Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 3 of 205
Found at i:660998 original size:48 final size:50
Alignment explanation
Indices: 660927--661029 Score: 138
Period size: 48 Copynumber: 2.1 Consensus size: 50
660917 AAACCCTAAC
* * *
660927 AAAAACCCTAACCCTAACCCTTAACTTAAAAAC-CCTAACCCTTAA-CTT
1 AAAAACCATAACCCTAACCCTTAACTTAAAAACACCAAAACCTTAATCTT
** *
660975 AAAAACCATAACTGTAACTCTTAACTTAAAAACACCAAAACCTTAATCTT
1 AAAAACCATAACCCTAACCCTTAACTTAAAAACACCAAAACCTTAATCTT
661025 AAAAA
1 AAAAA
661030 AAACCCTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 29 0.62
49 10 0.21
50 8 0.17
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (50 bp):
AAAAACCATAACCCTAACCCTTAACTTAAAAACACCAAAACCTTAATCTT
Found at i:661223 original size:19 final size:19
Alignment explanation
Indices: 661175--661224 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
661165 ATAATTTGAT
661175 ATAATTTTACTAACAATTA
1 ATAATTTTACTAACAATTA
*
661194 ATACA----ATTAACAATTA
1 ATA-ATTTTACTAACAATTA
661210 ATAATTTTACTAACA
1 ATAATTTTACTAACA
661225 TTCAGCCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
15 1 0.04
16 13 0.54
19 9 0.38
20 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATTTTACTAACAATTA
Found at i:661256 original size:104 final size:102
Alignment explanation
Indices: 661063--661259 Score: 279
Period size: 104 Copynumber: 1.9 Consensus size: 102
661053 CTAATATGAT
* ***
661063 ATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGAGTAACAAAATTTT
1 ATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAACAAAATGCC
661128 AGATTTTACAAAATATTTTGACTGGTACTAACAATTA
66 AGATTTTACAAAATATTTTGACTGGTACTAACAATTA
* **
661165 ATAATTTGATATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAACATTCA-
1 ATAATTTGATA-AA-TTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAACA-AAAT
* *
661229 GCCATATTTTACAAAATGTTTTGACTGGTAC
63 GCCAGATTTTACAAAATATTTTGACTGGTAC
661260 AAAAAAATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
102 11 0.13
103 2 0.02
104 69 0.83
105 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.39
Consensus pattern (102 bp):
ATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAACAAAATGCC
AGATTTTACAAAATATTTTGACTGGTACTAACAATTA
Found at i:664482 original size:125 final size:124
Alignment explanation
Indices: 664260--664576 Score: 510
Period size: 125 Copynumber: 2.5 Consensus size: 124
664250 CCCAAACATT
* *
664260 CTACTGTAGCAAAAACGCGTCCACGATGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACG-TGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
664325 TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAAG-AC
65 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTC-AGTAC
* *
664385 CTACTGTAGCAAAAGCACGTCCACGTGTGCGCGATTTCAGAAATTCTTTTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTG-GCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
664450 TTGAAGCATTTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTTCAGTAC
65 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGTAC
* *
664510 CTACTGTAGCAAAAGCGCGTCTACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGTATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGT-GGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
664575 TT
65 TT
664577 TGATTTTATC
Statistics
Matches: 178, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
124 4 0.02
125 173 0.97
126 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCT
TGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGTAC
Found at i:664858 original size:40 final size:40
Alignment explanation
Indices: 664787--664864 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
664777 AGGAGCGCGC
*
664787 TACGTGGCAACAAAACGCATCCACGTCAGCGCGCTTTGGT
1 TACGTGGCAACAAAACGCATCCACGTAAGCGCGCTTTGGT
* * * * *
664827 TACGTTGCAACAAACCTCGTCCTCGTAAGCGCGCTTTG
1 TACGTGGCAACAAAACGCATCCACGTAAGCGCGCTTTG
664865 TGTCCATGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (40 bp):
TACGTGGCAACAAAACGCATCCACGTAAGCGCGCTTTGGT
Found at i:666541 original size:7 final size:8
Alignment explanation
Indices: 666525--666551 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
666515 AGTTTCCTTC
666525 TTTTATTT
1 TTTTATTT
666533 TTTTATTT
1 TTTTATTT
666541 TTTTATTT
1 TTTTATTT
666549 TTT
1 TTT
666552 CGCTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:667141 original size:3 final size:3
Alignment explanation
Indices: 667135--667199 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
667125 ATTAAATTGC
* *
667135 ATT ATT ATT ATT -GT ATT ATT -GT ATT ATCT ATT ATTT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A-TT ATT AT-T ATT
*
667181 ATT ATT ATT AGT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
667200 CTTCCATACG
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 2 0.04
3 40 0.78
4 9 0.18
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:667152 original size:14 final size:14
Alignment explanation
Indices: 667130--667199 Score: 63
Period size: 14 Copynumber: 4.9 Consensus size: 14
667120 TTTTGATTAA
*
667130 ATTGCATTATTATT
1 ATTGTATTATTATT
667144 ATTGTATTATTGTATT
1 ATTGTATTA-T-TATT
*
667160 A-TCTATTATTTATT
1 ATTGTATTA-TTATT
*
667174 A-TATATTATTATT
1 ATTGTATTATTATT
667187 ATTAGTATTATTA
1 ATT-GTATTATTA
667200 CTTCCATACG
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
13 6 0.12
14 20 0.42
15 17 0.35
16 5 0.10
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (14 bp):
ATTGTATTATTATT
Found at i:668760 original size:3 final size:3
Alignment explanation
Indices: 668735--668775 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
668725 AGTTTTTAGT
*
668735 TTA TT- TTA TTA ATA -TA GTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
668776 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:675766 original size:109 final size:108
Alignment explanation
Indices: 675580--675776 Score: 313
Period size: 109 Copynumber: 1.8 Consensus size: 108
675570 TCTGTACTTT
* *
675580 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCGTCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
675645 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
* ** *
675688 AGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTAAGAGCTTTGCTCTCAACAAAATTTCATTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTT-AGAGCTTTGCTCTCAACAAAATTTCATCT
* *
675753 TGTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
675777 AGCATTTTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
108 32 0.40
109 48 0.60
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
Found at i:676399 original size:95 final size:96
Alignment explanation
Indices: 676286--676481 Score: 340
Period size: 97 Copynumber: 2.0 Consensus size: 96
676276 GCAGCGAAGC
* *
676286 AGATCAAAGATGGCAGATTTTACCTCC-CTGATTACAGTGGAGTATATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
676350 TCTCCCTGCATTTGGCAGTGGAATAGATTGA
66 TCTCCCTGCATTTGGCAGTGGAATAGATTGA
*
676381 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCA-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
676446 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
65 ATCTCCCTGCATTTGGCAGTGGAATAGATTGA
676478 AGAT
1 AGAT
676482 TGCAGATCTT
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 27 0.28
97 68 0.72
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (96 bp):
AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGCATTTGGCAGTGGAATAGATTGA
Found at i:676510 original size:46 final size:46
Alignment explanation
Indices: 676451--676646 Score: 154
Period size: 46 Copynumber: 4.3 Consensus size: 46
676441 ACTCTATCTC
*
676451 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTT
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTT
* * *
676497 CCTGTATTTGGCAGT-GAAGCAGATCGAAGA-TGACAGATTTTACC-T
1 CCTGTATTTGGCAGTGGAA-TAGATTGAAGATTG-CAGATCTTACCTT
* * * * ** * * * *
676542 CCATGTGA-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTATCTC
1 CC-TGT-ATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TACCTT
*
676587 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTT
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTT
*
676633 CCTATATTTGGCAG
1 CCTGTATTTGGCAG
676647 CAAAGCAGGT
Statistics
Matches: 110, Mismatches: 28, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
43 4 0.04
44 7 0.06
45 38 0.35
46 56 0.51
47 5 0.05
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (46 bp):
CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTT
Found at i:676535 original size:136 final size:136
Alignment explanation
Indices: 676381--676705 Score: 537
Period size: 136 Copynumber: 2.4 Consensus size: 136
676371 AATAGATTGA
*
676381 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
676446 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAG
**
676511 TGAAGC
131 CAAAGC
*
676517 AGATCGAAGATGACAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
676582 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAG
676647 CAAAGC
131 CAAAGC
* * * * * *
676653 AGGTTGAAGACGGCGGATTTTACCTCC--CTGATTACAGTGGAGTACATTGAAGC
1 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGC
676706 TGGTAGTTCT
Statistics
Matches: 177, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
134 24 0.14
136 153 0.86
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (136 bp):
AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAG
CAAAGC
Found at i:676808 original size:40 final size:40
Alignment explanation
Indices: 676755--676906 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
676745 AAGATTACAA
* *
676755 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* * *
676795 TCTTATCTCCCTAAGCAGTAGCGGAGCAGA-CGAAACCATAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-CATCA-AG
* * * * *
676836 ATATTATCTCCCTAAGTAGTAGTGGAACAGATCACATCCAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
676877 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
676907 CTAAAAACAC
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
39 2 0.02
40 58 0.62
41 4 0.04
42 28 0.30
43 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:676860 original size:82 final size:82
