Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 13 of 172
Found at i:3439715 original size:58 final size:57
Alignment explanation
Indices: 3439562--3439763 Score: 217
Period size: 58 Copynumber: 3.5 Consensus size: 57
3439552 CGCATAAAAC
* * * * * *
3439562 ACCTCTAAAATGAAACACCTTTATGGAAAAACTCTGGAAAAGTAAACCTTTTAGTGT
1 ACCTCTAAAAGGAAACACCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTTTGGTGA
* * * ** * *
3439619 ACCTTTGAATGGAAATGCCTTCATGACAAAA-TCTGGAAAGGTAAGCCTTTGTGGTGA
1 ACCTCTAAAAGGAAACACCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTT-TGGTGA
* * *
3439676 ACCTCTAAAAAGAAACACCTTTGTGGCAAAACTCTGGAAAGGTAAGCCTTTATGGCGA
1 ACCTCTAAAAGGAAACACCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTT-TGGTGA
* *
3439734 AACTCTAAAAGGAAACGCCTTTATGGCAAA
1 ACCTCTAAAAGGAAACACCTTTATGGCAAA
3439764 TTTCTGTCAA
Statistics
Matches: 115, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
56 17 0.15
57 48 0.42
58 50 0.43
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (57 bp):
ACCTCTAAAAGGAAACACCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTTTGGTGA
Found at i:3441709 original size:41 final size:41
Alignment explanation
Indices: 3441608--3441698 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
3441598 GCATAGCGCT
*
3441608 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
* * *
3441649 TAGTAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
3441690 TAGCAGGCT
1 TAGCAGGCT
3441699 AGGTGCCGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:3447672 original size:29 final size:29
Alignment explanation
Indices: 3447640--3447725 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 29
3447630 TGTGGTGAAC
* * *
3447640 CTCTAAAAAGAAACACCTTTGTGGCAAAA
1 CTCTAAAAGGAAACGCCTTTATGGCAAAA
* * *
3447669 CTCTGGAAAGGTAA-GCCTTTATGGCGAAA
1 CTCT-AAAAGGAAACGCCTTTATGGCAAAA
3447698 CTCTAAAAGGAAACGCCTTTATGGCAAA
1 CTCTAAAAGGAAACGCCTTTATGGCAAA
3447726 TTTCTGTCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 7 0.15
29 33 0.72
30 6 0.13
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (29 bp):
CTCTAAAAGGAAACGCCTTTATGGCAAAA
Found at i:3447677 original size:58 final size:57
Alignment explanation
Indices: 3447524--3447725 Score: 208
Period size: 58 Copynumber: 3.5 Consensus size: 57
3447514 CGCATAAAAC
* * * * * *
3447524 ACCTCTAAAATGAAACACCTTTATGGAAAAACTCTGGAAAAGTAAACCTTTTAGTGT
1 ACCTCTAAAAGGAAACACCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTTTGGTGA
* * * * ** * *
3447581 ACCTTTGAATGGAGATGCCTTCATGACAAAA-TCTGGAAAGGTAAGCCTTTGTGGTGA
1 ACCTCTAAAAGGAAACACCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTT-TGGTGA
* * *
3447638 ACCTCTAAAAAGAAACACCTTTGTGGCAAAACTCTGGAAAGGTAAGCCTTTATGGCGA
1 ACCTCTAAAAGGAAACACCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTT-TGGTGA
* *
3447696 AACTCTAAAAGGAAACGCCTTTATGGCAAA
1 ACCTCTAAAAGGAAACACCTTTATGGCAAA
3447726 TTTCTGTCAA
Statistics
Matches: 113, Mismatches: 30, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
56 17 0.15
57 46 0.41
58 50 0.44
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (57 bp):
ACCTCTAAAAGGAAACACCTTTATGGCAAAACTCTGGAAAGGTAAGCCTTTTGGTGA
Found at i:3449668 original size:41 final size:41
Alignment explanation
Indices: 3449567--3449657 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 41
3449557 GCATAGCGCT
*
3449567 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
* *
3449608 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
3449649 TAGCAGGCT
1 TAGCAGGCT
3449658 AGGTGCCGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:3451874 original size:27 final size:27
Alignment explanation
Indices: 3451853--3452148 Score: 362
Period size: 27 Copynumber: 11.0 Consensus size: 27
3451843 TGTATAATAG
* *
3451853 TCATTTTACCCTATGGGAGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
*
3451880 TCATTTTACTCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* * * * *
3451907 TCGTTCTACCCTATGGGAGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
3451934 TCATTCTACCCTATGGGGTTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
3451961 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
3451988 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
3452015 TCATTTTACCTTATGGGGGT-TATTCGT
1 TCATTTTACCCTATGGGGGTAT-TTCGA
* * * *
3452042 TCATTCTACCTTATGAGGGTATTT-TA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
3452068 GTCATTCTACCCTATGGAGGTATTTCGA
1 -TCATTTTACCCTATGGGGGTATTTCGA
*
3452096 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
3452123 TCATTCTACCCTATAGGGGTATTTCG
1 TCATTTTACCCTATGGGGGTATTTCG
3452149 GTTATAATAG
Statistics
Matches: 234, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.00
27 231 0.99
28 2 0.01
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:3461385 original size:19 final size:21
Alignment explanation
Indices: 3461344--3461400 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 21
3461334 ATAACCAAAC
* *
3461344 TTCCCCTCTCCCCTTCGTTTT
1 TTCCCCTCTCCCCTCCGTCTT
3461365 TTCCCCT-T-CCCTCCGTCTT
1 TTCCCCTCTCCCCTCCGTCTT
**
3461384 TTCTCTTTCTCCCCTCC
1 TTC-CCCTCTCCCCTCC
3461401 TTCCTATCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 12 0.41
20 3 0.10
21 8 0.28
22 6 0.21
ACGTcount: A:0.00, C:0.51, G:0.04, T:0.46
Consensus pattern (21 bp):
TTCCCCTCTCCCCTCCGTCTT
Found at i:3461744 original size:6 final size:6
Alignment explanation
Indices: 3461712--3461823 Score: 54
Period size: 6 Copynumber: 18.2 Consensus size: 6
3461702 CTTTTTTCCC
* *
3461712 TTATTAT TTATTT ATTATTC TTA--T TTATTT TTA-TT ATATTT ATTATCCTT
1 TTATT-T TTATTT -TTATTT TTATTT TTATTT TTATTT TTATTT -TTAT--TT
* * * *
3461762 TGT-TTT CTTATTT TTATTT TTATTT TT-TTA TTCTTA TTATGT TTATTAT
1 T-TATTT -TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATT-T
*
3461811 TTATTA TTATTT T
1 TTATTT TTATTT T
3461824 AGCTATCGTA
Statistics
Matches: 82, Mismatches: 11, Indels: 25
0.69 0.09 0.21
Matches are distributed among these distances:
4 3 0.04
5 8 0.10
6 43 0.52
7 23 0.28
8 2 0.02
9 3 0.04
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (6 bp):
TTATTT
Found at i:3472306 original size:44 final size:45
Alignment explanation
Indices: 3472248--3473145 Score: 354
Period size: 44 Copynumber: 20.6 Consensus size: 45
3472238 TCACATCTAG
*
3472248 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAG-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAG-AAGACAAA
* * *
3472292 CCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGGCTGAAGAAGACAAA
* ** * ** *
3472337 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGA-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAAGACAAA
* *
3472381 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAG-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAG-AAGACAAA
* *
3472425 TCTTATC-CTCCTGAAGTTGTAGT-GAGGC-GGACTGAAGATGACAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGG-CTGAAGAAGACAAA
** * **
3472470 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAC-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAAGACAAA
* * * * * **
3472514 TCCTATCTCCCTGAAGTTACAGTGGAGC-GGATTAA-AATCACTGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAA-GACAAA
* * * * * * * * *
3472558 TCTTATCTCTCTTAAGTTGCAG-AGAGCA-GAT-CA-CA-TCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAAGACAAA
* *
3472598 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGCT-AAGTAAG-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAG-AAGACAAA
* * * * *
3472642 TCTTATC-CTCCTGAAGTTGCAAT-GAGGTAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGGCTGAAGAAGACAAA
* ** * * *
3472687 TCTTACCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGA-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAAGACAAA
* * * * * *
3472731 TCCTATCTCCCTGAAGTTACAGTGGAGC-GGATTAA-AATCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAA-GACAAA
* * * * * * * * *
3472775 TCTTATCTCTCTGAAGTTGCAG-AGAGTA-GAT--CGCA-TCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAAGACAAA
* * * *
3472815 TCTTATCTCCTTGAAGTTGAAGTGGAGCAGACT-AAGTAAG-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAG-AAGACAAA
* * *
3472859 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGGCTGAAGAAGACAAA
* * * ** * ** *
3472904 TCTTATCTTCATGAAGTTGCACTGGAGCAGATTAAAGCCGGC-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAAGACAAA
* * ** * * *
3472948 TCCTATCTCCCTGAAGTTGTAGTGGAGC-GAATTAA-AATTACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAA-GACAAA
* * * * * * * * *
3472992 TCTTATCTCTCTAAAGTTGCAG-AGAGCA-GAT--TGCA-TCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAAGACAAA
* * * *
3473032 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGTAGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAAGACAAA
* * *** * ** *
3473076 TCTTATCTTCCTGAAGTTTCAGTGGAGCATATTAAAGCTGA-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAAGACAAA
*
3473120 TCCTATCTCCCTGAAGTTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
3473146 ATAGACTAAG
Statistics
Matches: 641, Mismatches: 159, Indels: 108
0.71 0.18 0.12
Matches are distributed among these distances:
40 62 0.10
41 14 0.02
42 10 0.02
43 56 0.09
44 341 0.53
45 146 0.23
46 12 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGAAGACAAA
Found at i:3472361 original size:89 final size:86
Alignment explanation
Indices: 3472248--3473145 Score: 381
Period size: 89 Copynumber: 10.3 Consensus size: 86
3472238 TCACATCTAG
*
3472248 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG-AAGCAAGTCTTAT-CTCCTGAAGTTGCA
3472313 GTGAGGCAGACTGAAGATGACAAA
64 GTGAGGCAGACT-AAGATGACAAA
* * * * *
3472337 TCTTATCTCCCTGAAGTTGCAGTGGAGTA-GATTA-AAGCCGATAATCCTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAG-C-A-AGTCTTATCT-CCTGAAGTTG
* * *
3472400 CAGTG-GAGCAGGCTAAG-TAAGCAAG
62 CAGTGAG-GCAGACTAAGATGA-CAAA
* * *
3472425 TCTTATC-CTCCTGAAGTTGTAGT-GAGGC-GGACTGAAGATGACAAATCTTATCTCCCTGAAGT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGG-CT-AAGAAG-CAAGTCTTATCT-CCTGAAGT
* **
3472487 TGCAGTG-GAGCAGATTAAAGCCGAC-AA
60 TGCAGTGAG-GCAGACT-AAGATGACAAA
* * * * * *
3472514 TCCTATCTCCCTGAAGTTACAGTGGAGC-GGATTAA-AATCACTGATCTTATCTCTCTTAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-CTAAGAAGCA-AG-TCTTATCTC-CTGAAGTTG
* * * * *
3472577 CAGAGA-GCAGA-TCACAT--CTAG
62 CAGTGAGGCAGACTAAGATGACAAA
*
3472598 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG-AAGCAAGTCTTAT-CTCCTGAAGTTGCA
* * *
3472663 ATGAGGTAGACTGAAGATGGCAAA
64 GTGAGGCAGACT-AAGATGACAAA
* ** * * * *
3472687 TCTTACCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAG-ATAATCCTATCTCCCTGAAGTTAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGAAGCA-AGTCTTATCT-CCTGAAGTTGC
* * * * *
3472751 AGTG-GAGCGGATTAAAATCACAGA
63 AGTGAG-GCAGACTAAGATGACAAA
* * * * * * * * *
3472775 TCTTATCTCTCTGAAGTTGCAG-AGAGTA-GAT-CGCATCTAGTCTTATCTCCTTGAAGTTGAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAGCAAGTCTTATCTCC-TGAAGTTGCAG
* *
3472837 TG-GAGCAGACTAAG-TAAGCAAG
65 TGAG-GCAGACTAAGATGA-CAAA
* * * *
3472859 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTTCATGAAGTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGGCT-AAGA-AGCAAGTCTTATC-TCCTGAAGTT
* * ** *
3472922 GCACTG-GAGCAGATTAAAGCCGGC-AA
61 GCAGTGAG-GCAGACT-AAGATGACAAA
* * ** ** *
3472948 TCCTATCTCCCTGAAGTTGTAGTGGAGC-GAATTAA-AATTACAGATCTTATCTCTCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-GCTAAGAAGCA-AG-TCTTATCTC-CTGAAGTTG
* * * *
3473011 CAGAGA-GCAGA-T-TGCAT--CTAG
62 CAGTGAGGCAGACTAAG-ATGACAAA
* * * * *
3473032 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAGGCAAATCTTATCTTCCTGAAGTTTCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG-AAGCAAGTCTTATC-TCCTGAAGTTGCA
* * * *
3473097 GTG-GAGCATATTAAAGCTGA-TAA
64 GTGAG-GCAGACT-AAGATGACAAA
*
3473120 TCCTATCTCCCTGAAGTTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
3473146 ATAGACTAAG
Statistics
Matches: 607, Mismatches: 135, Indels: 135
0.69 0.15 0.15
Matches are distributed among these distances:
83 7 0.01
84 150 0.25
85 21 0.03
86 18 0.03
87 30 0.05
88 136 0.22
89 220 0.36
90 21 0.03
91 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (86 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAGCAAGTCTTATCTCCTGAAGTTGCAGT
GAGGCAGACTAAGATGACAAA
Found at i:3472401 original size:133 final size:133
Alignment explanation
Indices: 3472251--3472541 Score: 528
Period size: 133 Copynumber: 2.2 Consensus size: 133
3472241 CATCTAGTCT
3472251 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCTCCTGAAGTTGCAGTG
* *
3472316 AGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAA
66 AGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
3472381 TCC
131 TCC
* *
3472384 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGTAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCTCCTGAAGTTGCAGTG
*
3472449 AGGCGGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
66 AGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
3472514 TCC
131 TCC
*
3472517 TATCTCCCTGAAGTTACAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
3472542 GGATTAAAAT
Statistics
Matches: 152, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 152 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (133 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCTCCTGAAGTTGCAGTG
AGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
TCC
Found at i:3472607 original size:217 final size:217
Alignment explanation
Indices: 3472384--3473145 Score: 1150
Period size: 217 Copynumber: 3.5 Consensus size: 217
3472374 CCGATAATCC
* *
