Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 58 of 344
Found at i:18747045 original size:40 final size:39
Alignment explanation
Indices: 18746994--18747070 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 39
18746984 TGTGTTTTTG
*
18746994 TTTCATATAATATTATTATAATAGGGGATTTAGCATGTTT
1 TTTCATATAATATTACTATAATA-GGGATTTAGCATGTTT
18747034 TTTCATATAATATTACTATAATAGGGATTTAGCATGT
1 TTTCATATAATATTACTATAATAGGGATTTAGCATGT
18747071 CACAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 14 0.39
40 22 0.61
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.45
Consensus pattern (39 bp):
TTTCATATAATATTACTATAATAGGGATTTAGCATGTTT
Found at i:18755232 original size:43 final size:43
Alignment explanation
Indices: 18755185--18755267 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
18755175 ATGATTGATT
** *
18755185 TTGAAATGGCAAAGATGATAAATGAATATGAGATAAGAAAATA
1 TTGAAATGAAAAAGATGAGAAATGAATATGAGATAAGAAAATA
* * * *
18755228 TTGAAATGAAAAATATGAGAAATGATTATGTGATGAGAAA
1 TTGAAATGAAAAAGATGAGAAATGAATATGAGATAAGAAA
18755268 TGAAATATGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.52, C:0.01, G:0.22, T:0.25
Consensus pattern (43 bp):
TTGAAATGAAAAAGATGAGAAATGAATATGAGATAAGAAAATA
Found at i:18756449 original size:49 final size:49
Alignment explanation
Indices: 18756372--18756472 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
18756362 TCTAGAAGGG
* * *
18756372 ATAAATAGTGATAAGAGTGTAGAAAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGAAAGTGGAAAACCAAGTTTAGAAATGT
* *
18756421 ATAAATAGTTATAAGAGTGTAGATAGTGGAAAACCAAGTTTAGAAATGT
1 ATAAATAGTGATAAGAGTGTAGAAAGTGGAAAACCAAGTTTAGAAATGT
18756470 ATA
1 ATA
18756473 GCATAATTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.45, C:0.04, G:0.24, T:0.28
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGAAAGTGGAAAACCAAGTTTAGAAATGT
Found at i:18759501 original size:7 final size:7
Alignment explanation
Indices: 18759489--18759521 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
18759479 ACATGGTCAT
18759489 TTCTTAA
1 TTCTTAA
18759496 TTCTTAA
1 TTCTTAA
18759503 TTCTTAA
1 TTCTTAA
18759510 TTCTTAA
1 TTCTTAA
18759517 TTCTT
1 TTCTT
18759522 TTTACAACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (7 bp):
TTCTTAA
Found at i:18767396 original size:25 final size:25
Alignment explanation
Indices: 18767362--18767410 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
18767352 GTGGATTTTT
18767362 CCTTAGGTATTGTCTTAATTCAATA
1 CCTTAGGTATTGTCTTAATTCAATA
18767387 CCTTAGGTATTGTCTTAATTCAAT
1 CCTTAGGTATTGTCTTAATTCAAT
18767411 CGGTTTTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (25 bp):
CCTTAGGTATTGTCTTAATTCAATA
Found at i:18768503 original size:11 final size:11
Alignment explanation
Indices: 18768487--18768511 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18768477 AACGAAAAAG
18768487 AAAAAACAAGA
1 AAAAAACAAGA
18768498 AAAAAACAAGA
1 AAAAAACAAGA
18768509 AAA
1 AAA
18768512 TGGCAGAAAA
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:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAACAAGA
Found at i:18768670 original size:16 final size:16
Alignment explanation
Indices: 18768649--18768683 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18768639 TTGATTTTAA
18768649 TTTTCTCTTCTATTTT
1 TTTTCTCTTCTATTTT
* *
18768665 TTTTCTCTTTTCTTTT
1 TTTTCTCTTCTATTTT
18768681 TTT
1 TTT
18768684 GATTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTCTTCTATTTT
Found at i:18769621 original size:15 final size:15
Alignment explanation
Indices: 18769603--18769631 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18769593 TTTTCAATAT
18769603 TTTTTTGTATTATTA
1 TTTTTTGTATTATTA
18769618 TTTTTTGTATTATT
1 TTTTTTGTATTATT
18769632 GTTATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (15 bp):
TTTTTTGTATTATTA
Found at i:18769650 original size:20 final size:20
Alignment explanation
Indices: 18769625--18769677 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
18769615 TTATTTTTTG
*
18769625 TATTATTGTTATTATTAATA
1 TATTATTATTATTATTAATA
* *
18769645 TATTATTATTATTCTTAATG
1 TATTATTATTATTATTAATA
18769665 TATTATTATTATT
1 TATTATTATTATT
18769678 TATCTTCCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
TATTATTATTATTATTAATA
Found at i:18769699 original size:3 final size:3
Alignment explanation
Indices: 18769610--18769677 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
18769600 TATTTTTTTG
* * *
18769610 TAT TAT TAT T-T TTT GTAT TAT TGT TAT TAT TAA TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
18769654 TAT TCT TAAT GTAT TAT TAT TAT T
1 TAT TAT T-AT -TAT TAT TAT TAT T
18769678 TATCTTCCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 4 0.07
3 44 0.81
4 5 0.09
5 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18769710 original size:22 final size:23
Alignment explanation
Indices: 18769665--18769718 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
18769655 ATTCTTAATG
18769665 TATTATTATTATTTATCTTCCAC
1 TATTATTATTATTTATCTTCCAC
18769688 T-TTATTATTATTGTA-CTAT-CAC
1 TATTATTATTATT-TATCT-TCCAC
18769710 TATTATTAT
1 TATTATTAT
18769719 CATCATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.28, C:0.13, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTATTATTATTTATCTTCCAC
Found at i:18769795 original size:3 final size:3
Alignment explanation
Indices: 18769787--18769879 Score: 63
Period size: 3 Copynumber: 32.0 Consensus size: 3
18769777 ACTTACGTCG
* * * *
18769787 TTA TTA TTA TTA TTA TTA CTA TTA TTA TT- TTCA TTG TTG GTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* *
18769831 TGTA TCA TTA TTA TTA TTA TT- TTCA TCA TTA TT- TTA TT- TT- TTA
1 T-TA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
18769874 TTA TTA
1 TTA TTA
18769880 ATGCTATAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
2 11 0.15
3 57 0.79
4 4 0.06
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:18769856 original size:18 final size:18
Alignment explanation
Indices: 18769787--18769879 Score: 79
Period size: 18 Copynumber: 5.3 Consensus size: 18
18769777 ACTTACGTCG
18769787 TTATTATTATTATT-ATTA
1 TTATTATTATT-TTCATTA
* *
18769805 CTATTATTATTTTCATTG
1 TTATTATTATTTTCATTA
** *
18769823 TTGGTATT-TGTATCATTA
1 TTATTATTAT-TTTCATTA
*
18769841 TTATTATTATTTTCATCA
1 TTATTATTATTTTCATTA
18769859 TTATT-TTATTTT--TTA
1 TTATTATTATTTTCATTA
18769874 TTATTA
1 TTATTA
18769880 ATGCTATAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
15 7 0.12
17 10 0.17
18 41 0.69
19 1 0.02
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (18 bp):
TTATTATTATTTTCATTA
Found at i:18774820 original size:10 final size:10
Alignment explanation
Indices: 18774805--18774829 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18774795 CCTATACAAG
18774805 AAGGACTTCA
1 AAGGACTTCA
18774815 AAGGACTTCA
1 AAGGACTTCA
18774825 AAGGA
1 AAGGA
18774830 AAGTGTACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (10 bp):
AAGGACTTCA
Found at i:18776295 original size:44 final size:44
Alignment explanation
Indices: 18776198--18776857 Score: 382
Period size: 44 Copynumber: 15.2 Consensus size: 44
18776188 TCACAGATCC
* * ** * *
18776198 TATCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCAC-CATCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAAATCT
* * * * *
18776240 TATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTACAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAAATCT
* * * *
18776284 TATCTCCCTAAGCAGTAGTGGAATAGATCGAATATGGCAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAAATCT
* * * * * *
18776328 TGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCT--C-CATCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAG-ATGACAAATCT
* * * * * *
18776370 TATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTG-TAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA-TGACAAATCT
* * *
18776414 TATTTCCCCTAAGCAGTAGTGGAGCAGATAGAAGATGGA-AAATCT
1 TATCT-CCCTAAGCAGTAGTGGAGTAGATTGAAGAT-GACAAATCT
* * * * * * ** * *
18776459 TGTCTTCCTAAGTAGTAGTGGAGCATATTTAAG-CCAC-CATCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAAATCT
* * * * *
18776501 TATCTCTCTAAGCAATAGTGGAGTAGGTTGAAGATTG-TAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA-TGACAAATCT
* * * ** *
18776545 TGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGCAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAAATCT
* * * * ** *
18776589 TGTCTCCTTAAGCAGTAGTGGAGCAGATTTAAG-CCAC-CATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAAATCT
* * *
18776631 TGTCTCCCTAAGCAGTAGTGGAATAGATCGAAGATGGA-AAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGAT-GACAAATCT
* * **
18776675 TGTCTCCCTAAGCAGTAGTGGAATAGATCAAAGATGGA-AAATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGAT-GACAAATCT
* * ** * *
18776719 TGTCTCCCTAAGCAGTAGTGGAGTAGATTTAAG-CCAC-CATCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAAATCT
* * * * * *
18776761 TATCTCTCTAAGTAATAGTGGAGTAGGTTGAAGATTG-TAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA-TGACAAATCT
* * * * *
18776805 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAAATAT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAAATCT
*
18776849 TGTCTCCCT
1 TATCTCCCT
18776858 GATACGTGAT
Statistics
Matches: 475, Mismatches: 121, Indels: 42
0.74 0.19 0.07
Matches are distributed among these distances:
42 151 0.32
43 8 0.02
44 283 0.60
45 33 0.07
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAAATCT
Found at i:18776370 original size:86 final size:86
Alignment explanation
Indices: 18776242--18776857 Score: 361
Period size: 86 Copynumber: 7.1 Consensus size: 86
18776232 CACCATCCTA
* * * ** * * *
18776242 TCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTACAGATCCTATCTCCCTAAGCAGTAGTGGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCTAC--ATCTTGTCTCCCTAAGCAGTAGTGGAG
*
18776307 TAGATCGAATATGGCAAATCTTG
64 TAGATCGAAGATGGCAAATCTTG
* * * * *
18776330 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCTCCATCCTATCTCCCTAAGTAGTAGTGGAGTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCTACATCTTGTCTCCCTAAGCAGTAGTGGAGTA
* * * * * * *
18776395 GGTTGAAAATTGTAGATCCTATT
66 GATCGAAGATGGCAAAT-CT-TG
* * * * *
18776418 TC-CCCTAAGCAGTAGTGGAGCAGATAGAAG-ATGGAAAATCTTGTCTTCCTAAGTAGTAGTGGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCT---ACATCTTGTCTCCCTAAGCAGTAGTGGA
* * ** * * * *
18776481 GCATAT-TTA-A-GCCACCATCCTA
63 GTAGATCGAAGATGGCA-AATCTTG