Alignment explanation
Indices: 676757--676907 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 82
676747 GATTACAATC
** * *
676757 TTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGTAGCGGAGC
1 TTATCTCCCTAAGCAGTAGTGGAACAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGC
676822 AGACGAAACCATAGATA
66 AGACGAAACCATAGATA
* * * *
676839 TTATCTCCCTAAGTAGTAGTGGAACAGATCACATCCAGTCTTATCTCCCTAAGTAGTAGTGGAGC
1 TTATCTCCCTAAGCAGTAGTGGAACAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGC
676904 AGAC
66 AGAC
676908 TAAAAACACA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 61 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (82 bp):
TTATCTCCCTAAGCAGTAGTGGAACAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGC
AGACGAAACCATAGATA
Found at i:677833 original size:11 final size:11
Alignment explanation
Indices: 677817--677849 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
677807 TTCCCCCCTC
677817 CCTTCTCTCTT
1 CCTTCTCTCTT
677828 CCTTCTCTCTT
1 CCTTCTCTCTT
*
677839 CCCTCTCTCTT
1 CCTTCTCTCTT
677850 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (11 bp):
CCTTCTCTCTT
Found at i:678334 original size:3 final size:3
Alignment explanation
Indices: 678310--678380 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
678300 AATATCCTTG
* * * **
678310 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
678357 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
678381 GTACGTGTAT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:678377 original size:23 final size:22
Alignment explanation
Indices: 678323--678383 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
678313 TTTTTATATT
*
678323 ATTAGTATTATTA-GTATTACC
1 ATTATTATTATTATGTATTACC
**
678344 ATTATTATTATTATGTATTAGT
1 ATTATTATTATTATGTATTACC
*
678366 ATATATTTTTATTATGTA
1 AT-TATTATTATTATGTA
678384 CGTGTATACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.35
22 8 0.24
23 14 0.41
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (22 bp):
ATTATTATTATTATGTATTACC
Found at i:678390 original size:23 final size:23
Alignment explanation
Indices: 678346--678391 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
678336 GTATTACCAT
*
678346 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
678369 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
678392 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:678658 original size:19 final size:19
Alignment explanation
Indices: 678623--678659 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
678613 ATATATTACC
**
678623 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
678642 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
678660 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:681099 original size:43 final size:43
Alignment explanation
Indices: 681051--681146 Score: 167
Period size: 43 Copynumber: 2.3 Consensus size: 43
681041 TAATATTTAT
681051 TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
1 TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
*
681094 TGTTATTAATTTCAGTTAATTGGTTAATTAAATATTTTCGAAA
1 TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
*
681137 TG-AATTAATT
1 TGTTATTAATT
681147 GATAATAAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 7 0.14
43 44 0.86
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.48
Consensus pattern (43 bp):
TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
Found at i:690947 original size:17 final size:19
Alignment explanation
Indices: 690925--690961 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
690915 CTTATTTGTT
690925 TTATTATATT-T-TATTTA
1 TTATTATATTATATATTTA
690942 TTATTATATTATATATTTA
1 TTATTATATTATATATTTA
690961 T
1 T
690962 ATATATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATATTATATATTTA
Found at i:691975 original size:46 final size:46
Alignment explanation
Indices: 691922--692009 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
691912 AAAAGTGTAG
* *
691922 TGTGGGCCTTAGCCCATTACAGT-ATCAGAATCAAAAATAGAATACA
1 TGTGGGCCTAAGCCCAATACAGTGA-CAGAATCAAAAATAGAATACA
* **
691968 TGTGGGCCTAAGCCTAATACAGTGACAGAATCAGTAATAGAA
1 TGTGGGCCTAAGCCCAATACAGTGACAGAATCAAAAATAGAA
692010 ATGCAGCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
46 35 0.97
47 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCAATACAGTGACAGAATCAAAAATAGAATACA
Found at i:692228 original size:22 final size:21
Alignment explanation
Indices: 692169--692233 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
692159 TGCCAGTAAC
*
692169 CAGAATGACTAAGAGCTGTAAA
1 CAGAATGACTAA-AGCTATAAA
*
692191 CAGGAT-AGCTATAAGCTATAAA
1 CAGAATGA-CTA-AAGCTATAAA
*
692213 CAGAATGACTACAAGCCATAA
1 CAGAATGACTA-AAGCTATAA
692234 GTATAGTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.03
22 32 0.91
23 2 0.06
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (21 bp):
CAGAATGACTAAAGCTATAAA
Found at i:692363 original size:26 final size:26
Alignment explanation
Indices: 692334--692387 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
692324 TATCAGTAGC
*
692334 ATTGCAGCAAAGCTGCTAGCAATAGT
1 ATTGCAGCAAAGCTGCCAGCAATAGT
*
692360 ATTGCAGCAAAGCTGCCAGTAATAGT
1 ATTGCAGCAAAGCTGCCAGCAATAGT
692386 AT
1 AT
692388 ATGTGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (26 bp):
ATTGCAGCAAAGCTGCCAGCAATAGT
Found at i:692530 original size:24 final size:24
Alignment explanation
Indices: 692503--692584 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
692493 CCATGCTCAG
*
692503 AATCAGTAATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
692527 AATCAATCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* ** *
692551 AATTAGTCATTTAAATCACAAACA
1 AATCAGTCATACAAATCACAGACA
692575 AATCAGTCAT
1 AATCAGTCAT
692585 TTACATCATG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:692585 original size:24 final size:24
Alignment explanation
Indices: 692515--692613 Score: 108
Period size: 24 Copynumber: 4.1 Consensus size: 24
692505 TCAGTAATAC
**
692515 AAATCACAGACAAATCAATCATAC
1 AAATCACAGACAAATCAATCATTT
* * *
692539 CAATCACAGACAAATTAGTCATTT
1 AAATCACAGACAAATCAATCATTT
* *
692563 AAATCACAAACAAATCAGTCATTT
1 AAATCACAGACAAATCAATCATTT
* **
692587 ACATCATGGACAAATCAATCATTT
1 AAATCACAGACAAATCAATCATTT
692611 AAA
1 AAA
692614 CTCGAGGGGT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.24
Consensus pattern (24 bp):
AAATCACAGACAAATCAATCATTT
Found at i:692674 original size:27 final size:27
Alignment explanation
Indices: 692644--692881 Score: 146
Period size: 27 Copynumber: 8.8 Consensus size: 27
692634 TTTACCCTCT
*
692644 AGGGGCATTACGATCATTTTACCTTAC
1 AGGGGTATTACGATCATTTTACCTTAC
* ** *
692671 AGGGGTATTTCGGCCATTTAATCCTATA-
1 AGGGGTATTACGATCATTTTA-CCT-TAC
* *
692699 A-GGGTATTACGA-CTATTTTACCCTAG
1 AGGGGTATTACGATC-ATTTTACCTTAC
* * *
692725 AGGGGCATTACGGTCATTTTACCTTAT
1 AGGGGTATTACGATCATTTTACCTTAC
* * * *
692752 GGGGGTTTTTCGGTCATTTTACAC-TAC
1 AGGGGTATTACGATCATTTTAC-CTTAC
* ** * *
692779 AGAGGTATTACGATTGTTTTATCTTAT
1 AGGGGTATTACGATCATTTTACCTTAC
* **
692806 TGGGACATTAC-AGTCATTTTATCC-TAC
1 AGGGGTATTACGA-TCATTTTA-CCTTAC
* * *
692833 GGGGGCATTACGATCATTTTACCCTAC
1 AGGGGTATTACGATCATTTTACCTTAC
*
692860 AAGGGTATTACGATCATTTTAC
1 AGGGGTATTACGATCATTTTAC
692882 AAATATTGGG
Statistics
Matches: 159, Mismatches: 40, Indels: 24
0.71 0.18 0.11
Matches are distributed among these distances:
25 2 0.01
26 8 0.05
27 139 0.87
28 8 0.05
29 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
AGGGGTATTACGATCATTTTACCTTAC
Found at i:692786 original size:81 final size:79
Alignment explanation
Indices: 692634--692881 Score: 248
Period size: 81 Copynumber: 3.1 Consensus size: 79
692624 AAAATAGTCA
* * * * * *
692634 TTTACCCTCTAGGGGCATTACGATCATTTTACCTTACAGGGGTATTTCGGCCATTTAATCCTATA
1 TTTACCCTATAGGGGCATTACGGTCATTTTACCTTACGGGGGTATTTCGGTCATTTTA-CCTACA
692699 AGGGTATTACGACTAT
65 AGGGTATTACGA-TAT
* * *
692715 TTTACCCTAGAGGGGCATTACGGTCATTTTACCTTATGGGGGTTTTTCGGTCATTTTACACTAC-
1 TTTACCCTATAGGGGCATTACGGTCATTTTACCTTACGGGGGTATTTCGGTCATTTTAC-CTACA
*
692779 AGAGGTATTACGATTGT
65 AG-GGTATTACGA-TAT
* * * * * * * *
692796 TTTATCTTATTGGGACATTACAGTCATTTTATCC-TACGGGGGCATTACGATCATTTTACCCTAC
1 TTTACCCTATAGGGGCATTACGGTCATTTTA-CCTTACGGGGGTATTTCGGTCATTTTA-CCTAC
692860 AAGGGTATTACGATCAT
64 AAGGGTATTACGAT-AT
692877 TTTAC
1 TTTAC
692882 AAATATTGGG
Statistics
Matches: 137, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
80 4 0.03
81 128 0.93
82 5 0.04
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (79 bp):
TTTACCCTATAGGGGCATTACGGTCATTTTACCTTACGGGGGTATTTCGGTCATTTTACCTACAA
GGGTATTACGATAT
Found at i:697984 original size:18 final size:18
Alignment explanation
Indices: 697957--697991 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
697947 ACATACAGAG
*
697957 CCACCGTTCACCATGCTA
1 CCACCATTCACCATGCTA
697975 CCACCATTCACCATGCT
1 CCACCATTCACCATGCT
697992 GCCATTGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.46, G:0.09, T:0.23
Consensus pattern (18 bp):
CCACCATTCACCATGCTA
Found at i:703873 original size:15 final size:15
Alignment explanation
Indices: 703855--703923 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
703845 ATCTTGGGTT
*
703855 TCTTTATCCTGGATC
1 TCTTTATTCTGGATC
*
703870 TCTTTATTCTGGATT
1 TCTTTATTCTGGATC
* *
703885 TCTTTATTCTGGGTT
1 TCTTTATTCTGGATC
* * *
703900 TCTCTATTTTGGATT
1 TCTTTATTCTGGATC
703915 TCTTTATTC
1 TCTTTATTC
703924 GGTTTTCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:703913 original size:45 final size:44
Alignment explanation
Indices: 703849--703933 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
703839 TATCGTATCT
*
703849 TGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCCTGGATCTCTTTATTC-GGATTTCTTTATTC
** * *
703894 TGGGTTTCTCTATTTTGGATTTCTTTATTCGGTTTTCTTT
1 TGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTTT
703934 TTATCTTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 9 0.26
45 26 0.74
ACGTcount: A:0.09, C:0.15, G:0.16, T:0.59
Consensus pattern (44 bp):
TGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTTTATTC
Found at i:703922 original size:30 final size:30