3472384 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGTAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
*
3472449 AGGCGGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
66 AGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
* *
3472514 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCACTGATCTTATCTCTCTTAAGTTGCA
131 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCA
*
3472579 GAGAGCAGATCACATCTAGTCT
196 GAGAGCAGATCGCATCTAGTCT
* * *
3472601 TATCTCCCTAAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAATG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
* * * * *
3472666 AGGTAGACTGAAGATGGCAAATCTTACCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGATAA
66 AGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
*
3472731 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCA
131 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCA
*
3472796 GAGAGTAGATCGCATCTAGTCT
196 GAGAGCAGATCGCATCTAGTCT
* *
3472818 TATCTCCTTGAAGTTGAAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
* * * * *
3472883 AGGCAGACTGAAGATGGCAAATCTTATCTTCATGAAGTTGCACTGGAGCAGATTAAAGCCGGCAA
66 AGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
** * *
3472948 TCCTATCTCCCTGAAGTTGTAGTGGAGCGAATTAAAATTACAGATCTTATCTCTCTAAAGTTGCA
131 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCA
*
3473013 GAGAGCAGATTGCATCTAGTCT
196 GAGAGCAGATCGCATCTAGTCT
* * * * *
3473035 TATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAGGCAAATCTTATCTTCCTGAAGTTTCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
* * * * * *
3473100 -GAGCATATTAAAGCTGA-TAATCCTATCTCCCTGAAGTTGCAGTGGA
66 AG-GCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGA
3473146 ATAGACTAAG
Statistics
Matches: 494, Mismatches: 50, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
216 25 0.05
217 469 0.95
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
AGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCA
GAGAGCAGATCGCATCTAGTCT
Found at i:3477353 original size:31 final size:32
Alignment explanation
Indices: 3477297--3477357 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
3477287 AAATTACAAG
3477297 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
3477329 AGTAATTGAATCCTAAT-AAAACTCTTTAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAA
3477358 TATTATCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 12 0.41
32 17 0.59
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAA
Found at i:3481996 original size:40 final size:39
Alignment explanation
Indices: 3481959--3482136 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
3481949 ATATCCGGAC
3481959 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
3481999 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
3482039 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
3482079 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
3482118 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
3482137 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:3482049 original size:80 final size:79
Alignment explanation
Indices: 3481965--3482136 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
3481955 GGACTAAGAT
*
3481965 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
3482029 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
3482045 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
3482110 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
3482124 CCGAAGGCATTTG
1 CCGAAGGCATTTG
3482137 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:3482154 original size:79 final size:80
Alignment explanation
Indices: 3481992--3482169 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
3481982 AGATACAAAT
* * * *
3481992 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
3482057 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
3482072 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
3482136 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
3482151 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
3482170 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:3489919 original size:40 final size:39
Alignment explanation
Indices: 3489835--3490058 Score: 134
Period size: 40 Copynumber: 5.6 Consensus size: 39
3489825 TTGAATGCTG
* * * *
3489835 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAA
*
3489875 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
** *
3489914 TTCCGGGTTAAGCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
** * * * * *
3489954 TCCGGGTTAAGTCACAAAGGCATTCGTGTGAG-TCATTAAA
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGAT-ACTAAA
** * *
3489994 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
* * *
3490033 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAG-CCCGAAGGCATTTG
3490059 AACGAGGAGC
Statistics
Matches: 153, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
39 68 0.44
40 75 0.49
41 9 0.06
42 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:3489940 original size:39 final size:39
Alignment explanation
Indices: 3489888--3490058 Score: 177
Period size: 39 Copynumber: 4.3 Consensus size: 39
3489878 GGACTAAGAT
3489888 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGC
*
3489927 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAG-C
* * * * *
3489967 ACAAAGGCATTCGTGTGAG-TCATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGGTTAAG-C
* * * * *
3490007 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAG-C
3490046 CCGAAGGCATTTG
1 CCGAAGGCATTTG
3490059 AACGAGGAGC
Statistics
Matches: 113, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
39 66 0.58
40 47 0.42
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGC
Found at i:3489974 original size:79 final size:78
Alignment explanation
Indices: 3489891--3490058 Score: 187
Period size: 79 Copynumber: 2.1 Consensus size: 78
3489881 CTAAGATCCG
* *
3489891 AAGGCATTTGTGCGAGATACA-AATTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAA
1 AAGGCATTTGTGCGAG-T-CATAAATCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
3489954 TCCGGGTTAAGTCACA
63 ACCGGGCTAAGTCACA
* * * *
3489970 AAGGCATTCGTGTGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAAC
1 AAGGCATTTGTGCGAGTCA-TAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAAC
* * *
3490035 CGGGCTATGTCCCG
65 CGGGCTAAGTCACA
3490049 AAGGCATTTG
1 AAGGCATTTG
3490059 AACGAGGAGC
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
77 2 0.03
78 1 0.01
79 63 0.85
80 8 0.11
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (78 bp):
AAGGCATTTGTGCGAGTCATAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACC
GGGCTAAGTCACA
Found at i:3494209 original size:31 final size:32
Alignment explanation
Indices: 3494149--3494209 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
3494139 AAATTACAAG
*
3494149 AGTAATTGAATCCTAATAAAAACTTTTTAAAC
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAC
3494181 AGTAATTGAATCCTAAT-AAAACTCTTTAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAA
3494210 TATTATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAC
Found at i:3504338 original size:89 final size:87
Alignment explanation
Indices: 3504220--3505201 Score: 434
Period size: 89 Copynumber: 11.3 Consensus size: 87
3504210 TCGCATCTAG
*
3504220 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG-AAGCAAGTCTTAT-CTCCTGAAGTTGCA
3504285 GTGAG-GCAGACTGAAGATGACAAA
64 GTGAGAGCAGA-TGAAGATGACAAA
* ** ** *
3504309 TCTTATCACCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA-TCCTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGAAG-CAAGTCTTATCTC-CTGAAGTTGC
** * * * *
3504373 AGTG-GAGTGGATTAAAATCACAGA
63 AGTGAGAGCAGATGAAGATGACAAA
* * * * * * * * *
3504397 TCTTATCTCTCTAAAGTTGCAG-AGAGCA-GAT-TGCATCTAGTCTTATCTCCCTGAAGTTGCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAGCAAGTCTTATCT-CCTGAAGTTGCAG
* *
3504459 TG-GAGCAGACT-AAG-TAAGCAAG
65 TGAGAGCAGA-TGAAGATGA-CAAA
* * *
3504481 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGGCT-AAGA-AGCAAGTCTTATCT-CCTGAAGTT
* ** *
3504544 GCAGTG-GAGCAGATTAAAGCCGGC-AA
61 GCAGTGAGAGCAGA-TGAAGATGACAAA
* * * *
3504570 TCCTATCTCTCTGAAGTTGCAGTGGAGC-GGATTAA-AATCACAGATCTTATCTCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-CTAAGAAGCA-AG-TCTTATCTC-CTGAAGTTG
* * *
3504633 CA--GAGAGCAGATCG--CAT--CTAG
62 CAGTGAGAGCAGAT-GAAGATGACAAA
*
3504654 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG-AAGCAAGTCTTAT-CTCCTGAAGTTGCA
3504719 GTGAG-GCAGATTGAAGATGACAAA
64 GTGAGAGCAGA-TGAAGATGACAAA
* ** * * * * *
3504743 TCTTACCTCCCTGAAGTTGCAAAGGAGCA-GATTA-AAGCCGATAATCCTATCTCCCTGAAGTTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAG-C-A-AGTCTTATCT-CCTGAAGTTG
* * * * *
3504806 CAATG-GAGCGGATTAAAATCACAAA
62 CAGTGAGAGCAGATGAAGATGACAAA
* * * * * * * *
3504831 TCTTATCTCTCTGAAGTTGCAG-AGAGTA-GAT-CGCATCTAGTCTTATCTCCCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAGCAAGTCTTATCT-CCTGAAGTTGCAG
* * *
3504893 TG-GAGTAGACT-AAG-TAAGCAAG
65 TGAGAGCAGA-TGAAGATGA-CAAA
* * * * *
3504915 TCTTATC-CTCCTGAAGTTGCAAT-GAGGCAGACTGAAGATGGCAAATCTTATCTTCCTAAAGTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGGCT-AAGA-AGCAAGTCTTATC-TCCTGAAGTT
* * **
3504978 GCACTG-GAGCAGATTAAAGCCGAC-AA
61 GCAGTGAGAGCAGA-TGAAGATGACAAA
* * * * * * *
3505004 TCCTATCTCTCTGAAGTTACAGTGGAG-TGGATTAA-AATCACAGATCTTATCTCTCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-CTAAGAAGCA-AG-TCTTATCTC-CTGAAGTTG
* * *
3505067 CA--GAGAGCAGATTG--CAT--CTAG
62 CAGTGAGAGCAGA-TGAAGATGACAAA
* * * * *
3505088 TCTTATCTCCCTGAAGTTGCAATAGAGCAGACTAAGTAGGCAAATCTTATCTTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG-AAGCAAGTCTTATC-TCCTGAAGTTGCA
* * *
3505153 GTG-GAGCAGATTAAAGATGATAAT
64 GTGAGAGCAGA-TGAAGATGACAAA
*
3505177 TC-TATCTCCCTAAAGTTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
3505202 ATAGACTAAG
Statistics
Matches: 668, Mismatches: 152, Indels: 147
0.69 0.16 0.15
Matches are distributed among these distances:
83 10 0.01
84 192 0.29
85 34 0.05
86 26 0.04
87 41 0.06
88 133 0.20
89 210 0.31
90 21 0.03
91 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAGCAAGTCTTATCTCCTGAAGTTGCAGT
GAGAGCAGATGAAGATGACAAA
Found at i:3504509 original size:217 final size:217
Alignment explanation
Indices: 3504127--3505201 Score: 1715
Period size: 217 Copynumber: 5.0 Consensus size: 217
3504117 ACAAATCCGT
* * *
3504127 AGCCGATAATCCTATCTGC-CTGAAGTTGCAGTGGAGCAGATTAAAATCACTGATCTTATCTCTC
1 AGCCGACAATCCTATCT-CTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTC
* *
3504191 TGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGGCTAAG
65 TGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG
*
3504256 TAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCACCCT
130 TAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCT
3504321 GAAGTTGCAGTGGAGCAGATTAA
195 GAAGTTGCAGTGGAGCAGATTAA
*
3504344 AGCCGACAATCCTATCTCTCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCT
1 AGCCGACAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* * *
3504409 AAAGTTGCAGAGAGCAGATTGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
*
3504474 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
3504539 AAGTTGCAGTGGAGCAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
*
3504561 AGCCGGCAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
1 AGCCGACAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
*
3504626 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
* * *
3504691 AAGCAAGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGATTGAAGATGACAAATCTTACCTCCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
**
3504756 AAGTTGCAAAGGAGCAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
* * * * *
3504778 AGCCGATAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAATCACAAATCTTATCTCTCT
1 AGCCGACAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* *
3504843 GAAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
* * * *
3504908 AAGCAAGTCTTATCCTCCTGAAGTTGCAATGAGGCAGACTGAAGATGGCAAATCTTATCTTCCTA
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
*
3504973 AAGTTGCACTGGAGCAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
* *
3504995 AGCCGACAATCCTATCTCTCTGAAGTTACAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCT
1 AGCCGACAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* * * *
3505060 AAAGTTGCAGAGAGCAGATTGCATCTAGTCTTATCTCCCTGAAGTTGCAATAGAGCAGACTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
* * * * * * *
3505125 AGGCAAATCTTATCTTCCTGAAGTTGCAGTG-GAGCAGATTAAAGATGATAATTC-TATCTCCCT
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAG-GCAGACTGAAGATGACAAATCTTATCTCCCT
*
3505188 AAAGTTGCAGTGGA
195 GAAGTTGCAGTGGA
3505202 ATAGACTAAG
Statistics
Matches: 793, Mismatches: 63, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
216 23 0.03
217 770 0.97
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
AGCCGACAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
AAGTTGCAGTGGAGCAGATTAA
Found at i:3504579 original size:173 final size:173
Alignment explanation
Indices: 3504262--3504591 Score: 395
Period size: 173 Copynumber: 1.9 Consensus size: 173
3504252 TAAGTAAGCA
* *
3504262 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCACCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAATGAGGCAGACTGAAGAAGACAAATCTTATCACCCTGAAGTT
* * * ** *
3504327 GCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCTCTGAAGTTGCAGTGGAGTGGATTAAAATC
66 GCAGTGGAGCAGACTAAAGACGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
*
3504392 ACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATTGCATCT
131 ACAGATCCTATCTCTCTAAAGTTGCAGAGAGCAGATTGCATCT
*
3504435 AGTCTTAT-CTCCCTGAAGTTGCAATG-GAGCAGACT-AAGTAAG-CAAGTCTTATC-CTCCTGA
1 AGTCTTATCCT-CCTGAAGTTGCAATGAG-GCAGACTGAAG-AAGACAAATCTTATCAC-CCTGA
* * * *
3504495 AGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
62 AGTTGCAGTGGA-GCAGACTAAAGACGAC-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* * *
3504559 AAAGCCGGCA-ATCCTATCTCTCTGAAGTTGCAG
125 AAAACC-ACAGATCCTATCTCTCTAAAGTTGCAG
3504592 TGGAGCGGAT
Statistics
Matches: 133, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
171 3 0.02
172 41 0.31
173 87 0.65
174 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (173 bp):
AGTCTTATCCTCCTGAAGTTGCAATGAGGCAGACTGAAGAAGACAAATCTTATCACCCTGAAGTT
GCAGTGGAGCAGACTAAAGACGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
ACAGATCCTATCTCTCTAAAGTTGCAGAGAGCAGATTGCATCT
Found at i:3504803 original size:173 final size:173
Alignment explanation
Indices: 3504479--3504804 Score: 369
Period size: 173 Copynumber: 1.9 Consensus size: 173
3504469 TAAGTAAGCA
*
3504479 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
* * * * ** * *
3504544 GCAGTGGAGCAGATTAAAGCCGGCAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATC
66 GCAGTGGAGCAGATTAAAGACGACAATCCTACCTCCCTGAAGTTGCAAAGGAGCAGATTAAAACC
* *
3504609 ACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
131 ACAGATCCTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCT
* * *
3504652 AGTCTTAT-CTCCCTGAAGTTGCAGTG-GAGCAGGCT-AAG-TAAGCAAGTCTTATC-CTCTTGA
1 AGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTGAAGAT-AGCAAATCTTATCTC-CCTGA
* * *
3504712 AGTTGCAGT-GAGGCAGATTGAAGATGACAAATCTTACCTCCCTGAAGTTGCAAAGGAGCAGATT
62 AGTTGCAGTGGA-GCAGATTAAAGACGAC-AATCCTACCTCCCTGAAGTTGCAAAGGAGCAGATT
* *
3504776 AAAGCCGATA-ATCCTATCTCCCTGAAGTT
125 AAAACC-ACAGATCCTATCTCCCTGAAGTT
3504805 ACAATGGAGC
Statistics
Matches: 127, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
171 4 0.03
172 42 0.33
173 79 0.62
174 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (173 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGACGACAATCCTACCTCCCTGAAGTTGCAAAGGAGCAGATTAAAACC
ACAGATCCTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCT
Found at i:3504919 original size:84 final size:83
Alignment explanation
Indices: 3504356--3505166 Score: 351
Period size: 84 Copynumber: 9.4 Consensus size: 83
3504346 CCGACAATCC
* ** * *
3504356 TATCTCTCTGAAGTTGCAGTGGAGTGGATTAA-AATCACAGATCTTATCTCTCTAAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAAGCA-AG-TCTTATCTCTCTGAAGTTGCAGA
*
3504420 GAGCAGATTGCATCTAGTCT
64 GAGCAGATAGCATCTAGTCT
* * *
3504440 TATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG-AAGCAAGTCTTATCTCT-CTGAAGTTGCAGA
* *
3504504 GAGGCAGACTGAAG-ATGGCAAATCT
64 GA-GCAGA-T--AGCAT--CTAGTCT
** *
3504529 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGCAA-TCCTATCTCTCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAG-AAGCAAGTCTTATCTCTCTGAAGTTGCAG-
* * ** *
3504593 GGAGCGGATTAAAATCACAGATCT
63 AGAGCAGA-TAGCATC-TAG-TCT
* * * * * * * *
3504617 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAAGCAAGTCTTATCTCTCTGAAGTTGCAG-AG
* * * *
3504679 AGCAGGCTAAGTAAGCAAGTCT
65 AGCA-GAT-AG-CATCTAGTCT
* * * * *
3504701 TATC-CTCTTGAAGTTGCAGT-GAGGCAGATTGAAGATGACAAATCTTACCTCCCTGAAGTTGCA
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGATT-AAGAAG-CAAGTCTTATCTCTCTGAAGTTGCA
* *** * *
3504764 AAGGAGCAGATTAAAGCCGATAATCC
62 GA-GAGCAGA-T--AGCATCTAGTCT
* * * * *
3504790 TATCTCCCTGAAGTTACAATGGAGCGGATTAA-AATCACAAATCTTATCTCTCTGAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAA--GCAAGTCTTATCTCTCTGAAGTTGCAGA
* *
3504854 GAGTAGATCGCATCTAGTCT
64 GAGCAGATAGCATCTAGTCT
* *
3504874 TATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCA-A
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG-AAGCAAGTCTTATCTCT-CTGAAGTTGCAGA
* *
3504937 TGAGGCAGACTGAAG-ATGGCAAATCT
64 -GA-GCAGA-T--AGCAT--CTAGTCT
* * * ** * *
3504963 TATCTTCCTAAAGTTGCACTGGAGCAGATTAAAGCCGACAA-TCCTATCTCTCTGAAGTTACAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGAAG-CAAGTCTTATCTCTCTGAAGTTGCAG-
* ** ** *
3505027 GGAGTGGATTAAAATCACAGATCT
63 AGAGCAGA-TAGCATC-TAG-TCT
* * * * * * * *
3505051 TATCTCTCTAAAGTTGCAG-AGAGCAGATT--GCATCTAGTCTTATCTCCCTGAAGTTGCAATAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAAGCAAGTCTTATCTCTCTGAAGTTGC-AGAG
* * * *
3505113 AGCAGACTAAGTAGGCAAATCT
65 AGCAGA-T-AGCA-TCTAGTCT
*
3505135 TATCTTCCTGAAGTTGCAGTGGAGCAGATTAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
3505167 AGATGATAAT
Statistics
Matches: 548, Mismatches: 121, Indels: 113
0.70 0.15 0.14
Matches are distributed among these distances:
83 11 0.02
84 195 0.36
85 33 0.06
86 17 0.03
87 31 0.06
88 74 0.14
89 160 0.29
90 27 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (83 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAAGCAAGTCTTATCTCTCTGAAGTTGCAGAGA
GCAGATAGCATCTAGTCT
Found at i:3505162 original size:44 final size:44
Alignment explanation
Indices: 3504220--3505166 Score: 402
Period size: 44 Copynumber: 21.8 Consensus size: 44
3504210 TCGCATCTAG
* * ** * *
3504220 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGGCTAAGTAAGCAAG
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAGTAGGCAAA
* * *
3504264 TCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGACAAA
1 TCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TTAAGTA-GGCAAA
** *
3504309 TCTTATCACCCTGAAGTTGCAGTGGAGCAGATTAA--AGCCGACAA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAGTAGGC-A-AA
* ** * *
3504353 TCCTATC-TCTCTGAAGTTGCAGTGGAGTGGATTAAAATCA--CAGA
1 TCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATT-AAGT-AGGCAAA
* * * * * *
3504397 TCTTATC-TCTCTAAAGTTGCAG-AGAGCAGATT--GCA-TCTAG
1 TCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAGTAGGCAAA
* * * * *
3504437 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAGTAGGCAAA
* *
3504481 TCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAA
1 TCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TTAAGTA-GGCAAA
* **
3504526 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGC-AA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATT-AAGTAGGCAAA
* * * *
3504570 TCCTATC-TCTCTGAAGTTGCAGTGGAGCGGATTAAAATCA--CAGA
1 TCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATT-AAGT-AGGCAAA
* * * * * *
3504614 TCTTATC-TCTCTGAAGTTGCAG-AGAGCAGA-T-CGCA-TCTAG
1 TCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAGTAGGCAAA
* ** * *
3504654 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAG
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAGTAGGCAAA
* * *
3504698 TCTTATCCTCTTGAAGTTGCAGT-GAGGCAGATTGAAG-ATGACAAA
1 TCTTATCTTCCTGAAGTTGCAGTGGA-GCAGATT-AAGTA-GGCAAA
* * ** *
3504743 TCTTACCTCCCTGAAGTTGCAAAGGAGCAGATTAA--AGCCGATAA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAGTAGGC-A-AA
* * * * * *
3504787 TCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAATCA--CAAA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATT-AAGT-AGGCAAA
* * * * * * *
3504831 TCTTATC-TCTCTGAAGTTGCAG-AGAGTAGA-T-CGCA-TCTAG
1 TCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAGTAGGCAAA
* * * * *
3504871 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAG
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAGTAGGCAAA
* * *
3504915 TCTTATCCTCCTGAAGTTGCAAT-GAGGCAGACTGAAG-ATGGCAAA
1 TCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TTAAGTA-GGCAAA
* * *
3504960 TCTTATCTTCCTAAAGTTGCACTGGAGCAGATTAA--AGCCGACAA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAGTAGGC-A-AA
* * ** * *
3505004 TCCTATC-TCTCTGAAGTTACAGTGGAGTGGATTAAAATCA--CAGA
1 TCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATT-AAGT-AGGCAAA
* * * * * *
3505048 TCTTATC-TCTCTAAAGTTGCAG-AGAGCAGATT--GCA-TCTAG
1 TCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAGTAGGCAAA
* * * *
3505088 TCTTATCTCCCTGAAGTTGCAATAGAGCAGACTAAGTAGGCAAA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAGTAGGCAAA
3505132 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAA
3505167 AGATGATAAT
Statistics
Matches: 686, Mismatches: 151, Indels: 132
0.71 0.16 0.14
Matches are distributed among these distances:
39 4 0.01
40 77 0.11
41 34 0.05
42 10 0.01
43 52 0.08
44 353 0.51
45 142 0.21
46 11 0.02
48 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAGTAGGCAAA
Found at i:3506743 original size:20 final size:21
Alignment explanation
Indices: 3506705--3506743 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
3506695 TGTGTAATTA
*
3506705 TTATTTTATATATATGTATAT
1 TTATTTTATATATACGTATAT
*
3506726 TTATTTT-TATGTACGTAT
1 TTATTTTATATATACGTAT
3506744 TTATACCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (21 bp):
TTATTTTATATATACGTATAT
Found at i:3507596 original size:44 final size:43
Alignment explanation
Indices: 3507521--3508483 Score: 346
Period size: 44 Copynumber: 22.2 Consensus size: 43
3507511 TTACAGTGGA
* * * *
3507521 GCAGTGGAGCAGGCT-AAGTAAGCAAGTCTTATCCTCCTGAAGTT
1 GCAGTGGAGCAGACTGAAATGA-CAAATCTTAT-CTCCTGAAGTT
3507565 GCAGT-GAGGCAGACTGAAATGACAAATCTTATCTCCCTGAAGTT
1 GCAGTGGA-GCAGACTGAAATGACAAATCTTATCT-CCTGAAGTT
* * *
3507609 GCAGTGGAGCAGA-TTAAA-GCCGATAATCCTATCTCCCTGAAGTT
1 GCAGTGGAGCAGACTGAAATGAC-A-AATCTTATCT-CCTGAAGTT
* * * * * *
3507653 GCAGTGGAACGGATTAAAATCACAGATCTTATCTCTCTGAAGTT
1 GCAGTGGAGCAGACTGAAATGACAAATCTTATCTC-CTGAAGTT
* * * * *
3507697 GCAG-AGAGCATGTC-G-CAT--CTAGTCTTATCTCCCTGAAGTT
1 GCAGTGGAGCA-GACTGAAATGACAAATCTTATCT-CCTGAAGTT
* * * * *
3507737 GCAGTGGAGCATG-CT-AAGTAAGCAAGTCTTATCCTGCTTAAGTT
1 GCAGTGGAGCA-GACTGAAATGA-CAAATCTTAT-CTCCTGAAGTT
* *
3507781 GCAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTT
1 GCAGTGGA-GCAGACTGAA-ATGACAAATCTTATCT-CCTGAAGTT
* * *
3507826 GCAGTGGAGCAGA-TTAAA-GCCGACAATCCTATCTCCCTGAAGTT
1 GCAGTGGAGCAGACTGAAATGAC-A-AATCTTATCT-CCTGAAGTT
* * * * * *
3507870 ACAGTGGAGCGGATTAAAATCACAAATCTTATCTCTCTAAAGTT
1 GCAGTGGAGCAGACTGAAATGACAAATCTTATCTC-CTGAAGTT
** * * * * *
3507914 GCA-AAGAGAAGA-TCG-CAT--CTAGTCTTATCTCCCTGAAGTA
1 GCAGTGGAGCAGACT-GAAATGACAAATCTTATCT-CCTGAAGTT
* * * * *
3507954 GCAGTGGAGCAGGCT-AAGTAAGCAAGTCTTATCCTCTTGAAGTT
1 GCAGTGGAGCAGACTGAAATGA-CAAATCTTAT-CTCCTGAAGTT
* *
3507998 GCAGT-GAGGCAGACTGAAGATGGCAAATCTTACCTCCCTGAAGTT
1 GCAGTGGA-GCAGACTGAA-ATGACAAATCTTATCT-CCTGAAGTT
* * * *
3508043 GCAGTGGAGCAGA-TTATA-GCCGATAATCCTATCTCCTTGAAGTT
1 GCAGTGGAGCAGACTGAAATGAC-A-AATCTTATCTCC-TGAAGTT
* * * * * *
3508087 GCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTT
1 GCAGTGGAGCAGACTGAAATGACAAATCTTATCTC-CTGAAGTT
* * * * * *
3508131 GCAG-AGAGTAGATTG-CAT--CTAGTCTTATCTCCCTGAAGTT
1 GCAGTGGAGCAGACTGAAATGACAAATCTTATCT-CCTGAAGTT
* * * *
3508171 GCAGTGGAGCAGACT-AAGTAAGCAAGTCTTATCCTCCTAAAGTT
1 GCAGTGGAGCAGACTGAAATGA-CAAATCTTAT-CTCCTGAAGTT
* *
3508215 GCAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTTCCTAAAGTT
1 GCAGTGGA-GCAGACTGAA-ATGACAAATCTTATC-TCCTGAAGTT
* * * * * *
3508260 GCACTGGAACATA-TTAAA-GCCGACAATCCTATCTCCCTGAAGTT
1 GCAGTGGAGCAGACTGAAATGAC-A-AATCTTATCT-CCTGAAGTT
* * * * * * * *
3508304 ACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAATTT
1 GCAGTGGAGCAGACTGAAATGACAAATCTTATCTC-CTGAAGTT
* * * * * *
3508348 GCAG-AGAGCAAATTG-CAT--CTAGTCTTATCTCCCTGAAGTT
1 GCAGTGGAGCAGACTGAAATGACAAATCTTATCT-CCTGAAGTT
* * * * *
3508388 GCAATGGAGCAGACT-AAGTAGGCAAATCTTATATTCTTGAAGTT
1 GCAGTGGAGCAGACTGAAAT-GACAAATCTTAT-CTCCTGAAGTT
* * * *
3508432 GCAGTGGAGAAGA-TTAAAGCTGA-TAATCCTATCTCCCTGAAGTT
1 GCAGTGGAGCAGACTGAAA--TGACAAATCTTATCT-CCTGAAGTT
3508476 GCAGTGGA
1 GCAGTGGA
3508484 ATAGACTAAG
Statistics
Matches: 686, Mismatches: 155, Indels: 156
0.69 0.16 0.16
Matches are distributed among these distances:
40 79 0.12
41 34 0.05
42 18 0.03
43 52 0.08
44 372 0.54
45 117 0.17
46 14 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
GCAGTGGAGCAGACTGAAATGACAAATCTTATCTCCTGAAGTT
Found at i:3507901 original size:217 final size:217
Alignment explanation
Indices: 3507521--3508437 Score: 1416
Period size: 217 Copynumber: 4.2 Consensus size: 217
3507511 TTACAGTGGA
*
3507521 GCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAA-AT
1 GCAGTGGAGCA-GCTAAGTAAGCAAGTCTTATCCTCCTTAAGTTGCAGTGAGGCAGACTGAAGAT
* * *
3507585 GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAA
65 GGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAA
* * * *
3507650 GTTGCAGTGGAACGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCATG-TCGCA
130 GTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAAGATCGCA
3507714 TCTAGTCTTATCTCCCTGAAGTT
195 TCTAGTCTTATCTCCCTGAAGTT
*
3507737 GCAGTGGAGCATGCTAAGTAAGCAAGTCTTATCCTGCTTAAGTTGCAGTGAGGCAGACTGAAGAT
1 GCAGTGGAGCA-GCTAAGTAAGCAAGTCTTATCCTCCTTAAGTTGCAGTGAGGCAGACTGAAGAT
3507802 GGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAA
65 GGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAA
* *
3507867 GTTACAGTGGAGCGGATTAAAATCACAAATCTTATCTCTCTAAAGTTGCAAAGAG-AAGATCGCA
130 GTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAAGATCGCA
*
3507931 TCTAGTCTTATCTCCCTGAAGTA
195 TCTAGTCTTATCTCCCTGAAGTT
3507954 GCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCT-CTTGAAGTTGCAGTGAGGCAGACTGAAGA
1 GCAGTGGAGCA-GCTAAGTAAGCAAGTCTTATCCTCCTT-AAGTTGCAGTGAGGCAGACTGAAGA
* * * * *
3508018 TGGCAAATCTTACCTCCCTGAAGTTGCAGTGGAGCAGATTATAGCCGATAATCCTATCTCCTTGA
64 TGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGA
* * * * *
3508083 AGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAGAGAG-TAGATTGC
129 AGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAAGATCGC
3508147 ATCTAGTCTTATCTCCCTGAAGTT
194 ATCTAGTCTTATCTCCCTGAAGTT
*
