTATTAATA
* * ** * * * *
56905519 CTAGAAATCCTATTACATGCGTATGCGTGTGGAAACTACTAATTTAAAACATAAATGTGTGTTTA
196 CTAAAAATCCTATCACACACATATGCGTGTGGAAACTACAAATTTAAAACACAAATGTGTATTTA
* * * * * *
56905584 AAAGTAACATACAATAAATAATGAAACGTGTGGTTTGAAATTAAT
261 AAAGTAACATACAACAAACAATGAAACATGTGATTCG-AA-TAAC
* * *
56905629 TAATTATAATAACATATGAAATATGTATGATATTAAAATAAAAATATATATTAGATTGTGAGTAA
1 TAATTATAATAACATATGAAATATGTATAATATT--AA-AAAAAGAT-TA--A-ATTATGAGTAA
* *
56905694 AACAAAAATTAAGCACATAAATACATCAAATAAACAATACTAAATGTACTACA-ATTATTAATCA
59 AACAAAAATTAAACACATAAATACATCAAATAAACAATACTAAATGCACTACATA-TATTAATCA
* * *
56905758 TGGCTTTGTCAACAATTTTGAGTTAGTATCGAGTTGATTTGTG-CTCCAACTCAATTAACAA-TA
123 TGGCTTTGTCAACAACTATGAGTTAGTATCGAGTTGATTTGTGTCACCAACTCAATTAACAACT-
* * *
56905821 TTATTAATATATATTAAAAATTCTATCACACACATATGTGTGTGGAAA-TCACAAATTTAAAAAC
187 TTA-T--TA-ATACTAAAAATCCTATCACACACATATGCGTGTGGAAACT-ACAAATTT-AAAAC
56905885 ACAAATGCT-TATTTAAAAGTAACATACAACAAACAATGAAACATGTGATTCG-A-AAC
246 ACAAATG-TGTATTTAAAAGTAACATACAACAAACAATGAAACATGTGATTCGAATAAC
56905941 TAATTATAA
1 TAATTATAA
56905950 AAACGATGTA
Statistics
Matches: 265, Mismatches: 40, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
305 31 0.12
307 2 0.01
308 7 0.03
309 2 0.01
310 1 0.00
311 21 0.08
312 111 0.42
314 4 0.02
315 37 0.14
316 48 0.18
317 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (303 bp):
TAATTATAATAACATATGAAATATGTATAATATTAAAAAAAGATTAAATTATGAGTAAAACAAAA
ATTAAACACATAAATACATCAAATAAACAATACTAAATGCACTACATATATTAATCATGGCTTTG
TCAACAACTATGAGTTAGTATCGAGTTGATTTGTGTCACCAACTCAATTAACAACTTTATTAATA
CTAAAAATCCTATCACACACATATGCGTGTGGAAACTACAAATTTAAAACACAAATGTGTATTTA
AAAGTAACATACAACAAACAATGAAACATGTGATTCGAATAAC
Found at i:56906741 original size:3 final size:3
Alignment explanation
Indices: 56906670--56906722 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
56906660 ACAAGTTCTG
56906670 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
56906718 TAA TA
1 TAA TA
56906723 GCTTTTTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:56923404 original size:13 final size:13
Alignment explanation
Indices: 56923386--56923422 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
56923376 ATGAATAATA
56923386 AAAAATATTATTT
1 AAAAATATTATTT
*
56923399 -AAAA-ATTAATT
1 AAAAATATTATTT
56923410 AAAAATATTATTT
1 AAAAATATTATTT
56923423 TAAATGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAAATATTATTT
Found at i:56924521 original size:16 final size:16
Alignment explanation
Indices: 56924499--56924531 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
56924489 GTAGAAGTAG
*
56924499 ATTTTTTT-TCTATAT
1 ATTTTTTTATCTAAAT
56924514 ATTTTTTTATCTAAAT
1 ATTTTTTTATCTAAAT
56924530 AT
1 AT
56924532 CAATCAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTTTATCTAAAT
Found at i:56924683 original size:14 final size:16
Alignment explanation
Indices: 56924664--56924696 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
56924654 TAAAATATTA
56924664 TTTAACTAT-TT-AAT
1 TTTAACTATCTTAAAT
56924678 TTTAACTATCTTAAAT
1 TTTAACTATCTTAAAT
56924694 TTT
1 TTT
56924697 TAGTGTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAACTATCTTAAAT
Found at i:56925686 original size:12 final size:12
Alignment explanation
Indices: 56925669--56925693 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56925659 GTGTCAAACC
56925669 ATGAGAGGGTTG
1 ATGAGAGGGTTG
56925681 ATGAGAGGGTTG
1 ATGAGAGGGTTG
56925693 A
1 A
56925694 AAGTATTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (12 bp):
ATGAGAGGGTTG
Found at i:56928132 original size:18 final size:18
Alignment explanation
Indices: 56928103--56928144 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
56928093 GAGTTATGTT
56928103 AAAATAAGATTT-AATTA
1 AAAATAAGATTTAAATTA
*
56928120 AATAATAATATTTAAATTA
1 AA-AATAAGATTTAAATTA
56928139 AAAATA
1 AAAATA
56928145 CAACTTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 13 0.59
19 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAATAAGATTTAAATTA
Found at i:56928318 original size:16 final size:18
Alignment explanation
Indices: 56928280--56928318 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
56928270 AATCTAGATT
*
56928280 TTTATCCAACACTTATAA
1 TTTATCCAACACTAATAA
56928298 TTTATCCAAC-CTAAT-A
1 TTTATCCAACACTAATAA
56928314 TTTAT
1 TTTAT
56928319 TTTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTATCCAACACTAATAA
Found at i:56932987 original size:14 final size:14
Alignment explanation
Indices: 56932968--56932994 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56932958 TTCTCTTGCA
56932968 CACTTGTATTTTAC
1 CACTTGTATTTTAC
56932982 CACTTGTATTTTA
1 CACTTGTATTTTA
56932995 TTTTATCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (14 bp):
CACTTGTATTTTAC
Found at i:56935207 original size:492 final size:492
Alignment explanation
Indices: 56934283--56935264 Score: 1874
Period size: 492 Copynumber: 2.0 Consensus size: 492
56934273 TATTTTTGCA
*
56934283 TGTTTGTAACATAAATACATGTCTGCTTCAGTGGTTAAGTGTTCTCGGAAGTGTTTGAGAGGTCC
1 TGTTTGTAACATAAATACATGTCTGCTTCAGTGGTTAAGTGTTCTCGGAAGTGTTTGAGAGGCCC
*
56934348 CAAGTTCAAGCCTTGACTTGGGCAGAATTTTTTTGTTTTAATTAAATAAAGCCTTAACTGGGTTC
66 CAAGTTCAAGCCTTGACTTGGGCAGAATTTTTTTATTTTAATTAAATAAAGCCTTAACTGGGTTC
56934413 AATATGCTTATATTTTAAAGTTAGTGGATTTATTTATATCAGAATGGACCTACTGGTCTAGTGGT
131 AATATGCTTATATTTTAAAGTTAGTGGATTTATTTATATCAGAATGGACCTACTGGTCTAGTGGT
56934478 TAAGTGGAGTGTTAATGTGCTGGGGGTATTGAGTTCAAATACCTGTGCAAAAAAGGGGTGTTATT
196 TAAGTGGAGTGTTAATGTGCTGGGGGTATTGAGTTCAAATACCTGTGCAAAAAAGGGGTGTTATT
* *
56934543 TTATTGCTTGTACCATGTGTGAGTTTGTGTTGGACTAAAATTCTGATAGTGAAGTGGTTGAGGGG
261 TTATTACTTGTAACATGTGTGAGTTTGTGTTGGACTAAAATTCTGATAGTGAAGTGGTTGAGGGG
56934608 AGGTGTGATCAGGTGGAGAGATTTGAGGAGGGATTTTAGGAGAAAACCAAGGGATGAGGGGAGAG
326 AGGTGTGATCAGGTGGAGAGATTTGAGGAGGGATTTTAGGAGAAAACCAAGGGATGAGGGGAGAG
* *
56934673 GGAATGTAGTGCCGAAAGTGGACTTTGTGGCACTCAAGAATTCGGCTAGAGGGGGCTTCTCATTC
391 GGAATGTAGTACCGAAAGTGGACTTTGTGGCACTCAAGAATTCGGCTAGAGGAGGCTTCTCATTC
56934738 TTTTTGGTTTTGCTTTGTTGAGTTGTTCCCTTTGCTT
456 TTTTTGGTTTTGCTTTGTTGAGTTGTTCCCTTTGCTT
*
56934775 TGTTTGTAATATAAATACATGTCTGCTTCAGTGGTTAAGTGTTCTCGGAAGTGTTTGAGAGGCCC
1 TGTTTGTAACATAAATACATGTCTGCTTCAGTGGTTAAGTGTTCTCGGAAGTGTTTGAGAGGCCC
56934840 CAAGTTCAAGCCTTGACTTGGGCAGAATTTTTTTATTTTAATTAAATAAAGCCTTAACTGGGTTC
66 CAAGTTCAAGCCTTGACTTGGGCAGAATTTTTTTATTTTAATTAAATAAAGCCTTAACTGGGTTC
56934905 AATATGCTTATATTTTAAAGTTAGTGGATTTATTTATATCAGAATGGACCTACTGGTCTAGTGGT
131 AATATGCTTATATTTTAAAGTTAGTGGATTTATTTATATCAGAATGGACCTACTGGTCTAGTGGT
* *
56934970 TAAGTGGAGTGTTAGTGTGCTGGGGGTATTGAGTTCAAATATCTGTGCAAAAAAGGGGTGTTATT
196 TAAGTGGAGTGTTAATGTGCTGGGGGTATTGAGTTCAAATACCTGTGCAAAAAAGGGGTGTTATT
56935035 TTATTACTTGTAACATGTGTGAGTTTGTGTTGGACTAAAATTCTGATAGTGAAGTGGTTGAGGGG
261 TTATTACTTGTAACATGTGTGAGTTTGTGTTGGACTAAAATTCTGATAGTGAAGTGGTTGAGGGG
*
56935100 AGGTGTGATTAGGTGGAGAGATTTGAGGAGGGATTTTAGGAGAAAACCAAGGGATGAGGGGAGAG
326 AGGTGTGATCAGGTGGAGAGATTTGAGGAGGGATTTTAGGAGAAAACCAAGGGATGAGGGGAGAG
56935165 GGAATGTAGTACCGAAAGTGGACTTTGTGGCACTCAAGAATTCGGCTAGAGGAGGCTTCTCATTC
391 GGAATGTAGTACCGAAAGTGGACTTTGTGGCACTCAAGAATTCGGCTAGAGGAGGCTTCTCATTC