Alignment explanation
Indices: 703848--703931 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
703838 GTATCGTATC
* * * *
703848 TTGGGTTTCTTTATCCTGGATCTCTTTATT
1 TTGGATTTCTTTATTCTGGATTTCTCTATT
* *
703878 CTGGATTTCTTTATTCTGGGTTTCTCTATT
1 TTGGATTTCTTTATTCTGGATTTCTCTATT
*
703908 TTGGATTTCTTTATTC-GGTTTTCT
1 TTGGATTTCTTTATTCTGGATTTCT
703932 TTTTATCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
29 7 0.15
30 39 0.85
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.58
Consensus pattern (30 bp):
TTGGATTTCTTTATTCTGGATTTCTCTATT
Found at i:706596 original size:91 final size:91
Alignment explanation
Indices: 706441--706621 Score: 353
Period size: 91 Copynumber: 2.0 Consensus size: 91
706431 CTAGAAAAAA
706441 AATTAGTAGATAGATATATGAGTCTAGTTTCAGGAAAAATTTACGGAATTGAATTTCGAGTTTCG
1 AATTAGTAGATAGATATATGAGTCTAGTTTCAGGAAAAATTTACGGAATTGAATTTCGAGTTTCG
706506 GAACTCGAGATATGAATTTTTAAGCG
66 GAACTCGAGATATGAATTTTTAAGCG
*
706532 AATTAGTAGATAGATATATGAGTCTAGTTTCAGGAAAAATTTACGGAATTGGATTTCGAGTTTCG
1 AATTAGTAGATAGATATATGAGTCTAGTTTCAGGAAAAATTTACGGAATTGAATTTCGAGTTTCG
706597 GAACTCGAGATATGAATTTTTAAGC
66 GAACTCGAGATATGAATTTTTAAGC
706622 AACTATGATG
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (91 bp):
AATTAGTAGATAGATATATGAGTCTAGTTTCAGGAAAAATTTACGGAATTGAATTTCGAGTTTCG
GAACTCGAGATATGAATTTTTAAGCG
Found at i:708527 original size:15 final size:15
Alignment explanation
Indices: 708509--708577 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
708499 ATCTTGGGTT
*
708509 TCTTTATCCTGGATC
1 TCTTTATTCTGGATC
*
708524 TCTTTATTCTGGATT
1 TCTTTATTCTGGATC
* *
708539 TCTTTATTCTGGGTT
1 TCTTTATTCTGGATC
* * *
708554 TCTCTATTTTGGATT
1 TCTTTATTCTGGATC
708569 TCTTTATTC
1 TCTTTATTC
708578 GGTTTTCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:708567 original size:45 final size:44
Alignment explanation
Indices: 708503--708587 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
708493 TATCGTATCT
*
708503 TGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCCTGGATCTCTTTATTC-GGATTTCTTTATTC
** * *
708548 TGGGTTTCTCTATTTTGGATTTCTTTATTCGGTTTTCTTT
1 TGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTTT
708588 TTATCTTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 9 0.26
45 26 0.74
ACGTcount: A:0.09, C:0.15, G:0.16, T:0.59
Consensus pattern (44 bp):
TGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTTTATTC
Found at i:708576 original size:30 final size:30
Alignment explanation
Indices: 708502--708585 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
708492 GTATCGTATC
* * * *
708502 TTGGGTTTCTTTATCCTGGATCTCTTTATT
1 TTGGATTTCTTTATTCTGGATTTCTCTATT
* *
708532 CTGGATTTCTTTATTCTGGGTTTCTCTATT
1 TTGGATTTCTTTATTCTGGATTTCTCTATT
*
708562 TTGGATTTCTTTATTC-GGTTTTCT
1 TTGGATTTCTTTATTCTGGATTTCT
708586 TTTTATCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
29 7 0.15
30 39 0.85
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.58
Consensus pattern (30 bp):
TTGGATTTCTTTATTCTGGATTTCTCTATT
Found at i:710993 original size:52 final size:52
Alignment explanation
Indices: 710917--711115 Score: 239
Period size: 52 Copynumber: 3.9 Consensus size: 52
710907 CCATGGCAGC
* * *
710917 ATGTGAAATGTGATTTCCGTATAAGATCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
*
710970 ATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * * *
711022 ATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATC--AG--
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * *
711070 -TGTGATATGTG-ATCCGTATAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
711116 TATGTGATAT
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
46 26 0.20
47 11 0.09
50 2 0.02
52 78 0.61
53 10 0.08
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
Found at i:713372 original size:13 final size:13
Alignment explanation
Indices: 713354--713388 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
713344 ACGTATTATT
713354 TTTAAACTTAATA
1 TTTAAACTTAATA
713367 TTTAAACTTAATA
1 TTTAAACTTAATA
713380 TTTAAACTT
1 TTTAAACTT
713389 TTTGTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTAAACTTAATA
Found at i:719665 original size:19 final size:19
Alignment explanation
Indices: 719573--719734 Score: 105
Period size: 19 Copynumber: 8.4 Consensus size: 19
719563 ATTCTTCATA
719573 ATGCACTTCGTGTGCCAAG-
1 ATGCACTTCGTGTGCC-AGT
* *
719592 ATACACATCGTGTGCCAGAT
1 ATGCACTTCGTGTGCCAG-T
* * ** * *
719612 ATACGCTTCGTGCACTAGG
1 ATGCACTTCGTGTGCCAGT
* *
719631 ATGCACTTTGTATGCCAGT
1 ATGCACTTCGTGTGCCAGT
719650 ATGCACTTCGTGTGCCAAG-
1 ATGCACTTCGTGTGCC-AGT
*
719669 ATGCA-TATCGTGTTCCAGAT
1 ATGCACT-TCGTGTGCCAG-T
* * *
719689 ATGCGCTTCGTGCGCCAGG
1 ATGCACTTCGTGTGCCAGT
* * *
719708 ATGTATTTTGTGTGCCAGT
1 ATGCACTTCGTGTGCCAGT
719727 ATGCACTT
1 ATGCACTT
719735 TTTGCGCCAG
Statistics
Matches: 105, Mismatches: 31, Indels: 14
0.70 0.21 0.09
Matches are distributed among these distances:
18 5 0.05
19 71 0.68
20 28 0.27
21 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (19 bp):
ATGCACTTCGTGTGCCAGT
Found at i:719700 original size:77 final size:77
Alignment explanation
Indices: 719573--719734 Score: 243
Period size: 77 Copynumber: 2.1 Consensus size: 77
719563 ATTCTTCATA
*
719573 ATGCACTTCGTGTGCCAAGATACACATCGTGTGCCAGATATACGCTTCGTGCACTAGGATGCACT
1 ATGCACTTCGTGTGCCAAGATACACATCGTGTGCCAGATATACGCTTCGTGCACCAGGATGCACT
719638 TTGTATGCCAGT
66 TTGTATGCCAGT
* * * * * * *
719650 ATGCACTTCGTGTGCCAAGATGCATATCGTGTTCCAGATATGCGCTTCGTGCGCCAGGATGTATT
1 ATGCACTTCGTGTGCCAAGATACACATCGTGTGCCAGATATACGCTTCGTGCACCAGGATGCACT
*
719715 TTGTGTGCCAGT
66 TTGTATGCCAGT
719727 ATGCACTT
1 ATGCACTT
719735 TTTGCGCCAG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (77 bp):
ATGCACTTCGTGTGCCAAGATACACATCGTGTGCCAGATATACGCTTCGTGCACCAGGATGCACT
TTGTATGCCAGT
Found at i:719743 original size:19 final size:19
Alignment explanation
Indices: 719698--719755 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
719688 TATGCGCTTC
*
719698 GTGCGCCAGGATGTATTTT
1 GTGCGCCAGGATGCATTTT
* *
719717 GTGTGCCAGTATGCACTTTT
1 GTGCGCCAGGATGCA-TTTT
*
719737 -TGCGCCAGGATGCGTTTT
1 GTGCGCCAGGATGCATTTT
719755 G
1 G
719756 CACGCTAGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 4 0.13
19 23 0.74
20 4 0.13
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.36
Consensus pattern (19 bp):
GTGCGCCAGGATGCATTTT
Found at i:719755 original size:38 final size:38
Alignment explanation
Indices: 719573--719755 Score: 150
Period size: 39 Copynumber: 4.8 Consensus size: 38
719563 ATTCTTCATA
* * * ** *
719573 ATGCACTTCGTGTGCCAAGATACACATCGTGTGCCAGAT
1 ATGCACTTCGTGCGCCAGGATGCATTTTGTGTGCCAG-T
* * * * * *
719612 ATACGCTTCGTGCACTAGGATGCACTTTGTATGCCAGT
1 ATGCACTTCGTGCGCCAGGATGCATTTTGTGTGCCAGT
* * * * *
719650 ATGCACTTCGTGTGCCAAGATGCATATCGTGTTCCAGAT
1 ATGCACTTCGTGCGCCAGGATGCATTTTGTGTGCCAG-T
* *
719689 ATGCGCTTCGTGCGCCAGGATGTATTTTGTGTGCCAGT
1 ATGCACTTCGTGCGCCAGGATGCATTTTGTGTGCCAGT
** *
719727 ATGCACTTTTTGCGCCAGGATGCGTTTTG
1 ATGCACTTCGTGCGCCAGGATGCATTTTG
719756 CACGCTAGTA
Statistics
Matches: 110, Mismatches: 33, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
38 52 0.47
39 58 0.53
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.32
Consensus pattern (38 bp):
ATGCACTTCGTGCGCCAGGATGCATTTTGTGTGCCAGT
Found at i:720675 original size:12 final size:12
Alignment explanation
Indices: 720658--720682 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
720648 TTGAATGCAA
720658 TTGGTATATTAT
1 TTGGTATATTAT
720670 TTGGTATATTAT
1 TTGGTATATTAT
720682 T
1 T
720683 GAATTGATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGGTATATTAT
Found at i:729351 original size:42 final size:43
Alignment explanation
Indices: 729305--729402 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 43
729295 CACGACCTGG
* * * *
729305 CACACAGCCGTGTGAC-CTAAGTTAGAGAGTTATACGGTCT-GA
1 CACACAACCATGTGACTC-AAGTTAGAGAGTCACACGGTCTAGA
*
729347 CACACAACCATGTTACTCAAGTTAGAGAGTCACACGGTCTAGA
1 CACACAACCATGTGACTCAAGTTAGAGAGTCACACGGTCTAGA
* *
729390 TACACACCCATGT
1 CACACAACCATGT
729403 CATTCGACCG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 33 0.70
43 14 0.30
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (43 bp):
CACACAACCATGTGACTCAAGTTAGAGAGTCACACGGTCTAGA
Found at i:730536 original size:273 final size:273
Alignment explanation
Indices: 730043--730583 Score: 920
Period size: 273 Copynumber: 2.0 Consensus size: 273
730033 AGGATAAAGG
* *
730043 AAGAAATAAAACGTGAAAGAAATTTTAACAAAAATAAAGGAATTTAATTACCTTAAAATAGACTA
1 AAGAAATAAAACGTGAAAAAAATTTTAACAAAAATAAAGGAATTTAATTACCTTAAAATAAACTA
* * * *
730108 ATTTTTATAAACTAGTATAAGATGTTTTCTCATAGCTTTTGCAGAAACTTGAACACAAGAGCAAA
66 ATTTTTATAAACTAGCATAAGATATTTTCTCATAGCTTTTGCAGAAACTCGAACACAAGACCAAA
** **
730173 GGGTATACAAAAGTTTAACCATTAAACCAGTAAGCTCATTCTTAACACAAGTTTATGCAAAATTA
131 GGGTATACAAAAGTTTAACCATTAAACCAACAAGCTCATTCTTAACACAAGTTTACACAAAATTA
* *
730238 ATCTTAAGTCGAAAGTTTAAAAGTGAGGGTTGATTCAAAACAAATAGCAAAATTTCCAAAAATGG
196 ATCTTAAGTCAAAAGTTTAAAAGTGAGGGTTGATTCAAAACAAAAAGCAAAATTTCCAAAAATGG
730303 GACTTGAATGTGA
261 GACTTGAATGTGA
730316 AAGAAATAAAACGTGAAAAAAATTTTAACAAAAATAAAGGAATTTAATTACCTTAAAATAAACTA
1 AAGAAATAAAACGTGAAAAAAATTTTAACAAAAATAAAGGAATTTAATTACCTTAAAATAAACTA
*
730381 ATTTTTATAAACTAGCATAAGATATTTTCTCATAGCTTTTGCAGAAACTCGAACATAAGACCAAA
66 ATTTTTATAAACTAGCATAAGATATTTTCTCATAGCTTTTGCAGAAACTCGAACACAAGACCAAA
* * * *
730446 GGTTATACAAAAGTTTAACTATTAAACCAACAAGCTCATTCTTAATATAAGTTTACACAAAATTA
131 GGGTATACAAAAGTTTAACCATTAAACCAACAAGCTCATTCTTAACACAAGTTTACACAAAATTA
*
730511 ATCTTAAGTCAAAAGTTTGAAAGTGAGGGTTGATTCAAAACAAAAAGCAAAATTTCCAAAAATGG
196 ATCTTAAGTCAAAAGTTTAAAAGTGAGGGTTGATTCAAAACAAAAAGCAAAATTTCCAAAAATGG
730576 GACTTGAA
261 GACTTGAA
730584 CCCCAAACCT
Statistics
Matches: 250, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
273 250 1.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.28
Consensus pattern (273 bp):
AAGAAATAAAACGTGAAAAAAATTTTAACAAAAATAAAGGAATTTAATTACCTTAAAATAAACTA
ATTTTTATAAACTAGCATAAGATATTTTCTCATAGCTTTTGCAGAAACTCGAACACAAGACCAAA
GGGTATACAAAAGTTTAACCATTAAACCAACAAGCTCATTCTTAACACAAGTTTACACAAAATTA