3508171 GCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGAT
1 GCAGTGGAGCAG-CTAAGTAAGCAAGTCTTATCCTCCTTAAGTTGCAGTGAGGCAGACTGAAGAT
* * * *
3508236 GGCAAATCTTATCTTCCTAAAGTTGCACTGGAACATATTAAAGCCGACAATCCTATCTCCCTGAA
65 GGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAA
* *
3508301 GTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAATTTGCAGAGAGCAA-ATTGCA
130 GTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAAGATCGCA
3508365 TCTAGTCTTATCTCCCTGAAGTT
195 TCTAGTCTTATCTCCCTGAAGTT
* * * * *
3508388 GCAATGGAGCAGACTAAGTAGGCAAATCTTAT-ATTCTTGAAGTTGCAGTG
1 GCAGTGGAGCAG-CTAAGTAAGCAAGTCTTATCCTCCTT-AAGTTGCAGTG
3508438 GAGAAGATTA
Statistics
Matches: 646, Mismatches: 48, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
216 68 0.11
217 575 0.89
218 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (217 bp):
GCAGTGGAGCAGCTAAGTAAGCAAGTCTTATCCTCCTTAAGTTGCAGTGAGGCAGACTGAAGATG
GCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAG
TTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAAGATCGCAT
CTAGTCTTATCTCCCTGAAGTT
Found at i:3516749 original size:11 final size:11
Alignment explanation
Indices: 3516729--3516772 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
3516719 TTCAACAACA
3516729 TAAATCTTGTT
1 TAAATCTTGTT
*
3516740 TAAATTTTGTT
1 TAAATCTTGTT
3516751 TAAATCTTGTT
1 TAAATCTTGTT
3516762 TAAATCTTGTT
1 TAAATCTTGTT
3516773 CAACAACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (11 bp):
TAAATCTTGTT
Found at i:3517407 original size:45 final size:45
Alignment explanation
Indices: 3517346--3517435 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
3517336 CAGTTGAGAC
3517346 ACACGCCCATGCCTCAGGCCATGTAACAATCGAAATAGAGACACA
1 ACACGCCCATGCCTCAGGCCATGTAACAATCGAAATAGAGACACA
* * ** * *
3517391 ACACGCCCGTGTCTCAGGCTGTGTAATAATCGAAATAGGGACACA
1 ACACGCCCATGCCTCAGGCCATGTAACAATCGAAATAGAGACACA
3517436 CAGCCGTGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (45 bp):
ACACGCCCATGCCTCAGGCCATGTAACAATCGAAATAGAGACACA
Found at i:3525546 original size:31 final size:31
Alignment explanation
Indices: 3525510--3525571 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
3525500 CGTTTCACCT
3525510 TAGAATAAAGTCACCATCTAGAACAACCTTA
1 TAGAATAAAGTCACCATCTAGAACAACCTTA
3525541 TAGAATAAAGTCACCATCTAGAACAACCTTA
1 TAGAATAAAGTCACCATCTAGAACAACCTTA
3525572 AAAAGAGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.23
Consensus pattern (31 bp):
TAGAATAAAGTCACCATCTAGAACAACCTTA
Found at i:3528248 original size:24 final size:24
Alignment explanation
Indices: 3528221--3528339 Score: 141
Period size: 24 Copynumber: 5.0 Consensus size: 24
3528211 TTTATTGCAA
* *
3528221 TATTGAGTGGCTTGTCCATAACGT
1 TATTGAGTGGTTTGTCCATAACGC
3528245 TATTGAGTGGTTTGTCCATAACGC
1 TATTGAGTGGTTTGTCCATAACGC
* *
3528269 TATTGAGTGGTTTGTCCACAAAGC
1 TATTGAGTGGTTTGTCCATAACGC
* * *
3528293 TATTGAGT-GTCTTGGCCACAACGT
1 TATTGAGTGGT-TTGTCCATAACGC
* *
3528317 TAATGAGTGGTTTGACCATAACG
1 TATTGAGTGGTTTGTCCATAACG
3528340 ATGCAATTTG
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.02
24 79 0.95
25 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (24 bp):
TATTGAGTGGTTTGTCCATAACGC
Found at i:3528394 original size:64 final size:63
Alignment explanation
Indices: 3528293--3528444 Score: 205
Period size: 64 Copynumber: 2.4 Consensus size: 63
3528283 TCCACAAAGC
* * * **
3528293 TATTGAGTGTCTTGGCCACAACGTTAATGAGTGGTTTGACCATAACGATGCAATTTGACTGTGA
1 TATTGAGTGGCTT-GCCACAACGTTAATGAGTGGTTTGACCACAACGATGCAACTTGACTGCAA
* *
3528357 TATTGAGTGGCTCTGCCACAACGTTATTGAGTGGTTTGACCACAATGATGCAACTTGACTGCAA
1 TATTGAGTGGCT-TGCCACAACGTTAATGAGTGGTTTGACCACAACGATGCAACTTGACTGCAA
*
3528421 TATTGAGTGGCTAGGCCACAACGT
1 TATTGAGTGGCT-TGCCACAACGT
3528445 AGTGTGTTAT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 77 0.99
65 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (63 bp):
TATTGAGTGGCTTGCCACAACGTTAATGAGTGGTTTGACCACAACGATGCAACTTGACTGCAA
Found at i:3529904 original size:48 final size:48
Alignment explanation
Indices: 3529833--3529951 Score: 168
Period size: 48 Copynumber: 2.5 Consensus size: 48
3529823 TTTACTGTAA
*
3529833 TATTGAGTGGCTTGACCACAACGTT-TGTGAGTGGCTTGACCACAATGC
1 TATTGAGTGGCTTGACCACAACGTTAT-TGAGTGGCTTGACCAAAATGC
*
3529881 TATTGAGTGGCTTGACCACAACGTTATTGAGTGGCTTGTCCAAAATGC
1 TATTGAGTGGCTTGACCACAACGTTATTGAGTGGCTTGACCAAAATGC
* ***
3529929 TACTGAGCAACTTGACCACAACG
1 TATTGAGTGGCTTGACCACAACG
3529952 ATGCAGCTTG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 63 0.98
49 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (48 bp):
TATTGAGTGGCTTGACCACAACGTTATTGAGTGGCTTGACCAAAATGC
Found at i:3529935 original size:24 final size:24
Alignment explanation
Indices: 3529833--3529949 Score: 128
Period size: 24 Copynumber: 4.9 Consensus size: 24
3529823 TTTACTGTAA
*
3529833 TATTGAGTGGCTTGACCACAACG-
1 TATTGAGTGGCTTGACCACAATGC
*
3529856 TTTGTGAGTGGCTTGACCACAATGC
1 TAT-TGAGTGGCTTGACCACAATGC
* *
3529881 TATTGAGTGGCTTGACCACAACGT
1 TATTGAGTGGCTTGACCACAATGC
* *
3529905 TATTGAGTGGCTTGTCCAAAATGC
1 TATTGAGTGGCTTGACCACAATGC
* ***
3529929 TACTGAGCAACTTGACCACAA
1 TATTGAGTGGCTTGACCACAA
3529950 CGATGCAGCT
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
23 2 0.03
24 73 0.95
25 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAATGC
Found at i:3530241 original size:180 final size:180
Alignment explanation
Indices: 3529939--3530276 Score: 550
Period size: 180 Copynumber: 1.9 Consensus size: 180
3529929 TACTGAGCAA
* * * * *
3529939 CTTGACCACAACGATGCAGCTTGACTACGATATTGAGTGGCTTTGCCACAACGTGGTGTGTTATT
1 CTTGACCACAACAATGCAACTTGACTACGATATTGAGTGGCTTGGCCACAACATGGTATGTTATT
* * * *
3530004 GGATGGACGAGTTTTTGGGAACACTTTATTGGTGTGTAGAGGAGATGGGTAGGAATGTTTTTGTA
66 GGATGGACGAGTTCTGGGGAACACTTTATTGGTGTGTAGAGGAAATGAGTAGGAATGTTTTTGTA
*
3530069 AAACTTGCACTGATTTCTAGAAAAAGCTCTGCCACAATGTTATTGAGTGG
131 AAACTTGCACTAATTTCTAGAAAAAGCTCTGCCACAATGTTATTGAGTGG
3530119 CTTGACCACAACAATGCAACTTGACTACGATATTGAGTGGCTTGGCCACAACATGGTATGTTATT
1 CTTGACCACAACAATGCAACTTGACTACGATATTGAGTGGCTTGGCCACAACATGGTATGTTATT
*
3530184 GGATGGACGAGTTCTGGGGAACTCTTTATTGGTGTGTAGAGGAAATGAGTAGGAATGTTTTTGTA
66 GGATGGACGAGTTCTGGGGAACACTTTATTGGTGTGTAGAGGAAATGAGTAGGAATGTTTTTGTA
* * *
3530249 AACCTTGCACTAATTTTTGGAAAAAGCT
131 AAACTTGCACTAATTTCTAGAAAAAGCT
3530277 TTGTATTGAC
Statistics
Matches: 144, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
180 144 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (180 bp):
CTTGACCACAACAATGCAACTTGACTACGATATTGAGTGGCTTGGCCACAACATGGTATGTTATT
GGATGGACGAGTTCTGGGGAACACTTTATTGGTGTGTAGAGGAAATGAGTAGGAATGTTTTTGTA
AAACTTGCACTAATTTCTAGAAAAAGCTCTGCCACAATGTTATTGAGTGG
Found at i:3533188 original size:26 final size:27
Alignment explanation
Indices: 3533159--3533213 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
3533149 AAGATGACTA
3533159 TATACAAAATT-TTAATAAATTAAA-AT
1 TATACAAAATTATTAA-AAATTAAATAT
* *
3533185 TATATAAAATTATTAAATATTAAATAT
1 TATACAAAATTATTAAAAATTAAATAT
3533212 TA
1 TA
3533214 AATATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TATACAAAATTATTAAAAATTAAATAT
Found at i:3533207 original size:7 final size:7
Alignment explanation
Indices: 3533195--3533222 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3533185 TATATAAAAT
3533195 TATTAAA
1 TATTAAA
3533202 TATTAAA
1 TATTAAA
3533209 TATTAAA
1 TATTAAA
3533216 TATTAAA
1 TATTAAA
3533223 ATAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATTAAA
Found at i:3533216 original size:22 final size:20
Alignment explanation
Indices: 3533186--3533230 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
3533176 AATTAAAATT
*
3533186 ATATAAAATTATTAAATATTAA
1 ATATAAAA-TATTAAA-ATAAA
*
3533208 ATATTAAATATTAAAATAAA
1 ATATAAAATATTAAAATAAA
3533228 ATA
1 ATA
3533231 AATATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAAAATATTAAAATAAA
Found at i:3537662 original size:40 final size:39
Alignment explanation
Indices: 3537588--3537673 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 39
3537578 AGAATGCACA
3537588 CTAAAAATCGAGCATTAGCGGCGCTTAGCATAAAACGCCG
1 CTAAAAATCGAGCATTAGCGGCGCTTAG-ATAAAACGCCG
* * *
3537628 CTAAAGATCTAGCATTAGCGGCGCACTTTG-TAAAACGCCG
1 CTAAAAATCGAGCATTAGCGGCG--CTTAGATAAAACGCCG
3537668 -TAAAAA
1 CTAAAAA
3537674 GTCAGACCTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
39 5 0.12
40 31 0.77
42 4 0.10
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (39 bp):
CTAAAAATCGAGCATTAGCGGCGCTTAGATAAAACGCCG
Found at i:3538165 original size:114 final size:114
Alignment explanation
Indices: 3537965--3538720 Score: 1062
Period size: 114 Copynumber: 6.6 Consensus size: 114
3537955 GGCGCCTTTT
* * ** * *
3537965 ATATCTTAACCAAAACCCAACGTACGATCTTGAGGTATATTAGAATTAGAGGCGCTTATGCAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
** * * * *
3538030 ATTCCGCTAAAGCATAGTATTAGCGGCGCCTTATAAAAGGCGCCACAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* ** *
3538079 ATATCTTAACCAAAACCCAGCGTACGATCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
* ** *
3538144 ACGCCGCTAAAGCACAGTATTAGCGGCGCACTATACTAAGCGCTGCAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* *
3538193 ATAGCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
* * ** *
3538258 ACACCGCTAAACCATTGTATTAGCGGTGCATTATAAAAAGCGCCGCAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* * * *
3538307 ATAGCTTAACCAAAACACAGCGTTTGGTCTTGAGATATATTAGAATTAGTGGCGCTTATGAAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
* * *
3538372 ACACCGCTAAATCACTGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* * *
3538421 ATATCTTAACCAAAACGCAGCGTTTTGTCTTGAAGTATATTAGAATTAGTGGCGCTTATGAAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
** *
3538486 ACGCCGCTAAAGCTTAGTATTAGCGGCGCAATATAAAAAGCGCCGCAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* * *
3538535 ATAGCTTAACCAAAATGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTCAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
* * * *
3538600 ATGCCGCTAAAGCACAGTATTAGCAGCTCCTTATAAAAAGCGCCGCAAA
66 ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
* *
3538649 ATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATTAGAATTGGTGGCGCTTATGCAAAA
1 ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
*
3538714 GCGCCGC
66 ACGCCGC
3538721 AAAATTGTTA
Statistics
Matches: 579, Mismatches: 63, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 579 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (114 bp):
ATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAA
ACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCGCCGCAAA
Found at i:3539288 original size:7 final size:7
Alignment explanation
Indices: 3539278--3539365 Score: 61
Period size: 7 Copynumber: 12.6 Consensus size: 7
3539268 TTAATTGATA
3539278 GGTTTAG
1 GGTTTAG
*
3539285 GGTTTAA
1 GGTTTAG
*
3539292 GGTTTAT
1 GGTTTAG
*
3539299 AGTTT-G
1 GGTTTAG
*
3539305 GGATTTGG
1 GG-TTTAG
*
3539313 GGTTTGG
1 GGTTTAG
*
3539320 GGTTTGG
1 GGTTTAG
*
3539327 GGTTTAA
1 GGTTTAG
*
3539334 GGTTTAT
1 GGTTTAG
* *
3539341 AGTTTGG
1 GGTTTAG
3539348 GGTTTAG
1 GGTTTAG
*
3539355 GGTTTAC
1 GGTTTAG
3539362 GGTT
1 GGTT
3539366 AAGGCTTACA
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
6 1 0.02
7 61 0.94
8 3 0.05
ACGTcount: A:0.14, C:0.01, G:0.40, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:3539303 original size:21 final size:21
Alignment explanation
Indices: 3539279--3539360 Score: 92
Period size: 21 Copynumber: 3.9 Consensus size: 21
3539269 TAATTGATAG
*
3539279 GTTTAGGGTTTAAGGTTTATA
1 GTTTGGGGTTTAAGGTTTATA
* ** ***
3539300 GTTTGGGATTTGGGGTTTGGG
1 GTTTGGGGTTTAAGGTTTATA
3539321 GTTTGGGGTTTAAGGTTTATA
1 GTTTGGGGTTTAAGGTTTATA
*
3539342 GTTTGGGGTTTAGGGTTTA
1 GTTTGGGGTTTAAGGTTTA
3539361 CGGTTAAGGC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.15, C:0.00, G:0.39, T:0.46
Consensus pattern (21 bp):
GTTTGGGGTTTAAGGTTTATA
Found at i:3539997 original size:72 final size:72
Alignment explanation
Indices: 3539916--3540143 Score: 214
Period size: 72 Copynumber: 3.1 Consensus size: 72
3539906 TTTGCTTTTG
3539916 GTGGCGCTTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGCATT
1 GTGGCGCTTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGCATT
3539981 GTCTTTA
66 GTCTTTA
** * ** * * *
3539988 GTGGCGCTTTCCT-TAAAGCGCCGCAAATA-TGTTTTATGTTTTACATAAACGGTGTCGTTT-TC
1 GTGGCGCTTTTTTGTAAA-CGCCGCAAA-AGTGTATTATGAGTTA-AGAAACTGTGTCGTTTGGC
* *
3540050 -TCTATATAAGTT-
63 AT-TGTCT---TTA
** * * *
3540062 GTGGCATTTTTTTGTAAACGTCACAAAAGTGTATTATGAGTTAAGAAACTGCGTCGTTTGGCATT
1 GTGGCGCTTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGCATT
*
3540127 GTCTATA
66 GTCTTTA
3540134 GTGGCGCTTT
1 GTGGCGCTTT
3540144 CCTTAAAGCG
Statistics
Matches: 116, Mismatches: 28, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
71 6 0.05
72 43 0.37
73 29 0.25
74 31 0.27
75 7 0.06
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.39
Consensus pattern (72 bp):
GTGGCGCTTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGCATT
GTCTTTA
Found at i:3540171 original size:72 final size:72
Alignment explanation
Indices: 3539949--3540171 Score: 211
Period size: 72 Copynumber: 3.1 Consensus size: 72
3539939 CAAAAGTGTA
* *
3539949 TTATGAGTTAAGAAACTGTGTCGTTTGGCATTGTCTTTAGTGGCGCTTTCCTTAAAGCGCCGCAA
1 TTATGAGTTAAGAAACTGTGTCGTTTGGCATTGTCTATAGTGGCGCTTTCCTTAAAGCGTCGCAA
3540014 ATATGTT
66 ATATGTT
** * * * * * * ** **
3540021 TTATGTTTTACATAAACGGTGTCGTTT-TC-TCTATATAAGTTGTGGCATTTTTTTGTAAA-CGT
1 TTATGAGTTA-AGAAACTGTGTCGTTTGGCAT-TGTCT-A-TAGTGGCGCTTTCCT-TAAAGCGT
* *
3540083 CACAAA-AGTGTA
61 CGCAAATA-TGTT
*
3540095 TTATGAGTTAAGAAACTGCGTCGTTTGGCATTGTCTATAGTGGCGCTTTCCTTAAAGCGTCGCAA