56935230 TTTTTGGTTTTGCTTTGTTGAGTTGTTCCCTTTGC
456 TTTTTGGTTTTGCTTTGTTGAGTTGTTCCCTTTGC
56935265 CGAATATTAC
Statistics
Matches: 480, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
492 480 1.00
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.35
Consensus pattern (492 bp):
TGTTTGTAACATAAATACATGTCTGCTTCAGTGGTTAAGTGTTCTCGGAAGTGTTTGAGAGGCCC
CAAGTTCAAGCCTTGACTTGGGCAGAATTTTTTTATTTTAATTAAATAAAGCCTTAACTGGGTTC
AATATGCTTATATTTTAAAGTTAGTGGATTTATTTATATCAGAATGGACCTACTGGTCTAGTGGT
TAAGTGGAGTGTTAATGTGCTGGGGGTATTGAGTTCAAATACCTGTGCAAAAAAGGGGTGTTATT
TTATTACTTGTAACATGTGTGAGTTTGTGTTGGACTAAAATTCTGATAGTGAAGTGGTTGAGGGG
AGGTGTGATCAGGTGGAGAGATTTGAGGAGGGATTTTAGGAGAAAACCAAGGGATGAGGGGAGAG
GGAATGTAGTACCGAAAGTGGACTTTGTGGCACTCAAGAATTCGGCTAGAGGAGGCTTCTCATTC
TTTTTGGTTTTGCTTTGTTGAGTTGTTCCCTTTGCTT
Found at i:56936322 original size:27 final size:27
Alignment explanation
Indices: 56936290--56936418 Score: 190
Period size: 27 Copynumber: 4.8 Consensus size: 27
56936280 ACCCCCAAAC
*
56936290 TGTTATAAAATAACTATTATGCCCCTA
1 TGTTATAAAATGACTATTATGCCCCTA
*
56936317 TGTTATAAAATGA-TGGTTATGCCCCTA
1 TGTTATAAAATGACT-ATTATGCCCCTA
* *
56936344 TGTTATAAAGTGACTGTTATGCCCCTA
1 TGTTATAAAATGACTATTATGCCCCTA
*
56936371 TGTTATAAAATGACTATTATGCTCCTA
1 TGTTATAAAATGACTATTATGCCCCTA
56936398 TGTTATAAAATGACTA-TATGC
1 TGTTATAAAATGACTATTATGC
56936419 TTAATGTTAT
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
26 6 0.06
27 87 0.93
28 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (27 bp):
TGTTATAAAATGACTATTATGCCCCTA
Found at i:56939411 original size:10 final size:9
Alignment explanation
Indices: 56939397--56939429 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
56939387 AATTCACTTT
56939397 TTAAAAATA
1 TTAAAAATA
56939406 TTTAAAAATA
1 -TTAAAAATA
56939416 TT-AAAATA
1 TTAAAAATA
56939424 TTAAAA
1 TTAAAA
56939430 TCAATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 5 0.23
10 9 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TTAAAAATA
Found at i:56939590 original size:11 final size:11
Alignment explanation
Indices: 56939528--56939592 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 11
56939518 AAATTTCAAC
56939528 AATAATAATTTT
1 AATAAT-ATTTT
56939540 AAATAATATTCTT
1 -AATAATATT-TT
*
56939553 AA-AATGTTATT
1 AATAATATT-TT
*
56939564 AA-AAAATTTAT
1 AATAATATTT-T
56939575 AATAATATTTT
1 AATAATATTTT
56939586 AATAATA
1 AATAATA
56939593 AATATATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
10 1 0.02
11 24 0.55
12 11 0.25
13 8 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (11 bp):
AATAATATTTT
Found at i:56941294 original size:27 final size:29
Alignment explanation
Indices: 56941241--56941296 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
56941231 GAACATCATA
* *
56941241 AACTTATAGATTGATTACTTTAATTTAAT
1 AACTTATAGATTCATTACATTAATTTAAT
56941270 AACTTAT-GATTCATTA-ATTAATTTAAT
1 AACTTATAGATTCATTACATTAATTTAAT
56941297 TTGATGACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.40
28 8 0.32
29 7 0.28
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.48
Consensus pattern (29 bp):
AACTTATAGATTCATTACATTAATTTAAT
Found at i:56943687 original size:18 final size:19
Alignment explanation
Indices: 56943659--56943696 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
56943649 TAGTAGTCCG
56943659 TGTTATATAAAATTTAATA
1 TGTTATATAAAATTTAATA
56943678 TGTT-TATAAAATTTAATA
1 TGTTATATAAAATTTAATA
56943696 T
1 T
56943697 AAATTTAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
TGTTATATAAAATTTAATA
Found at i:56947040 original size:13 final size:12
Alignment explanation
Indices: 56947003--56947119 Score: 58
Period size: 12 Copynumber: 9.2 Consensus size: 12
56946993 CAAAATTATT
*
56947003 AAACTTGATGGA
1 AAACTTGATGAA
* *
56947015 AAATTTTATGAA
1 AAACTTGATGAA
56947027 AAGACTTGATGAA
1 AA-ACTTGATGAA
*
56947040 AAACTT--TAAA
1 AAACTTGATGAA
* *
56947050 AAGATCTTGCTGCA
1 AA-A-CTTGATGAA
*
56947064 AAACTTGATAAAA
1 AAACTTGAT-GAA
*
56947077 AAACTTGGTAATTAA
1 AAACTT-G--ATGAA
*
56947092 AAACTTGATAAA
1 AAACTTGATGAA
*
56947104 AGAACTAGATGAA
1 A-AACTTGATGAA
56947117 AAA
1 AAA
56947120 TACTTGAAGA
Statistics
Matches: 80, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
10 5 0.06
11 1 0.01
12 30 0.38
13 28 0.35
14 6 0.08
15 8 0.10
16 2 0.03
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (12 bp):
AAACTTGATGAA
Found at i:56947058 original size:24 final size:24
Alignment explanation
Indices: 56947005--56947069 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
56946995 AAATTATTAA
* *
56947005 ACTTGATGGAAAATTTTATGAAAAG
1 ACTTGATGAAAAACTTTA-GAAAAG
56947030 ACTTGATGAAAAACTTTA-AAAAG
1 ACTTGATGAAAAACTTTAGAAAAG
* *
56947053 ATCTTGCTGCAAAACTT
1 A-CTTGATGAAAAACTT
56947070 GATAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.17
24 13 0.37
25 16 0.46
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (24 bp):
ACTTGATGAAAAACTTTAGAAAAG
Found at i:56947095 original size:15 final size:13
Alignment explanation
Indices: 56947063--56947126 Score: 65
Period size: 13 Copynumber: 4.7 Consensus size: 13
56947053 ATCTTGCTGC
56947063 AAAACTTGATAAA
1 AAAACTTGATAAA
*
56947076 AAAACTTGGTAATTA
1 AAAACTTGATAA--A
56947091 AAAACTTGATAAA
1 AAAACTTGATAAA
* *
56947104 AGAACTAGATGAAA
1 AAAACTTGAT-AAA
*
56947118 AATACTTGA
1 AAAACTTGA
56947127 AGAAAGAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
13 20 0.49
14 9 0.22
15 12 0.29
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.25
Consensus pattern (13 bp):
AAAACTTGATAAA
Found at i:56947137 original size:18 final size:18
Alignment explanation
Indices: 56947114--56947151 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
56947104 AGAACTAGAT
*
56947114 GAAAAATACTTGAA-GAAA
1 GAAAAACACTT-AATGAAA
56947132 GAAAAACACTTAATGAAA
1 GAAAAACACTTAATGAAA
56947150 GA
1 GA
56947152 CTTAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAACACTTAATGAAA
Found at i:56955633 original size:142 final size:142
Alignment explanation
Indices: 56955377--56955659 Score: 530
Period size: 142 Copynumber: 2.0 Consensus size: 142
56955367 CATTTCAGTT
* *
56955377 AAGACTCTATTTTTTCTTTCAACTATACCATTTTGTTGTGGTGTGTAAGGGGCTGAAACTTGATG
1 AAGACTCTATTTTTCCTTTCAACTACACCATTTTGTTGTGGTGTGTAAGGGGCTGAAACTTGATG
*
56955442 GACAATTCCAGTGAGTTCAAAATAACTTGGATTATAGTATTCTCCACCTCTATCCGATCTTAAGC
66 GACAATTCCAGTGAGTTCAAAATAACTCGGATTATAGTATTCTCCACCTCTATCCGATCTTAAGC
56955507 ACTTGATAAATC
131 ACTTGATAAATC
*
56955519 AAGACTCTATTTTTCCTTTCAGCTACACCATTTTGTTGTGGTGTGTAAGGGGCTGAAACTTGATG
1 AAGACTCTATTTTTCCTTTCAACTACACCATTTTGTTGTGGTGTGTAAGGGGCTGAAACTTGATG
56955584 GACAATTCCAGTGAGTTCAAAATAACTCGGATTATAGTATTCTCCACCTCTATCCGATCTTAAGC
66 GACAATTCCAGTGAGTTCAAAATAACTCGGATTATAGTATTCTCCACCTCTATCCGATCTTAAGC
56955649 ACTTGATAAAT
131 ACTTGATAAAT
56955660 GATTCACACT
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 137 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (142 bp):
AAGACTCTATTTTTCCTTTCAACTACACCATTTTGTTGTGGTGTGTAAGGGGCTGAAACTTGATG
GACAATTCCAGTGAGTTCAAAATAACTCGGATTATAGTATTCTCCACCTCTATCCGATCTTAAGC
ACTTGATAAATC
Found at i:56958575 original size:42 final size:41
Alignment explanation