ATCTTAAGTCAAAAGTTTAAAAGTGAGGGTTGATTCAAAACAAAAAGCAAAATTTCCAAAAATGG
GACTTGAATGTGA
Found at i:730625 original size:20 final size:21
Alignment explanation
Indices: 730588--730630 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
730578 CTTGAACCCC
*
730588 AAACCTTAAGCACATAAA-TA
1 AAACCTTAACCACATAAAGTA
730608 AAACACTTAACCAC-TAAAGTA
1 AAAC-CTTAACCACATAAAGTA
730629 AA
1 AA
730631 TACTTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACCTTAACCACATAAAGTA
Found at i:732611 original size:26 final size:25
Alignment explanation
Indices: 732582--732640 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
732572 ATTAAAATTT
*
732582 TCTTTAATGGAAAGAACAAGTTAAG
1 TCTTTAATGGAAAGAACAAATTAAG
*
732607 ATCTTTGATGGAAAGAACAAATTAAG
1 -TCTTTAATGGAAAGAACAAATTAAG
*
732633 TGTTTAAT
1 TCTTTAAT
732641 CTGGTCACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (25 bp):
TCTTTAATGGAAAGAACAAATTAAG
Found at i:733135 original size:17 final size:18
Alignment explanation
Indices: 733113--733150 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
733103 CCACTGTTAG
733113 CCTTGTTC-T-TTTTGCTT
1 CCTTGTTCGTGTTTTG-TT
733130 CCTTGTTCGTGTTTTGTT
1 CCTTGTTCGTGTTTTGTT
733148 CCT
1 CCT
733151 CTGCGCCGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.00, C:0.24, G:0.16, T:0.61
Consensus pattern (18 bp):
CCTTGTTCGTGTTTTGTT
Found at i:735659 original size:31 final size:31
Alignment explanation
Indices: 735621--735684 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
735611 ACATAGTCCT
*
735621 CTTTCCCTTGTGCAATAAAACCCTCTGGCTG
1 CTTTCCCTTGTGCAACAAAACCCTCTGGCTG
735652 CTTTCCCTTGTGCAACAAAACCCTCTGGCTG
1 CTTTCCCTTGTGCAACAAAACCCTCTGGCTG
735683 CT
1 CT
735685 CCATGTAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.34, G:0.16, T:0.31
Consensus pattern (31 bp):
CTTTCCCTTGTGCAACAAAACCCTCTGGCTG
Found at i:741003 original size:13 final size:13
Alignment explanation
Indices: 740985--741018 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
740975 TGGGTGCCTG
740985 AAAAAAATAAAAT
1 AAAAAAATAAAAT
*
740998 AAAAAAATAACAT
1 AAAAAAATAAAAT
*
741011 AATAAAAT
1 AAAAAAAT
741019 GTTTGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:743220 original size:20 final size:20
Alignment explanation
Indices: 743195--743235 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
743185 TTAAGTTCTC
*
743195 TATTTT-TTTGTTTTTTTATT
1 TATTTTATTT-TTCTTTTATT
743215 TATTTTATTTTTCTTTTATT
1 TATTTTATTTTTCTTTTATT
743235 T
1 T
743236 TTTCTCTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (20 bp):
TATTTTATTTTTCTTTTATT
Found at i:743894 original size:10 final size:10
Alignment explanation
Indices: 743857--743895 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
743847 TAAACTTTGT
743857 TTTATATATA
1 TTTATATATA
*
743867 TATATATATA
1 TTTATATATA
*
743877 CTTATATATA
1 TTTATATATA
*
743887 TTTTTATAT
1 TTTATATAT
743896 TCTATAATCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTATATATA
Found at i:750675 original size:13 final size:13
Alignment explanation
Indices: 750657--750681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
750647 TTATCATCTA
750657 TCATTTATTTATT
1 TCATTTATTTATT
750670 TCATTTATTTAT
1 TCATTTATTTAT
750682 CTACGCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTATTTATT
Found at i:751408 original size:22 final size:22
Alignment explanation
Indices: 751381--751449 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
751371 CCCTTGATCC
751381 TTTTAACACTAT-TTTTATATAT
1 TTTTAA-ACTATCTTTTATATAT
*
751403 TTTTAAACTGTCTTTT-T-TAT
1 TTTTAAACTATCTTTTATATAT
*
751423 TATTTAAGACTTTCTTTTATATAT
1 T-TTTAA-ACTATCTTTTATATAT
751447 TTT
1 TTT
751450 ATTTTAAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 4 0.10
21 10 0.25
22 19 0.47
23 3 0.08
24 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (22 bp):
TTTTAAACTATCTTTTATATAT
Found at i:751822 original size:38 final size:37
Alignment explanation
Indices: 751738--751832 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
751728 TATACGTACT
*
751738 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTACATATTT-ATAATTC
* *
751776 T-TATATACTTACATATATTTATACATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TACATATTTATA-ATTC
*
751812 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
751833 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTACATATTTATAATTC
Found at i:752490 original size:106 final size:106
Alignment explanation
Indices: 752302--752502 Score: 366
Period size: 106 Copynumber: 1.9 Consensus size: 106
752292 AAAGTTTTTC
*
752302 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTAGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGAGCTAGGTTTCGAT
*
752367 TTCTCGTTCGACCAAATAGTCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
*
752408 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGAGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGAGCTAGGTTTCGAT
*
752473 TTCTCGTTCGACTAAATAGCCAAATATCCT
66 TTCTCGTTCGACCAAATAGCCAAATATCCT
752503 CTTAAAGCTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGAGCTAGGTTTCGAT
TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
Found at i:757377 original size:13 final size:13
Alignment explanation
Indices: 757359--757384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
757349 TTGCAGACTA
757359 AGTGTGAAAGTCT
1 AGTGTGAAAGTCT
757372 AGTGTGAAAGTCT
1 AGTGTGAAAGTCT
757385 CGATCCGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
AGTGTGAAAGTCT
Found at i:769322 original size:5 final size:5
Alignment explanation
Indices: 769312--769336 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
769302 GTTCTAAAGA
769312 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
769337 AATAAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:769365 original size:13 final size:13
Alignment explanation
Indices: 769347--769371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
769337 AATAAATATG
769347 TTAATTCATTTAA
1 TTAATTCATTTAA
769360 TTAATTCATTTA
1 TTAATTCATTTA
769372 TATTTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAATTCATTTAA
Found at i:785784 original size:3 final size:3
Alignment explanation
Indices: 785776--785820 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
785766 GCCTTACTAT
785776 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
785821 GACAAGCTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:786221 original size:44 final size:44
Alignment explanation
Indices: 786158--786252 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
786148 TGCCCTTAAA
*
786158 CATTTCATGCATTCATCATCTAAACATATCACAATCATCCAAGC
1 CATTTCATGCATTCATCATCTAAACATATCACAATCACCCAAGC
*
786202 CATTTCTTGCATTCATCATCTAAACATATCACAATCACCCAAGC
1 CATTTCATGCATTCATCATCTAAACATATCACAATCACCCAAGC
*
786246 CAATTCA
1 CATTTCA
786253 ACTTTCACAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (44 bp):
CATTTCATGCATTCATCATCTAAACATATCACAATCACCCAAGC
Found at i:789910 original size:32 final size:31
Alignment explanation
Indices: 789880--789946 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 31
789870 GCCGAATTGA
*
789880 TTTATATGTATATATATACATTGTCGAATTGA
1 TTTATATGTATATATATA-ATTGCCGAATTGA
*
789912 TTTGTCTATGTATATATAT-ATTGCCGAATTGA
1 -TT-TATATGTATATATATAATTGCCGAATTGA
789944 TTT
1 TTT
789947 GAGCATTGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 1 0.03
31 2 0.06
32 12 0.39
33 2 0.06
34 14 0.45
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.49
Consensus pattern (31 bp):
TTTATATGTATATATATAATTGCCGAATTGA
Found at i:789947 original size:32 final size:32
Alignment explanation
Indices: 789853--789947 Score: 124
Period size: 32 Copynumber: 3.0 Consensus size: 32
789843 AATTCAAATA
*
789853 TATATGT-TTTATATATTGCCGAATTGA-TT-
1 TATATGTATATATATATTGCCGAATTGATTTG
*
789882 TATATGTATATATATACATTGTCGAATTGATTTG
1 TATATGTATATATAT--ATTGCCGAATTGATTTG
*
789916 TCTATGTATATATATATTGCCGAATTGATTTG
1 TATATGTATATATATATTGCCGAATTGATTTG
789948 AGCATTGGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.12
30 6 0.11
32 28 0.49
33 2 0.04
34 14 0.25
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.48
Consensus pattern (32 bp):
TATATGTATATATATATTGCCGAATTGATTTG
Found at i:790167 original size:48 final size:48
Alignment explanation
Indices: 790115--790287 Score: 240
Period size: 48 Copynumber: 3.6 Consensus size: 48
790105 TGAGAAAATC
*
790115 TATAAGACCATATCTGGGATATGGCATCGGCATTGATTTAAGATCCCG
1 TATAAGACCATATCTGGGATATGGCATCGGCATTGATTTGAGATCCCG
* * * * *
790163 TATAAGACCATATCTGGGATATGACATCGACATCGATTCGAGATCCCA
1 TATAAGACCATATCTGGGATATGGCATCGGCATTGATTTGAGATCCCG
* **
790211 TATAAGACCATATCTGGGAGATGGCA-CTGGCATTGATTTGAGATTTCG
1 TATAAGACCATATCTGGGATATGGCATC-GGCATTGATTTGAGATCCCG
*
790259 TATAAGACCATATCTGGGATATAGCATCG
1 TATAAGACCATATCTGGGATATGGCATCG
790288 TTATGAGACT
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
47 1 0.01
48 105 0.98
49 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (48 bp):
TATAAGACCATATCTGGGATATGGCATCGGCATTGATTTGAGATCCCG
Found at i:790311 original size:42 final size:43
Alignment explanation
Indices: 790240--790363 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 43
790230 GATGGCACTG
* * *
790240 GCATTGATTTGAGATTTCGTATAAGACCATATCTGGGATA-TA
1 GCATCGATATGAGATTTCGTGTAAGACCATATCTGGGATATTA
* * * * *
790282 GCATCGTTATGAGACTTCGTGTAATACCATAGCTGGGATATTG
1 GCATCGATATGAGATTTCGTGTAAGACCATATCTGGGATATTA
* *
790325 GCATCGATATGAGATTTCCATGTAAGACCATGTCTGGGA
1 GCATCGATATGAGATTT-CGTGTAAGACCATATCTGGGA
790364 CAGGGCATTT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 33 0.50
43 16 0.24
44 17 0.26
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GCATCGATATGAGATTTCGTGTAAGACCATATCTGGGATATTA
Found at i:791397 original size:57 final size:57
Alignment explanation
Indices: 791327--791448 Score: 199
Period size: 57 Copynumber: 2.1 Consensus size: 57
791317 TATGTGAGTC
* ** *
791327 TAGTTTTGGTAAAATCAAGTGGATCTTAATTTGGAGTTCTGTAGCGCAAGATATAAA
1 TAGTTTAGGTAAAATCAAGTGGATCTTAATTTAAAGTTCTGTAGCACAAGATATAAA
791384 TAGTTTAGGTAAAATCAAGTGGATCTTAATTTAAAGTTCTGTAGCACAAGATATAAA