1 TTATGAGTTAAGAAACTGTGTCGTTTGGCATTGTCTATAGTGGCGCTTTCCTTAAAGCGTCGCAA
3540160 ATATGTT
66 ATATGTT
3540167 TTATG
1 TTATG
3540172 TTTTACATAA
Statistics
Matches: 110, Mismatches: 31, Indels: 20
0.68 0.19 0.12
Matches are distributed among these distances:
71 5 0.05
72 38 0.35
73 30 0.27
74 32 0.29
75 5 0.05
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (72 bp):
TTATGAGTTAAGAAACTGTGTCGTTTGGCATTGTCTATAGTGGCGCTTTCCTTAAAGCGTCGCAA
ATATGTT
Found at i:3540180 original size:146 final size:146
Alignment explanation
Indices: 3539923--3540219 Score: 531
Period size: 146 Copynumber: 2.0 Consensus size: 146
3539913 TTGGTGGCGC
* * *
3539923 TTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAACTGTGTCGTTTGGCATTGTCTTTA
1 TTTTTTGTAAACGCCACAAAAGTGTATTATGAGTTAAGAAACTGCGTCGTTTGGCATTGTCTATA
* *
3539988 GTGGCGCTTTCCTTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGTCGTTTTCTCT
66 GTGGCGCTTTCCTTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCATTTTCTCT
3540053 ATATAAGTTGTGGCAT
131 ATATAAGTTGTGGCAT
*
3540069 TTTTTTGTAAACGTCACAAAAGTGTATTATGAGTTAAGAAACTGCGTCGTTTGGCATTGTCTATA
1 TTTTTTGTAAACGCCACAAAAGTGTATTATGAGTTAAGAAACTGCGTCGTTTGGCATTGTCTATA
*
3540134 GTGGCGCTTTCCTTAAAGCGTCGCAAATATGTTTTATGTTTTACATAAACGGTGCCATTTTCTCT
66 GTGGCGCTTTCCTTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCATTTTCTCT
3540199 ATATAAGTTGTGGCAT
131 ATATAAGTTGTGGCAT
3540215 TTTTT
1 TTTTT
3540220 AAAAATGCCA
Statistics
Matches: 144, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 144 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (146 bp):
TTTTTTGTAAACGCCACAAAAGTGTATTATGAGTTAAGAAACTGCGTCGTTTGGCATTGTCTATA
GTGGCGCTTTCCTTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCATTTTCTCT
ATATAAGTTGTGGCAT
Found at i:3540443 original size:18 final size:18
Alignment explanation
Indices: 3540410--3540444 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3540400 ATCTCCCCCA
*
3540410 AATCCCTAAAATTTCCCT
1 AATCCCTAAAAGTTCCCT
*
3540428 AATCCCTAACAGTTCCC
1 AATCCCTAAAAGTTCCC
3540445 CAAACCCGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.37, G:0.03, T:0.29
Consensus pattern (18 bp):
AATCCCTAAAAGTTCCCT
Found at i:3542145 original size:20 final size:20
Alignment explanation
Indices: 3542117--3542284 Score: 138
Period size: 20 Copynumber: 8.7 Consensus size: 20
3542107 TTCTAATTAC
*
3542117 ATAAAATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
3542137 ATAATATTAAGACT-ACTTAT
1 ATAATATTAAGA-TAACTTAT
*
3542157 ATAATATTAAGATAAAATT-T
1 ATAATATTAAGAT-AACTTAT
* *
3542177 CT-A-ATT-ACATAACTTAT
1 ATAATATTAAGATAACTTAT
*
3542194 ATAATATTAAGGTAACTTAT
1 ATAATATTAAGATAACTTAT
* *
3542214 ATAATATTAGGATAAAATT-T
1 ATAATATTAAGAT-AACTTAT
* * **
3542234 CT-A-ATT-ACATAACTCGT
1 ATAATATTAAGATAACTTAT
*
3542251 TTAATATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
3542271 ATAATATTAAGATA
1 ATAATATTAAGATA
3542285 CAATTTCTAA
Statistics
Matches: 115, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
16 7 0.06
17 9 0.08
18 8 0.07
19 9 0.08
20 74 0.64
21 8 0.07
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (20 bp):
ATAATATTAAGATAACTTAT
Found at i:3542305 original size:57 final size:57
Alignment explanation
Indices: 3542138--3542317 Score: 290
Period size: 57 Copynumber: 3.2 Consensus size: 57
3542128 ATAACTTATA
** *
3542138 TAATATTAAGACT-ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATA
1 TAATATTAAGA-TAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTT
* *
3542195 TAATATTAAGGTAACTTATATAATATTAGGATAAAATTTCTAATTACATAACTCGTT
1 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTT
*
3542252 TAATATTAAGATAACTTATATAATATTAAGATACAATTTCTAATTACATAACTCGTT
1 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTT
3542309 TAATATTAA
1 TAATATTAA
3542318 TTTCTAAGTA
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
56 1 0.01
57 113 0.99
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.41
Consensus pattern (57 bp):
TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTT
Found at i:3542402 original size:87 final size:84
Alignment explanation
Indices: 3542229--3542422 Score: 214
Period size: 87 Copynumber: 2.2 Consensus size: 84
3542219 ATTAGGATAA
* * * *
3542229 AATTTCTAATTACATAACTCGTT-TAATATTAAGATAACTTATATAATATTAAGATACAATTTCT
1 AATTTCTAATAACATAA-T--TTCTAAT-TTTAGATAACTTATACAATATTAAGATAAAATTTCT
*
3542293 AATTACATAACTCGTTTAATATT
62 AATTACATAACTCATTTAATATT
3542316 AATTTCTAAGTACACATCAATTTCTAATTTTAGATAACTTATACAATATTAAGATAAAATTT-TG
1 AATTTCTAA-TA-ACAT-AATTTCTAATTTTAGATAACTTATACAATATTAAGATAAAATTTCT-
*
3542380 AATTACATAACTTATATT-ATATT
62 AATTACATAACTCAT-TTAATATT
**
3542403 CCTTTCTAATAACATAATTT
1 AATTTCTAATAACATAATTT
3542423 ACTTAATACA
Statistics
Matches: 93, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
84 5 0.05
85 4 0.04
86 3 0.03
87 67 0.72
88 7 0.08
89 5 0.05
90 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (84 bp):
AATTTCTAATAACATAATTTCTAATTTTAGATAACTTATACAATATTAAGATAAAATTTCTAATT
ACATAACTCATTTAATATT
Found at i:3547935 original size:21 final size:21
Alignment explanation
Indices: 3547905--3547951 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3547895 CTACAACTTA
* * *
3547905 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAAAGGCGGCAACGAGAG
*
3547926 AAGCAAAGGCTGCAACGAGAG
1 AAGCAAAGGCGGCAACGAGAG
3547947 AAGCA
1 AAGCA
3547952 GAGGTTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.40, T:0.02
Consensus pattern (21 bp):
AAGCAAAGGCGGCAACGAGAG
Found at i:3548678 original size:41 final size:41
Alignment explanation
Indices: 3548569--3548687 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 41
3548559 TTTGTTGTAA
* *
3548569 AAGCACCGCTAAAGAACATGACCCTTAGCGGCGTGTTTCTTG
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGT-TTTCTTG
* * * * *
3548611 AAGCGCCACTAAAGAACATGATCTTTAGCGTCGTTTTTTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTCTTG
* *
3548652 AAGCGCCGCTAAAGAATAAGACCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
3548688 ATTTCTGTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
41 36 0.55
42 29 0.45
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTCTTG
Found at i:3550721 original size:21 final size:21
Alignment explanation
Indices: 3550695--3550738 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3550685 CCAAGATTGG
*
3550695 ATATCATATCCGAGATTGCAT
1 ATATCATATCCAAGATTGCAT
*
3550716 ATATCATATCTAAGATTGCAT
1 ATATCATATCCAAGATTGCAT
3550737 AT
1 AT
3550739 CCTTGAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATATCCAAGATTGCAT
Found at i:3551301 original size:44 final size:44
Alignment explanation
Indices: 3551112--3551498 Score: 409
Period size: 44 Copynumber: 8.8 Consensus size: 44
3551102 CACCAGTATG
* * * * * *
3551112 GAAGACAAGATCTGCTACCTTTGATATATTTCATGCCGATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * *
3551156 GAAGGCAAGATCTGCTTTCTTCGATCTACTT--CGCCGAGACAC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * * ***
3551198 GAAGATAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
3551243 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
3551287 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
3551331 GAAGATAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * ***
3551375 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
*
3551420 GAAGACAAGATATGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * *
3551464 GAAGATAAGATTTGCTTTCTTTGACCTACTTCACG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACG
3551499 ACAACCCAAG
Statistics
Matches: 285, Mismatches: 54, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
42 36 0.13
44 180 0.63
45 69 0.24
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:3551427 original size:133 final size:132
Alignment explanation
Indices: 3551111--3551498 Score: 438
Period size: 133 Copynumber: 2.9 Consensus size: 132
3551101 CCACCAGTAT
* * * * ** * * * *
3551111 GGAAGACAAGATCTGCTACCTTTGATATATTTCATGCCGATACATGAAGGCAAGATCTGCTTTCT
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCT
* * * * * * * *
3551176 TCGATCTACTT--CGCCGAGACACGAAGATAAGATCTACTTTCTTCGATCTACTTCGCCACCAGT
66 TCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTTGATCTACTTC-ACGCCAAT
**
3551239 ATG
130 ACA
* *
3551242 GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCT
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCT
* * *
3551307 TTGATCTACTTCACGCTAATACATGAAGATAAGATCTGCTATCTTTGATCTACTTCACGCCAATA
66 TCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTTGATCTACTTCACGCCAATA
3551372 CA
131 CA
* * * * ** *
3551374 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATATGCTATC
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTATC
* *
3551439 TTCGATCTACTTCACGCCAATACATGAAGATAAGATTTGCTTTCTTTGACCTACTTCACG
65 TTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTTGATCTACTTCACG
3551499 ACAACCCAAG
Statistics
Matches: 219, Mismatches: 35, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
131 67 0.31
132 37 0.17
133 115 0.53
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (132 bp):
GGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCT
TCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTTGATCTACTTCACGCCAATA
CA
Found at i:3551449 original size:177 final size:175
Alignment explanation
Indices: 3551112--3551498 Score: 576
Period size: 177 Copynumber: 2.2 Consensus size: 175
3551102 CACCAGTATG
* * * * * * *
3551112 GAAGACAAGATCTGCTACCTTTGATATATTTCATGCCGATACATGAAGGCAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
* *
3551177 CGATCTACTTCGCCGAGACACGAAGATAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATG
66 CGATCTACTTCGCCAAGACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATG
*
3551242 GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
131 GGAAGACAAGATATGCTATCTTCGATCTACTTCACGCCAATACAT
* *
3551287 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATACATGAAGATAAGATCTGCTATCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
* * * *
3551352 TGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
66 CGATCTACTT--CGCCAAGACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTA
3551417 TGGGAAGACAAGATATGCTATCTTCGATCTACTTCACGCCAATACAT
129 TGGGAAGACAAGATATGCTATCTTCGATCTACTTCACGCCAATACAT
* * * *
3551464 GAAGATAAGATTTGCTTTCTTTGACCTACTTCACG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACG
3551499 ACAACCCAAG
Statistics
Matches: 190, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
175 65 0.34
177 125 0.66
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (175 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
CGATCTACTTCGCCAAGACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATG
GGAAGACAAGATATGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:3551563 original size:177 final size:177
Alignment explanation
Indices: 3551112--3551573 Score: 527
Period size: 177 Copynumber: 2.6 Consensus size: 177
3551102 CACCAGTATG
* ** * * ** * * * * *
3551112 GAAGACAAGATCTGCTACCTTTGATATATTTCATGCCGATACATGAAGGCAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTTGACCTACTTCACGCTAACACAAGAAGACAAGAGCTGCTATCTT
* * * * * *
3551177 CGATCTACTT--CGCCGAGACACGAAGATAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTA
66 TGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
*
3551240 TGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
131 TGGGAAGACAAGATATGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * *
3551287 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATACATGAAGATAAGATCTGCTATCTT
1 GAAGACAAGATCTGCTATCTTTGACCTACTTCACGCTAACACAAGAAGACAAGAGCTGCTATCTT
*
3551352 TGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
66 TGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
3551417 TGGGAAGACAAGATATGCTATCTTCGATCTACTTCACGCCAATACAT
131 TGGGAAGACAAGATATGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * * * *
3551464 GAAGATAAGATTTGCTTTCTTTGACCTACTTCACGAC-AACCCAAGGAGGCAAG-GCTGGTGTCT
1 GAAGACAAGATCTGCTATCTTTGACCTACTTCACG-CTAACACAAGAAGACAAGAGCTGCTATCT
* * ** * *
3551527 TTGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTC
65 TTGATCTACTTCAC-GCCAATACAGGAAGACAAGATCTGCTTTCTTC
3551574 AACCTGCTCC
Statistics
Matches: 247, Mismatches: 36, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
175 65 0.26
176 20 0.08
177 161 0.65
178 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (177 bp):
GAAGACAAGATCTGCTATCTTTGACCTACTTCACGCTAACACAAGAAGACAAGAGCTGCTATCTT
TGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
TGGGAAGACAAGATATGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:3551601 original size:88 final size:88
Alignment explanation
Indices: 3551499--3552223 Score: 853
Period size: 88 Copynumber: 8.2 Consensus size: 88
3551489 CTACTTCACG
* * *
3551499 ACAACCCAAGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
3551564 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * *
3551587 ACAACCTAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTCACTGTCGGTACATGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
3551652 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * ** * * * * * *
3551675 ACGACCAAAAGAGGAAAGGCTAGTATCTTCAATTTGCTTCACTGTCAGTACAAGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* *
3551740 TGCTATTTTCAACCTGCTCCACC
66 TGCTATCTTCAACCTGCTCCACT
*
3551763 ACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
*
3551828 TGCTATCTTCAACCTGCTTCACT
66 TGCTATCTTCAACCTGCTCCACT
* * **
3551851 ACAACCCAGGGAGGCAAGGCTGTTATCTTCGATTTGCTTCGTTGTCGATGTA-A-GAAGGCAAGA
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCG--GTACAGGAAGGCAAGA