* * * * ** * *
18776503 TCTCTCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTAGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAG--CCTACATCTTGTCTCCCTAAGCAGTAGTGGAG
* *
18776568 CAGATCAAAGATGGCAAATCTTG
64 TAGATCGAAGATGGCAAATCTTG
* * *
18776591 TCTCCTTAAGCAGTAGTGGAGCAGATTTAAGCC-ACCATCTTGTCTCCCTAAGCAGTAGTGGAAT
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCTA-CATCTTGTCTCCCTAAGCAGTAGTGGAGT
*
18776655 AGATCGAAGATGGAAAATCTTG
65 AGATCGAAGATGGCAAATCTTG
** ** * *
18776677 TCTCCCTAAGCAGTAGTGGAATAGATCAAAG-ATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCT---ACATCTTGTCTCCCTAAGCAGTAGTGGA
** * * * *
18776741 GTAGAT-TTA-A-GCCACCATCCTA
63 GTAGATCGAAGATGGCA-AATCTTG
* * * * * ** * * *
18776763 TCTCTCTAAGTAATAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAG--CCTACATCTTGTCTCCCTAAGCAGTAGTGGAG
* *
18776828 CAGATCGAAGATGGCAAATATTG
64 TAGATCGAAGATGGCAAATCTTG
18776851 TCTCCCT
1 TCTCCCT
18776858 GATACGTGAT
Statistics
Matches: 402, Mismatches: 101, Indels: 50
0.73 0.18 0.09
Matches are distributed among these distances:
85 6 0.01
86 223 0.55
87 34 0.08
88 104 0.26
89 35 0.09
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (86 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCTACATCTTGTCTCCCTAAGCAGTAGTGGAGTA
GATCGAAGATGGCAAATCTTG
Found at i:18776619 original size:130 final size:130
Alignment explanation
Indices: 18776200--18776857 Score: 931
Period size: 130 Copynumber: 5.1 Consensus size: 130
18776190 ACAGATCCTA
18776200 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGTGGAGTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGTGGAGTA
** * ** * *
18776265 GGTTGAAGATTACAGATCCTATCTCCCTAAGCAGTAGTGGAATAGATCGAATATGGCAAATCTTG
66 GGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTG
* * *
18776330 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCTCCATCCTATCTCCCTAAGTAGTAGTGGAGTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGTGGAGTA
* * * *
18776395 GGTTGAAAATTGTAGATCCTATTTCCCCTAAGCAGTAGTGGAGCAGAT-AGAAGATGGAAAATCT
66 GGTTGAAGATTGTAGATCTTATCT-CCCTAAGCAGTAGTGGAGCAGATCA-AAGATGGCAAATCT
18776459 TG
129 TG
* * * *
18776461 TCTTCCTAAGTAGTAGTGGAGCATATTTAAGCCACCATCCTATCTCTCTAAGCAATAGTGGAGTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGTGGAGTA
* *
18776526 GGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGCAAATCTTG
66 GGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTG
* * * * *
18776591 TCTCCTTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCTTGTCTCCCTAAGCAGTAGTGGAATA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGTGGAGTA
* * * * * * ** *
18776656 GATCGAAGATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGAATAGATCAAAGATGGAAAATCTTG
66 GGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTG
* * *
18776721 TCTCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCCTATCTCTCTAAGTAATAGTGGAGTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGTGGAGTA
* * *
18776786 GGTTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAAATATTG
66 GGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTG
18776851 TCTCCCT
1 TCTCCCT
18776858 GATACGTGAT
Statistics
Matches: 462, Mismatches: 63, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
130 348 0.75
131 114 0.25
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (130 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGTGGAGTA
GGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTG
Found at i:18778346 original size:21 final size:22
Alignment explanation
Indices: 18778322--18778363 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18778312 TTATTCAATA
*
18778322 AAAATTATAA-AAACTAAAATT
1 AAAATAATAATAAACTAAAATT
*
18778343 AAAATAATAATAAATTAAAAT
1 AAAATAATAATAAACTAAAAT
18778364 GAATTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAATAATAAACTAAAATT
Found at i:18782638 original size:43 final size:43
Alignment explanation
Indices: 18782591--18782696 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
18782581 TGATTACGTA
* * **
18782591 TAAGACCATGTCTGGGATATTGGCATCGTTAAT-TAATTTCATG
1 TAAGACCATATCTGGGATATTGGCATCGAT-ATGTAATAACATG
* * * *
18782634 TAAGACCCTATTTGGGATAGTGGCATCGATATGTGATAACATG
1 TAAGACCATATCTGGGATATTGGCATCGATATGTAATAACATG
18782677 TAAGACCATATCTGGGATAT
1 TAAGACCATATCTGGGATAT
18782697 GGTATTGTAC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 2 0.04
43 49 0.96
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (43 bp):
TAAGACCATATCTGGGATATTGGCATCGATATGTAATAACATG
Found at i:18786473 original size:17 final size:17
Alignment explanation
Indices: 18786451--18786487 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
18786441 GTAGCGATTC
18786451 AATACTTTAATTCAGTT
1 AATACTTTAATTCAGTT
*
18786468 AATACTTTAATTCGGTT
1 AATACTTTAATTCAGTT
18786485 AAT
1 AAT
18786488 TAGGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (17 bp):
AATACTTTAATTCAGTT
Found at i:18789984 original size:24 final size:24
Alignment explanation
Indices: 18789956--18790002 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
18789946 TTTTAACTAT
* *
18789956 TTTTTTATTTTATTTTTATTTTTCC
1 TTTTTT-TCTTATTCTTATTTTTCC
*
18789981 TTTTTTTCTTATTCTTCTTTTT
1 TTTTTTTCTTATTCTTATTTTT
18790003 TCTAGAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTTCTTATTCTTATTTTTCC
Found at i:18794818 original size:15 final size:14
Alignment explanation
Indices: 18794798--18794985 Score: 59
Period size: 14 Copynumber: 13.0 Consensus size: 14
18794788 GATATACATA
*
18794798 AATAAATGAATAAAT
1 AATAAAT-AAAAAAT
18794813 AATAAAATAAAAAAT
1 AAT-AAATAAAAAAT
** *
18794828 AATACGGT-AAAAGT
1 AATA-AATAAAAAAT
*
18794842 AA-AAATAAAATAAGCC
1 AATAAATAAAA-AA--T
*
18794858 AATTA-TAAA-AAT
1 AATAAATAAAAAAT
18794870 AAATAAATAAATAAAT
1 -AATAAATAAA-AAAT
*
18794886 AA-AATTAAAAAAT
1 AATAAATAAAAAAT
* **
18794899 -A-AAAGAATTAAT
1 AATAAATAAAAAAT
*
18794911 AAGCAAATAAAGAAAT
1 AA-TAAATAAA-AAAT
* *
18794927 AATAAAGAAATAAT
1 AATAAATAAAAAAT
*
18794941 AAT-AATAAAAACT
1 AATAAATAAAAAAT
*
18794954 AATAAAGTTTAAATAAT
1 AATAAA---TAAAAAAT
18794971 AATAAATAAACAAAT
1 AATAAATAAA-AAAT
18794986 GATTTAAATT
Statistics
Matches: 125, Mismatches: 28, Indels: 40
0.65 0.15 0.21
Matches are distributed among these distances:
12 9 0.07
13 23 0.18
14 33 0.26
15 29 0.23
16 18 0.14
17 13 0.10
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (14 bp):
AATAAATAAAAAAT
Found at i:18794875 original size:4 final size:4
Alignment explanation
Indices: 18794866--18794939 Score: 55
Period size: 4 Copynumber: 18.5 Consensus size: 4
18794856 CCAATTATAA
* **
18794866 AAAT AAAT AAAT AAAT AAAT AAAATT AAA- AAAT AAA- AGAAT TAAT AAGC
1 AAAT AAAT AAAT AAAT AAAT -AAA-T AAAT AAAT AAAT A-AAT AAAT AAAT
* *
18794915 AAAT AAAG AAAT -AAT AAAG AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
18794940 TAATAATAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
3 7 0.13
4 40 0.74
5 6 0.11
6 1 0.02
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:18794932 original size:11 final size:11
Alignment explanation
Indices: 18794916--18794942 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18794906 TTAATAAGCA
18794916 AATAAAGAAAT
1 AATAAAGAAAT
18794927 AATAAAGAAAT
1 AATAAAGAAAT
18794938 AATAA
1 AATAA
18794943 TAATAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (11 bp):
AATAAAGAAAT
Found at i:18794956 original size:27 final size:30
Alignment explanation
Indices: 18794866--18794985 Score: 87
Period size: 30 Copynumber: 4.1 Consensus size: 30
18794856 CCAATTATAA
*
18794866 AAATAAATAAA-TAAATAAATAA-AATTAAA-
1 AAAT-AATAAAGTAAAT-AATAATAAATAAAG
* *
18794895 AAAT-A-AAAG-AATTAATAAGCAAATAAAG
1 AAATAATAAAGTAAATAATAA-TAAATAAAG
18794923 AAATAATAAAG-AAATAATAAT-AATAAA-
1 AAATAATAAAGTAAATAATAATAAATAAAG
* *
18794950 AACTAATAAAGTTTAAATAATAATAAATAAAC
1 AAATAATAAAG--TAAATAATAATAAATAAAG
18794982 AAAT
1 AAAT
18794986 GATTTAAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
25 5 0.07
26 6 0.08
27 17 0.23
28 10 0.14
29 5 0.07
30 22 0.30
31 6 0.08
32 3 0.04
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (30 bp):
AAATAATAAAGTAAATAATAATAAATAAAG
Found at i:18804322 original size:20 final size:20
Alignment explanation
Indices: 18804297--18804362 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
18804287 TACTTAAGTA
18804297 CCCCTGATTACACATACATG
1 CCCCTGATTACACATACATG
* * * *
18804317 CCCCTGTTTATAC-TTCAGTA
1 CCCCTGATTACACATACA-TG
* *
18804337 CCCCTGATTGCACATACGTG
1 CCCCTGATTACACATACATG
18804357 CCCCTG
1 CCCCTG
18804363 TTTGTACTTT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 3 0.09
20 29 0.85
21 2 0.06
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.29
Consensus pattern (20 bp):
CCCCTGATTACACATACATG
Found at i:18804422 original size:20 final size:20
Alignment explanation
Indices: 18804357--18804456 Score: 74
Period size: 20 Copynumber: 5.0 Consensus size: 20
18804347 CACATACGTG
* *
18804357 CCCCTGTTTGTACTTTGGTA
1 CCCCTATTTGTACTTCGGTA
** * ** *
18804377 CCCCTGGTTGCACTTATGTG
1 CCCCTATTTGTACTTCGGTA
18804397 CCCCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTCGGTA
* * * *
18804417 CCCCTAATTGCACTTCCGTG
1 CCCCTATTTGTACTTCGGTA
* *
18804437 CCCCTATTTTTACTCCGGTA
1 CCCCTATTTGTACTTCGGTA
18804457 ACTCTAAATC
Statistics
Matches: 59, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.13, C:0.32, G:0.17, T:0.38
Consensus pattern (20 bp):
CCCCTATTTGTACTTCGGTA
Found at i:18804430 original size:40 final size:40
Alignment explanation
Indices: 18804257--18804456 Score: 213
Period size: 40 Copynumber: 5.0 Consensus size: 40
18804247 GTACTTTGAC
* ** **
18804257 ACCCCTAATTGCACATATATGCCCCTA-TTGTACTTAAGT
1 ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
* * * * *
18804296 ACCCCTGATTACACATACATGCCCCTGTTTATACTTCAGT
1 ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
* *
18804336 ACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGT
1 ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
* * *
18804376 ACCCCTGGTTGCACTTATGTGCCCCTATTTGTACTTCGGT
1 ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
* * * * *
18804416 ACCCCTAATTGCACTTCCGTGCCCCTATTTTTACTCCGGT
1 ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
18804456 A
1 A
18804457 ACTCTAAATC
Statistics
Matches: 138, Mismatches: 22, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
39 23 0.17
40 115 0.83
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (40 bp):
ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
Found at i:18820515 original size:40 final size:40
Alignment explanation
Indices: 18820470--18820627 Score: 165
Period size: 40 Copynumber: 3.9 Consensus size: 40
18820460 TAAAACGCAG
* *
18820470 AGCAATAGCGGCGTTTTATCAAAAACGAAGCTAAAAACAA
1 AGCAATAGCGGCGTTTTATCAAAAACGACGCTAAAAACAT
* *
18820510 AGCAATAGCGGCGTTTTTAGT-TAAAACGACGCTAAAAATTAT
1 AGCAATAGCGGCG-TTTTA-TCAAAAACGACGCTAAAAA-CAT
* * ** * *
18820552 AGAAATAGCGGCGTTTTCTGTAAAACGCCGCCAAAAACAT
1 AGCAATAGCGGCGTTTTATCAAAAACGACGCTAAAAACAT
* * *
18820592 AGCAATAGTGGCGTTTTACCAAAAACGCCGCTAAAA
1 AGCAATAGCGGCGTTTTATCAAAAACGACGCTAAAA
18820628 GCCAGAGCAT
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 45 0.46
41 39 0.40
42 14 0.14
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (40 bp):
AGCAATAGCGGCGTTTTATCAAAAACGACGCTAAAAACAT
Found at i:18820658 original size:41 final size:41
Alignment explanation
Indices: 18820613--18820750 Score: 190
Period size: 41 Copynumber: 3.4 Consensus size: 41
18820603 CGTTTTACCA
* * *
18820613 AAAACGCCGCTAAAAGCCAGAGCATTAGTGGCGCTTTTGGT
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
18820654 AAAACGCCACTAAAAACCAAAGAATTAGCGGCGC-TTTGTGT
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTG-GT
*
18820695 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGTTTTTGGT
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
18820736 AAAACG-CAGCTAAAA
1 AAAACGCCA-CTAAAA
18820751 GTCATTTAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
40 6 0.07
41 76 0.88
42 4 0.05
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:18820696 original size:122 final size:123
Alignment explanation
Indices: 18820461--18820731 Score: 312
Period size: 122 Copynumber: 2.2 Consensus size: 123
18820451 CAAAAATTGT
* *
18820461 AAAACGCAGAGCAATAGCGGCGTTTTATCAAAAACGAAGCTAAAAACAAAGCAATAGCGGCGTTT
1 AAAAC-CAGAGCAATAGCGGCGTTTTACCAAAAACGAAGCTAAAAACAAAGCAATAGCGGCGCTT
* * ** * * *
18820526 TTAGTTAAAACGACGCTAAAAATTATAGAAATAGCGGCGTTTTCTGTAAAACGCCGCCA
65 TTAGGTAAAACGACACTAAAAACCAAAGAAATAGCGGCGCTTTCTGTAAAACGCCACCA
* * ** * * * *
18820585 AAAA-CATAGCAATAGTGGCGTTTTACCAAAAACGCCGCTAAAAGCCAGAGCATTAGTGGCGCTT
1 AAAACCAGAGCAATAGCGGCGTTTTACCAAAAACGAAGCTAAAA-ACAAAGCAATAGCGGCGCTT
* * * *
18820649 TT-GGTAAAACGCCACTAAAAACCAAAGAATTAGCGGCGCTTTGTGTAAAACGCCACTA
65 TTAGGTAAAACGACACTAAAAACCAAAGAAATAGCGGCGCTTTCTGTAAAACGCCACCA
*
18820707 AAAACCAGAGCATTAGCGGCGTTTT
1 AAAACCAGAGCAATAGCGGCGTTTT
18820732 TGGTAAAACG
Statistics
Matches: 121, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
122 83 0.69
123 34 0.28
124 4 0.03
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (123 bp):
AAAACCAGAGCAATAGCGGCGTTTTACCAAAAACGAAGCTAAAAACAAAGCAATAGCGGCGCTTT
TAGGTAAAACGACACTAAAAACCAAAGAAATAGCGGCGCTTTCTGTAAAACGCCACCA
Found at i:18820821 original size:45 final size:45
Alignment explanation
Indices: 18820757--18820864 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
18820747 AAAAGTCATT
* *
18820757 TAACCCCTAAAACCCTAAA-CCCCAAAAAATATAAACACTAATCTA
1 TAACCCTTAAAACCCTAAACCCCCAAAAAA-ATAAACACTAAACTA
* * * * *
18820802 TAACCCTTAAAACACTAAACCCCCTAAACACTAAACACTAAAGTA
1 TAACCCTTAAAACCCTAAACCCCCAAAAAAATAAACACTAAACTA
*
18820847 TAACCTTTAAAACCCTAA
1 TAACCCTTAAAACCCTAA
18820865 TTAAACCCCA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 45 0.85
46 8 0.15
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (45 bp):
TAACCCTTAAAACCCTAAACCCCCAAAAAAATAAACACTAAACTA
Found at i:18823214 original size:79 final size:82
Alignment explanation
Indices: 18823103--18823287 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
18823093 GCTACTCGTT
* * *
18823103 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
18823166 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
18823183 CAAATACCTTCGGG-CTTAGCCCGGAAT-TAGTAGCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
18823246 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
18823263 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18823288 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:18823287 original size:40 final size:40
Alignment explanation
Indices: 18823084--18823287 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
18823074 CGGAATTTAA
** *
18823084 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
18823124 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18823164 CCGGATTTAGTAACTCGCACAAATACCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18823203 CCGGA-ATTAGTAGCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
18823243 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
18823283 CCGGA
1 CCGGA
18823288 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:18841139 original size:9 final size:9
Alignment explanation
Indices: 18841127--18841157 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18841117 ATATCATATA
18841127 ATAACTTAC
1 ATAACTTAC
18841136 ATAACTTAC
1 ATAACTTAC
*
18841145 AAAACTTAC
1 ATAACTTAC
18841154 ATAA
1 ATAA
18841158 TACATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:18841178 original size:13 final size:13
Alignment explanation
Indices: 18841160--18841189 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18841150 TTACATAATA
18841160 CATAAATATATAT
1 CATAAATATATAT
18841173 CATAAATATATAT
1 CATAAATATATAT
18841186 CATA
1 CATA
18841190 TCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:18841196 original size:56 final size:56
Alignment explanation
Indices: 18841135--18841347 Score: 338
Period size: 56 Copynumber: 3.8 Consensus size: 56
18841125 TAATAACTTA
*
18841135 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
* * *
18841191 CATAACTTACACAACTAACATAATACATAAATATATTTCATAAATATGTATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
*
18841247 CATAACTTACACAACTTACATAATAC-TCCAAATATATATCATAAATATATATATCTTAT
1 CATAACTTACACAACTTACATAATACAT--AAATATATATCAT-AA-ATATATATCATAT
18841306 CATAACTTACACAACTTACATAATACATAAATATATATCATA
1 CATAACTTACACAACTTACATAATACATAAATATATATCATA
18841348 TCATAACTTA
Statistics
Matches: 144, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
55 1 0.01
56 77 0.53
57 13 0.09
58 15 0.10
59 37 0.26
60 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (56 bp):
CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
Found at i:18841308 original size:115 final size:112
Alignment explanation
Indices: 18841135--18841347 Score: 347
Period size: 115 Copynumber: 1.9 Consensus size: 112
18841125 TAATAACTTA
18841135 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
1 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
*
18841200 CACAACTAACATAATACATAAATATATTTCATAAATATGTATCATAT
66 CACAACTAACATAATACATAAATATATATCATAAATATGTATCATAT
* *
18841247 CATAACTTACACAACTTACATAATAC-TCCAAATATATATCATAAATATATATATCTTATCATAA
1 CATAACTTACAAAACTTACATAATACAT--AAATATATATCAT-AA-ATATATATCATATCATAA
*
18841311 CTTACACAACTTACATAATACATAAATATATATCATA
62 CTTACACAACTAACATAATACATAAATATATATCATA
18841348 TCATAACTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
111 1 0.01
112 25 0.27
113 13 0.14
114 2 0.02
115 52 0.56
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (112 bp):
CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
CACAACTAACATAATACATAAATATATATCATAAATATGTATCATAT
Found at i:18841371 original size:36 final size:36
Alignment explanation
Indices: 18841318--18841404 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
18841308 TAACTTACAC
*
18841318 AACTTACATAA--TACATAAATATATATCATATCAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
* * *
18841352 AACTTATATACCTTACATAAATGTATATCATAACAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
18841388 AACTTACATAACTTACA
1 AACTTACATAACTTACA
18841405 AAGCTTACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 9 0.20
36 36 0.80
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (36 bp):
AACTTACATAACTTACATAAATATATATCATAACAT
Found at i:18841384 original size:115 final size:107
Alignment explanation
Indices: 18841114--18841368 Score: 332
Period size: 115 Copynumber: 2.3 Consensus size: 107
18841104 TAATATTTAT
*
18841114 TATATATCATATAATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATAAA
1 TATATATCATAT-ATAACTTATATAACTTACAAAACTTACATAATACATAAATATATATCATAAA
18841179 TATATATCATATCATAACTTACACAACTAACATAATACATAAA
65 TATATATCATATCATAACTTACACAACTAACATAATACATAAA
* * * *
18841222 TATATTTCATAAATATGTATCATATCATAACTTACACAACTTACATAATAC-TCCAAATATATAT
1 TATATATCAT--ATA--TAACTTAT-ATAACTTACAAAACTTACATAATACAT--AAATATATAT
* *
18841286 CATAAATATATATATCTTATCATAACTTACACAACTTACATAATACATAAA
59 CAT-AA-ATATATATCATATCATAACTTACACAACTAACATAATACATAAA
*
18841337 TATATATCATATCATAACTTATATACCTTACA
1 TATATATCATAT-ATAACTTATATAACTTACA
18841369 TAAATGTATA
Statistics
Matches: 126, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
108 9 0.07
109 1 0.01
110 2 0.02
111 15 0.12
112 30 0.24
113 15 0.12
114 3 0.02
115 51 0.40
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (107 bp):
TATATATCATATATAACTTATATAACTTACAAAACTTACATAATACATAAATATATATCATAAAT
ATATATCATATCATAACTTACACAACTAACATAATACATAAA
Found at i:18841398 original size:9 final size:9
Alignment explanation
Indices: 18841301--18841421 Score: 63
Period size: 9 Copynumber: 13.6 Consensus size: 9
18841291 ATATATATAT
18841301 CTTATCATAA
1 CTTA-CATAA
*
18841311 CTTACACAA
1 CTTACATAA
18841320 CTTACATAA
1 CTTACATAA
18841329 --TACATAA
1 CTTACATAA
* * *
18841336 -ATATATAT
1 CTTACATAA
*
18841344 CATATCATAA
1 CTTA-CATAA
* *
18841354 CTTATATAC
1 CTTACATAA
18841363 CTTACATAA
1 CTTACATAA
* * *
18841372 ATGTATATCA
1 CT-TACATAA
*
18841382 -TAACATAA
1 CTTACATAA
18841390 CTTACATAA
1 CTTACATAA
18841399 CTTACA-AA
1 CTTACATAA
*
18841407 GCTTACTTAA
1 -CTTACATAA
18841417 CTTAC
1 CTTAC
18841422 GTAATATATA
Statistics
Matches: 85, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
7 7 0.08
8 11 0.13
9 50 0.59
10 17 0.20
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.35
Consensus pattern (9 bp):
CTTACATAA
Found at i:18846969 original size:15 final size:16
Alignment explanation
Indices: 18846944--18846974 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
18846934 ACAACAACTT
18846944 AGAGTGGAGGCAGCAG
1 AGAGTGGAGGCAGCAG
18846960 AGAG-GGAGGCAGCAG
1 AGAGTGGAGGCAGCAG
18846975 CAGCAGCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.13, G:0.52, T:0.03
Consensus pattern (16 bp):
AGAGTGGAGGCAGCAG
Found at i:18846979 original size:21 final size:21