1 TAGTTTAGGTAAAATCAAGTGGATCTTAATTTAAAGTTCTGTAGCACAAGATATAAA
*
791441 TAATTTAG
1 TAGTTTAG
791449 TGACTATCAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (57 bp):
TAGTTTAGGTAAAATCAAGTGGATCTTAATTTAAAGTTCTGTAGCACAAGATATAAA
Found at i:803570 original size:21 final size:21
Alignment explanation
Indices: 803546--803626 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
803536 CACGAAAGAA
*
803546 CATAAGTGCTAAACTGAAACC
1 CATAAGGGCTAAACTGAAACC
* * *
803567 CATAAGGGTTGAAC-GAAAGCT
1 CATAAGGGCTAAACTGAAA-CC
*
803588 CATAAGAGCTAAA-TGGAAACC
1 CATAAGGGCTAAACT-GAAACC
* *
803609 CATGAGGGTTAAACTGAA
1 CATAAGGGCTAAACTGAA
803627 GCTCAAAAGA
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
20 4 0.09
21 36 0.80
22 5 0.11
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (21 bp):
CATAAGGGCTAAACTGAAACC
Found at i:803583 original size:42 final size:42
Alignment explanation
Indices: 803531--803618 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
803521 AAAGCCCAAA
* *
803531 GGTTGCACGAAAGAACATAAGTGCTAAACT-GAAACCCATAAG
1 GGTTGAACGAAAGAACATAAGAGCTAAA-TGGAAACCCATAAG
** *
803573 GGTTGAACGAAAGCTCATAAGAGCTAAATGGAAACCCATGAG
1 GGTTGAACGAAAGAACATAAGAGCTAAATGGAAACCCATAAG
803615 GGTT
1 GGTT
803619 AAACTGAAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.03
42 39 0.98
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (42 bp):
GGTTGAACGAAAGAACATAAGAGCTAAATGGAAACCCATAAG
Found at i:803629 original size:42 final size:41
Alignment explanation
Indices: 803546--803705 Score: 146
Period size: 42 Copynumber: 3.8 Consensus size: 41
803536 CACGAAAGAA
* *
803546 CATAAGTGCTAAACTGAAACCCATAAGGGTTGAAC-GAAAGCT
1 CATAAGAGCTAAA-TGAAACCCATAAGGGTTAAACTG-AAGCT
*
803588 CATAAGAGCTAAATGGAAACCCATGAGGGTTAAACTGAAGCT
1 CATAAGAGCTAAAT-GAAACCCATAAGGGTTAAACTGAAGCT
* * * * * * *
803630 CAAAAGAGCTGAACTAAAACTCAAAAGGGTTATACTAAAGCT
1 CATAAGAGCT-AAATGAAACCCATAAGGGTTAAACTGAAGCT
*
803672 CA-AAGAGCTAAACAGAAACCCATTAA-GGTTAAAC
1 CATAAGAGCTAAA-TGAAACCCA-TAAGGGTTAAAC
803706 GGTAACTTGT
Statistics
Matches: 96, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
40 2 0.02
41 21 0.22
42 69 0.72
43 4 0.04
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.18
Consensus pattern (41 bp):
CATAAGAGCTAAATGAAACCCATAAGGGTTAAACTGAAGCT
Found at i:805479 original size:187 final size:189
Alignment explanation
Indices: 805161--805533 Score: 660
Period size: 187 Copynumber: 2.0 Consensus size: 189
805151 GTGGGGAACA
805161 AAGCTTTTAGATGGATGGTTGGGAATGGAAGGATGGCGATGTTTTGAGAGGATATTTGGTGTTGT
1 AAGCTTTTAGATGGATGGTTGGGAATGGAAGGATGGCGATGTTTTGAGAGGATATTTGGTGTTGT
* *
805226 AATCAACCACAAAAAAAAAAAGAATTTCCTAGAGTTTTTCGCTTAGCAAGAAAAAAGAAAGGTAT
66 AATCAACCAC-AAAAAAAAAAGAATTTCCTAGAGTGTTCCGCTTAGCAAGAAAAAAGAAAGGTAT
805291 GGTAACAGATTACTCGAGCAACAATGGTTTCAGCAATATGAATTACGGTGAATTCTAACG
130 GGTAACAGATTACTCGAGCAACAATGGTTTCAGCAATATGAATTACGGTGAATTCTAACG
805351 AAGCTTTTAGATGGATGGTTGGGAATGGAAGGAT-GCGATGTTTTGAGAGGATATTTGGTGTTGT
1 AAGCTTTTAGATGGATGGTTGGGAATGGAAGGATGGCGATGTTTTGAGAGGATATTTGGTGTTGT
805415 AATCAACCAC-AAAAAAAAAGAATTTCCTAGAGTGTTCCGCTTAGCAAGAAAAAAGAAAGGTATG
66 AATCAACCACAAAAAAAAAAGAATTTCCTAGAGTGTTCCGCTTAGCAAGAAAAAAGAAAGGTATG
* * * * *
805479 GTAACAGATTATTCGAGCAACAATGGTTTTAGCAATGTGAATTATGGTTAATTCT
131 GTAACAGATTACTCGAGCAACAATGGTTTCAGCAATATGAATTACGGTGAATTCT
805534 TTACACGAAC
Statistics
Matches: 176, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
187 102 0.58
189 40 0.23
190 34 0.19
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (189 bp):
AAGCTTTTAGATGGATGGTTGGGAATGGAAGGATGGCGATGTTTTGAGAGGATATTTGGTGTTGT
AATCAACCACAAAAAAAAAAGAATTTCCTAGAGTGTTCCGCTTAGCAAGAAAAAAGAAAGGTATG
GTAACAGATTACTCGAGCAACAATGGTTTCAGCAATATGAATTACGGTGAATTCTAACG
Found at i:806883 original size:3 final size:3
Alignment explanation
Indices: 806875--806913 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
806865 GCCTTACTAT
806875 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
806914 GACAAGCTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:808543 original size:20 final size:20
Alignment explanation
Indices: 808520--808560 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
808510 ACACGGGCGT
*
808520 GTAGACCACCACACGACCTA
1 GTAGACCACCACACAACCTA
*
808540 GTAGACCTCCACACAACCTA
1 GTAGACCACCACACAACCTA
808560 G
1 G
808561 GCACTACCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.39, G:0.15, T:0.12
Consensus pattern (20 bp):
GTAGACCACCACACAACCTA
Found at i:809788 original size:46 final size:46
Alignment explanation
Indices: 809721--809815 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
809711 CAGAACTGTC
809721 AAATGATTCCATAAGAATTACTTCCGACTTGCGTCGAATGCCATTT
1 AAATGATTCCATAAGAATTACTTCCGACTTGCGTCGAATGCCATTT
*
809767 AAATGATTCCATATGAATTACTTCCGACTTGCGTCGAATGCCATTT
1 AAATGATTCCATAAGAATTACTTCCGACTTGCGTCGAATGCCATTT
809813 AAA
1 AAA
809816 CTTTGTTTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (46 bp):
AAATGATTCCATAAGAATTACTTCCGACTTGCGTCGAATGCCATTT
Found at i:810191 original size:22 final size:23
Alignment explanation
Indices: 810155--810204 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
810145 AAATATAACC
*
810155 GATTTTGAAATAAAATTTAAACA
1 GATTCTGAAATAAAATTTAAACA
*
810178 GATTCTGAAA-AAAATTTTAACA
1 GATTCTGAAATAAAATTTAAACA
810200 GATTC
1 GATTC
810205 CCTAAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (23 bp):
GATTCTGAAATAAAATTTAAACA
Found at i:810211 original size:22 final size:22
Alignment explanation
Indices: 810166--810212 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
810156 ATTTTGAAAT
**
810166 AAAATTTAAACAGATTCTGAAA
1 AAAATTTAAACAGATTCCCAAA
* *
810188 AAAATTTTAACAGATTCCCTAA
1 AAAATTTAAACAGATTCCCAAA
810210 AAA
1 AAA
810213 TCGTGGTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28
Consensus pattern (22 bp):
AAAATTTAAACAGATTCCCAAA
Found at i:814203 original size:74 final size:74
Alignment explanation
Indices: 814080--814227 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
814070 GATTTTCTTG
814080 GATTACTTCTAAATGCCTATCATGATTCGGATGCGAAAAACAGGATTTCATTGGAAGACGTGGTA
1 GATTACTTCTAAATGCCTATCATGATTCGGATGCGAAAAACAGGATTTCATTGGAAGACGTGGTA
814145 GCTGAATGC
66 GCTGAATGC
* *
814154 GATTACTTCTAAATGCCTATTATGATTCGGATGCGAAAAACAGGCTTTCATTGGAAGACGTGGTA
1 GATTACTTCTAAATGCCTATCATGATTCGGATGCGAAAAACAGGATTTCATTGGAAGACGTGGTA
814219 GCTGAATGC
66 GCTGAATGC
814228 AAAACACTCT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (74 bp):
GATTACTTCTAAATGCCTATCATGATTCGGATGCGAAAAACAGGATTTCATTGGAAGACGTGGTA
GCTGAATGC
Found at i:819782 original size:12 final size:12
Alignment explanation
Indices: 819765--819789 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
819755 CAATTAAAAC
819765 TTTATTACTTTT
1 TTTATTACTTTT
819777 TTTATTACTTTT
1 TTTATTACTTTT
819789 T
1 T
819790 ATTGTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTACTTTT
Found at i:820943 original size:26 final size:26
Alignment explanation
Indices: 820912--820998 Score: 75
Period size: 30 Copynumber: 3.2 Consensus size: 26
820902 CCTATTTTTT
* **
820912 AATAAACACCAAAAATTTATTTTAAA
1 AATAAAAACCAAAAAAGTATTTTAAA
*
820938 AATAAAAAACTAAAAAAGTATTTTAAA
1 AAT-AAAAACCAAAAAAGTATTTTAAA
**
820965 AATATTTTAAAATTAAAAAAGTATTTTAAA
1 AATA----AAAACCAAAAAAGTATTTTAAA
820995 AATA
1 AATA
820999 TTTTAAAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
26 4 0.08
27 22 0.43
30 25 0.49
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (26 bp):
AATAAAAACCAAAAAAGTATTTTAAA
Found at i:820970 original size:11 final size:11
Alignment explanation
Indices: 820950--821006 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
820940 TAAAAAACTA
820950 AAAAAGTATTTT
1 AAAAA-TATTTT
820962 AAAAATATTTT
1 AAAAATATTTT
*
820973 --AAA-A-TTA
1 AAAAATATTTT
820980 AAAAAGTATTTT
1 AAAAA-TATTTT
820992 AAAAATATTTT
1 AAAAATATTTT
821003 AAAA
1 AAAA
821007 TTAAAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
7 2 0.05
8 1 0.03
9 6 0.16
11 17 0.45
12 12 0.32
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:820984 original size:30 final size:30
Alignment explanation
Indices: 820943--821013 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
820933 TTAAAAATAA
*
820943 AAAACTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAGTATTTTAAAAATATTTT
820973 AAAATTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAGTATTTTAAAAATATTTT
821003 AAAATTAAAAA
1 AAAATTAAAAA
821014 TTAAAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTAAAAAAGTATTTTAAAAATATTTT
Found at i:823142 original size:46 final size:46
Alignment explanation
Indices: 823079--823203 Score: 205
Period size: 46 Copynumber: 2.7 Consensus size: 46
823069 TAATAGAAAC
823079 TAGATACACGAATAAGGAAAGATATGATATGAAATTGTGCTATTAAAT
1 TAGATACA--AATAAGGAAAGATATGATATGAAATTGTGCTATTAAAT
* *
823127 TAGATACAAATAAGGAAAAATATGATATCAAATTGTGCTATTAAAT
1 TAGATACAAATAAGGAAAGATATGATATGAAATTGTGCTATTAAAT
*
823173 TAGATACAAATAAGGAAAGATATGGTATGAA
1 TAGATACAAATAAGGAAAGATATGATATGAA
823204 TTACTTATGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
46 64 0.89
48 8 0.11
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.28
Consensus pattern (46 bp):
TAGATACAAATAAGGAAAGATATGATATGAAATTGTGCTATTAAAT
Found at i:823178 original size:25 final size:24
Alignment explanation
Indices: 823110--823183 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
823100 ATATGATATG
823110 AAATTGTGCTATTAAATTAGATAC
1 AAATTGTGCTATTAAATTAGATAC
* *
823134 AAATAAG-G--A--AAAATATGATATC
1 AAAT-TGTGCTATTAAATTA-GATA-C
823156 AAATTGTGCTATTAAATTAGATAC
1 AAATTGTGCTATTAAATTAGATAC
823180 AAAT
1 AAAT
823184 AAGGAAAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
20 5 0.13
21 5 0.13
22 7 0.18
24 11 0.29
25 5 0.13
26 5 0.13
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (24 bp):
AAATTGTGCTATTAAATTAGATAC
Found at i:830747 original size:14 final size:14
Alignment explanation
Indices: 830728--830756 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
830718 TTTATAATTC
830728 TATATACACATATA
1 TATATACACATATA
830742 TATATACACATATA
1 TATATACACATATA
830756 T
1 T
830757 CTTTTTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (14 bp):