* * *
3551914 TCAGCTATCTTTAACTTGCTCCACT
64 TCTGCTATCTTCAACCTGCTCCACT
* * * * * * *
3551939 ACAACCCAGAGAGGCAAGGCTGGTACCTTCGATTTGCTTCGCTATTGGTGCAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * * *
3552004 TGCTATTTTTAGCCTGCTCCGCT
66 TGCTATCTTCAACCTGCTCCACT
* * * * *
3552027 ACAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * * *
3552092 TACTATTTTCAGCCTGCTCCGCT
66 TGCTATCTTCAACCTGCTCCACT
* * * * * * * **
3552115 ACAACCCAGGGTGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTATTGGTGTAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * * *
3552180 TG-TAATTTTTAACCTGATCCGCT
66 TGCT-ATCTTCAACCTGCTCCACT
*
3552203 GCAACCCAGGGAGGCAAGGCT
1 ACAACCCAGGGAGGCAAGGCT
3552224 TTATGATTTT
Statistics
Matches: 558, Mismatches: 74, Indels: 10
0.87 0.12 0.02
Matches are distributed among these distances:
86 2 0.00
87 2 0.00
88 550 0.99
89 1 0.00
90 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (88 bp):
ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
TGCTATCTTCAACCTGCTCCACT
Found at i:3551616 original size:43 final size:42
Alignment explanation
Indices: 3551549--3551880 Score: 141
Period size: 44 Copynumber: 7.6 Consensus size: 42
3551539 ACTGTCGGTA
* * *
3551549 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
1 CAGGGAGGCAAGGT-TGCTATCTTCAACCTGCTTCACTACAAC
* * * * *
3551592 CTAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTCACTGTCGGTA-
1 C-AGGGAGGCAAGGTTGCTATCTTCAACCTGCTTCACT-AC--AAC
* * * * *
3551637 CATGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGAC
1 CAGGGAGGCAAGGT-TGCTATCTTCAACCTGCTTCACTACAAC
** * * ** *
3551680 CAAAAGAGGAAAGGCTAG-TATCTTCAATTTGCTTCACTGTCAGTA-
1 C-AGGGAGGCAAGG-TTGCTATCTTCAACCTGCTTCACT-ACA--AC
* * * * * * *
3551725 CAAGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACCACGACC
1 CAGGGAGGCAAGGT-TGCTATCTTCAACCTGCTTCACTAC-AAC
* * * * * *
3551769 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTA-
1 CAGGGAGGCAAGGTTGCTATCTTCAACCTGCTTCACT-AC--AAC
* *
3551813 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTTCACTACAACC
1 CAGGGAGGCAAGGT-TGCTATCTTCAACCTGCTTCACTACAA-C
* *
3551857 CAGGGAGGCAAGGCTGTTATCTTC
1 CAGGGAGGCAAGGTTGCTATCTTC
3551881 GATTTGCTTC
Statistics
Matches: 204, Mismatches: 65, Indels: 40
0.66 0.21 0.13
Matches are distributed among these distances:
42 2 0.01
43 65 0.32
44 76 0.37
45 59 0.29
46 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (42 bp):
CAGGGAGGCAAGGTTGCTATCTTCAACCTGCTTCACTACAAC
Found at i:3552210 original size:264 final size:263
Alignment explanation
Indices: 3551499--3552223 Score: 939
Period size: 264 Copynumber: 2.7 Consensus size: 263
3551489 CTACTTCACG
*
3551499 ACAACCCAAGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * *
3551564 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTCAC
66 TGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCT-GTATCTTCGATCTGCTTCGC
** * * * * * *
3551629 TGTCGGTACATGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCAAAAGAGGAAAGG
130 TGTCGGTGTAAGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCCAGAGAGGCAAGG
* *
3551694 CTAGTATCTTCAATTTGCTTCACTGTCAGTACAAGAAGGCAAGATCTGCTATTTTCAACCTGCTC
195 CTAGTACCTTCAATTTGCTTCACTATCAGTACAAGAAGGCAAGATCTGCTATTTTCAACCTGCTC
3551759 CACC
260 CACC
* * *
3551763 ACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * *
3551828 TGCTATCTTCAACCTGCTTCACTACAACCCAGGGAGGCAAGGCTGTTATCTTCGATTTGCTTCGT
66 TGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTG-TATCTTCGATCTGCTTCGC
* * *
3551893 TGTCGATGTAAGAAGGCAAGATCAGCTATCTTTAACTTGCTCCACTACAACCCAGAGAGGCAAGG
130 TGTCGGTGTAAGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCCAGAGAGGCAAGG
* * * ** * * * *
3551958 CTGGTACCTTCGATTTGCTTCGCTATTGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTC
195 CTAGTACCTTCAATTTGCTTCACTATCAGTACAAGAAGGCAAGATCTGCTATTTTCAACCTGCTC
* *
3552023 CGCT
260 CACC
* * *
3552027 ACAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * * * * * *
3552092 TACTATTTTCAGCCTGCTCCGCTACAACCCAGGGTGGCAAGGCTAGTGTCTTTGATCTGCTTCGC
66 TGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCT-GTATCTTCGATCTGCTTCGC
* * * * * * * *
3552157 TATTGGTGTAGGAAGGCAAGATCTG-TAATTTTTAACCTGATCCGCTGCAACCCAGGGAGGCAAG
130 TGTCGGTGTAAGAAGGCAAGATCTGCT-ATCTTTAACCTGCTCCACTACAACCCAGAGAGGCAAG
3552221 GCT
194 GCT
3552224 TTATGATTTT
Statistics
Matches: 397, Mismatches: 61, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
263 2 0.01
264 394 0.99
265 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (263 bp):
ACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
TGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGTATCTTCGATCTGCTTCGCT
GTCGGTGTAAGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCCAGAGAGGCAAGGC
TAGTACCTTCAATTTGCTTCACTATCAGTACAAGAAGGCAAGATCTGCTATTTTCAACCTGCTCC
ACC
Found at i:3558780 original size:21 final size:21
Alignment explanation
Indices: 3558743--3558797 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
3558733 AATCATATCT
3558743 TCCAAGATTGC--ATATCATA
1 TCCAAGATTGCATATATCATA
3558762 TCCAAGATTGCATATATCATA
1 TCCAAGATTGCATATATCATA
*
3558783 TCTAAGATTGCATAT
1 TCCAAGATTGCATAT
3558798 CCTTGAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 11 0.33
21 22 0.67
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
TCCAAGATTGCATATATCATA
Found at i:3561394 original size:97 final size:98
Alignment explanation
Indices: 3561249--3561426 Score: 279
Period size: 97 Copynumber: 1.8 Consensus size: 98
3561239 AGTTTGAGAA
* *
3561249 AAGATCAGTCACGTTTACCTTCCTCAGCTGAACTATGGCCGGAGCGTAAAATATATT-AAAAACA
1 AAGATCAGTCACGTTTACCTTCCTCAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAACA
3561313 TTATACACGTGGAAATCATTGTTGGATTGAGGC
66 TTATACACGTGGAAATCATTGTTGGATTGAGGC
* * *
3561346 AAGATC-GTTCACGTTTTCCTTCCTTAGCTGAACTATAGCAGGCGCGTAAAATATATTAAAAAAC
1 AAGATCAG-TCACGTTTACCTTCCTCAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAAC
*
3561410 ATTATACATGTGGAAAT
65 ATTATACACGTGGAAAT
3561427 AAAAATAGAC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
96 1 0.01
97 50 0.68
98 22 0.30
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (98 bp):
AAGATCAGTCACGTTTACCTTCCTCAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAACA
TTATACACGTGGAAATCATTGTTGGATTGAGGC
Found at i:3561881 original size:20 final size:20
Alignment explanation
Indices: 3561846--3561891 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
3561836 TTTCTATATA
*
3561846 TTTTTAAATTTATTATTGCAT
1 TTTTTAAATATATTA-TGCAT
*
3561867 TTTTTAAATAT-TTATGTAT
1 TTTTTAAATATATTATGCAT
3561886 TTTTTA
1 TTTTTA
3561892 TATTTCTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 3 0.13
21 10 0.43
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTAAATATATTATGCAT
Found at i:3564113 original size:5 final size:5
Alignment explanation
Indices: 3564103--3564267 Score: 253
Period size: 5 Copynumber: 33.0 Consensus size: 5
3564093 GGGGTAGGAC
3564103 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
3564153 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* * *
3564203 ATGAT ATGAT -TCGAT ATAAC ATGAT ATGAT ATGAT -TCAAT ATGAT ATGAT
1 ATGAT ATGAT AT-GAT ATGAT ATGAT ATGAT ATGAT AT-GAT ATGAT ATGAT
* *
3564253 ATGTT AAGAT ATGAT
1 ATGAT ATGAT ATGAT
3564268 TCGTATAAAA
Statistics
Matches: 146, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
4 2 0.01
5 142 0.97
6 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (5 bp):
ATGAT
Found at i:3564991 original size:20 final size:17
Alignment explanation
Indices: 3564975--3565009 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3564965 ATAAAATATG
3564975 TATAATAAAATTAAAATA
1 TATAA-AAAATTAAAATA
*
3564993 TATAAAATATTAAAATA
1 TATAAAAAATTAAAATA
3565010 AAAATTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAAAAAATTAAAATA
Found at i:3570214 original size:39 final size:41
Alignment explanation
Indices: 3570170--3570260 Score: 103
Period size: 48 Copynumber: 2.1 Consensus size: 41
3570160 TGCTATGCAT
3570170 TTTTATACT-TGGTCTTCCACTATCTACACTATTATCACTA
1 TTTTATACTATGGTCTTCCACTATCTACACTATTATCACTA
*
3570210 TTTATCATTACTAAACGTGGTCTTCCACTATCTACACTCTTATCACTA
1 TTT-T-A-TACT--A--TGGTCTTCCACTATCTACACTATTATCACTA
3570258 TTT
1 TTT
3570261 ATCCATTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
40 3 0.07
41 1 0.02
42 1 0.02
43 4 0.10
48 33 0.79
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.44
Consensus pattern (41 bp):
TTTTATACTATGGTCTTCCACTATCTACACTATTATCACTA
Found at i:3577723 original size:70 final size:70
Alignment explanation
Indices: 3577526--3577733 Score: 238
Period size: 70 Copynumber: 3.0 Consensus size: 70
3577516 AAATCATTGG
* * *** * * *
3577526 TGTGCCCAACACTAGTCAAACGAATCGACAAATTATTGTGCATGGCGCTAGTTGGATAACCAACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGTGCTAGTCGGATAACCGACG
*
3577591 ATAGT
66 ATAGC
* * * *
3577596 TATGCCCAGCACTAGTCGAAC-AATCAAAAAATTATTATGCCCAGTGCTAGTCGGATAACCGACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGTGCTAGTCGGATAACCGACG
3577660 ATAGC
66 ATAGC
** ** * *
3577665 TGTGCCCAACACTAGTCGGGCGAATCAACAAATTATTGCACCCAGTGCTAGTCAGATAACCGATG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGTGCTAGTCGGATAACCGACG
3577730 ATAG
66 ATAG
3577734 TTACTCAATA
Statistics
Matches: 114, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
69 55 0.48
70 59 0.52
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (70 bp):
TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGTGCTAGTCGGATAACCGACG
ATAGC
Found at i:3578258 original size:16 final size:16
Alignment explanation
Indices: 3578237--3578286 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
3578227 TTAATCCTTG
3578237 AATTTATCATTCTCAT
1 AATTTATCATTCTCAT
*
3578253 AATTTA--A-TC-CTT
1 AATTTATCATTCTCAT
3578265 GAATTTATCATTCTCAT
1 -AATTTATCATTCTCAT
3578282 AATTT
1 AATTT
3578287 TATCCTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
12 2 0.07
13 8 0.30
14 1 0.04
15 1 0.04
16 13 0.48
17 2 0.07
ACGTcount: A:0.32, C:0.16, G:0.02, T:0.50
Consensus pattern (16 bp):
AATTTATCATTCTCAT
Found at i:3578266 original size:29 final size:29
Alignment explanation
Indices: 3578224--3578296 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
3578214 ATTAAATCAC
3578224 AATTTAATCCTTGAATTTATCATTCTCAT
1 AATTTAATCCTTGAATTTATCATTCTCAT
3578253 AATTTAATCCTTGAATTTATCATTCTCAT
1 AATTTAATCCTTGAATTTATCATTCTCAT
*
3578282 AATTTTATCCTTGAA
1 AATTTAATCCTTGAA
3578297 CCTTAATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (29 bp):
AATTTAATCCTTGAATTTATCATTCTCAT
Found at i:3578734 original size:19 final size:20
Alignment explanation
Indices: 3578687--3578739 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
3578677 AAAATAAAAT
3578687 AAAATAAAAATAAATTTGAAA
1 AAAAT-AAAATAAATTTGAAA
**
3578708 TTAA-AAAATAAATTT-AAA
1 AAAATAAAATAAATTTGAAA
3578726 AAAATAAAATAAAT
1 AAAATAAAATAAAT
3578740 GGGTAAATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 5 0.19
19 20 0.74
21 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATAAAATAAATTTGAAA
Found at i:3579611 original size:13 final size:13
Alignment explanation
Indices: 3579593--3579635 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
3579583 AAGATTTTTC
3579593 CTAAATATTATCA
1 CTAAATATTATCA
3579606 CTAAATA--ATC-
1 CTAAATATTATCA
3579616 CTAAATATTATCA
1 CTAAATATTATCA
3579629 CTAAATA
1 CTAAATA
3579636 ATTCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:3579618 original size:23 final size:23
Alignment explanation
Indices: 3579591--3579637 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
3579581 GCAAGATTTT
3579591 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
3579614 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
3579637 T
1 T
3579638 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:3579644 original size:23 final size:23
Alignment explanation
Indices: 3579595--3579644 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
3579585 GATTTTTCCT
*
3579595 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
3579618 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
3579641 AAAT
1 AAAT
3579645 TTACAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:3581632 original size:19 final size:19
Alignment explanation
Indices: 3581608--3581646 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
3581598 CCTAGTGCCA
3581608 CCTTAGAGGAGTTATGATC
1 CCTTAGAGGAGTTATGATC
*
3581627 CCTTAGAGGCGTTATGATC
1 CCTTAGAGGAGTTATGATC
3581646 C
1 C
3581647 ATATTCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (19 bp):
CCTTAGAGGAGTTATGATC
Found at i:3582430 original size:6 final size:6
Alignment explanation
Indices: 3582419--3582452 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
3582409 AAATATACTA
3582419 TTATTT TTATTT TTATTT ATATATTT TTATTT TT
1 TTATTT TTATTT TTATTT -T-TATTT TTATTT TT
3582453 TCCAAATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.73
7 2 0.08
8 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:3589539 original size:23 final size:23
Alignment explanation
Indices: 3589509--3589558 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
3589499 GATTTTTCCT
*
3589509 AAATATTATCATTAAATAATCCA
1 AAATATTATCACTAAATAATCCA
*
3589532 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
3589555 AAAT
1 AAAT
3589559 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:3614042 original size:30 final size:29
Alignment explanation
Indices: 3613998--3614068 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
3613988 TTTAACTTTG
*
3613998 TCTTTTGTTTTCTTTTC-CTCTTTCTTTTTT
1 TCTTTTGTTTTCTTTTCTC-CCTT-TTTTTT