Indices: 56958501--56958586 Score: 104
Period size: 43 Copynumber: 2.1 Consensus size: 41
56958491 TTAAATTTTA
* *
56958501 AAAAATTAATTTTATTTACTTTAAAATAAAAATAAAATAATT
1 AAAAATTAATATTATTTACTTTAAAATAAAAAT-AAACAATT
*
56958543 AAAAATATAATATTATTT-GTTTCAAAAT-AAAATAAACAATT
1 AAAAAT-TAATATTATTTACTTT-AAAATAAAAATAAACAATT
56958584 AAA
1 AAA
56958587 TTAAATTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
41 10 0.26
42 14 0.36
43 15 0.38
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (41 bp):
AAAAATTAATATTATTTACTTTAAAATAAAAATAAACAATT
Found at i:56958827 original size:30 final size:29
Alignment explanation
Indices: 56958783--56958839 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
56958773 TGAAATATTA
* *
56958783 TTTAATATTAATATTTATGTATTAATTTT
1 TTTAATACTAATATTTATATATTAATTTT
56958812 TTTAATACCTAATATTTATATATTAATT
1 TTTAATA-CTAATATTTATATATTAATT
56958840 GATGCATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTAATACTAATATTTATATATTAATTTT
Found at i:56958838 original size:14 final size:14
Alignment explanation
Indices: 56958781--56958838 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
56958771 TTTGAAATAT
56958781 TATTTA-ATATTAA
1 TATTTATATATTAA
*
56958794 TATTTATGTATTAA
1 TATTTATATATTAA
* * *
56958808 TTTTTTTAATACCTAA
1 TATTTAT-ATA-TTAA
56958824 TATTTATATATTAA
1 TATTTATATATTAA
56958838 T
1 T
56958839 TGATGCATGA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
13 6 0.18
14 15 0.44
15 5 0.15
16 8 0.24
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (14 bp):
TATTTATATATTAA
Found at i:56971203 original size:21 final size:23
Alignment explanation
Indices: 56971161--56971209 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
56971151 TTAACTTATC
*
56971161 AATTTAAATATTATAGTAAAAAA
1 AATTTAAATATTATAATAAAAAA
* *
56971184 AATTT-AA-ATTATAATTAAAAT
1 AATTTAAATATTATAATAAAAAA
56971205 AATTT
1 AATTT
56971210 TAACATACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 16 0.70
22 2 0.09
23 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AATTTAAATATTATAATAAAAAA
Found at i:56982812 original size:83 final size:83
Alignment explanation
Indices: 56982711--56982960 Score: 428
Period size: 83 Copynumber: 3.0 Consensus size: 83
56982701 TATACTTCGA
** * *
56982711 ATGCAAATCAAGAAGTATGAGTTCATACAGCATGTTTATCAGAAAAAGTTAATGAATTGAAATAC
1 ATGCAAATGGAGAAGTATGAGTTCATACATCATGTTTATCAGAAAGAGTTAATGAATTGAAATAC
56982776 TGAAATACTACAAAAGAT
66 TGAAATACTACAAAAGAT
* *
56982794 ATGCAAATGGAGAAGTATGAGTTCATACATCATGTTAATCAGAAAGAGTTAATGAATAGAAATAC
1 ATGCAAATGGAGAAGTATGAGTTCATACATCATGTTTATCAGAAAGAGTTAATGAATTGAAATAC
56982859 TGAAATACTACAAAAGAT
66 TGAAATACTACAAAAGAT
* *
56982877 ATGCAAATGGAGAAGTAAGAGTTCATACATCATGTTTATCAGAGAGAGTTAATGAATTGAAATAC
1 ATGCAAATGGAGAAGTATGAGTTCATACATCATGTTTATCAGAAAGAGTTAATGAATTGAAATAC
56982942 TGAAATACTACAAAAGAT
66 TGAAATACTACAAAAGAT
56982960 A
1 A
56982961 GCCTAATGTT
Statistics
Matches: 157, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 157 1.00
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (83 bp):
ATGCAAATGGAGAAGTATGAGTTCATACATCATGTTTATCAGAAAGAGTTAATGAATTGAAATAC
TGAAATACTACAAAAGAT
Found at i:56998835 original size:15 final size:15
Alignment explanation
Indices: 56998815--56998844 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56998805 GCTAGATCAT
56998815 GAATTAGTAACTGCA
1 GAATTAGTAACTGCA
56998830 GAATTAGTAACTGCA
1 GAATTAGTAACTGCA
56998845 TCCAATCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
GAATTAGTAACTGCA
Found at i:57003183 original size:6 final size:6
Alignment explanation
Indices: 57003172--57003202 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
57003162 GGGAAAATGT
*
57003172 AGGAAG AGGAAG AGGAAG AGAAAG AGGAAG A
1 AGGAAG AGGAAG AGGAAG AGGAAG AGGAAG A
57003203 AAATAAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (6 bp):
AGGAAG
Found at i:57003213 original size:10 final size:10
Alignment explanation
Indices: 57003186--57003248 Score: 56
Period size: 10 Copynumber: 6.2 Consensus size: 10
57003176 AGAGGAAGAG
57003186 GAAGAG-AAA
1 GAAGAGAAAA
*
57003195 GAGGAAGAAAA
1 GAAG-AGAAAA
*
57003206 TAAGAGAAAA
1 GAAGAGAAAA
*
57003216 GAGGGAGAAAA
1 GA-AGAGAAAA
* *
57003227 AAAGAGAAGA
1 GAAGAGAAAA
57003237 GAAGAGAAAA
1 GAAGAGAAAA
57003247 GA
1 GA
57003249 GAAGGGAAGG
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
9 3 0.07
10 25 0.61
11 13 0.32
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (10 bp):
GAAGAGAAAA
Found at i:57003218 original size:21 final size:21
Alignment explanation
Indices: 57003187--57003234 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
57003177 GAGGAAGAGG
*
57003187 AAGAG-AAAGAGGAAGAAAAT
1 AAGAGAAAAGAGGAAGAAAAA
*
57003207 AAGAGAAAAGAGGGAGAAAAA
1 AAGAGAAAAGAGGAAGAAAAA
57003228 AAGAGAA
1 AAGAGAA
57003235 GAGAAGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (21 bp):
AAGAGAAAAGAGGAAGAAAAA
Found at i:57017180 original size:15 final size:15
Alignment explanation
Indices: 57017160--57017189 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57017150 CTTTTTTCTT
57017160 GTTAAAACTTCAAAA
1 GTTAAAACTTCAAAA
57017175 GTTAAAACTTCAAAA
1 GTTAAAACTTCAAAA
57017190 ACTAGGGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (15 bp):
GTTAAAACTTCAAAA
Found at i:57017240 original size:17 final size:16
Alignment explanation
Indices: 57017212--57017264 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
57017202 TTTGGTTCGC
57017212 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
57017228 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
57017245 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
57017261 TGTA
1 TGTA
57017265 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:57017329 original size:44 final size:45
Alignment explanation
Indices: 57017245--57017335 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
57017235 GGATTAGAGG
* * *
57017245 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
57017290 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
57017334 TG
1 TG
57017336 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:57017521 original size:18 final size:17
Alignment explanation
Indices: 57017500--57017534 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57017490 TTATTATTAA
*
57017500 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
57017518 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
57017535 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:57017632 original size:120 final size:121
Alignment explanation
Indices: 57017483--57017807 Score: 573
Period size: 120 Copynumber: 2.7 Consensus size: 121
57017473 ATCATATTTA
57017483 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
57017548 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
57017603 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
57017668 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
57017724 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
57017788 TATTCTTATATGAATTTACT
66 TATTCTTATATGAATTTACT
57017808 NNNNNNNNNN
Statistics
Matches: 195, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 193 0.99