TATATACACATATA
Found at i:832544 original size:47 final size:50
Alignment explanation
Indices: 832450--832548 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 50
832440 TCTTAATTCA
* *
832450 AATAATTCAAAAAATTGTAAAAAAAATTACTAGAAAATTTAAAAAATATT
1 AATAATTCAAAAAATTATAAAAAAAATTACCAGAAAATTTAAAAAATATT
* * * *
832500 AATAA-TCTAAAAATTATAAAAAAAATTCCCA-ATAA-TTCAAAAATATT
1 AATAATTCAAAAAATTATAAAAAAAATTACCAGAAAATTTAAAAAATATT
832547 AA
1 AA
832549 AACTTAGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
47 13 0.30
48 3 0.07
49 22 0.51
50 5 0.12
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (50 bp):
AATAATTCAAAAAATTATAAAAAAAATTACCAGAAAATTTAAAAAATATT
Found at i:832592 original size:22 final size:20
Alignment explanation
Indices: 832565--832604 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
832555 GAAAATTATG
832565 AAAATTATAAACAATTATAATC
1 AAAATT-TAAA-AATTATAATC
*
832587 AAAATTTTAAAATTATAA
1 AAAATTTAAAAATTATAA
832605 AGAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTTAAAAATTATAATC
Found at i:832858 original size:21 final size:19
Alignment explanation
Indices: 832834--832879 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
832824 GTAAAAATAC
832834 CATAAAATTCTTAAAAATTTT
1 CATAAAATTC-T-AAAATTTT
*
832855 CATAAGATTCTAAAATTTT
1 CATAAAATTCTAAAATTTT
832874 C-TAAAA
1 CATAAAA
832880 AAAACCCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 4 0.17
19 9 0.39
20 1 0.04
21 9 0.39
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (19 bp):
CATAAAATTCTAAAATTTT
Found at i:833617 original size:18 final size:18
Alignment explanation
Indices: 833594--833636 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
833584 GAATAGGTTT
833594 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
833612 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
833630 TTAATTA
1 TTAATTA
833637 CATCTTCAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:843430 original size:34 final size:32
Alignment explanation
Indices: 843392--843463 Score: 74
Period size: 34 Copynumber: 2.1 Consensus size: 32
843382 TAATCTTAAA
*
843392 ATATGCGTATACTTATATACATTT-TATAATACAT
1 ATATGCATATA-TTATAT-CATTTATAT-ATACAT
*
843426 ATATGTGCATATATTTTATCATTTATATATACAT
1 ATA--TGCATATATTATATCATTTATATATACAT
843460 ATAT
1 ATAT
843464 ATTTGTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
32 1 0.03
34 17 0.52
35 8 0.24
36 7 0.21
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.47
Consensus pattern (32 bp):
ATATGCATATATTATATCATTTATATATACAT
Found at i:846206 original size:6 final size:7
Alignment explanation
Indices: 846196--846228 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
846186 TAAAATTATT
846196 TAAAAT-
1 TAAAATC
*
846202 TAAAATA
1 TAAAATC
846209 TAAAATC
1 TAAAATC
846216 TAAAATC
1 TAAAATC
846223 TAAAAT
1 TAAAAT
846229 TATAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAAATC
Found at i:847377 original size:76 final size:76
Alignment explanation
Indices: 846577--847346 Score: 1524
Period size: 76 Copynumber: 10.1 Consensus size: 76
846567 ACTTAGAATA
*
846577 TTTTAAAATTTTTAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
846642 ACTATGATTTT
66 ACTATGATTTT
846653 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
846718 ACTATGATTTT
66 ACTATGATTTT
846729 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
846794 ACTATGATTTT
66 ACTATGATTTT
846805 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
846870 ACTATGATTTT
66 ACTATGATTTT
846881 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
846946 ACTATGATTTT
66 ACTATGATTTT
846957 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
847022 ACTATGATTTT
66 ACTATGATTTT
847033 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
847098 ACTATGATTTT
66 ACTATGATTTT
847109 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
847174 ACTATGATTTT
66 ACTATGATTTT
847185 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
847250 ACTATGATTTT
66 ACTATGATTTT
847261 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
847326 ACTATGA-TTT
66 ACTATGATTTT
847336 TTTTAAAATTT
1 TTTTAAAATTT
847347 AATAAGTTTT
Statistics
Matches: 693, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
75 14 0.02
76 679 0.98
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (76 bp):
TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
ACTATGATTTT
Found at i:847454 original size:26 final size:25
Alignment explanation
Indices: 847406--847456 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
847396 TTTTGAGTTT
**
847406 TAAAACTATGATTTTGTGGAATTTA
1 TAAAACTATGATTTTGTAAAATTTA
*
847431 TAAAACTATGATTTTTTTAAAATTTA
1 TAAAACTATGA-TTTTGTAAAATTTA
847457 ATAAGTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (25 bp):
TAAAACTATGATTTTGTAAAATTTA
Found at i:847491 original size:109 final size:109
Alignment explanation
Indices: 847261--847493 Score: 457
Period size: 109 Copynumber: 2.1 Consensus size: 109
847251 CTATGATTTT
*
847261 TTTTAAAATTTTAAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTTAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
847326 ACTATGATTTTTTTAAAATTTAATAAGTTTTTAGTTTTTCTATA
66 ACTATGATTTTTTTAAAATTTAATAAGTTTTTAGTTTTTCTATA
847370 TTTTAAAATTTTTAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
1 TTTTAAAATTTTTAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
847435 ACTATGATTTTTTTAAAATTTAATAAGTTTTTAGTTTTTCTATA
66 ACTATGATTTTTTTAAAATTTAATAAGTTTTTAGTTTTTCTATA
847479 TTTTAAAATTTTTAA
1 TTTTAAAATTTTTAA
847494 GTGAATTTAA
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 123 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (109 bp):
TTTTAAAATTTTTAAAAATCATAACTTTTTGAGTTTTAAAACTATGATTTTGTGGAATTTATAAA
ACTATGATTTTTTTAAAATTTAATAAGTTTTTAGTTTTTCTATA
Found at i:849567 original size:60 final size:60
Alignment explanation
Indices: 849474--849594 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
849464 GGTCTTGTGT
849474 TGGTATGAGCTTTGCAACCATGGAAACAAAGATTGCACTCTCCATGATTCTTCAACGCTA
1 TGGTATGAGCTTTGCAACCATGGAAACAAAGATTGCACTCTCCATGATTCTTCAACGCTA
*
849534 TGGTATGAGCTTTGCAACCATGGAAACAAAGATTGCGCTCTCCATGATTCTTCAACGCTA
1 TGGTATGAGCTTTGCAACCATGGAAACAAAGATTGCACTCTCCATGATTCTTCAACGCTA
849594 T
1 T
849595 ACCATTTCCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (60 bp):
TGGTATGAGCTTTGCAACCATGGAAACAAAGATTGCACTCTCCATGATTCTTCAACGCTA
Found at i:859497 original size:26 final size:27
Alignment explanation
Indices: 859464--859519 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
859454 CCCTTTTTAA
*
859464 TTAAAATTTATCGAAATGGGCCACTTTT
1 TTAATATTTATCGAAATGGGCCA-TTTT
*
859492 TTAATTATTTATCGGAATGGGCCATTTT
1 TTAA-TATTTATCGAAATGGGCCATTTT
859520 CCGCGAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (27 bp):
TTAATATTTATCGAAATGGGCCATTTT
Found at i:859898 original size:126 final size:125
Alignment explanation
Indices: 859713--859995 Score: 430
Period size: 126 Copynumber: 2.3 Consensus size: 125
859703 TTATTTCGAG
**
859713 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTAT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTAT
859777 GAAATCGTC-CCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATT-TGTTT
65 GAAATCG-CGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTAT-TTT
*
859838 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTAT-ATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCA-GAGAAGAAATTA
*
859902 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
* * *
859964 TTGATGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
859996 GCCCTCGTGG
Statistics
Matches: 146, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
125 32 0.22
126 112 0.77
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTATG
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
Found at i:861928 original size:30 final size:29
Alignment explanation
Indices: 861804--862544 Score: 922
Period size: 29 Copynumber: 25.5 Consensus size: 29
861794 TTTTGTTAAT
* *
861804 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* **
861833 GGTTAGGGCTTTTAATTAAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
861861 GGTTAGCGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
861890 GGTTAGGGTTTTTAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* **
861919 GGTTTAGGGTTCTTAATTAAATTAAATTA-
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
* *
861948 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
861977 GGTTAGGGTTTTTAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* **
862006 GGTTTAGGGTTCTTAATTAAATTAAATTA-
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
* *
862035 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* **
862064 GGTTAGGGTTTTTAATGAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
862093 GGTTAGGGTTTTTAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* **
862122 GGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
862152 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* **
862181 GGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
**
862211 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
862240 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
862269 GGTTTAGGGTTCTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
* **
862299 GGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
*
862329 GGTTAGGGTTTTTCATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
862358 GATTTAGGGTTCTTAATTAAA--A--TTAG
1 G-GTTAGGGTTTTTAATTAAATTAGGTTAG
862384 GGTTAGGGTTTTTAATTAAATTAGGTTAAG
1 GGTTAGGGTTTTTAATTAAATTAGGTT-AG
* * **
862414 GTTTAGGGTTCTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
862443 GGCTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* **
862472 GGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
862502 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
862531 GGTT-GGGTTTTTAA
1 GGTTAGGGTTTTTAA
862545 ACAAATTATA
Statistics
Matches: 611, Mismatches: 86, Indels: 31
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.03
26 5 0.01
27 1 0.00
28 75 0.12
29 296 0.48
30 217 0.36
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.44