3614028 TCTTTT-TTTCTCTTTTCTCCCTTTTTTTT
1 TCTTTTGTTT-TCTTTTCTCCCTTTTTTTT
*
3614057 TCTTTTCTTTTC
1 TCTTTTGTTTTC
3614069 ATGAAAGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 17 0.46
30 19 0.51
31 1 0.03
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.76
Consensus pattern (29 bp):
TCTTTTGTTTTCTTTTCTCCCTTTTTTTT
Found at i:3624883 original size:10 final size:9
Alignment explanation
Indices: 3624870--3624963 Score: 70
Period size: 9 Copynumber: 10.6 Consensus size: 9
3624860 TTTTAAAGTT
3624870 TTTTTATACA
1 TTTTTATA-A
*
3624880 TTTTTACAA
1 TTTTTATAA
3624889 TTTTTAT--
1 TTTTTATAA
3624896 TTTTTATAA
1 TTTTTATAA
** *
3624905 AATTT-TCA
1 TTTTTATAA
* *
3624913 TTTTTTTCA
1 TTTTTATAA
*
3624922 -TTTTATAG
1 TTTTTATAA
3624930 TTTTTATAA
1 TTTTTATAA
3624939 TTTTTAATAA
1 TTTTT-ATAA
3624949 TTTCTTATAA
1 TTT-TTATAA
3624959 TTTTT
1 TTTTT
3624964 TTAAAAAATA
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
7 7 0.10
8 10 0.15
9 27 0.40
10 21 0.31
11 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:3624900 original size:26 final size:25
Alignment explanation
Indices: 3624869--3624963 Score: 70
Period size: 26 Copynumber: 3.6 Consensus size: 25
3624859 CTTTTAAAGT
3624869 TTTTTTATACATTTTTACAATTTTTA
1 TTTTTTATA-ATTTTTACAATTTTTA
*
3624895 TTTTTTATAAAATTTT-C-ATTTTT-
1 TTTTTTAT-AATTTTTACAATTTTTA
* *
3624918 TTCATTTTATAGTTTTTATAATTTTTAA
1 TT--TTTTATAATTTTTACAATTTTT-A
3624946 TAATTTCTTATAATTTTT
1 T--TTT-TTATAATTTTT
3624964 TTAAAAAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
23 2 0.04
24 11 0.20
25 7 0.13
26 19 0.35
27 1 0.02
28 3 0.06
29 10 0.19
30 1 0.02
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.66
Consensus pattern (25 bp):
TTTTTTATAATTTTTACAATTTTTA
Found at i:3625329 original size:28 final size:29
Alignment explanation
Indices: 3625277--3625332 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
3625267 GATTGATGTA
*
3625277 ATTTTATAATTTTATTATTATTTTTTATG
1 ATTTTATAATTTTATTATTAATTTTTATG
3625306 ATTTTA-AATTTT-TTATTTAATTTTTAT
1 ATTTTATAATTTTATTA-TTAATTTTTAT
3625333 TAGACTGACG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 3 0.12
28 16 0.64
29 6 0.24
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (29 bp):
ATTTTATAATTTTATTATTAATTTTTATG
Found at i:3627437 original size:51 final size:51
Alignment explanation
Indices: 3627381--3627490 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 51
3627371 ACCCTTAAAG
* *
3627381 TTTACATATTCTGTCAATTTGGTCTTGTTTTAACAAATTCAGTCTT-CAACA
1 TTTACATATTCTATCAATTTGGTCTTGATTTAACAAATTCAG-CTTGCAACA
* * * *
3627432 TTTACATATTCTATCATTTTGGTTTTGATTTAACAAATTTAGCTTGTAACA
1 TTTACATATTCTATCAATTTGGTCTTGATTTAACAAATTCAGCTTGCAACA
3627483 TTTACATA
1 TTTACATA
3627491 GGATATATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 3 0.06
51 49 0.94
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (51 bp):
TTTACATATTCTATCAATTTGGTCTTGATTTAACAAATTCAGCTTGCAACA
Found at i:3628454 original size:24 final size:24
Alignment explanation
Indices: 3628427--3628474 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
3628417 GAAGTATGGA
3628427 CATAACTTATTTATGTGTTAATGC
1 CATAACTTATTTATGTGTTAATGC
3628451 CATAACTTATTTATGTGTTAATGC
1 CATAACTTATTTATGTGTTAATGC
3628475 ATCCATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (24 bp):
CATAACTTATTTATGTGTTAATGC
Found at i:3629313 original size:15 final size:16
Alignment explanation
Indices: 3629293--3629340 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
3629283 TTAATTTTTG
3629293 TAATTTTTTTAGAAAT
1 TAATTTTTTTAGAAAT
* *
3629309 T-ATTTTTATAGTAAT
1 TAATTTTTTTAGAAAT
*
3629324 TAATATTTTTTATAAAT
1 TAAT-TTTTTTAGAAAT
3629341 ATAAATTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 13 0.52
16 3 0.12
17 9 0.36
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (16 bp):
TAATTTTTTTAGAAAT
Found at i:3635647 original size:31 final size:32
Alignment explanation
Indices: 3635609--3635672 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
3635599 GTTTTACACG
* *
3635609 TATAATTAT-ATTAATTTAAAATTTATATATA
1 TATAATTATAATTAAATCAAAATTTATATATA
3635640 TATAATTATACATTAAATCAAAATTTATATATA
1 TATAATTATA-ATTAAATCAAAATTTATATATA
3635673 ATTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 9 0.31
33 20 0.69
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
TATAATTATAATTAAATCAAAATTTATATATA
Found at i:3638859 original size:26 final size:26
Alignment explanation
Indices: 3638823--3638873 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
3638813 TTTCATACAC
3638823 TACCAAGTTTCATACTAACCACTTTG
1 TACCAAGTTTCATACTAACCACTTTG
3638849 TACCAAGTTTCATACTAACCACTTT
1 TACCAAGTTTCATACTAACCACTTT
3638874 ATATACAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (26 bp):
TACCAAGTTTCATACTAACCACTTTG
Found at i:3647636 original size:16 final size:17
Alignment explanation
Indices: 3647615--3647658 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
3647605 AGGTATTTGA
3647615 TATTTGGGTTAATT-TT
1 TATTTGGGTTAATTATT
*
3647631 TATTTGGGTTAGTTATT
1 TATTTGGGTTAATTATT
*
3647648 TAGTTGGGTTA
1 TATTTGGGTTA
3647659 TTGAAGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (17 bp):
TATTTGGGTTAATTATT
Found at i:3647654 original size:17 final size:16
Alignment explanation
Indices: 3647618--3647658 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
3647608 TATTTGATAT
*
3647618 TTGGGTTAATTTTTAT
1 TTGGGTTAATTTTTAG
*
3647634 TTGGGTTAGTTATTTAG
1 TTGGGTTAATT-TTTAG
3647651 TTGGGTTA
1 TTGGGTTA
3647659 TTGAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (16 bp):
TTGGGTTAATTTTTAG
Found at i:3648152 original size:21 final size:21
Alignment explanation
Indices: 3648111--3648152 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
3648101 AGAGCCAAAG
* *
3648111 TAAACTTTAAAAATTGGAATT
1 TAAACTTTAAAAATAGAAATT
3648132 TAAA-TTTAAAAATAAGAAATT
1 TAAACTTTAAAAAT-AGAAATT
3648153 AGGGGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
TAAACTTTAAAAATAGAAATT
Found at i:3654067 original size:9 final size:9
Alignment explanation
Indices: 3654053--3654085 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
3654043 ATAAATAAAC
3654053 AAAAATATA
1 AAAAATATA
3654062 AAAAATATA
1 AAAAATATA
3654071 AAAAATA-A
1 AAAAATATA
3654079 AAAAATA
1 AAAAATA
3654086 GTCCATTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAAATATA
Found at i:3662288 original size:30 final size:29
Alignment explanation
Indices: 3662251--3662368 Score: 101
Period size: 30 Copynumber: 3.8 Consensus size: 29
3662241 TCAAATATTG
*
3662251 AGTCTTCTCAAGCTCCTGAACGAGATATC
1 AGTCTTCTCAAGCTCCTGAATGAGATATC
*
3662280 ATGTCTTCTCAATCCCAAGATCCTGAATGAGATATC
1 A-GTC-T-TC--T--CAAGCTCCTGAATGAGATATC
* *
3662316 GAGTTTTCCCAAGCTCCTGAATGAGATATC
1 -AGTCTTCTCAAGCTCCTGAATGAGATATC
* *
3662346 AAGTTTTCTCAAGTTCCTGAATG
1 -AGTCTTCTCAAGCTCCTGAATG
3662369 TCCTCATAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
29 1 0.01
30 43 0.59
31 1 0.01
32 2 0.03
34 3 0.04
35 1 0.01
36 21 0.29
37 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (29 bp):
AGTCTTCTCAAGCTCCTGAATGAGATATC
Found at i:3664370 original size:6 final size:6
Alignment explanation
Indices: 3664359--3664383 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3664349 CATTAATCTA
3664359 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
3664384 CTTTTAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:3665799 original size:18 final size:22
Alignment explanation
Indices: 3665758--3665831 Score: 77
Period size: 21 Copynumber: 3.5 Consensus size: 22
3665748 ATAGGTAGAT
3665758 TAAATTAATTGTTTGTTAATAA
1 TAAATTAATTGTTTGTTAATAA
*
3665780 TAAATTAATT-TTTGTAAATAA
1 TAAATTAATTGTTTGTTAATAA
*
3665801 T-AATCTAACT-TTT-TT-ATAA
1 TAAAT-TAATTGTTTGTTAATAA
3665820 TAAATATAATTG
1 TAAAT-TAATTG
3665832 AAAATGTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 5 0.11
20 11 0.25
21 18 0.41
22 10 0.23
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (22 bp):
TAAATTAATTGTTTGTTAATAA
Found at i:3670483 original size:11 final size:11
Alignment explanation
Indices: 3670467--3670506 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
3670457 ATTAATAGGT
3670467 ATTATAATAAA
1 ATTATAATAAA
3670478 ATTATAATAAA
1 ATTATAATAAA
3670489 ATTATAATAAA
1 ATTATAATAAA
*
3670500 ATAATAA
1 ATTATAA
3670507 AAACAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTATAATAAA
Found at i:3671844 original size:17 final size:17
Alignment explanation
Indices: 3671824--3671856 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3671814 AATGTTTGTA
3671824 TTATAGAAATGCACCTC
1 TTATAGAAATGCACCTC
3671841 TTATAGAAATGCACCT
1 TTATAGAAATGCACCT
3671857 GAGTTATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (17 bp):
TTATAGAAATGCACCTC
Found at i:3673631 original size:13 final size:13
Alignment explanation
Indices: 3673613--3673659 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
3673603 AATTGCATAG
3673613 AAATAATATAAAC
1 AAATAATATAAAC
3673626 AAATAA-ATAAAC
1 AAATAATATAAAC
*
3673638 GAAATTAATATACAAA
1 -AAA-TAATATA-AAC
3673654 AAATAA
1 AAATAA
3673660 CAATAATCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 6 0.21
13 9 0.31
14 6 0.21
15 6 0.21
16 2 0.07
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.21
Consensus pattern (13 bp):
AAATAATATAAAC
Found at i:3675784 original size:19 final size:19
Alignment explanation
Indices: 3675760--3675830 Score: 106
Period size: 19 Copynumber: 3.6 Consensus size: 19
3675750 TTTGAGGATT
3675760 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
*
3675779 TGCAATTTTAGATATGATATA
1 TGCAATCTTAGATATG--ATA
3675800 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
*
3675819 TGTAATCTTAGA
1 TGCAATCTTAGA
3675831 AGATATGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
19 29 0.62
21 18 0.38
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (19 bp):
TGCAATCTTAGATATGATA
Found at i:3675802 original size:21 final size:21
Alignment explanation
Indices: 3675760--3675819 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
3675750 TTTGAGGATT
3675760 TGCAATCTTAGATATG--ATA
1 TGCAATCTTAGATATGATATA
*
3675779 TGCAATTTTAGATATGATATA
1 TGCAATCTTAGATATGATATA
3675800 TGCAATCTTAGATATGATAT
1 TGCAATCTTAGATATGATAT
3675820 GTAATCTTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.41
21 22 0.59
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (21 bp):
TGCAATCTTAGATATGATATA
Found at i:3675849 original size:23 final size:22
Alignment explanation
Indices: 3675769--3675853 Score: 72
Period size: 19 Copynumber: 4.0 Consensus size: 22
3675759 TTGCAATCTT
* *
3675769 AGATATGATATGCAATTTTAG-
1 AGATATGATATGTAATCTTAGA
* *
3675790 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
3675809 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
3675831 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
3675854 GATTTAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 14 0.26
22 10 0.19
23 13 0.25
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:3675863 original size:22 final size:23
Alignment explanation
Indices: 3675819--3675863 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3675809 AGATATGATA
*
3675819 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
3675842 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
3675864 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:3675988 original size:17 final size:17
Alignment explanation
Indices: 3675966--3675998 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3675956 TGTAAAAAAG
3675966 AAAAA-GGAGAATCAATA
1 AAAAAGGGAGAA-CAATA
3675983 AAAAAGGGAGAACAAT
1 AAAAAGGGAGAACAAT
3675999 TGGCAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.64, C:0.06, G:0.21, T:0.09
Consensus pattern (17 bp):
AAAAAGGGAGAACAATA
Found at i:3676058 original size:19 final size:21
Alignment explanation
Indices: 3676034--3676072 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
3676024 TGTTTTCTTT
*
3676034 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
3676053 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
3676073 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:3676303 original size:3 final size:3
Alignment explanation
Indices: 3676276--3676325 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
3676266 GGTTTTTAGT
* *
3676276 TTA TT- TTA TTAA TT- TTA TCA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3676320 TTA TTA
1 TTA TTA
3676326 CTATATATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3676388 original size:24 final size:24
Alignment explanation
Indices: 3676343--3676497 Score: 120
Period size: 23 Copynumber: 6.4 Consensus size: 24
3676333 TACATATGCA
3676343 TTTTTTATAATAATATACATACGCAT
1 TTTTTTATAATAATAT--ATACGCAT
*
3676369 TTTTTTATAATAATATATACACAT
1 TTTTTTATAATAATATATACGCAT
* * ** *
3676393 TTTTATAT-ATAGTATGCACGCGT
1 TTTTTTATAATAATATATACGCAT
* *
3676416 TTTTATATAATATATATATATATGCAT
1 TTTTTTAT-A-ATA-ATATATACGCAT
* **
3676443 TTTTTTAT-ATAGTATGCACGCAT
1 TTTTTTATAATAATATATACGCAT
*
3676466 TTTTTATATAAT-ATATATATGC-T
1 TTTTT-TATAATAATATATACGCAT
3676489 TTTTTTATA
1 TTTTTTATA
3676498 GTATACGTCT
Statistics
Matches: 102, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
22 4 0.04
23 37 0.36
24 26 0.25
25 2 0.02
26 19 0.19
27 14 0.14
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.51
Consensus pattern (24 bp):
TTTTTTATAATAATATATACGCAT
Found at i:3677915 original size:43 final size:45
Alignment explanation
Indices: 3677868--3677981 Score: 135
Period size: 43 Copynumber: 2.6 Consensus size: 45
3677858 CTAATCCACT
* *
3677868 CCACTACAACTTTAGGGAGATAGGATTTGTTTAT-TT-AGT-TGCC