121 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:57017648 original size:14 final size:15
Alignment explanation
Indices: 57017599--57017650 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
57017589 ATAAAATATA
57017599 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
57017614 TATTAAATATATTAT
1 AATTAAATATATTAT
57017629 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
57017642 AATTTAATA
1 AATTAAATA
57017651 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:57017652 original size:59 final size:58
Alignment explanation
Indices: 57017483--57017774 Score: 168
Period size: 59 Copynumber: 4.9 Consensus size: 58
57017473 ATCATATTTA
* * * *
57017483 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * *
57017542 AATCA-ATATTCTTATATTAATTTACTCA-AATCATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATATAAA-T
* * *
57017603 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * * *
57017662 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTT
1 AACATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTAATAAAATATAA-AT
* *
57017723 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAAT
57017775 TCTTAATAAT
Statistics
Matches: 171, Mismatches: 41, Indels: 42
0.67 0.16 0.17
Matches are distributed among these distances:
57 10 0.06
58 11 0.06
59 52 0.30
60 28 0.16
61 50 0.29
62 11 0.06
63 9 0.05
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAAT
Found at i:57023545 original size:27 final size:27
Alignment explanation
Indices: 57023515--57023569 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
57023505 TTTCCCTTAG
*
57023515 ATTC-ATCAATTCTAAGTTTTACAATTT
1 ATTCAATCAATTCTAA-ATTTACAATTT
**
57023542 ATTCAATTTATTCTAAATTTACAATTT
1 ATTCAATCAATTCTAAATTTACAATTT
57023569 A
1 A
57023570 GTCCTTAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (27 bp):
ATTCAATCAATTCTAAATTTACAATTT
Found at i:57023871 original size:20 final size:20
Alignment explanation
Indices: 57023846--57023887 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
57023836 AAAGTTGTAG
57023846 AAATAAGTTAACCTAGAAAT
1 AAATAAGTTAACCTAGAAAT
57023866 AAATAAGTTAACCTAGAAAT
1 AAATAAGTTAACCTAGAAAT
57023886 AA
1 AA
57023888 TGTTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.24
Consensus pattern (20 bp):
AAATAAGTTAACCTAGAAAT
Found at i:57026450 original size:24 final size:24
Alignment explanation
Indices: 57026420--57026481 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
57026410 TGGTGGCAAG
* *
57026420 ATCTGTGTTTGCATATATATCTAA
1 ATCTGTGTCTGCATATATAACTAA
* * *
57026444 ATTTGTGTCTGCATCTGTAACTAA
1 ATCTGTGTCTGCATATATAACTAA
*
57026468 ATCTGTGTCCGCAT
1 ATCTGTGTCTGCAT
57026482 TTGTATTTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (24 bp):
ATCTGTGTCTGCATATATAACTAA
Found at i:57026486 original size:24 final size:24
Alignment explanation
Indices: 57026440--57026486 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
57026430 GCATATATAT
* *
57026440 CTAAATTTGTGTCTGCATCTGTAA
1 CTAAATCTGTGTCCGCATCTGTAA
*
57026464 CTAAATCTGTGTCCGCATTTGTA
1 CTAAATCTGTGTCCGCATCTGTA
57026487 TTTGATTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (24 bp):
CTAAATCTGTGTCCGCATCTGTAA
Found at i:57028446 original size:33 final size:33
Alignment explanation
Indices: 57028404--57028469 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
57028394 TATTTATATT
*
57028404 TATATATATTATGGTTTTATATAATTTTCTATA
1 TATATATATTATGATTTTATATAATTTTCTATA
* * *
57028437 TATATATATTATGATTTTGTATGATTTTTTATA
1 TATATATATTATGATTTTATATAATTTTCTATA
57028470 ATTCTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.59
Consensus pattern (33 bp):
TATATATATTATGATTTTATATAATTTTCTATA
Found at i:57031216 original size:72 final size:71
Alignment explanation
Indices: 57031059--57031255 Score: 182
Period size: 72 Copynumber: 2.7 Consensus size: 71
57031049 ATCAGGGATA
* * * * * *
57031059 TCATGATCAATGGCTTGAGATACAACA-TGTGTTACAGATTCTTTGAAGCTTGTGTGAGCAACAT
1 TCATTATCAATGGCTTAAGATCCAACACT-TGAT-GAGATTCTTTAAAGCTTGTGTGAGCAACAT
*
57031123 CGAATCAT
64 CAAATCAT
* *
57031131 TGATTATCAATGGCTTAAGATCCAACACTTGATGTAGATTCTCTAAAGCTTGTGTGAGCAACATC
1 TCATTATCAATGGCTTAAGATCCAACACTTGATG-AGATTCTTTAAAGCTTGTGTGAGCAACATC
**
57031196 AAATTGT
65 AAATCAT
* * * * * *
57031203 TCTTTA-CTGATGGCTTGAGATTCAACACTTGTTGCGCATTCTTTAAAGCTTGT
1 TCATTATC-AATGGCTTAAGATCCAACACTTGATGAG-ATTCTTTAAAGCTTGT
57031256 ATAGTAACCC
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
71 2 0.02
72 99 0.97
73 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (71 bp):
TCATTATCAATGGCTTAAGATCCAACACTTGATGAGATTCTTTAAAGCTTGTGTGAGCAACATCA
AATCAT
Found at i:57038995 original size:35 final size:35
Alignment explanation
Indices: 57038949--57039020 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
57038939 AAGAAATTTT
**
57038949 AGGATACTCGGGCTCGAGAAGTCGCCTTGGGAAAG
1 AGGATACTCGGGCTCGAGAAGTCGCCTTAAGAAAG
57038984 AGGATACTCGGGCTCGAGAAGTCGCCTTAAGAAAG
1 AGGATACTCGGGCTCGAGAAGTCGCCTTAAGAAAG
57039019 AG
1 AG
57039021 TCTACTAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.19, G:0.35, T:0.17
Consensus pattern (35 bp):
AGGATACTCGGGCTCGAGAAGTCGCCTTAAGAAAG
Found at i:57039357 original size:30 final size:30
Alignment explanation
Indices: 57039321--57039388 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
57039311 TGCGCGAAGT
*
57039321 AGCTGATCATCTGCAAACTCTAGCGGTTCA
1 AGCTGATCATCTGCAAACTCTAGCAGTTCA
57039351 AGCTGATCATCTGCAAACTCTAGCAGTTCA
1 AGCTGATCATCTGCAAACTCTAGCAGTTCA
*
57039381 GGCTGATC
1 AGCTGATC
57039389 TATTAAGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (30 bp):
AGCTGATCATCTGCAAACTCTAGCAGTTCA
Found at i:57048123 original size:46 final size:44
Alignment explanation
Indices: 57048056--57048384 Score: 157
Period size: 44 Copynumber: 7.6 Consensus size: 44
57048046 ATTATACAGG
*
57048056 TCTTATCTCCCTGAGAATACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAG-A-TTCAGA
* * *
57048102 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGATTCAG--A
* * * * * **
57048146 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGATTCAGA
* * ** * *
57048185 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGA--TTACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGACCAAAGATTCAGA
* *
57048226 TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAG-A-TTCAGA
* * *** ****
57048272 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGATTCAGA
* * * * *
57048316 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGATTCA-GA
*
57048359 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
57048385 GCGGATTAAA
Statistics
Matches: 219, Mismatches: 47, Indels: 37
0.72 0.16 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 22 0.10
40 1 0.00
41 27 0.12
42 5 0.02
43 25 0.11
44 69 0.32
45 1 0.00
46 67 0.31
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGATTCAGA
Found at i:57048336 original size:44 final size:41
Alignment explanation
Indices: 57048100--57048393 Score: 193
Period size: 44 Copynumber: 6.9 Consensus size: 41
57048090 AAGAATTTCA
* * *
57048100 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGAT-TAAG-CAG