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:862153 original size:59 final size:59
Alignment explanation
Indices: 861804--862534 Score: 1047
Period size: 59 Copynumber: 12.6 Consensus size: 59
861794 TTTTGTTAAT
* *
861804 GGTTAGGGTTTTTAATTAAAATGGGTTAGGG-TTAGGGCTT-TTAATTAAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGG-TTCTTAATTAAATTAAATTAG
* * * * * **
861861 GGTTAGCGTTTTTAATTAAAATGGGTTAGGG-TTAGGGTTTTTAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
* ** * * ***
861919 GGTTTAGGGTTCTTAATTAAATTAAATTA-GG-TTAGGGTTTTTAATTAAAATGGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
*
861977 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
* * * *
862035 GGTTAGGGTTTTTAATTAAAATGGGTTAGGG-TTAGGGTTTTTAATGAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
*
862093 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
862152 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
** * **
862211 GGTTAGGGTTTTTAATTAAATTAAATTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
*
862269 GGTTTAGGGTTCTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
* *
862329 GGTTAGGGTTTTTCATTAAATTAGGTTAGGATTTAGGGTTCTTAATT--A--AAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
*
862384 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
*
862443 GGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
862502 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
862535 GGGTTTTTAA
Statistics
Matches: 608, Mismatches: 53, Indels: 24
0.89 0.08 0.04
Matches are distributed among these distances:
55 51 0.08
56 2 0.00
57 98 0.16
58 114 0.19
59 317 0.52
60 26 0.04
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (59 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTCTTAATTAAATTAAATTAG
Found at i:878981 original size:157 final size:157
Alignment explanation
Indices: 878820--879103 Score: 462
Period size: 157 Copynumber: 1.8 Consensus size: 157
878810 ATTAAGAATT
* * *
878820 TTATT-AAATTATATATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAA
1 TTATTGAAATT-TAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAA
*
878884 ACATAATTATTATTAAACATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACC
65 ACATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTACC
878949 AGAAATTTGTTTTGGTAAATTATTATTG
130 AGAAATTTGTTTTGGTAAATTATTATTG
** * *
878977 TTATTGTTATTTAAATTTTGATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAA
1 TTATTGAAATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
* *
879042 CATAATTATTATTAAATATATTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 CATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
879104 ATATTCTTAT
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
157 113 0.97
158 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (157 bp):
TTATTGAAATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
CATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCA
GAAATTTGTTTTGGTAAATTATTATTG
Found at i:879100 original size:82 final size:81
Alignment explanation
Indices: 878857--879106 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
878847 TATTATTATC
* * *
878857 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
878922 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
878939 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
878993 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
879014 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
879079 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
879096 AATAATTAATA
1 AATAATAAATA
879107 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:879177 original size:157 final size:155
Alignment explanation
Indices: 878840--879161 Score: 349
Period size: 157 Copynumber: 2.0 Consensus size: 155
878830 ATATATTTTA
* * * *
878840 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * * ** *
878905 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCAGAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
* * * * *
878970 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
878997 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * **
879062 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-A
879127 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
879158 ATAA
1 ATAA
879162 TTTGAAATAA
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 102 0.74
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:890475 original size:44 final size:44
Alignment explanation
Indices: 890410--890832 Score: 316
Period size: 44 Copynumber: 9.6 Consensus size: 44
890400 TTTATTACCA
* * * *
890410 TGAAGTTGCAATAGAGCAGATTCAAGCAATAAATCTTATCTCCT
1 TGAAGTTGCAGTAGAACAGATTAAAGCTATAAATCTTATCTCCT
** * * * *
890454 TGAAGTTGCAGTAGAGTAGATTAAAGCCACAAATCTTATTTCTT
1 TGAAGTTGCAGTAGAACAGATTAAAGCTATAAATCTTATCTCCT
* * * * *
890498 TGTAGTTGCAGTGGAACAGATTGAAA-ATAACAAATCTTATCTCTT
1 TGAAGTTGCAGTAGAACAGATT-AAAGCT-ATAAATCTTATCTCCT
* ** * *
890543 TGAAGTTGTAGTAGATTAGATTAAAGCCATAAATCTTATCTCCC
1 TGAAGTTGCAGTAGAACAGATTAAAGCTATAAATCTTATCTCCT
* * * * *
890587 TGAAGTTGCAGTGGAATAGATTAAAACTATAAATCTTATTTCCC
1 TGAAGTTGCAGTAGAACAGATTAAAGCTATAAATCTTATCTCCT
* * * * * *
890631 TAAAGTTGCAGT-GCAACATATTGAAGATAGTATA-CTTGTCT-CT
1 TGAAGTTGCAGTAG-AACAGATTAAAGCTA-TAAATCTTATCTCCT
* * * *
890674 CTGAAGTTGCAGTAGATCAGATTGAAGCTACAAATCTTATCTCCC
1 -TGAAGTTGCAGTAGAACAGATTAAAGCTATAAATCTTATCTCCT
* * ** ** *
890719 TGAAGTTGCAGTAGAGCAGATTAAAGATAGCAGCCATTATCTCCC
1 TGAAGTTGCAGTAGAACAGATTAAAGCTATAAATC-TTATCTCCT
* * *
890764 TGAAGTTGCAGTGGAACAGATTAATGCTACAAATCTTATCT-CT
1 TGAAGTTGCAGTAGAACAGATTAAAGCTATAAATCTTATCTCCT
* **
890807 CTGAAGTTGTAGTAGAGTAGATTAAA
1 -TGAAGTTGCAGTAGAACAGATTAAA
890833 ATTACAATTC
Statistics
Matches: 299, Mismatches: 69, Indels: 22
0.77 0.18 0.06
Matches are distributed among these distances:
43 5 0.02
44 218 0.73
45 76 0.25
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (44 bp):
TGAAGTTGCAGTAGAACAGATTAAAGCTATAAATCTTATCTCCT
Found at i:890556 original size:89 final size:87
Alignment explanation
Indices: 890440--890832 Score: 353
Period size: 89 Copynumber: 4.4 Consensus size: 87
890430 TTCAAGCAAT
* * ** *
890440 AAATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATTAAAGCCACAAATCTTATTTCTTTGTAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
890505 GCAGTGGAACAGATTGAAAATAAC
66 GCAGTGGAACAGATT-AAAAT-AC
** * * *
890529 AAATCTTATCTCTTTGAAGTTGTAGTAGATTAGATTAAAGCCATAAATCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
* *
890594 GCAGTGGAATAGATTAAAACTAT
66 GCAGTGGAACAGATTAAAA-TAC
* * ** * * * * * *
890617 AAATCTTATTTCCCTAAAGTTGCAGT-GCAACATATTGAAG--ATAGTATACTTGTCTCTCTGAA
1 AAATCTTATCTCCCTGAAGTTGCAGTAG-AGTAGATTAAAGCCACA-AAT-CTTATCTCCCTGAA
* * **
890679 GTTGCAGTAGATCAGATTGAAGCTAC
63 GTTGCAGTGGAACAGATT-AAAATAC
* ** **
890705 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGATAGC-AGCCATTATCTCCCTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCCA-CAAATC-TTATCTCCCTGAAG
**
890769 TTGCAGTGGAACAGATTAATGCTAC
64 TTGCAGTGGAACAGATTAA-AATAC
* *
890794 AAATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATTAAA
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAA
890833 ATTACAATTC
Statistics
Matches: 249, Mismatches: 44, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
86 3 0.01
87 3 0.01
88 99 0.40
89 143 0.57
90 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (87 bp):
AAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
GCAGTGGAACAGATTAAAATAC
Found at i:890654 original size:133 final size:133
Alignment explanation
Indices: 890427--890832 Score: 462
Period size: 133 Copynumber: 3.1 Consensus size: 133
890417 GCAATAGAGC
* * * *
890427 AGATTCAAGCAATAAATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATTAAAGCCACAAATCTTA
1 AGATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAACTACAAATCTTA
** * * *
890492 TTTCTTTGTAGTTGCAGTGGAACAGATTGAAAATAACAAATCTTATCTCTTTGAAGTTGTAGTAG
66 TTTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGTAGTAG
890557 ATT
131 ATT
* * * *
890560 AGATTAAAGCCATAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAACTATAAATCTTA
1 AGATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAACTACAAATCTTA
* * * ** * * *
890625 TTTCCCTAAAGTTGCAGTGCAACATATTGAAGATAGTATA-CTTGTCTCTCTGAAGTTGCAGTAG
66 TTTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGTAGTAG
*
890689 ATC
131 ATT
* * * * **
890692 AGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGA-TAGC-AGCCA
1 AGATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAA-ACTA-CAAATC-
* *
890755 TTATCTCCCTGAAGTTGCAGTGGAACAGATT-AATGCT-ACAAATCTTATCTCTCTGAAGTTGTA
63 TTATTTCCCTGAAGTTGCAGTGGAACAGATTGAA-GATAACAAATCTTATCTCTCTGAAGTTGTA
*
890818 GTAGAGT
127 GTAGATT
890825 AGATTAAA
1 AGATTAAA
890833 ATTACAATTC
Statistics
Matches: 224, Mismatches: 44, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
132 77 0.34
133 147 0.66
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (133 bp):
AGATTAAAGCAATAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAACTACAAATCTTA
TTTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGTAGTAG
ATT
Found at i:890864 original size:221 final size:221
Alignment explanation
Indices: 890454--890864 Score: 486
Period size: 221 Copynumber: 1.9 Consensus size: 221
890444 CTTATCTCCT
* ** * *
890454 TGAAGTTGCAGTAGAGTAGATTAAAGCCACAAATCTTATTTCTTTGTAGTTGCAGTGGAACAGAT
1 TGAAGTTGCAGTAGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGAT
* ** * ** *
890519 TGAAAATAACAAATCTTATCTCTTTGAAGTTGTAGTAGATTAGATTAAAGCCATAAATCTTATCT
66 TGAAAATAACAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCCACAAATCTTATCT
* * * ** *
890584 CCCTGAAGTTGCAGTGGAATAGATTAAAACTATAAATCTTATTTCCCTAAAGTTGCAGTGCAACA
131 CCCTGAAGTTGCAGTAGAATAGATTAAAACTACAAATCCTATACCCCTAAAGCTGCAGTGCAACA
890649 TATTGAAGATAGTATACTTGTCTCTC
196 TATTGAAGATAGTATACTTGTCTCTC
* * *
890675 TGAAGTTGCAGTAGA-TCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
1 TGAAGTTGCAGTAGAGT-AGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGA
* * * * *