Alignment explanation
Indices: 18846953--18847025 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
18846943 TAGAGTGGAG
*
18846953 GCAGCAGAGAGGGAGGCAGCA
1 GCAGCAGCGAGGGAGGCAGCA
18846974 GCAGCAGCGAGGGAGGCAGC-
1 GCAGCAGCGAGGGAGGCAGCA
18846994 GACAGCAGCGAGGGAGGCAG-A
1 G-CAGCAGCGAGGGAGGCAGCA
18847015 GGCAGCAGCGA
1 -GCAGCAGCGA
18847026 TGGCAGTAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.48, T:0.00
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAGCA
Found at i:18847479 original size:43 final size:42
Alignment explanation
Indices: 18847393--18847483 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 42
18847383 TCTGTCAAAA
*
18847393 TTAGCGGCGTTTGCCAAAAAAAGCCGCTAAAAGCCGTGACTT
1 TTAGCGGCGTTTGCCAAAAAAAGCCGCTAAAAGCCATGACTT
* * * * * *
18847435 TTAGTGGCGCTTTTCCAACAAACGCCGCTAAAGGCCATGGCTT
1 TTAGCGGCG-TTTGCCAAAAAAAGCCGCTAAAAGCCATGACTT
18847478 TTAGCG
1 TTAGCG
18847484 TTTTTTTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 8 0.20
43 32 0.80
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (42 bp):
TTAGCGGCGTTTGCCAAAAAAAGCCGCTAAAAGCCATGACTT
Found at i:18855441 original size:38 final size:38
Alignment explanation
Indices: 18855399--18855475 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
18855389 CTAGAGTCCT
18855399 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
1 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
18855437 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
1 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
18855475 A
1 A
18855476 ATTTTGTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (38 bp):
AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
Found at i:18858203 original size:2 final size:2
Alignment explanation
Indices: 18858196--18858226 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
18858186 CTACTCTGAT
*
18858196 TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
18858227 TCCCCATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:18858952 original size:4 final size:4
Alignment explanation
Indices: 18858943--18859003 Score: 113
Period size: 4 Copynumber: 15.2 Consensus size: 4
18858933 TCATATATAG
*
18858943 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AAAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
18858991 AGAT AGAT AGAT A
1 AGAT AGAT AGAT A
18859004 CAAGTGAGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (4 bp):
AGAT
Found at i:18859091 original size:16 final size:16
Alignment explanation
Indices: 18859058--18859091 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18859048 TGTTGCTGTT
* *
18859058 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
18859074 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
18859090 AA
1 AA
18859092 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:18861928 original size:21 final size:21
Alignment explanation
Indices: 18861894--18861934 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18861884 AGACGAGCAA
* *
18861894 TACTCCACAGCAGGTAGAGTG
1 TACTCCAAAACAGGTAGAGTG
*
18861915 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTAGAGT
18861935 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:18863873 original size:16 final size:16
Alignment explanation
Indices: 18863840--18863873 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18863830 GGAGATTGTT
* *
18863840 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
18863856 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
18863872 AA
1 AA
18863874 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:18864988 original size:4 final size:4
Alignment explanation
Indices: 18864981--18865007 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18864971 TCAGAGTAGC
18864981 GGGA GGGA GGGA GGGA GGGA GGGA GGG
1 GGGA GGGA GGGA GGGA GGGA GGGA GGG
18865008 TGGGGAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.78, T:0.00
Consensus pattern (4 bp):
GGGA
Found at i:18865557 original size:13 final size:13
Alignment explanation
Indices: 18865539--18865564 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18865529 ATCCCAAATT
18865539 TAAAAAATAAAAA
1 TAAAAAATAAAAA
18865552 TAAAAAATAAAAA
1 TAAAAAATAAAAA
18865565 CATGAAAAGA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:18871441 original size:25 final size:26
Alignment explanation
Indices: 18871401--18871451 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
18871391 CTTTAAAAAA
*
18871401 TATTTTTTATTCATTCCTT-TTCTTTT
1 TATTTTTTATTAATT-CTTCTTCTTTT
18871427 TATTTTTTA-TAATTCTTCTTCTTTT
1 TATTTTTTATTAATTCTTCTTCTTTT
18871452 GTTCAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 3 0.13
25 11 0.48
26 9 0.39
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (26 bp):
TATTTTTTATTAATTCTTCTTCTTTT
Found at i:18876245 original size:18 final size:16
Alignment explanation
Indices: 18876216--18876250 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
18876206 TGTATTTGAT
18876216 AAATTAAATAAATTTA
1 AAATTAAATAAATTTA
18876232 AAATTAACACTAAATTTA
1 AAATTAA-A-TAAATTTA
18876250 A
1 A
18876251 TCTATTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 1 0.06
18 9 0.53
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAATAAATTTA
Found at i:18881908 original size:16 final size:16
Alignment explanation
Indices: 18881889--18881923 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18881879 TACTTTTATA
*
18881889 TATATAGTATTATTTT
1 TATATAGTATTATATT
*
18881905 TATATATTATTATATT
1 TATATAGTATTATATT
18881921 TAT
1 TAT
18881924 TATTTTCACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TATATAGTATTATATT
Found at i:18882002 original size:16 final size:18
Alignment explanation
Indices: 18881981--18882015 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18881971 AAACTTGGTA
18881981 TACATA-TGTC-TTTTTG
1 TACATATTGTCATTTTTG
18881997 TACATATTGTCATTTTTG
1 TACATATTGTCATTTTTG
18882015 T
1 T
18882016 TATATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
TACATATTGTCATTTTTG
Found at i:18894191 original size:13 final size:14
Alignment explanation
Indices: 18894161--18894195 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
18894151 CGCTGAGGTA
18894161 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
18894174 TTTTTCAATTTCTG
1 TTTTTCAATTTCTG
18894188 TTTTTCAA
1 TTTTTCAA
18894196 AAAATTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:18894192 original size:106 final size:105
Alignment explanation
Indices: 18894000--18894192 Score: 280
Period size: 106 Copynumber: 1.8 Consensus size: 105
18893990 TTTTTGTTTT
* * * * *
18894000 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTCAAA
1 AAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCCGAGGTATTTTCAAA
18894065 TTCTGTTTTTAATTTCTTTTTTTTCAATTTTTGTGTTTCAA
65 TTCTGTTTTTAATTTCTTTTTTTTCAATTTTTGTGTTTCAA
* * *
18894106 AAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTTAATT
1 AAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCCGAGGTATTTTCAAAT
*
18894170 TCTGTTTTTCAATTTCTGTTTTT
66 TCTGTTTTT-AATTTCTTTTTTT
18894193 CAAAAAATTA
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
104 26 0.34
105 12 0.16
106 39 0.51
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (105 bp):
AAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCCGAGGTATTTTCAAAT
TCTGTTTTTAATTTCTTTTTTTTCAATTTTTGTGTTTCAA
Found at i:18894222 original size:88 final size:90
Alignment explanation
Indices: 18894070--18894253 Score: 239
Period size: 88 Copynumber: 2.0 Consensus size: 90
18894060 TCAAATTCTG
* *
18894070 TTTTTAATTTCTTTTTTTTCAATTTTTGTGTTTCAAAAAAAATCAAATCATATTGCGAGAGGTGA
1 TTTTTAATTTCTTGTTTTTCAATTTCTGTGTTTC-AAAAAAATCAAATCATATTGCGAGAGGTGA
18894135 GTTGAGCCTCAG-GACACGCTGAGGTA
65 GTT-AGCCTCAGCGACACGCTGAGGTA
* * * *
18894161 TTTTTAATTTC-TGTTTTTCAATTTCTGTTTTTC-AAAAAATTAACTCATATTGTGAGAGGTGAG
1 TTTTTAATTTCTTGTTTTTCAATTTCTGTGTTTCAAAAAAATCAAATCATATTGCGAGAGGTGAG
** *
18894224 TTAGCCTTGGCTGACATGCTGAGGTA
66 TTAGCCTCAGC-GACACGCTGAGGTA
18894250 TTTT
1 TTTT
18894254 CTGTTCGTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
87 6 0.07
88 29 0.35
89 17 0.21
90 19 0.23
91 11 0.13
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (90 bp):
TTTTTAATTTCTTGTTTTTCAATTTCTGTGTTTCAAAAAAATCAAATCATATTGCGAGAGGTGAG
TTAGCCTCAGCGACACGCTGAGGTA
Found at i:18894317 original size:69 final size:68
Alignment explanation
Indices: 18894195--18894323 Score: 161
Period size: 68 Copynumber: 1.9 Consensus size: 68
18894185 CTGTTTTTCA
* * * * * *
18894195 AAAAATTAACTCATATTGTGAGAGGTGAGTTAGCCTTGGCTGACATGCTGAGGTATTTTCTGTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTAGCCTGGGCTCACATGCCGAGGTATTTTCTGTTC
18894260 GTC
66 GTC
* *
18894263 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGTCTCGGGC-CACATGCCGAGGTCTTTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTT-AGCCT-GGGCTCACATGCCGAGGTATTTTC
18894324 AAATTCTGTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
68 28 0.55
69 20 0.39
70 3 0.06
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (68 bp):
AAAAATCAACTCATATTGCGAAAGGTGAGTTAGCCTGGGCTCACATGCCGAGGTATTTTCTGTTC
GTC
Found at i:18894379 original size:158 final size:159
Alignment explanation
Indices: 18894106--18894560 Score: 482
Period size: 148 Copynumber: 2.9 Consensus size: 159
18894096 TGTGTTTCAA
* * * *
18894106 AAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAAATT
* * **
18894171 CTGTTTTTCAATTTCTGTTTTTCAAAAAATTAACTCATATTGTGAGAGGTGAGTT-AGCCTTGGC
66 CTGTTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-
* *
18894235 TGACATGCTGAGGTATTTTC-TGTT-C-GTC
130 -GACACGCTGAAGTATTTTCATGTTGCTGTC
* * * * *
18894263 -AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCCGAGGTATTTTCAAA
*
18894327 TTCTGTTTTT-AATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 TTCTGTTTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
18894391 AGGACACGCTGAAGTATTTTCAATTTTTGCTTTTC
128 AGGACACGCTGAAGTATTTTC-A-TGTTGC-TGTC
**
18894426 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGG-----T---A--
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAAATT
* * *
18894481 ----TTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG
66 CTGTTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
18894542 ACACGCTGAGGTATTTTCA
131 ACACGCTGAAGTATTTTCA
18894561 ATTTTTGTTT
Statistics
Matches: 257, Mismatches: 29, Indels: 34
0.80 0.09 0.11
Matches are distributed among these distances:
147 1 0.00
148 62 0.24
149 11 0.04
154 1 0.00
156 37 0.14
157 31 0.12
158 56 0.22
159 6 0.02
160 3 0.01
161 1 0.00
162 8 0.03
163 2 0.01
164 38 0.15
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (159 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAAATT
CTGTTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACGCTGAAGTATTTTCATGTTGCTGTC
Found at i:18894459 original size:74 final size:74
Alignment explanation
Indices: 18894332--18894575 Score: 400
Period size: 74 Copynumber: 3.3 Consensus size: 74
18894322 TCAAATTCTG
* *
18894332 TTTTTAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTTTGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
18894397 CGCTGAAGTA
65 CGCTGAAGTA
18894407 TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
18894472 GCT-AAGGTA
66 GCTGAA-GTA
* * *
18894481 TTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
18894546 GCTGAGGTA
66 GCTGAAGTA
*
18894555 TTTTCAATTTTTGTTTTTCAA
1 TTTTCAATTTTTGCTTTTCAA
18894576 TTTCTGCTTT
Statistics
Matches: 158, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
73 2 0.01
74 138 0.87
75 18 0.11
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (74 bp):
TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAAGTA
Found at i:18894596 original size:162 final size:161
Alignment explanation
Indices: 18894407--18894860 Score: 626
Period size: 162 Copynumber: 2.8 Consensus size: 161
18894397 CGCTGAAGTA
*
18894407 TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTATGCTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
18894472 GCTAAGGTATTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCC
65 GCTAAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCC
* * *
18894537 TCAGGACACGCTGAGGTATTTTCAATTTTTGT
130 TCAGGACACGCTAAGGTATTTTCAATTTCTGC
* * * *
18894569 TTTTCAATTTCTGCTTTTAAAAAAATCAACTTATATTGCAAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTTCAATTTATGCTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
18894634 GCTGAA-GAATTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGC
65 GCT-AAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGC
18894698 CTCAGGACACGCTAAGGTATTTTCAATTTCTGC
129 CTCAGGACACGCTAAGGTATTTTCAATTTCTGC
* * * *
18894731 TATTCAATTTATG-TGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGTCAC
1 TTTTCAATTTATGCT-TTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
** * * *
18894795 ACGCCGAGGTATTTCCAATTT-TAGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
63 ACGCTAAGGTATTTTCAATTTCT-GCTTTTC-AAAAAATCAACTCATATTGAGAGAGGTGAGTTG
18894859 AG
126 AG
18894861 TCCTAGGTCA
Statistics
Matches: 258, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
161 38 0.15
162 163 0.63
163 23 0.09
164 34 0.13
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (161 bp):
TTTTCAATTTATGCTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTAAGGTATTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCT
CAGGACACGCTAAGGTATTTTCAATTTCTGC
Found at i:18894628 original size:236 final size:234
Alignment explanation
Indices: 18894175--18894731 Score: 761
Period size: 236 Copynumber: 2.4 Consensus size: 234
18894165 TAATTTCTGT
* * * **
18894175 TTTTCAATTTCTGTTTTTCAAAAAATTAACTCATATTGTGAGAGGTGAGTT-AGCCTTGGCTGAC
1 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAG--GAC
* * *
18894239 ATGCTGAGGTATTTTC--TGTTC-G--TCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGTC
64 ACGCTAAGGTATTTTCAAT-TTCTGCTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
* * * * *
18894299 TCGGGCCACATGCCGAGGTCTTTTCAAATTCTGTTTTTAATTTTTGTTTTTCAAAAAAATCAACT
128 TCAGG-CACACGCCGAGGTATTTTCAAATTCTGTTTTTAATTTCTGCTTTTCAAAAAAATCAACT
* *
18894364 CATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTA
192 CATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGAA
* *
18894407 TTTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACAC
* *
18894472 GCTAAGGTATTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCC
66 GCTAAGGTATTTTCAATTTCTGC-TT-C-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
* * *
18894537 TCAGG-ACACGCTGAGGTATTTTCAATTTTTGTTTTTCAATTTCTGCTTTT-AAAAAAATCAACT
128 TCAGGCACACGCCGAGGTATTTTCAAATTCTGTTTTT-AATTTCTGCTTTTCAAAAAAATCAACT
* *
18894600 TATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAAGAA
192 CATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGAA
*
18894643 TTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACAC
18894708 GCTAAGGTATTTTCAATTTCTGCT
66 GCTAAGGTATTTTCAATTTCTGCT
18894732 ATTCAATTTA
Statistics
Matches: 289, Mismatches: 26, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
231 17 0.06
232 50 0.17
233 8 0.03
235 1 0.00
236 164 0.57
237 12 0.04
238 37 0.13
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (234 bp):
TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACAC
GCTAAGGTATTTTCAATTTCTGCTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCA
GGCACACGCCGAGGTATTTTCAAATTCTGTTTTTAATTTCTGCTTTTCAAAAAAATCAACTCATA
TTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGAA
Found at i:18894635 original size:88 final size:88
Alignment explanation
Indices: 18894481--18894652 Score: 274
Period size: 88 Copynumber: 2.0 Consensus size: 88
18894471 CGCTAAGGTA
**
18894481 TTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
* *
18894546 GCTGAGGTATTTTCAATTTTTGT
66 GCTGAAGAATTTTCAATTTTTGT
* *
18894569 TTTTCAATTTCTGCTTTTA-AAAAAATCAACTTATATTGCAAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGC-TTTACAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
18894633 CGCTGAAGAATTTTCAATTT
65 CGCTGAAGAATTTTCAATTT
18894653 CTACTTTTCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
88 73 0.95
89 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (88 bp):
TTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAAGAATTTTCAATTTTTGT
Found at i:18894690 original size:74 final size:74
Alignment explanation
Indices: 18894569--18894737 Score: 252
Period size: 74 Copynumber: 2.3 Consensus size: 74
18894559 CAATTTTTGT
* * *
18894569 TTTTCAATTTCTGCTTTTAAAAAAATCAACTTATATTGCAAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
18894634 GCTGAA-GAA
66 GCT-AAGGAA
*
18894643 TTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTG-AGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCA-AGAGGTGAGTTGAGCCTCAGGACA
*
18894707 CGCTAAGGTA
65 CGCTAAGGAA
*
18894717 TTTTCAATTTCTGCTATTCAA
1 TTTTCAATTTCTGCTTTTCAA
18894738 TTTATGTGTT
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
73 3 0.03
74 83 0.97
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (74 bp):
TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
GCTAAGGAA
Found at i:18896925 original size:3 final size:3
Alignment explanation
Indices: 18896917--18896999 Score: 52
Period size: 3 Copynumber: 28.0 Consensus size: 3
18896907 ATATATATAG
18896917 TAT TAT TA- TATT TAT TAT TA- TATT TAT TAT TA- TATT TAT TA- TATT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TA-T
* * *
18896962 TAT TAT TGT TACT TAT TAT T-T TAT T-T TAA CAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
18897000 GTCAAACTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
2 12 0.19
3 40 0.63
4 11 0.17
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18896927 original size:27 final size:24
Alignment explanation
Indices: 18896882--18896958 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
18896872 AGTATAAATT
* *
18896882 TTATTATATGT-GTATATATACTT-
1 TTATTATATGTATTAT-TATATTTA
18896905 TTATATATATAGTATTATTATATTTA
1 TTAT-TATAT-GTATTATTATATTTA
*
18896931 TTATTATATTTATTATTATATTTA
1 TTATTATATGTATTATTATATTTA
18896955 TTAT
1 TTAT
18896959 ATTTATTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
23 4 0.09
24 23 0.49
25 13 0.28
26 7 0.15
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (24 bp):
TTATTATATGTATTATTATATTTA
Found at i:18896945 original size:21 final size:21
Alignment explanation
Indices: 18896919--18896986 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 21
18896909 ATATATAGTA
18896919 TTATTATATTTA-TTATTATAT
1 TTATTAT-TTTACTTATTATAT
* *
18896940 TTATTATTATATTTATTATAT
1 TTATTATTTTACTTATTATAT
18896961 TTATTATTGTTACTTATTAT-T
1 TTATTATT-TTACTTATTATAT
18896982 TTATT
1 TTATT
18896987 TTAACATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 3 0.07
21 30 0.71
22 9 0.21
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (21 bp):
TTATTATTTTACTTATTATAT
Found at i:18896967 original size:12 final size:12
Alignment explanation
Indices: 18896917--18896987 Score: 85
Period size: 12 Copynumber: 6.1 Consensus size: 12
18896907 ATATATATAG
18896917 TATTATTATATT
1 TATTATTATATT
18896929 TATTATTATATT
1 TATTATTATATT
18896941 TATTATTATA--
1 TATTATTATATT
18896951 T-TTATTATATT
1 TATTATTATATT
* *
18896962 TATTATTGTTACT
1 TATTATT-ATATT
*
18896975 TATTATTTTATT
1 TATTATTATATT
18896987 T
1 T
18896988 TAACATTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
9 8 0.15
10 1 0.02
11 1 0.02
12 32 0.62
13 10 0.19
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (12 bp):
TATTATTATATT
Found at i:18904832 original size:14 final size:14
Alignment explanation
Indices: 18904815--18904865 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
18904805 AGAAAGAAAA
18904815 TTTGGGAAAATACT
1 TTTGGGAAAATACT
* *
18904829 TTTGGGAAAATTCG
1 TTTGGGAAAATACT
* *
18904843 ATT--GATAATACT
1 TTTGGGAAAATACT
18904855 TTTGGGAAAAT
1 TTTGGGAAAAT
18904866 TCGATTGATT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
12 8 0.30
14 19 0.70
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (14 bp):
TTTGGGAAAATACT
Found at i:18904855 original size:26 final size:26
Alignment explanation
Indices: 18904823--18904874 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
18904813 AATTTGGGAA
18904823 AATACTTTTGGGAAAATTCGATTGAT
1 AATACTTTTGGGAAAATTCGATTGAT
18904849 AATACTTTTGGGAAAATTCGATTGAT
1 AATACTTTTGGGAAAATTCGATTGAT
18904875 TAAGAGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (26 bp):
AATACTTTTGGGAAAATTCGATTGAT
Found at i:18916142 original size:27 final size:28
Alignment explanation
Indices: 18916098--18916152 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
18916088 GTCCATAGTT
* *
18916098 GAACTATGGTAAAGTGATAAAGTGTGCC
1 GAACTATGGAAAAATGATAAAGTGTGCC
18916126 GAAC-ATGGAAAAATGATAAAGTGTGCC
1 GAACTATGGAAAAATGATAAAGTGTGCC
18916153 AAATATGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.22
Consensus pattern (28 bp):