* * * * *
57048143 TAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAA--AG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAGCAG
* * * *
57048183 GATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATTACATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTA-AGCAG
** ** *
57048225 G-TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAAGCA----G
*
57048270 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAG-CAG
* * *
57048313 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAC
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGAT-TAAG-CAG
* * *
57048357 TATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAA
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAA
57048394 AATAAAGGAT
Statistics
Matches: 195, Mismatches: 39, Indels: 34
0.73 0.15 0.13
Matches are distributed among these distances:
38 1 0.01
39 26 0.13
40 3 0.02
41 27 0.14
42 8 0.04
43 31 0.16
44 65 0.33
45 2 0.01
46 31 0.16
47 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (41 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAGCAG
Found at i:57048405 original size:87 final size:87
Alignment explanation
Indices: 57048275--57048436 Score: 211
Period size: 87 Copynumber: 1.9 Consensus size: 87
57048265 TTTCGGATCT
* * **
57048275 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCC-CTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATC-CCTCTGAGATTACAGC
*
57048339 GGAGCAGATCGAAGACACTATCC
65 AGAGCAGATCGAAGACACTATCC
* * *
57048362 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCCCTCTGAGGTTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCCCTCTGAGATTACAGC
*
57048426 AGAGTAGATCG
65 AGAGCAGATCG
57048437 CATCAAGTCT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 2 0.03
87 58 0.91
88 4 0.06
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCCCTCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:57048540 original size:218 final size:213
Alignment explanation
Indices: 57048099--57048540 Score: 462
Period size: 218 Copynumber: 2.0 Consensus size: 213
57048089 AAAGAATTTC
* * *
57048099 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
* * * *
57048164 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATTACATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCCCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCT
* * ** * * *
57048229 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGGTTACAG
131 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATAAGGA-CGTATCTCCCTAAAGTTACAG
* ** *
57048294 TGGAGCAGATTGAAGCCAG
195 CGGAGCAGACAGAAGACAG
*
57048313 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGA-T
* * * *
57048376 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCCCTCTGAGGTTACAGCAGAGTAGATCGCATC
65 TACAATGGAGCGGA-T----TAAAGGATCTTATCCCTCTGAAGTTACAGCAGAGAAGATCACATC
* * * *
57048441 AAGTCTTATTTCCCTGAAGA-TGCAGTGGAACAGACTGAAA-ACAATAAGG-CGTGTCTCCCTAA
125 AAGTCTTATCTCCCTG-AGATTACAGTGGAACAGAC-CAAAGA-AATAAGGACGTATCTCCCTAA
** * *
57048503 AGTTGTAGCGGAGCGGACAGAAGATAG
187 AGTTACAGCGGAGCAGACAGAAGACAG
*
57048530 TGATTCTTATC
1 AGA-TCTTATC
57048541 ATGTCTAATC
Statistics
Matches: 186, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
212 1 0.01
213 28 0.15
214 43 0.23
217 30 0.16
218 74 0.40
219 10 0.05
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (213 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCCCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCT
TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATAAGGACGTATCTCCCTAAAGTTACAGC
GGAGCAGACAGAAGACAG
Found at i:57050237 original size:47 final size:46
Alignment explanation
Indices: 57050179--57050267 Score: 142
Period size: 47 Copynumber: 1.9 Consensus size: 46
57050169 AACACAAACA
*
57050179 AGCAATGAGGTAAGTTCGTGTAACTTGAATTATATTCTTAAATGCTT
1 AGCAATAAGGTAAGTTCGTGTAACTTGAATTATATT-TTAAATGCTT
* *
57050226 AGCAATAAGGTAAGTTTGTGTAACTTGAATTGTATTTTAAAT
1 AGCAATAAGGTAAGTTCGTGTAACTTGAATTATATTTTAAAT
57050268 ACTTGAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 6 0.15
47 33 0.85
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (46 bp):
AGCAATAAGGTAAGTTCGTGTAACTTGAATTATATTTTAAATGCTT
Found at i:57050746 original size:46 final size:46
Alignment explanation
Indices: 57050694--57050875 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
57050684 GGTGTGCTCT
* *
57050694 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
57050740 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
57050786 CTGATATGAAATGTGTAAGACTATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAAC
* * * *
57050832 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATAGTTGAAAGACACCATGGCA
57050876 TCATGTCAAA
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 124 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:57054735 original size:128 final size:129
Alignment explanation
Indices: 57054499--57054735 Score: 386
Period size: 128 Copynumber: 1.8 Consensus size: 129
57054489 TGAAGATTCA
* * *
57054499 CTAAAACAAAGGCAATATTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTC
1 CTAAAACAAAGGCAATATTCAATGTTTGGAAATTCGGGGAATAGTGCCCTATCATGCTGGATTTC
* *
57054564 GATTTCCCGCTTGTTCAAAATAACCGAATATTCCTTTAGAATTTTATTTGTGTTTTTTCAAAAG
66 GATTTCCCGCTTGTTCAAAATAACCAAATATTCCTTCAGAATTTTATTTGTGTTTTTTCAAAAG
57054628 CTAAAAC-AAGGCAATATTCAATGTTTGGAAATTCGGGGAATAGTGCCCTATCATGCTGGATTTC
1 CTAAAACAAAGGCAATATTCAATGTTTGGAAATTCGGGGAATAGTGCCCTATCATGCTGGATTTC
* ** *
57054692 GATTTCCCGTTTGTTCAAAATAATTAAATATTCCTTCGGAATTT
66 GATTTCCCGCTTGTTCAAAATAACCAAATATTCCTTCAGAATTT
57054736 CACCCGTGTT
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
128 92 0.93
129 7 0.07
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (129 bp):
CTAAAACAAAGGCAATATTCAATGTTTGGAAATTCGGGGAATAGTGCCCTATCATGCTGGATTTC
GATTTCCCGCTTGTTCAAAATAACCAAATATTCCTTCAGAATTTTATTTGTGTTTTTTCAAAAG
Found at i:57057272 original size:43 final size:43
Alignment explanation
Indices: 57057188--57057334 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
57057178 CAATCTGACA
* * * *
57057188 CTGTAGTGCATCATCGGATAAATCAAAGGAAATTTATTGGCAC
1 CTGTAGTGCATCATCGGATAAGTCGAAGGAAATATACTGGCAC
* * *
57057231 CTGTAGTGCATCATTGGATAAGTCGAAGGAAACATACTGGCATA
1 CTGTAGTGCATCATCGGATAAGTCGAAGGAAATATACTGGCA-C
* * * * * *
57057275 C-ATAGAGCATCATCGAATAAGTCGAAGCAATTGTACTGGCAC
1 CTGTAGTGCATCATCGGATAAGTCGAAGGAAATATACTGGCAC
* * *
57057317 AT-AAGTGCATCATTGGAT
1 CTGTAGTGCATCATCGGAT
57057335 GAACCGAATC
Statistics
Matches: 81, Mismatches: 21, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
42 12 0.15
43 68 0.84
44 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (43 bp):
CTGTAGTGCATCATCGGATAAGTCGAAGGAAATATACTGGCAC
Found at i:57058580 original size:39 final size:39
Alignment explanation
Indices: 57058517--57058596 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
57058507 ATGGCCACAA
* *
57058517 CTCTATATATAATAACAATTTTCTTAGTCATTCATTGTC
1 CTCTAGATATAATAACAATCTTCTTAGTCATTCATTGTC
*
57058556 CTCTAGATATAATATCAATCTTCTTAGTCATTCATTGTC
1 CTCTAGATATAATAACAATCTTCTTAGTCATTCATTGTC
57058595 CT
1 CT
57058597 TGTTTATTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (39 bp):