890739 TT-AAAGATAGC-AGCCATTATCTCCCTGAAGTTGCAGTGGAACAGATTAATGCTACAAATCTTA
65 TTGAAA-ATAACAAACC-TTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCCACAAATCTTA
* * * * * *
890802 TCTCTCTGAAGTTGTAGTAGAGTAGATTAAAATTACAATTCCTATACCCCTGAAGCTGCAGTG
128 TCTCCCTGAAGTTGCAGTAGAATAGATTAAAACTACAAATCCTATACCCCTAAAGCTGCAGTG
890865 GGTTAGAATA
Statistics
Matches: 155, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
220 6 0.04
221 149 0.96
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (221 bp):
TGAAGTTGCAGTAGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGAT
TGAAAATAACAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCCACAAATCTTATCT
CCCTGAAGTTGCAGTAGAATAGATTAAAACTACAAATCCTATACCCCTAAAGCTGCAGTGCAACA
TATTGAAGATAGTATACTTGTCTCTC
Found at i:896426 original size:21 final size:21
Alignment explanation
Indices: 896400--896440 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
896390 AGACGAGCAA
* *
896400 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
896421 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
896441 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:905822 original size:23 final size:23
Alignment explanation
Indices: 905796--905847 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
905786 AATTAAAAAG
905796 ATGAAAGCAT-TATAGCTATCATT
1 ATGAAAGCATAT-TAGCTATCATT
*
905819 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
905842 ATGAAA
1 ATGAAA
905848 CCAAGTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:913881 original size:8 final size:8
Alignment explanation
Indices: 913868--913895 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
913858 CGTTTATTTT
913868 AAATATTA
1 AAATATTA
913876 AAATATTA
1 AAATATTA
913884 AAATATTA
1 AAATATTA
913892 AAAT
1 AAAT
913896 CTAATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATATTA
Found at i:914314 original size:18 final size:17
Alignment explanation
Indices: 914274--914321 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
914264 TATTATTAAG
*
914274 TTTA-TATAAGATATTA
1 TTTATTATAAAATATTA
914290 TTTATTATAAAATATTA
1 TTTATTATAAAATATTA
*
914307 TCTTATTAAAAAATA
1 T-TTATTATAAAATA
914322 AATTTTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.14
17 12 0.43
18 12 0.43
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTATTATAAAATATTA
Found at i:921616 original size:47 final size:44
Alignment explanation
Indices: 921545--921632 Score: 140
Period size: 47 Copynumber: 1.9 Consensus size: 44
921535 ACAAAAATTT
*
921545 GGGGGGGGGGGGGGGGCCCCGCCCCCTTAAATCCTGCCCTTNTGG
1 GGGGGGGGGGGGGGGGCCCAGCCCCCTTAAATCCTGCCCTT-TGG
921590 GGGGGGGGGGGGGGGGCTGCCAGCCCCCTTAAATCCTGCCCTT
1 GGGGGGGGGGGGGGGGC--CCAGCCCCCTTAAATCCTGCCCTT
921633 GGCTGACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 17 0.43
47 23 0.57
ACGTcount: A:0.08, C:0.31, G:0.44, T:0.16
Consensus pattern (44 bp):
GGGGGGGGGGGGGGGGCCCAGCCCCCTTAAATCCTGCCCTTTGG
Found at i:926986 original size:29 final size:27
Alignment explanation
Indices: 926921--926996 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 27
926911 ATTTAAAATT
926921 TTATAAAAAGTA-TAAAATCATAAAAA
1 TTATAAAAAGTATTAAAATCATAAAAA
*
926947 TAATATAAAAAAGTATTAAAATTGATATAAAA
1 T--TAT-AAAAAGTATTAAAA-TCATA-AAAA
* *
926979 TTATAAAAATTATAAAAA
1 TTATAAAAAGTATTAAAA
926997 AATCGCAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 1 0.02
28 3 0.07
29 20 0.49
30 8 0.20
31 4 0.10
32 5 0.12
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (27 bp):
TTATAAAAAGTATTAAAATCATAAAAA
Found at i:926996 original size:9 final size:9
Alignment explanation
Indices: 926831--926996 Score: 88
Period size: 9 Copynumber: 17.4 Consensus size: 9
926821 AAAATATAAG
926831 AAAATTGATA
1 AAAATT-ATA
926841 TAAAATTATA
1 -AAAATTATA
* *
926851 AATATTTTA
1 AAAATTATA
*
926860 AATATTATA
1 AAAATTATA
926869 AAAATCTA-A
1 AAAAT-TATA
*
926878 GAAATTAT-
1 AAAATTATA
926886 AAAA-TATA
1 AAAATTATA
*
926894 TAATATTAATA
1 -AAAATT-ATA
*
926905 AAATATATTTA
1 AAA-AT-TATA
*
926916 AAATTTTATA
1 AAA-ATTATA
*
926926 AAAAGTAT-
1 AAAATTATA
*
926934 AAAATCATA
1 AAAATTATA
926943 AAAATAATATAA
1 AAAAT--TAT-A
* *
926955 AAAAGTATT
1 AAAATTATA
926964 AAAATTGATA
1 AAAATT-ATA
926974 TAAAATTATA
1 -AAAATTATA
926984 AAAATTATA
1 AAAATTATA
926993 AAAA
1 AAAA
926997 AATCGCAATA
Statistics
Matches: 121, Mismatches: 20, Indels: 30
0.71 0.12 0.18
Matches are distributed among these distances:
7 3 0.02
8 11 0.09
9 53 0.44
10 22 0.18
11 26 0.21
12 6 0.05
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:927476 original size:27 final size:28
Alignment explanation
Indices: 927428--927501 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 28
927418 GTTTATATCA
* * *
927428 ATTTTTATTTTTTTTTATTTTTAAA-A-
1 ATTTTAATATTTTTTTAATTTTAAATAG
927454 ATTTTAATACTTTTTTTAATTTTAAATAG
1 ATTTTAATA-TTTTTTTAATTTTAAATAG
*
927483 GTTTTAATA-TTTTTTAATT
1 ATTTTAATATTTTTTTAATT
927502 ATTATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 7 0.17
27 25 0.61
28 1 0.02
29 8 0.20
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (28 bp):
ATTTTAATATTTTTTTAATTTTAAATAG
Found at i:927549 original size:17 final size:17
Alignment explanation
Indices: 927508--927564 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
927498 AATTATTATA
*
927508 TTTT-ATATTTTA-CAA
1 TTTTAATATTTTACCAT
*
927523 TTTTAATAATTTTATATCAT
1 TTTTAAT-A-TTT-TACCAT
927543 TTTTAATATTTTACCAT
1 TTTTAATATTTTACCAT
927560 TTTTA
1 TTTTA
927565 TGATTTGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 4 0.11
16 2 0.06
17 11 0.31
18 6 0.17
19 3 0.09
20 9 0.26
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAATATTTTACCAT
Found at i:930909 original size:11 final size:11
Alignment explanation
Indices: 930895--930919 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
930885 AAATTGATAT
930895 AAAATTATAAA
1 AAAATTATAAA
930906 AAAATTATAAA
1 AAAATTATAAA
930917 AAA
1 AAA
930920 TCGTAAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:930917 original size:9 final size:9
Alignment explanation
Indices: 930744--930918 Score: 77
Period size: 9 Copynumber: 18.1 Consensus size: 9
930734 TAGTTTTTCC
*
930744 ATTAAAAAA
1 ATTATAAAA
*
930753 ATTTTAAAA
1 ATTATAAAA
*
930762 ATTATAAAT
1 ATTATAAAA
930771 ATT-TCAAAA
1 ATTAT-AAAA
*
930780 AATATAAAA
1 ATTATAAAA
*
930789 AATATAAGAA
1 ATTATAA-AA
930799 ATTAT-AAA
1 ATTATAAAA
*
930807 ATATATATAAT
1 AT-TATA-AAA
930818 ATTAATAAAA
1 ATT-ATAAAA
*
930828 CATATTTAAAA
1 -AT-TATAAAA
*
930839 TTTTATAAAA
1 -ATTATAAAA
**
930849 CGTAT-AAA
1 ATTATAAAA
*
930857 ATCATAAAA
1 ATTATAAAA
930866 ATAATATAAAA
1 AT--TATAAAA
* *
930877 AGGTATTAAA
1 A-TTATAAAA
930887 ATTGATATAAA
1 ATT-ATA-AAA
930898 ATTATAAAAAA
1 ATTAT--AAAA
930909 ATTATAAAA
1 ATTATAAAA
930918 A
1 A
930919 ATCGTAAGAA
Statistics
Matches: 126, Mismatches: 23, Indels: 34
0.69 0.13 0.19
Matches are distributed among these distances:
8 10 0.08
9 51 0.40
10 27 0.21
11 36 0.29
12 2 0.02
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (9 bp):
ATTATAAAA
Found at i:931279 original size:28 final size:26
Alignment explanation
Indices: 931248--931418 Score: 90
Period size: 28 Copynumber: 6.4 Consensus size: 26
931238 TATTTTTGTA
931248 ATTTTTATAAGTTTATATCAATTTTAAT
1 ATTTTTATAA-TTTATAT-AATTTTAAT
* * *
931276 ATTTTTTATTATTTTTAAAAATTTTAAT
1 A-TTTTTATAATTTAT-ATAATTTTAAT
* * *
931304 ATGTTTTTTAATTTTAAATAGGTTTTAAT
1 AT-TTTTATAA-TTTATATA-ATTTTAAT
931333 ATTTTT-TAA-TTAT-TATATTTT-AT
1 ATTTTTATAATTTATATA-ATTTTAAT
*
931356 A-TTTTACAATTT-TAATAATTTTATAT
1 ATTTTTATAATTTAT-ATAATTTTA-AT
*
931382 CATTTTTA-ATATTT-TATAATTTTTAT
1 -ATTTTTATA-ATTTATATAATTTTAAT
931408 GATTTTT-TAAT
1 -ATTTTTATAAT
931419 AATTTTTATG
Statistics
Matches: 113, Mismatches: 15, Indels: 33
0.70 0.09 0.20
Matches are distributed among these distances:
22 4 0.04
23 6 0.05
24 13 0.12
25 7 0.06
26 11 0.10
27 14 0.12
28 37 0.33
29 21 0.19
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (26 bp):
ATTTTTATAATTTATATAATTTTAAT
Found at i:931337 original size:27 final size:25
Alignment explanation
Indices: 931267--931418 Score: 96
Period size: 27 Copynumber: 5.8 Consensus size: 25
931257 AGTTTATATC
931267 AATTTTAATATTTTTTATTATTTTTAAA
1 AATTTTAATATTTTTTA--A-TTTTAAA
931295 AATTTTAATATGTTTTTTAATTTTAAA
1 AATTTTAATA--TTTTTTAATTTTAAA
*
931322 TAGGTTTTAATATTTTTTAATTATT--A
1 -A-ATTTTAATATTTTTTAATT-TTAAA
* ** *
931348 TATTTT-ATATTTTACAATTTTAAT
1 AATTTTAATATTTTTTAATTTTAAA
* *
931372 AATTTT-ATATCATTTTTAATATTTTAT
1 AATTTTAATAT--TTTTTAAT-TTTAAA
*
931399 AATTTTTATGATTTTTTAAT
1 AATTTTAAT-ATTTTTTAAT
931419 AATTTTTATG
Statistics
Matches: 102, Mismatches: 10, Indels: 25
0.74 0.07 0.18
Matches are distributed among these distances:
22 2 0.02
23 11 0.11
24 13 0.13
26 7 0.07
27 36 0.35
28 16 0.16
29 10 0.10
30 7 0.07
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (25 bp):
AATTTTAATATTTTTTAATTTTAAA
Found at i:931391 original size:17 final size:17
Alignment explanation
Indices: 931268--931426 Score: 76
Period size: 19 Copynumber: 8.9 Consensus size: 17
931258 GTTTATATCA
* *
931268 ATTTTAATATTTTTTATT
1 ATTTT-ATAATTTTTAAT
* *
931286 ATTTTTAAAAATTTTAAT
1 A-TTTTATAATTTTTAAT
* *
931304 ATGTTTTTTAATTTTAAAT
1 A--TTTTATAATTTTTAAT
*
931323 AGGTTTTAATATTTTTTAAT
1 A--TTTT-ATAATTTTTAAT
*
931343 -TATTAT-A-TTTT-AT
1 ATTTTATAATTTTTAAT
*
931356 ATTTTACAA-TTTTAAT
1 ATTTTATAATTTTTAAT
931372 AATTTTATATCATTTTTAAT
1 -ATTTTATA--ATTTTTAAT
931392 ATTTTATAATTTTTATGAT
1 ATTTTATAATTTTTA--AT
*
931411 TTTTTAATAATTTTTA
1 ATTTT-ATAATTTTTA
931427 TGGGAAACAT
Statistics
Matches: 109, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
13 2 0.02
14 8 0.07
15 5 0.05
16 4 0.04
17 17 0.16
18 10 0.09
19 37 0.34
20 26 0.24
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (17 bp):
ATTTTATAATTTTTAAT
Found at i:947867 original size:16 final size:16
Alignment explanation
Indices: 947846--947876 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
947836 ATTTCCTAAT
*
947846 AATAATTAATTAATGC
1 AATAATTAAATAATGC
947862 AATAATTAAATAATG
1 AATAATTAAATAATG
947877 AATTTTACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AATAATTAAATAATGC
Done.