GAACTATGGAAAAATGATAAAGTGTGCC
Found at i:18925055 original size:46 final size:46
Alignment explanation
Indices: 18925005--18925176 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
18924995 TGGTTGAGCA
*
18925005 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
18925051 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
18925098 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
18925144 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
18925177 GTGGGCGGGT
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:18925161 original size:93 final size:93
Alignment explanation
Indices: 18925002--18925172 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
18924992 GGATGGTTGA
* *
18925002 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
18925067 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
18925095 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
18925160 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
18925173 ACTTGTGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:18939314 original size:53 final size:53
Alignment explanation
Indices: 18939135--18939338 Score: 210
Period size: 53 Copynumber: 3.8 Consensus size: 53
18939125 AGGGTTTAAG
* * * * * * *
18939135 GATACCAAGTAAGACTATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * * *
18939189 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAATTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT-C-ATAAGGCAAA
* * * *
18939244 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
* *
18939297 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
18939339 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
53 48 0.39
54 33 0.27
55 41 0.34
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:18947364 original size:42 final size:44
Alignment explanation
Indices: 18947305--18947392 Score: 144
Period size: 42 Copynumber: 2.0 Consensus size: 44
18947295 GACCACTTTA
* *
18947305 ACCCAACCACTGATGGTGGGGTTTGGGTCATTATCT-A-CTGTG
1 ACCCAACCACTGATGGTGGGGGTTAGGTCATTATCTAATCTGTG
18947347 ACCCAACCACTGATGGTGGGGGTTAGGTCATTATCTAATCTGTG
1 ACCCAACCACTGATGGTGGGGGTTAGGTCATTATCTAATCTGTG
18947391 AC
1 AC
18947393 TTATCAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 34 0.81
43 1 0.02
44 7 0.17
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (44 bp):
ACCCAACCACTGATGGTGGGGGTTAGGTCATTATCTAATCTGTG
Found at i:18948795 original size:63 final size:63
Alignment explanation
Indices: 18948696--18948814 Score: 202
Period size: 63 Copynumber: 1.9 Consensus size: 63
18948686 AGGTGTTGTG
*
18948696 TTTATATGAATAGGAAATTAATCCTAGTCCTGTTAGAGGTCTATTCCCTGCAAGCATGTTGCA
1 TTTATATGAATAGGAAATTAATCCTAATCCTGTTAGAGGTCTATTCCCTGCAAGCATGTTGCA
* * *
18948759 TTTATATTAGTAGGAAATTAATCCTAATCCTTTTAGAGGTCTATTCCCTGCAAGCA
1 TTTATATGAATAGGAAATTAATCCTAATCCTGTTAGAGGTCTATTCCCTGCAAGCA
18948815 AAATCTACAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (63 bp):
TTTATATGAATAGGAAATTAATCCTAATCCTGTTAGAGGTCTATTCCCTGCAAGCATGTTGCA
Found at i:18950349 original size:14 final size:15
Alignment explanation
Indices: 18950315--18950352 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
18950305 ACTATTTCTA
18950315 GGTTTATGGGTTATG
1 GGTTTATGGGTTATG
18950330 GGTTTA-GGGATTAT-
1 GGTTTATGGG-TTATG
18950344 GGTTTATGG
1 GGTTTATGG
18950353 TTTAAGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (15 bp):
GGTTTATGGGTTATG
Found at i:18950395 original size:7 final size:7
Alignment explanation
Indices: 18950315--18950396 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 7
18950305 ACTATTTCTA
18950315 GGTTTATG
1 GGTTTA-G
18950323 GG-TTATG
1 GGTTTA-G
18950330 GGTTTAG
1 GGTTTAG
* *
18950337 GGATTAT
1 GGTTTAG
*
18950344 GGTTTAT
1 GGTTTAG
18950351 GGTTTA-
1 GGTTTAG
* *
18950357 AGTGTTGG
1 GGT-TTAG
*
18950365 GGTTTAA
1 GGTTTAG
*
18950372 AGTTTAG
1 GGTTTAG
*
18950379 GGGTTAG
1 GGTTTAG
18950386 GGTTTAG
1 GGTTTAG
18950393 GGTT
1 GGTT
18950397 CATGAGTTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
6 2 0.03
7 49 0.84
8 7 0.12
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:18956284 original size:24 final size:24
Alignment explanation
Indices: 18956227--18956273 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
18956217 AACCATGATG
*
18956227 GTTAATTTTTACGAGTTTTGTAGT
1 GTTAATTATTACGAGTTTTGTAGT
18956251 GTTAATTATTACGAGTTTTGTAG
1 GTTAATTATTACGAGTTTTGTAG
18956274 CTTCTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.04, G:0.21, T:0.51
Consensus pattern (24 bp):
GTTAATTATTACGAGTTTTGTAGT
Found at i:18956434 original size:24 final size:22
Alignment explanation
Indices: 18956407--18956450 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
18956397 AATTTCAAAA
18956407 ATAAAACATAATATAATATTTATC
1 ATAAAA-ATAA-ATAATATTTATC
*
18956431 ATAAAAATAAATATTATTTA
1 ATAAAAATAAATAATATTTA
18956451 AAGATATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATC
Found at i:18956509 original size:43 final size:43
Alignment explanation
Indices: 18956462--18956713 Score: 219
Period size: 43 Copynumber: 5.9 Consensus size: 43
18956452 AGATATGTTC
* * *
18956462 TTTAGCAGCGTTT-TCGGAAAAAGCGTCGCTAAAGGTTATGGTT
1 TTTAGCGGCGTTTGTAGG-AAAAGCGTCGCTAAAGGTCATGGTT
* * *
18956505 TTTAGCGGCGTTTGTAAGAAAAGCG-CTGTTAAAGGTCATGATT
1 TTTAGCGGCGTTTGTAGGAAAAGCGTC-GCTAAAGGTCATGGTT
* * * *
18956548 TTTAACAGCGTTTGTAGGAAAAGCGTCGCTAAAAG-CATGGTC
1 TTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTCATGGTT
* * * * * *
18956590 TTTAGCGGCTTTTG-CGGAAAAGTGCCGTTAAAGGCCATGGTT
1 TTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTCATGGTT
* * *
18956632 TTTAGCGGCGTTT-TTGGGAAAGCGCCGCTAAAGGTCAT-GTT
1 TTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTCATGGTT
* * * * *
18956673 CTTTAGCGGCGTTTATGGGAAAAGTGTCGCTACAGATCATG
1 -TTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTCATG
18956714 ACCTTTAGCG
Statistics
Matches: 167, Mismatches: 34, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
41 18 0.11
42 67 0.40
43 79 0.47
44 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTCATGGTT
Found at i:18956643 original size:84 final size:83
Alignment explanation
Indices: 18956462--18956698 Score: 260
Period size: 84 Copynumber: 2.8 Consensus size: 83
18956452 AGATATGTTC
* * * **
18956462 TTTAGCAGCGTTTTCGGAAAAAGCGTCGCTAAAGGTTATGGTTTTTAGCGGCGTTTGTAAGAAAA
1 TTTAGCAGCGTTTTAGG-AAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGC-TTT-TGGGAAAA
* * *
18956527 GCGCTGTTAAAGGTCATGATT
63 GTGCCGTTAAAGGCCATGATT
* *
18956548 TTTAACAGCGTTTGTAGGAAAAGCGTCGCTAAAAG-CATGGTCTTTAGCGGCTTTTGCGGAAAAG
1 TTTAGCAGCGTTT-TAGGAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCTTTTG-GGAAAAG
*
18956612 TGCCGTTAAAGGCCATGGTT
64 TGCCGTTAAAGGCCATGATT
* * * * *
18956632 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTATGGGAAAAG
1 TTTAGCAGCGTTTTAGGAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGC-TTT-TGGGAAAAG
18956697 TG
64 TG
18956699 TCGCTACAGA
Statistics
Matches: 128, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
83 18 0.14
84 51 0.40
85 26 0.20
86 30 0.23
87 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.31
Consensus pattern (83 bp):
TTTAGCAGCGTTTTAGGAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCTTTTGGGAAAAGTG
CCGTTAAAGGCCATGATT
Found at i:18956720 original size:43 final size:42
Alignment explanation
Indices: 18956632--18956725 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 42
18956622 GGCCATGGTT
* * **
18956632 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTATGGGAAAGCGCCGCTAAAGATCATGACC
* * *
18956674 TTTAGCGGCGTTTATGGGAAAAGTGTCGCTACAGATCATGACC
1 TTTAGCGGCGTTTATGGG-AAAGCGCCGCTAAAGATCATGACC
18956717 TTTAGCGGC
1 TTTAGCGGC
18956726 ATTTTTTTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 17 0.39
43 27 0.61
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTATGGGAAAGCGCCGCTAAAGATCATGACC
Found at i:18956731 original size:85 final size:83
Alignment explanation
Indices: 18956567--18956731 Score: 188
Period size: 85 Copynumber: 2.0 Consensus size: 83
18956557 GTTTGTAGGA
* * * ***
18956567 AAAGCGTCGCTAAAAGCATGGTCTTTAGCGGCTTTTGCGGAAAAGTGCCGTTAAAGGCCATGGTT
1 AAAGCGCCGCTAAAAGCATGGTCTTTAGCGGCTTTTGCGGAAAAGTGCCGCTAAAGACCATGACC
*
18956632 TTTAGCGGCGTTTTTGGG
66 TTTAGCGGCATTTTTGGG
* * * * *
18956650 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTATG-GGAAAAGTGTCGCTACAGATCATG
1 AAAGCGCCGCTAAAAG-CATGGTCTTTAGCGGC-TTT-TGCGGAAAAGTGCCGCTAAAGACCATG
18956714 ACCTTTAGCGGCATTTTT
63 ACCTTTAGCGGCATTTTT
18956732 TTCATAAACG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
83 14 0.21
84 15 0.22
85 36 0.54
86 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (83 bp):
AAAGCGCCGCTAAAAGCATGGTCTTTAGCGGCTTTTGCGGAAAAGTGCCGCTAAAGACCATGACC
TTTAGCGGCATTTTTGGG
Found at i:18962716 original size:107 final size:107
Alignment explanation
Indices: 18962530--18962737 Score: 317
Period size: 107 Copynumber: 1.9 Consensus size: 107
18962520 ATGGTGAATT
* * * *
18962530 TTATCTCCCTAAAATTGCAGTGGAGCAGATTAAAGCCGCAAATCCTATACCCCTGAAGTTGTAGT
1 TTATCTCCCTAAAATTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCCCTAAAATTGTAGT
* *
18962595 GGGACGGATTGAAGTTATCATGACAAATCTTATCTCTCAATC
66 GGGACAGATTGAAGTCATCATGACAAATCTTATCTCTCAATC
* *
18962637 TTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATACCCCTAAAATTGTAGT
1 TTATCTCCCTAAAATTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCCCTAAAATTGTAGT
* * *
18962702 GGGATAGATTGAAGTCATCATGGCGAATCTTATCTC
66 GGGACAGATTGAAGTCATCATGACAAATCTTATCTC
18962738 CCTAAAGTTG
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
107 90 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (107 bp):
TTATCTCCCTAAAATTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCCCTAAAATTGTAGT
GGGACAGATTGAAGTCATCATGACAAATCTTATCTCTCAATC
Found at i:18963055 original size:21 final size:21
Alignment explanation
Indices: 18963006--18963051 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
18962996 TAGAATTAGA
18963006 ATATTATTTTATTTATTTATC
1 ATATTATTTTATTTATTTATC
18963027 ATATTATTTTATTTATTTATC
1 ATATTATTTTATTTATTTATC
18963048 -TATT
1 ATATT
18963052 TATTATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
ATATTATTTTATTTATTTATC
Found at i:18963309 original size:23 final size:25
Alignment explanation
Indices: 18963276--18963327 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
18963266 ATCATCATCG
18963276 TTTATTAGTATGAT-A-T-TTTTATT