CTCTAGATATAATAACAATCTTCTTAGTCATTCATTGTC
Found at i:57065633 original size:25 final size:24
Alignment explanation
Indices: 57065585--57065639 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
57065575 TTAAATATGA
*
57065585 TAATAAATGATATTTAAATAATTT
1 TAATAAATGATATATAAATAATTT
57065609 TAATATAATGATATATAGAAT-ATTT
1 TAATA-AATGATATATA-AATAATTT
*
57065634 AAATAA
1 TAATAA
57065640 TTTAACATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.22
25 18 0.67
26 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (24 bp):
TAATAAATGATATATAAATAATTT
Found at i:57065635 original size:34 final size:32
Alignment explanation
Indices: 57065502--57065664 Score: 111
Period size: 33 Copynumber: 4.9 Consensus size: 32
57065492 CTTAAATTAT
* * *
57065502 ATAATATTTAAATAATGGTACATGAAATA-TAAA
1 ATAAT-TTTAAATAATGATA-ATAAAATATTTAA
* * *
57065535 AT-ATTTATAAAATTAATGATTTACAAAATATTTTA
1 ATAATTT-T-AAA-TAATGA-TAATAAAATATTTAA
57065570 A-AATTTTAAAT-ATGATAATAAATGATATTTAA
1 ATAATTTTAAATAATGATAATAAA--ATATTTAA
*
57065602 ATAATTTTAATATAATGATATATAGAATATTTAA
1 ATAATTTTAA-ATAATGATA-ATAAAATATTTAA
*
57065636 ATAA-TTTAACATAGTGATACATAAAATAT
1 ATAATTTTAA-ATAATGATA-ATAAAATAT
57065665 AAAATTAATT
Statistics
Matches: 104, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
30 5 0.05
31 6 0.06
32 12 0.12
33 37 0.36
34 26 0.25
35 14 0.13
36 4 0.04
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (32 bp):
ATAATTTTAAATAATGATAATAAAATATTTAA
Found at i:57065654 original size:33 final size:34
Alignment explanation
Indices: 57065559--57065664 Score: 114
Period size: 33 Copynumber: 3.2 Consensus size: 34
57065549 AATGATTTAC
*
57065559 AAAATATTTTAA-AATTTTAA-AT-ATGATA-AT
1 AAAATATTTAAATAATTTTAACATAATGATACAT
* *
57065589 AAATGATATTTAAATAATTTTAATATAATGATATAT
1 AAA--ATATTTAAATAATTTTAACATAATGATACAT
* *
57065625 AGAATATTTAAATAA-TTTAACATAGTGATACAT
1 AAAATATTTAAATAATTTTAACATAATGATACAT
57065658 AAAATAT
1 AAAATAT
57065665 AAAATTAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
30 3 0.05
32 8 0.12
33 29 0.45
34 14 0.22
35 6 0.09
36 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (34 bp):
AAAATATTTAAATAATTTTAACATAATGATACAT
Found at i:57068430 original size:18 final size:18
Alignment explanation
Indices: 57068407--57068452 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
57068397 CCTTGAAACA
57068407 CCCACAAATTTCTTTGTT
1 CCCACAAATTTCTTTGTT
57068425 CCCACAAATTTCTTTGTT
1 CCCACAAATTTCTTTGTT
*
57068443 TCCACAAATT
1 CCCACAAATT
57068453 CCAATAGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.41
Consensus pattern (18 bp):
CCCACAAATTTCTTTGTT
Found at i:57070813 original size:32 final size:32
Alignment explanation
Indices: 57070762--57070835 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
57070752 AACGATTTAA
* * *
57070762 AAATAGAT-TATATATATATAAAATTTTAAAAT
1 AAATA-ATATATATAAATATAAAAGTGTAAAAT
*
57070794 AGATAATATATATAAATATAAAAGTGTAAAAT
1 AAATAATATATATAAATATAAAAGTGTAAAAT
*
57070826 AAATATTATA
1 AAATAATATA
57070836 AAGAATATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (32 bp):
AAATAATATATATAAATATAAAAGTGTAAAAT
Found at i:57070912 original size:24 final size:24
Alignment explanation
Indices: 57070849--57070935 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 24
57070839 AATATTAAAG
* *
57070849 TAAAACAATTTAAAATAAATGA-A
1 TAAATCAATTTAAAATAAGTGATA
*
57070872 -AAGATCAGTTTAAAATAAG-GCATA
1 TAA-ATCAATTTAAAATAAGTG-ATA
57070896 TGAAAT-AATTTAAAATAAGTGATA
1 T-AAATCAATTTAAAATAAGTGATA
*
57070920 TAAGTCAATTTAAAAT
1 TAAATCAATTTAAAAT
57070936 TTATACACTG
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
22 3 0.06
23 17 0.33
24 27 0.52
25 3 0.06
26 2 0.04
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (24 bp):
TAAATCAATTTAAAATAAGTGATA
Found at i:57072029 original size:22 final size:22
Alignment explanation
Indices: 57071988--57072029 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
57071978 AAAGATCTAC
*
57071988 AGAAAAAGAAAGAAAGAAAAAA
1 AGAAAAAGAAACAAAGAAAAAA
*
57072010 AGAAAAAG-AACAAAGCAAAA
1 AGAAAAAGAAACAAAGAAAAA
57072030 CCTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.79, C:0.05, G:0.17, T:0.00
Consensus pattern (22 bp):
AGAAAAAGAAACAAAGAAAAAA
Found at i:57072733 original size:44 final size:44
Alignment explanation
Indices: 57072678--57073485 Score: 528
Period size: 44 Copynumber: 17.9 Consensus size: 44
57072668 TAACTCCAAC
* * * * * *
57072678 CTGCCCCACTGCAATTTTAGGGGGATAAGGTTTGTGGTTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTCAAT
* * * * *
57072722 CTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTCAAT
** * *
57072766 CTGCTCCACTAAAACTTCAGGGAGATAAGATTTGTGGTTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTCAAT
* * * *
57072810 CTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTATATTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGAT-TTCAAT
* *
57072855 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-ATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGAT-TTCAAT
* *
57072899 CTGCTCCACTGCAACTTCAGAGAGATAAGATTCAACATGATAGATTT-GAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-----TG-T-GATTTCAAT
* * * * * *
57072949 CCGAC-CCACTGCAAATTCAGAGATATAAGACTTGTAACTTGTAGCTTTAAT
1 CTG-CTCCACTGCAACTTCAGGGAGATAAGATTTGTGA-TT-T--C---AAT
* * * *
57073000 CTGTTCCACTACAACTTCAGGGAAATAAGATTTGCT-ATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGAT-TTCAAT
* * * * *
57073045 CTG-TCCCACTGCAATTTCAGGGAGATAAGACTTGTAACTTCAAC
1 CTGCT-CCACTGCAACTTCAGGGAGATAAGATTTGTGATTTCAAT
* * *
57073089 CTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGCT-A--T-GAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGATTTCAAT
* * * *
57073130 CTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTTCGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGA-TTTCAAT
* * * * * *
57073175 CTACTCTACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTCAAT
* * *
57073219 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGTTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTCAAT
* ** *
57073263 CTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCCATGGT-AGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGAT-TTCA-AT
* * * * * * *
57073308 TTGATCTAACCTGCTGCAATTTCA--CAGGTATAGAATTTATAGCTTT-AAT
1 CTG--CT--CC-ACTGCAACTTCAGGGAGATA-AG-ATTTGT-GATTTCAAT
* * * * *
57073357 TTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCT-ATTTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGA-TTTCAAT
* * * * *
57073402 CTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTCAAT
*
57073446 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTT
57073486 GTAGCTTCAA
Statistics
Matches: 596, Mismatches: 122, Indels: 92
0.74 0.15 0.11
Matches are distributed among these distances:
40 1 0.00
41 34 0.06
42 1 0.00
43 1 0.00
44 304 0.51
45 149 0.25
46 4 0.01
47 4 0.01
48 5 0.01
49 10 0.02
50 46 0.08
51 34 0.06
52 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTCAAT
Found at i:57072738 original size:88 final size:88
Alignment explanation
Indices: 57072641--57073292 Score: 307
Period size: 89 Copynumber: 7.3 Consensus size: 88