1 CCACTACAACTTTAGGGAGATAAGACTTGTTT-TCTTGAGTCTGCC
* * * *
3677911 CCACTGCAATTTTAGGGGGATAAGACTTGTTTTCTTGAGTCTGCT
1 CCACTACAACTTTAGGGAGATAAGACTTGTTTTCTTGAGTCTGCC
*
3677956 CCACTACAACTTCAGGGAGATAAGAC
1 CCACTACAACTTTAGGGAGATAAGAC
3677982 CAGATGTGAT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
42 1 0.02
43 29 0.50
44 3 0.05
45 25 0.43
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (45 bp):
CCACTACAACTTTAGGGAGATAAGACTTGTTTTCTTGAGTCTGCC
Found at i:3678061 original size:44 final size:44
Alignment explanation
Indices: 3677999--3678110 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 44
3677989 GATCTACTCT
* * *
3677999 ACTGTAACTTCAGAGAGATAAGATCT-GTGGTTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TAGTGGCTTTAATCCGCTCC
* * *
3678043 ACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTAGTGGCTTTAATCCGCTCC
3678087 ACTGCAACTTCAGGG-GATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
3678111 CGCCATATTC
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 9 0.15
44 51 0.85
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTAGTGGCTTTAATCCGCTCC
Found at i:3678271 original size:50 final size:50
Alignment explanation
Indices: 3678118--3678275 Score: 127
Period size: 50 Copynumber: 3.2 Consensus size: 50
3678108 ATTCGCCATA
* * *
3678118 TTCAGTCTTTTAAATTGCAATGTTGGGGAAACAGGATTCGCCGTCGTAAC
1 TTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAAC
* * * * ** *** * ** * * ***
3678168 TTCAATCTGTTTCACTACACCGCCAGAGAAGTAAGATTCGTCGTTGCGGC
1 TTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAAC
*
3678218 TTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCATCGTAAC
1 TTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAAC
3678268 TTCAATCT
1 TTCAATCT
3678276 GTTTCACTAC
Statistics
Matches: 70, Mismatches: 38, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (50 bp):
TTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAAC
Found at i:3678301 original size:100 final size:100
Alignment explanation
Indices: 3678118--3678305 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
3678108 ATTCGCCATA
* * *
3678118 TTCAGTCTTTTAAATTGCAATGTTGGGGAAACAGGATTCGCCGTCGTAACTTCAATCTGTTTCAC
1 TTCAATCTTTTAAATTGCAATGTTGGGGAAACAAGATTCGCCATCGTAACTTCAATCTGTTTCAC
3678183 TACACCGCCAGAGAAGTAAGATTCGTCGTTGCGGC
66 TACACCGCCAGAGAAGTAAGATTCGTCGTTGCGGC
*
3678218 TTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCATCGTAACTTCAATCTGTTTCAC
1 TTCAATCTTTTAAATTGCAATGTTGGGGAAACAAGATTCGCCATCGTAACTTCAATCTGTTTCAC
* * *
3678283 TACACCGTCAGGGGAGTAAGATT
66 TACACCGCCAGAGAAGTAAGATT
3678306 TACCGTCGTG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (100 bp):
TTCAATCTTTTAAATTGCAATGTTGGGGAAACAAGATTCGCCATCGTAACTTCAATCTGTTTCAC
TACACCGCCAGAGAAGTAAGATTCGTCGTTGCGGC
Found at i:3678304 original size:50 final size:50
Alignment explanation
Indices: 3678152--3678314 Score: 130
Period size: 50 Copynumber: 3.3 Consensus size: 50
3678142 GGGGAAACAG
* * *
3678152 GATTCGCCGTCGTAACTTCAATCTGTTTCACTACACCGCCAGAGAAGTAA
1 GATTCGCCGTCGTAACTTCAATCTGTTTCACTACACCGTCAGGGGAGTAA
* * *** * * * * ** * **
3678202 GATTCGTCGTTGCGGCTTCAATCTTTTTAATTGCAATGT-TGGGGAAACAA
1 GATTCGCCGTCGTAACTTCAATCTGTTTCACTACACCGTCAGGGG-AGTAA
*
3678252 GATTCGCCATCGTAACTTCAATCTGTTTCACTACACCGTCAGGGGAGTAA
1 GATTCGCCGTCGTAACTTCAATCTGTTTCACTACACCGTCAGGGGAGTAA
**
3678302 GATTTACCGTCGT
1 GATTCGCCGTCGT
3678315 GGTTTCAATC
Statistics
Matches: 76, Mismatches: 35, Indels: 4
0.66 0.30 0.03
Matches are distributed among these distances:
49 2 0.03
50 70 0.92
51 4 0.05
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (50 bp):
GATTCGCCGTCGTAACTTCAATCTGTTTCACTACACCGTCAGGGGAGTAA
Found at i:3678648 original size:44 final size:44
Alignment explanation
Indices: 3678600--3678695 Score: 149
Period size: 44 Copynumber: 2.2 Consensus size: 44
3678590 GTTGCTCAGG
3678600 GAGATAGGA-TTCACAATCTTCAACCTATTCCACTACTGACCAGA
1 GAGATAGGACTT-ACAATCTTCAACCTATTCCACTACTGACCAGA
* * *
3678644 GAGATAGGACTTACAATCTTCAACCTATTCCACTACTGTCTAGG
1 GAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACCAGA
3678688 GAGATAGG
1 GAGATAGG
3678696 GCTGGGGTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
44 46 0.96
45 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (44 bp):
GAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACCAGA
Found at i:3678836 original size:88 final size:88
Alignment explanation
Indices: 3678695--3679269 Score: 823
Period size: 88 Copynumber: 6.6 Consensus size: 88
3678685 AGGGAGATAG
* * * * * * * *
3678695 GGCTGGGGTCATCGATCTACATCGCTGTCGGTGCAGGCAGGAAAGATCAGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
3678760 TTCGCTGCAACCTAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
3678783 GGTTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGTAAGATATGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
3678848 TCCGTTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
3678871 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA--TTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
3678934 TCCACTACAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* **
3678957 GGTTGGTGTCTTCGATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
3679022 TCCGCTGCAACCCAGGGAGGGAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * *
3679045 GGCTAGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGTTATTTTTAATCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
3679110 TCCGCTACAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
3679133 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGGTCTGCTA-TTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
3679197 TCCGCTGCAACCCAAGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
3679220 GGCTGGTATCTTCAATCTGCTTCGCTGTCGGTGTAGGAATGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
3679270 TTATATTCAC
Statistics
Matches: 433, Mismatches: 52, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
86 80 0.18
87 75 0.17
88 278 0.64
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.27
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:3679011 original size:174 final size:175
Alignment explanation
Indices: 3678695--3679269 Score: 830
Period size: 174 Copynumber: 3.3 Consensus size: 175
3678685 AGGGAGATAG
* * * * * * * *
3678695 GGCTGGGGTCATCGATCTACATCGCTGTCGGTGCAGGCAGGAAAGATCAGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTAACCTGC
* * * * *
3678760 TTCGCTGCAACCTAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGT
65 TCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
* *
3678825 AAGATATGCTATTTTTAACCTGCTCCGTTGCAACCCAGGGAGGCAA
130 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAA
3678871 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTAACCTGCT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTAACCTGCT
* **
3678935 CCACTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTTAGTGCAGGAAGGCA
66 CCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCA
*
3679000 AGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGGAA
131 AGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAA
* * * * *
3679045 GGCTAGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGTTATTTTTAATCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTAACCTGC
* *
3679110 TCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGAAGGC
65 TCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
* *
3679175 AAGGTCTGCTA-TTTTAACCTGCTCCGCTGCAACCCAAGGAGGCAA
130 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAA
* * * *
3679220 GGCTGGTATCTTCAATCTGCTTCGCTGTCGGTGTAGGAATGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
3679270 TTATATTCAC
Statistics
Matches: 358, Mismatches: 39, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
174 158 0.44
175 75 0.21
176 125 0.35
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.27
Consensus pattern (175 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTAACCTGCT
CCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCA
AGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAA
Found at i:3679041 original size:262 final size:263
Alignment explanation
Indices: 3678706--3679269 Score: 851
Period size: 262 Copynumber: 2.1 Consensus size: 263
3678696 GCTGGGGTCA
* * * * * * *
3678706 TCGATCTACATCGCTGTCGGTGCAGGCAGGAAAGATCAGCTATTTTTAGCCTGCTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* * * * *
3678771 CTAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGTAAGATATGCTA
66 CCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATATGCTA
* *
3678836 TTTTTAACCTGCTCCGTTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCG
131 TTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCG
* * * *
3678901 GTGCAGGAAGGCAAGATCTGCTA-TTTAACCTGCTCCACTACAACCCAGGGAGGCAAGGTTGGTG
196 GTGCAAGAAGGCAAGATCTGCTATTTTAACCTGCTCCACTACAACCCAAGGAGGCAAGGCTGGTA
3678965 TCT
261 TCT
**
3678968 TCGATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* * *
3679033 CCAGGGAGGGAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGTTA
66 CCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATATGCTA
*
3679098 TTTTTAATCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCG
131 TTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCG
* * *
3679163 GTGCAAGAAGGCAAGGTCTGCTATTTTAACCTGCTCCGCTGCAACCCAAGGAGGCAAGGCTGGTA
196 GTGCAAGAAGGCAAGATCTGCTATTTTAACCTGCTCCACTACAACCCAAGGAGGCAAGGCTGGTA
3679228 TCT
261 TCT
* * *
3679231 TCAATCTGCTTCGCTGTCGGTGTAGGAATGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
3679270 TTATATTCAC
Statistics
Matches: 269, Mismatches: 32, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
262 196 0.73
263 73 0.27
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (263 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATATGCTA
TTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCG
GTGCAAGAAGGCAAGATCTGCTATTTTAACCTGCTCCACTACAACCCAAGGAGGCAAGGCTGGTA
TCT
Found at i:3679175 original size:44 final size:44
Alignment explanation
Indices: 3679127--3679252 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 44
3679117 CAACCCAGGG
* *
3679127 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGA
1 AGGCAAGGCTGGTATCTTCAATCTGCTTCGCTGTCGGTGCAAGA
* * * * **** *
3679171 AGGCAAGGTCTGCTAT-TTTAACCTGCTCCGCTG-CAACCCAAGG
1 AGGCAAGG-CTGGTATCTTCAATCTGCTTCGCTGTCGGTGCAAGA
3679214 AGGCAAGGCTGGTATCTTCAATCTGCTTCGCTGTCGGTG
1 AGGCAAGGCTGGTATCTTCAATCTGCTTCGCTGTCGGTG
3679253 TAGGAATGCA
Statistics
Matches: 60, Mismatches: 19, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
42 6 0.10
43 27 0.45
44 22 0.37
45 5 0.08
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.27
Consensus pattern (44 bp):
AGGCAAGGCTGGTATCTTCAATCTGCTTCGCTGTCGGTGCAAGA
Found at i:3685210 original size:13 final size:13
Alignment explanation
Indices: 3685192--3685238 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
3685182 AATGGCATAG
3685192 AAATAATATAAAC
1 AAATAATATAAAC
3685205 AAATAA-ATAAAC
1 AAATAATATAAAC
*
3685217 GAAATTAATATACAAA
1 -AAA-TAATATA-AAC
3685233 AAATAA
1 AAATAA
3685239 CAATAATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 6 0.21
13 9 0.31
14 6 0.21
15 6 0.21
16 2 0.07
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.21
Consensus pattern (13 bp):
AAATAATATAAAC
Found at i:3685716 original size:22 final size:22
Alignment explanation
Indices: 3685690--3685734 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
3685680 GAAATTAATT
3685690 AATTTA-AAAAATATATATAAAA
1 AATTTAGAAAAATA-ATATAAAA
*
3685712 AATTTATGAAGAATAATATAAAA
1 AATTTA-GAAAAATAATATAAAA
3685735 CATGCGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 8 0.40
24 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
AATTTAGAAAAATAATATAAAA
Found at i:3685815 original size:17 final size:17
Alignment explanation
Indices: 3685793--3685836 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
3685783 TATTTTTAAA
3685793 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
3685810 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
3685827 -ATATGTATAT
1 AAAATGTATAT
3685837 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:3685819 original size:27 final size:27
Alignment explanation
Indices: 3685789--3685840 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
3685779 TATGTATTTT
*
3685789 TAAAAAAATGTATATGTATATAAAATG
1 TAAAAAAATATATATGTATATAAAATG
***
3685816 TAAATGTATATATATGTATATAAAA
1 TAAAAAAATATATATGTATATAAAA
3685841 GTTATGCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (27 bp):
TAAAAAAATATATATGTATATAAAATG
Found at i:3691836 original size:23 final size:22
Alignment explanation
Indices: 3691784--3691836 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
3691774 TCCACGTCTT
*
3691784 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
3691806 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
3691829 TTTCTTTT
1 TTTCTTTT
3691837 TCACTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:3691881 original size:18 final size:18
Alignment explanation
Indices: 3691795--3691883 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 18
3691785 TTCTTTTGTT
** *
3691795 TCTTTTTCTAATTCATTT
1 TCTTTTTCTTTTTCATTC
*
3691813 TC-TCTTCTTTCTTCAATT-
1 TCTTTTTCTTT-TTC-ATTC
** *
3691831 TCTTTTTCACTTTCAATC
1 TCTTTTTCTTTTTCATTC
3691849 TCTTTTTGCTCTTTTTCATTC
1 TC-TTTT--TCTTTTTCATTC
3691870 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
3691884 CTCACTTGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
17 7 0.13
18 20 0.37
19 12 0.22
20 4 0.07
21 11 0.20
ACGTcount: A:0.10, C:0.24, G:0.01, T:0.65
Consensus pattern (18 bp):
TCTTTTTCTTTTTCATTC
Done.