1 TTTATTAGTAT-ATCATTGTTTTATT
*
18963299 TTTATTTGTATATCATTGTTTTATT
1 TTTATTAGTATATCATTGTTTTATT
18963324 TTTA
1 TTTA
18963328 CACACTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 11 0.44
24 1 0.04
25 11 0.44
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.67
Consensus pattern (25 bp):
TTTATTAGTATATCATTGTTTTATT
Found at i:18964973 original size:63 final size:62
Alignment explanation
Indices: 18964874--18965056 Score: 276
Period size: 63 Copynumber: 2.9 Consensus size: 62
18964864 AAGGTGTTGA
* * * *
18964874 ATTTATATGAATAGGAAATTAGTCCTAAACCTGTTAGAGGTCTATTCGCTGCAAGCATGCTGC
1 ATTTATATTAGTAGGAAATTAATCCTAATCCTGTTAGAGGTCTATTC-CTGCAAGCATGCTGC
* *
18964937 ATTTATATTAGTAGGAAATTAATCCCAATCCTGTTAGAGGTCTATTCCCTGCAAGCATGTTGC
1 ATTTATATTAGTAGGAAATTAATCCTAATCCTGTTAGAGGTCTATT-CCTGCAAGCATGCTGC
*
18965000 ATTTATATTAGTAGGAAATTAATCCTAATCCTTTTAGAGGTCTATTTCCTGCAAGCA
1 ATTTATATTAGTAGGAAATTAATCCTAATCCTGTTAGAGGTCTA-TTCCTGCAAGCA
18965057 AAATCTACAG
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
63 107 0.97
64 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (62 bp):
ATTTATATTAGTAGGAAATTAATCCTAATCCTGTTAGAGGTCTATTCCTGCAAGCATGCTGC
Found at i:18969179 original size:3 final size:3
Alignment explanation
Indices: 18969171--18969199 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18969161 ATATATTTGG
18969171 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
18969200 TGCACATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18969346 original size:18 final size:18
Alignment explanation
Indices: 18969323--18969358 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
18969313 ACAATAATAT
18969323 AAAATA-ATGATATGTACA
1 AAAATATAT-ATATGTACA
18969341 AAAATATATATATGTACA
1 AAAATATATATATGTACA
18969359 TAATATAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (18 bp):
AAAATATATATATGTACA
Found at i:18970169 original size:14 final size:14
Alignment explanation
Indices: 18970150--18970199 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
18970140 GAACGTTCCT
18970150 TTTTTTTGCTGAAA
1 TTTTTTTGCTGAAA
** *
18970164 TTTTTTTTTTGGAAT
1 TTTTTTTGCT-GAAA
*
18970179 TTTTTTTGCTGGAA
1 TTTTTTTGCTGAAA
18970193 TTTTTTT
1 TTTTTTT
18970200 TGCTCTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.14, C:0.04, G:0.14, T:0.68
Consensus pattern (14 bp):
TTTTTTTGCTGAAA
Found at i:18970169 original size:15 final size:15
Alignment explanation
Indices: 18970149--18970203 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
18970139 TGAACGTTCC
*
18970149 TTTTTTTTGCTGAAA
1 TTTTTTTTGCTGGAA
*
18970164 TTTTTTTT-TTGGAA
1 TTTTTTTTGCTGGAA
18970178 TTTTTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
18970193 TTTTTTTTGCT
1 TTTTTTTTGCT
18970204 CTTTTTTCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
14 12 0.33
15 24 0.67
ACGTcount: A:0.13, C:0.05, G:0.15, T:0.67
Consensus pattern (15 bp):
TTTTTTTTGCTGGAA
Found at i:18970463 original size:29 final size:29
Alignment explanation
Indices: 18970417--18970516 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 29
18970407 TTCTGGGGCT
* *
18970417 AAATGTAATTTTTAGAAAATTTA-GGGTTA
1 AAATGTAA-TTTAAGAAAGTTTAGGGGTTA
18970446 AAATGTAATTTAAGGAAAGTTTAGGGGTCT-
1 AAATGTAATTTAA-GAAAGTTTAGGGGT-TA
* * *
18970476 AAGTGAAATTTAAAGAAAGTTTAGGGGTCA
1 AAATGTAATTT-AAGAAAGTTTAGGGGTTA
*
18970506 AAATGCAATTT
1 AAATGTAATTT
18970517 TTTTATTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
28 4 0.07
29 16 0.27
30 36 0.61
31 3 0.05
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (29 bp):
AAATGTAATTTAAGAAAGTTTAGGGGTTA
Found at i:18970516 original size:30 final size:30
Alignment explanation
Indices: 18970430--18970516 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
18970420 TGTAATTTTT
* * *
18970430 AGAAAATTTA-GGGTTAAAATGTAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
18970459 GGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
*
18970489 AGAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAGTTTAGGGGTCAAAATGAAATTT
18970517 TTTTATTAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 8 0.17
30 39 0.83
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:18970996 original size:13 final size:13
Alignment explanation
Indices: 18970978--18971013 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
18970968 ATGAGTTGAT
18970978 TTTTGAAAACAGA
1 TTTTGAAAACAGA
18970991 TTTTGAAAAACAGA
1 TTTTG-AAAACAGA
18971005 TTTTGAAAA
1 TTTTGAAAA
18971014 TATCTCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (13 bp):
TTTTGAAAACAGA
Found at i:18971011 original size:88 final size:88
Alignment explanation
Indices: 18970908--18971069 Score: 236
Period size: 88 Copynumber: 1.8 Consensus size: 88
18970898 TTGAATTAAA
* *
18970908 AAAAACAGAAATTGAAAATAGCTC-AGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATAGCTCGA-CACGTGACCCAAGGCTCAACTCACATCTCGCAATATGA
18970972 GTTGATTTTTGAAAACAGATTTTG
65 GTTGATTTTTGAAAACAGATTTTG
** * * * *
18970996 AAAAACAGATTTTGAAAATATCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGAAATTGAAAATAGCTCGACACGTGACCCAAGGCTCAACTCACATCTCGCAATATGAG
18971061 TTGATTTTT
66 TTGATTTTT
18971070 TTGAAAAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
88 64 0.98
89 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATAGCTCGACACGTGACCCAAGGCTCAACTCACATCTCGCAATATGAG
TTGATTTTTGAAAACAGATTTTG
Found at i:18971217 original size:77 final size:79
Alignment explanation
Indices: 18971033--18971229 Score: 229
Period size: 77 Copynumber: 2.5 Consensus size: 79
18971023 ATGTGACCCG
* * * *
18971033 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTG---AAAAATAC
* * * * * *
18971098 CTTAGTGTGTGATCTGA
63 CTCAGCGCGTAAGCTCA
* *
18971115 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTG-AAAATAGCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTC
18971178 AGCGCGTAAGC-CA
66 AGCGCGTAAGCTCA
*
18971191 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
18971230 TTTAAAGGTA
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
76 2 0.02
77 51 0.50
81 47 0.47
82 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (79 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTC
AGCGCGTAAGCTCA
Found at i:18971219 original size:246 final size:241
Alignment explanation
Indices: 18970870--18971405 Score: 630
Period size: 246 Copynumber: 2.2 Consensus size: 241
18970860 AGAAATTAAA
* * *** * *
18970870 AAGCTCAACTCACCTCTTGCAATATGAGTTGA--ATTAAAAAAAACAGAAATTGAAAATAGCTCA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCA
* * * **
18970933 GCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAA-ACAGATTTTG
66 GCACGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAGACAGAAATTG
** * * **
18970996 AAAAACAGATTTTGAAAATATCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTGAG
131 AAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAG
* * * *
18971061 TTGATTTTTTTGAAAAATATAAATTGAAAAAAAATACCTTAGTGTGTGATCTG
196 TTGATTTTTTTG-AAAATAGAAATTG----AAAATACCTCAGCGTGT--CCTG
18971114 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCA
* * **
18971179 GCGCGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTAAAGGTAGAAA
66 GCACGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGA---TTTTTTGAAAGACAGAAA
* * * * * *
18971244 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTAACCTGAGGCTCAACTCGCCTCTCGCAATAC
128 TTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATAC
* *
18971309 GAGTTGATTTTTTTGACAATAGAAATTGAAATTACCTCAGCGTGTCCTG
193 GAGTTGATTTTTTTGAAAATAGAAATTGAAAATACCTCAGCGTGTCCTG
*
18971358 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACA
18971406 TACCTCAGCA
Statistics
Matches: 249, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
244 65 0.26
245 15 0.06
246 79 0.32
250 19 0.08
251 71 0.29
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (241 bp):
AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCA
GCACGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAGACAGAAATTG
AAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAG
TTGATTTTTTTGAAAATAGAAATTGAAAATACCTCAGCGTGTCCTG
Found at i:18971447 original size:65 final size:67
Alignment explanation
Indices: 18971330--18971681 Score: 305
Period size: 72 Copynumber: 5.0 Consensus size: 67
18971320 TTTGACAATA
* **
18971330 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAA-TGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
*
18971395 TTT
65 ATT
* * *
18971398 GAAA-GACA-TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTT
1 GAAATGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTT
*
18971461 TTTT
64 TATT
* * *
18971465 GAAAAACAGAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGT
1 --------GAAA-TGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
* **
18971530 TGAATTTTGAAAACA
57 TG-ATTTT---TATT
*
18971545 GAAATTGAAATTACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
1 GAAA-TGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTT
* *
18971610 GAAAAAAT
64 ----TATT
* *
18971618 -AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
1 GAAA-TGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
18971682 GAAAACGGAA
Statistics
Matches: 242, Mismatches: 24, Indels: 37
0.80 0.08 0.12
Matches are distributed among these distances:
65 44 0.18
66 3 0.01
67 8 0.03
68 4 0.02
71 4 0.02
72 117 0.48
73 4 0.02
75 4 0.02
77 7 0.03
78 46 0.19
79 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (67 bp):
GAAATGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTA
TT
Found at i:18971584 original size:72 final size:72
Alignment explanation
Indices: 18971406--18971687 Score: 420
Period size: 72 Copynumber: 3.8 Consensus size: 72
18971396 TTGAAAGACA
* *
18971406 TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTTTTTTGAAAAA
1 TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-----ATTTTG-AAAA
*
18971471 CAGAAATTGAAAA
60 CAGAAATTGAAAT
*
18971484 TACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
1 TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
18971549 TTGAAAT
66 TTGAAAT
* * * *
18971556 TACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAAATAAA
1 TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
18971621 TTGAAAT
66 TTGAAAT
* *
18971628 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
1 TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
18971688 GGAAGTAACA
Statistics
Matches: 192, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