57072631 GATCCACTCA
* * ** * * *
57072641 ACTGCAACTTCAGAAAGATAATAATCGTAACTCCAACCTGCCCCACTGCAATTTTAGGGGGATAA
1 ACTGCAACTTCAGAGAGATAAGAATCGTAACTCCAACCTGCCCCACTAAAACTTCAGGGAGATAA
*
57072706 GGTTTGTGGTTTCAATCTGCTCT
66 GATTTGTGGTTTCAATCTGCTCT
* * * * *
57072729 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTAAAACTTCAGGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGAATCGTAACTCCAACCTGCCCCACTAAAACTTCAGGGAGATAA
*
57072794 GATTTGTGGTTTTAATCTGCTCT
66 GATTTGTGGTTTCAATCTGCTCT
* * * ** * **
57072817 ACTGCAACTTCAGAGAGATAAGATTTGTTATA-TTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
1 ACTGCAACTTCAGAGAGATAAGAATCG-TA-ACTCCAACCTGCCCCACTAAAACTTCAGGGAGAT
* * * *
57072881 AAGACTTGT-ATCTTCAACCTGCTCC
64 AAGATTTGTGGT-TTCAATCTGCTCT
* * ** * * *
57072906 ACTGCAACTTCAGAGAGATAAGATTCAACATGATAGATTTGATCC-GACCCACTGCAAA-TTCAG
1 ACTGCAACTTCAGAGAGATAAGA---ATC--G-TA-ACTCCAACCTGCCCCACT-AAAACTTCAG
* * * * *
57072969 AGATATAAGACTTGTAACTTGTAGCTTT-AATCTGTTCC
58 GGAGATAAGA----T---TTGT-GGTTTCAATCTGCTCT
* * * * * * * ** * ** *
57073007 ACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGTCCCACTGCAATTTCAGGGAGATA
1 ACTGCAACTTCAGAGAGATAAGAATCG-TAACTCCAACCTGCCCCACTAAAACTTCAGGGAGATA
* *** *
57073072 AGACTTGTAACTTCAACCTGCTCT
65 AGATTTGTGGTTTCAATCTGCTCT
* ** * * * * * ** *
57073096 ACTGCAACTTCAGGGAGATAAGGTTTGCT-A-T--GATCTGCTCTACTGCAACTTCAGAGAGATA
1 ACTGCAACTTCAGAGAGATAAGAATCG-TAACTCCAACCTGCCCCACTAAAACTTCAGGGAGATA
** * *
57073157 AGATTTGTAATTTTCGATCTACTCT
65 AGATTTGT-GGTTTCAATCTGCTCT
* * * * **
57073182 ACTGCAACTTCA-AGGAGATAAGATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGA-GAGATAAGAATCGTAACTCCAACCTGCCCCACTAAAACTTCAGGGAGATA
* *
57073246 AGACTTGTGGTTTTAATCTGCTCT
65 AGATTTGTGGTTTCAATCTGCTCT
*
57073270 ACTGCAACTTCAGGGAGATAAGA
1 ACTGCAACTTCAGAGAGATAAGA
57073293 TTTGCCATGG
Statistics
Matches: 438, Mismatches: 97, Indels: 58
0.74 0.16 0.10
Matches are distributed among these distances:
85 31 0.07
86 36 0.08
87 2 0.00
88 134 0.31
89 141 0.32
90 1 0.00
94 23 0.05
95 12 0.03
96 23 0.05
101 32 0.07
102 2 0.00
103 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (88 bp):
ACTGCAACTTCAGAGAGATAAGAATCGTAACTCCAACCTGCCCCACTAAAACTTCAGGGAGATAA
GATTTGTGGTTTCAATCTGCTCT
Found at i:57072903 original size:89 final size:89
Alignment explanation
Indices: 57072716--57073480 Score: 601
Period size: 89 Copynumber: 8.5 Consensus size: 89
57072706 GGTTTGTGGT
* ** **
57072716 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTA-ACTTCAACCTGCTCCACTAAAA
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTATA-TTCAGTCTGCTCCACTGCAA
* **
57072780 CTTCAGGGAGATAAGATTTGTGGT-
65 CTTCAGGGAGATAAGACTTGTAATC
* *
57072804 TTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTATATTCAGTCTGCTCCACTGCAA
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG-TATATTCAGTCTGCTCCACTGCAA
57072869 CTTCAGGGAGATAAGACTTGT-ATC
65 CTTCAGGGAGATAAGACTTGTAATC
* * * * * *
57072893 TTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTCAACATGATAGATT-TGATCCGAC-CC
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATT-----TG-TATATTCAG-TCTG-CTCC
* * *
57072956 ACTGCAAATTCAGAGATATAAGACTTGTAACTTGTAGC
58 ACTGCAACTTCAGGGAGATAAGACTTGTAA----T--C
* * * * * *
57072994 TTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTG-TCCCACTGCA
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG-TATATTCAGTCTGCT-CCACTGCA
*
57073058 ATTTCAGGGAGATAAGACTTGTAA-C
64 ACTTCAGGGAGATAAGACTTGTAATC
* * * * *
57073083 TTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTG-CTA-TGA-TCTGCTCTACTGCAAC
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTATATTCAGTCTGCTCCACTGCAAC
* * *
57073145 TTCAGAGAGATAAGATTTGTAATT
66 TTCAGGGAGATAAGACTTGTAATC
* * * **
57073169 TTCGATCTACTCTACTGCAACTTCAAGGAGATAAGATTTGTA-ACTTCAACCTGCTCCACTGCAA
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTATA-TTCAGTCTGCTCCACTGCAA
**
57073233 CTTCAGGGAGATAAGACTTGTGGT-
65 CTTCAGGGAGATAAGACTTGTAATC
* * ** * *
57073257 TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCCATGGT-AGATTTGATCTAACCTG
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG-TATATTCAG-TCTG--CT--CC-A
* * * * *
57073321 CTGCAATTTCA--CAGGTATAGAATT-TATAGC
59 CTGCAACTTCAGGGAGATA-AGACTTGTA-ATC
* * * * * *
57073351 TTTAATTTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAGTCTGCTCCGCTGCAA
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG-TATATTCAGTCTGCTCCACTGCAA
57073416 CTTCAGGGAGATAAGACTTGTAA-C
65 CTTCAGGGAGATAAGACTTGTAATC
* * *
57073440 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGT
57073481 GATTTGTAGC
Statistics
Matches: 539, Mismatches: 97, Indels: 82
0.75 0.14 0.11
Matches are distributed among these distances:
85 32 0.06
86 39 0.07
87 1 0.00
88 78 0.14
89 189 0.35
90 9 0.02
91 8 0.01
92 7 0.01
93 8 0.01
94 91 0.17
95 4 0.01
96 38 0.07
97 1 0.00
99 1 0.00
101 33 0.06
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (89 bp):
TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTATATTCAGTCTGCTCCACTGCAAC
TTCAGGGAGATAAGACTTGTAATC
Found at i:57073231 original size:130 final size:133
Alignment explanation
Indices: 57072631--57073296 Score: 406
Period size: 133 Copynumber: 4.9 Consensus size: 133
57072621 TTGTTGCTTT
* * * * * * * * *
57072631 GATCCACTCAACTGCAACTTC-AGAAAGATAATAATCGTAACTCCAACCTGCCCCACTGCAATTT
1 GATCTACTCTACTGCAACTTCAAG-GAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTT
* * ** * * *
57072695 TAGGGGGATAAGGTTTGTGG-TTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAA
65 CAGGGAGATAAGACTTGTGGCTAT-AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAA
*
57072759 -CTTC
129 TTTTC
* * * * ** * * *** * * *
57072763 AACCTGCTCCACTAAAACTTCAGGGAGATAAGATTTGTGGTTTTAATCTGCTCTACTGCAACTTC
1 GATCTACTCTACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTC
* * ** * * * *
57072828 AGAGAGATAAGATTTGT-TATATTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A
66 AGGGAGATAAGACTTGTGGCTA-T-AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAA
*
57072891 TCTTC
129 TTTTC
* * * * * * * *
57072896 AACCTGCTCCACTGCAACTTC-AGAGAGATAAGATTCAACATGATAGATTTGATCC-GAC-CCAC
1 GATCTACTCTACTGCAACTTCAAG-GAGATAAG-----ACTTG-TA-ACTTCAACCTG-CTCCAC
* * * * * * * *
57072958 TGCAAATTCAGAGATATAAGACTTGTAACTTGTAGCTTTAATCTGTTCCACTACAACTTCAGGGA
57 TGCAACTTCAGGGAGATAAGACTTG-----TG--GCTATAATCTGCTCTACTGCAACTTCAGAGA
* *
57073023 AATAAGATTTGCT-ATCTTC
115 GATAAGATTTG-TAATTTTC
* * * * *
57073042 -AGTCT-GTCCCACTGCAATTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTGCAACT
1 GA-TCTACT-CTACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACT
* *
57073105 TCAGGGAGATAAG-GTT-T-GCTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAA
64 TCAGGGAGATAAGACTTGTGGCTATAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAA
57073167 TTTTC
129 TTTTC
*
57073172 GATCTACTCTACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAACCTGCTCCACTGCAACTTC
1 GATCTACTCTACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTC
* * *
57073237 AGGGAGATAAGACTTGTGGTTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTG
66 AGGGAGATAAGACTTGTGGCTATAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG
57073297 CCATGGTAGA
Statistics
Matches: 418, Mismatches: 83, Indels: 65
0.74 0.15 0.11
Matches are distributed among these distances:
129 1 0.00
130 106 0.25
131 4 0.01
132 59 0.14
133 109 0.26
138 3 0.01
139 36 0.09
140 29 0.07
141 4 0.01
144 1 0.00
145 34 0.08
146 30 0.07
147 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (133 bp):
GATCTACTCTACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTC
AGGGAGATAAGACTTGTGGCTATAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATT
TTC
Found at i:57073382 original size:227 final size:229
Alignment explanation
Indices: 57073131--57073679 Score: 635
Period size: 227 Copynumber: 2.3 Consensus size: 229
57073121 TGCTATGATC
* *
57073131 TGCTCTACTGCAACTTCAGAGAGATAAGATTTG-TAATTTTC-GATCTACTCTACTGCAACTTCA
1 TGCTCTACTGCAACTTCAGAGAGATAAGATTCGCT-ATTTTCAG-TCTACTCCACTGCAACTTCA
*
57073194 AGGAGATAAGATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTG-GT-
64 AGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGTGTA
* * *
57073257 TTTAATCTGCTCTACTGCAACTTCAG-GGAGATAAGATTTGCCATGGTAGATTTGATCTAACCTG
129 TTCAATCTGCCCCACTGCAACTTCAGAGG-GATAAGATTTGCCATGGTAGATTTGATCTAACCTG
57073321 CTGCAATTTCACAGGTATAGAATTTATAGCTTTAATT
193 CTGCAATTTCACAGGTATAGAATTTATAGCTTTAATT
* * *
57073358 TGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAGTCTGCTCCGCTGCAACTTCAGG
1 TGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAGTCTACTCCACTGCAACTTCAAG
**
57073423 GAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGT
66 GAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTG---TGT
* * * **
57073488 AGCTTCAATCTGCCCCACTGCAATTTCAGAGGGATAAGATTTGCTATGGTAGATTTGATTTGGCC
128 A--TTCAATCTGCCCCACTGCAACTTCAGAGGGATAAGATTTGCCATGGTAGATTTGATCTAACC
* * * * *
57073553 TACTACAACTTCAGAGGTATAGGACTTGTAACTCATAGCTTTAATT
191 TGCTGCAATTTCACAGGTATA-GA-AT-T---T-ATAGCTTTAATT
* * * * * * *
57073599 TGTTCCACTGCAACTTCA-AGGAAATAAGATTCGCCAATATTT-AGTCTGCTCCACTACAACTTT
1 TGCTCTACTGCAACTTCAGA-GAGATAAGATTCG-CTAT-TTTCAGTCTACTCCACTGCAACTTC
57073662 AAGGAGATAAGACTTGTA
63 AAGGAGATAAGACTTGTA
57073680 GATTCACCGA
Statistics
Matches: 273, Mismatches: 29, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
227 112 0.41
228 2 0.01
231 2 0.01
234 68 0.25
235 4 0.01
236 1 0.00
237 1 0.00
240 2 0.01
241 40 0.15
242 38 0.14
243 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (229 bp):
TGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAGTCTACTCCACTGCAACTTCAAG
GAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGTGTATT
CAATCTGCCCCACTGCAACTTCAGAGGGATAAGATTTGCCATGGTAGATTTGATCTAACCTGCTG
CAATTTCACAGGTATAGAATTTATAGCTTTAATT
Found at i:57073509 original size:51 final size:51
Alignment explanation
Indices: 57073433--57073530 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
57073423 GAGATAAGAC
* *
57073433 TTGTAACTTCAACCTGCTCCACTGCAACTTCAG-GGAGATAAGGTTTGTGAT
1 TTGTAACTTCAACCTGCCCCACTGCAACTTCAGAGG-GATAAGATTTGTGAT
* * *
57073484 TTGTAGCTTCAATCTGCCCCACTGCAATTTCAGAGGGATAAGATTTG
1 TTGTAACTTCAACCTGCCCCACTGCAACTTCAGAGGGATAAGATTTG
57073531 CTATGGTAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 39 0.95
52 2 0.05
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (51 bp):
TTGTAACTTCAACCTGCCCCACTGCAACTTCAGAGGGATAAGATTTGTGAT
Found at i:57079057 original size:32 final size:32
Alignment explanation
Indices: 57079019--57079101 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
57079009 GTATAGAACG
* *
57079019 ATTTAAAAATAGAT-ATATATATATATATAAA
1 ATTTTAAAATAGATAATATATATAAATATAAA
57079050 ATTTTAAAATAGATAATATATATAAATATAAA
1 ATTTTAAAATAGATAATATATATAAATATAAA
* * * *
57079082 AGTGTAAAATAAATATTATA
1 ATTTTAAAATAGATAATATA
57079102 AAGAATATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
31 13 0.29
32 32 0.71
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (32 bp):
ATTTTAAAATAGATAATATATATAAATATAAA
Found at i:57079183 original size:24 final size:24
Alignment explanation
Indices: 57079143--57079198 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
57079133 ATGAAAAGAG
*
57079143 TTTAAAATAAGGCATATGAAAT-AA
1 TTTAAAATAAGGAATAT-AAATCAA
* *
57079167 TTTAAAATAAGTAATATAAGTCAA
1 TTTAAAATAAGGAATATAAATCAA
57079191 TTTAAAAT
1 TTTAAAAT
57079199 TTATATACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.34
Consensus pattern (24 bp):
TTTAAAATAAGGAATATAAATCAA
Found at i:57082922 original size:17 final size:19
Alignment explanation
Indices: 57082889--57082928 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
57082879 CATGTAGCCT
57082889 GCCCGTGTGACCTCACAC-
1 GCCCGTGTGACCTCACACA
*
57082907 GCCCGTGTG-GCTCACACA
1 GCCCGTGTGACCTCACACA
57082925 GCCC
1 GCCC
57082929 AATTTGGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.15, C:0.45, G:0.25, T:0.15
Consensus pattern (19 bp):
GCCCGTGTGACCTCACACA
Found at i:57084646 original size:39 final size:39
Alignment explanation
Indices: 57084587--57084665 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
57084577 CTAACTGTGA
*
57084587 TCTGATTTCAAATGAGGGAAATGAGAAACCAAAACATCT
1 TCTGATTTCAAATGAAGGAAATGAGAAACCAAAACATCT
57084626 TCTGATTTCAAATGAAGGAAATGAGAAACCAAAACATCT
1 TCTGATTTCAAATGAAGGAAATGAGAAACCAAAACATCT
57084665 T
1 T
57084666 AAAAGAGTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.24
Consensus pattern (39 bp):
TCTGATTTCAAATGAAGGAAATGAGAAACCAAAACATCT
Found at i:57085234 original size:41 final size:40
Alignment explanation
Indices: 57085183--57085259 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
57085173 AAGATATTTA
*
57085183 TAAAATTTAAA-GTTAAAATATATATCATAATATTATAATAT
1 TAAAACTTAAATGTT-AAATATATAT-ATAATATTATAATAT
* *
57085224 TAAAACTTAAATGTTAAGTATATATATTATATTATA
1 TAAAACTTAAATGTTAAATATATATATAATATTATA
57085260 TTATATTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 10 0.31
41 19 0.59
42 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (40 bp):
TAAAACTTAAATGTTAAATATATATATAATATTATAATAT
Found at i:57085256 original size:5 final size:5
Alignment explanation
Indices: 57085242--57085274 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
57085232 AAATGTTAAG
57085242 TATA- TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
57085275 ATAACTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:57094071 original size:5 final size:5
Alignment explanation
Indices: 57094061--57094088 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
57094051 TCAAAGCATA
57094061 GGATG GGATG GGATG GGATG GGATG GGA
1 GGATG GGATG GGATG GGATG GGATG GGA
57094089 GAAAATGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.61, T:0.18
Consensus pattern (5 bp):
GGATG
Found at i:57094646 original size:22 final size:20
Alignment explanation
Indices: 57094600--57094646 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
57094590 TCAAAATTTC
57094600 TTAAA-AAAATTTAAATAAT
1 TTAAATAAAATTTAAATAAT
**
57094619 CAAAATAAAAGTTTAAATTAAT
1 TTAAATAAAA-TTTAAA-TAAT
57094641 TTAAAT
1 TTAAAT
57094647 TATATTTCGG
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.14
20 4 0.19
21 6 0.29
22 8 0.38
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TTAAATAAAATTTAAATAAT
Done.