72 140 0.73
73 5 0.03
78 47 0.24
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (72 bp):
TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
TTGAAAT
Found at i:18971666 original size:144 final size:144
Alignment explanation
Indices: 18971248--18971687 Score: 507
Period size: 144 Copynumber: 3.0 Consensus size: 144
18971238 TAGAAATTGA
* * * *** *
18971248 AAAACGGAAATTGAAAATACCTCGGCGTGTAACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACAGAAATTG-AAATACCTCAGCGTGT-A-TTGAGGCTCAACTCATTTCTCGCAATATGAGT
* * * **
18971313 TGATTTTTTTGACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
63 TGA-TTTTTTGAAAAAAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGC
18971378 AATATGAGTTG-ATTTT-
127 AATATGAGTTGAATTTTG
**** * * * *
18971394 --TTTTGAAA--GACATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGA
1 AAAACAGAAATTGAAATACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* * *
18971455 TTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCG
66 ----TTTTTTGAAAAA-AGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCG
18971520 CAATATGAGTTGAATTTTG
126 CAATATGAGTTGAATTTTG
18971539 AAAACAGAAATTGAAATTACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAA-TACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * *
18971604 A-ATTTTGAAAAAATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 ATTTTTTGAAAAAAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
18971668 ATGAGTTGAATTTTG
130 ATGAGTTGAATTTTG
18971683 AAAAC
1 AAAAC
18971688 GGAAGTAACA
Statistics
Matches: 247, Mismatches: 36, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
139 29 0.12
141 13 0.05
142 12 0.05
143 54 0.22
144 76 0.31
145 10 0.04
147 4 0.02
149 3 0.01
150 46 0.19
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (144 bp):
AAAACAGAAATTGAAATACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
TTTTTTGAAAAAAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGAATTTTG
Found at i:18991261 original size:9 final size:9
Alignment explanation
Indices: 18991247--18991280 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
18991237 NNNNNNNNNN
*
18991247 AATAATAAT
1 AATAATAAC
18991256 AATAATAAC
1 AATAATAAC
*
18991265 AATAATAGC
1 AATAATAAC
18991274 AATAATA
1 AATAATA
18991281 GTAAAATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (9 bp):
AATAATAAC
Found at i:18991366 original size:22 final size:22
Alignment explanation
Indices: 18991323--18991368 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
18991313 GGTAAGGAAA
*
18991323 ATAAATATAATATATTAGATAT
1 ATAAATATAATATATAAGATAT
*
18991345 ATAAATATAATA-GTAA-ATAT
1 ATAAATATAATATATAAGATAT
18991365 ATAA
1 ATAA
18991369 TGTTAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 2 0.09
22 12 0.55
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (22 bp):
ATAAATATAATATATAAGATAT
Found at i:18991509 original size:3 final size:3
Alignment explanation
Indices: 18991501--18991652 Score: 122
Period size: 3 Copynumber: 51.3 Consensus size: 3
18991491 AATATTTATA
* * *
18991501 AAT AAT AAT AAT TA- AAT AAT AAT AAT AAT -AT GAT AAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
18991547 -AT ATT AAGT AAGT -AT AAAT AAT ATGT ACAT AAC AGT AAT AAT AAT
1 AAT AAT AA-T AA-T AAT -AAT AAT A-AT A-AT AAT AAT AAT AAT AAT
*
18991592 AAGT AAC AAT AAT AAT -AT AAT AAT -AT AAT -AT AAT AAT AAT AAT
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18991635 AAT AAT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
18991653 TATAGAAATT
Statistics
Matches: 121, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
2 14 0.12
3 93 0.77
4 14 0.12
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:18991523 original size:17 final size:17
Alignment explanation
Indices: 18991501--18991651 Score: 77
Period size: 16 Copynumber: 8.7 Consensus size: 17
18991491 AATATTTATA
18991501 AATAATAATAATTAAAT
1 AATAATAATAATTAAAT
18991518 AATAATAATAATATGATAAT
1 AATAATAATAAT-T-A-AAT
* *
18991538 GATAATAATATATTAAGT
1 AATAATAATA-ATTAAAT
*
18991556 AAGT-ATAAATAATATGTACAT
1 AA-TAAT-AAT-A-AT-TAAAT
* *
18991577 AACAGTAATAA-T-AAT
1 AATAATAATAATTAAAT
*
18991592 AAGTAACAATAA-TAATAT
1 AA-TAATAATAATTAA-AT
18991610 AATAAT-ATAA-TATAAT
1 AATAATAATAATTA-AAT
18991626 AATAATAATAA-T-AAT
1 AATAATAATAATTAAAT
18991641 AAT-ATAATAAT
1 AATAATAATAAT
18991652 ATATAGAAAT
Statistics
Matches: 107, Mismatches: 12, Indels: 32
0.71 0.08 0.21
Matches are distributed among these distances:
14 7 0.07
15 10 0.09
16 22 0.21
17 22 0.21
18 11 0.10
19 7 0.07
20 20 0.19
21 8 0.07
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (17 bp):
AATAATAATAATTAAAT
Found at i:18991613 original size:5 final size:5
Alignment explanation
Indices: 18991603--18991649 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
18991593 AGTAACAATA
18991603 ATAAT AT-A- ATAAT ATAAT ATAAT AATAAT AATAAT AATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT -ATAAT -ATAAT ATAAT
18991649 A
1 A
18991650 ATATATAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 18 0.46
6 17 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:18991646 original size:36 final size:35
Alignment explanation
Indices: 18991505--18991654 Score: 136
Period size: 36 Copynumber: 4.3 Consensus size: 35
18991495 TTTATAAATA
*
18991505 ATAATAAT-TAAATAATAATAATAAT-ATGATAAT
1 ATAATAATATAAATAATAATAATAATAATAATAAT
*
18991538 GATAATAATAT-ATTAAGTAAGT-AT-A-AATAAT-AT
1 -ATAATAATATAAATAA-TAA-TAATAATAATAATAAT
* * *
18991571 GTACATAACAGT-AATAATAATAAGTAACAATAATAAT
1 ATA-ATAATA-TAAATAATAATAA-TAATAATAATAAT
18991608 ATAATAATATAATATAATAATAATAATAATAATAAT
1 ATAATAATATAA-ATAATAATAATAATAATAATAAT
18991644 ATAATAATATA
1 ATAATAATATA
18991655 TAGAAATTCA
Statistics
Matches: 95, Mismatches: 8, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
32 3 0.03
33 11 0.12
34 23 0.24
35 8 0.08
36 36 0.38
37 14 0.15
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (35 bp):
ATAATAATATAAATAATAATAATAATAATAATAAT
Found at i:18991652 original size:17 final size:17
Alignment explanation
Indices: 18991501--18991649 Score: 116
Period size: 17 Copynumber: 8.8 Consensus size: 17
18991491 AATATTTATA
18991501 AATAATAATAAT-TAAAT
1 AATAATAATAATAT-AAT
*
18991518 AATAATAATAATATGAT
1 AATAATAATAATATAAT
* *
18991535 AATGATAATAATATATT
1 AATAATAATAATATAAT
18991552 AAGTAAGT-ATAA-ATAAT
1 AA-TAA-TAATAATATAAT
* *
18991569 -AT-GTACATAACAGTAAT
1 AATAATA-ATAATA-TAAT
*
18991586 AATAATAAGTAACAATAAT
1 AATAATAA-TAA-TATAAT
18991605 AAT-ATAATAATATAAT
1 AATAATAATAATATAAT
18991621 -ATAATAATAATAATAAT
1 AATAATAATAAT-ATAAT
18991638 AATAAT-ATAATA
1 AATAATAATAATA
18991650 ATATATAGAA
Statistics
Matches: 108, Mismatches: 10, Indels: 29
0.73 0.07 0.20
Matches are distributed among these distances:
13 1 0.01
15 7 0.06
16 16 0.15
17 51 0.47
18 19 0.18
19 13 0.12
20 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (17 bp):
AATAATAATAATATAAT
Found at i:18991710 original size:16 final size:16
Alignment explanation
Indices: 18991599--18991707 Score: 50
Period size: 16 Copynumber: 6.8 Consensus size: 16
18991589 AATAAGTAAC
* *
18991599 AATAATAATATAATAA
1 AATAATATTAAAATAA
*
18991615 TATAATA-TAATAATAA
1 AATAATATTAA-AATAA
* *
18991631 TAATAATA--ATAATAT
1 -AATAATATTAAAATAA
18991646 AATAATATATAGAAATTCAA
1 AATAATAT-TA-AAA-T-AA
* *
18991666 AA-AA-ACTAACATAA
1 AATAATATTAAAATAA
*
18991680 TATAATATTAAAATAA
1 AATAATATTAAAATAA
18991696 AATAAT-TTAAAA
1 AATAATATTAAAA
18991708 ATACTATGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 21
0.67 0.12 0.20
Matches are distributed among these distances:
14 10 0.14
15 15 0.21
16 27 0.39
17 9 0.13
18 3 0.04
19 3 0.04
20 3 0.04
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (16 bp):
AATAATATTAAAATAA
Found at i:18993512 original size:71 final size:73
Alignment explanation
Indices: 18993409--18993550 Score: 236
Period size: 71 Copynumber: 2.0 Consensus size: 73
18993399 AATAAAAAGA
*
18993409 AATTGAAATACCTCGAGCGTGTAACCTGAGGCTCAACTCACTCTCGC-ATATGAGTTGATTTTTT
1 AATTGAAATACCTCGAGCATGT-ACCTGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTT
18993473 TTGAAATAG
65 TTGAAATAG
18993482 AATTGAAATTACCTC-AGCATGT-CCTGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTT
1 AATTGAAA-TACCTCGAGCATGTACCTGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTT
18993545 TTGAAA
65 TTGAAA
18993551 ATACCTCACT
Statistics
Matches: 66, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
71 23 0.35
72 23 0.35
73 14 0.21
74 6 0.09
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (73 bp):
AATTGAAATACCTCGAGCATGTACCTGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTTT
TGAAATAG
Found at i:19005673 original size:20 final size:22
Alignment explanation
Indices: 19005645--19005690 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
19005635 TTTGGTAATA
*
19005645 ATAATAATA-ATA-ATATGCAC
1 ATAAAAATACATATATATGCAC
*
19005665 ATAAAAATACATATATATGCAT
1 ATAAAAATACATATATATGCAC
19005687 ATAA
1 ATAA
19005691 TAAAAGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 3 0.14
22 11 0.50
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (22 bp):
ATAAAAATACATATATATGCAC
Found at i:19005804 original size:18 final size:18
Alignment explanation
Indices: 19005781--19005843 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
19005771 ACAATAATAT
19005781 AAAATA-ATGATATGTACA
1 AAAATATAT-ATATGTACA
19005799 AAAATATATATATGTAC-
1 AAAATATATATATGTACA
*
19005816 ATAATATAGT-TA--TA-A
1 AAAATATA-TATATGTACA
19005831 AAAATATATATAT
1 AAAATATATATAT
19005844 TAAATTCGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
14 1 0.03
15 11 0.29
17 9 0.24
18 15 0.39
19 2 0.05
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (18 bp):
AAAATATATATATGTACA
Found at i:19006666 original size:28 final size:26
Alignment explanation
Indices: 19006611--19006667 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
19006601 TGAATATTCC
*
19006611 TTTTTTTTTGGTTTTTTTTGCTGATT
1 TTTTTTTTTGGTTTTTTTTGCTCATT
19006637 TTTTTTTTTGGAATTTTTTTTGCTC-TT
1 TTTTTTTTTGG--TTTTTTTTGCTCATT
19006664 TTTT
1 TTTT
19006668 CTCCAATGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 11 0.39
27 6 0.21
28 11 0.39
ACGTcount: A:0.05, C:0.05, G:0.12, T:0.77
Consensus pattern (26 bp):
TTTTTTTTTGGTTTTTTTTGCTCATT
Found at i:19006968 original size:30 final size:30
Alignment explanation
Indices: 19006869--19006968 Score: 121
Period size: 30 Copynumber: 3.4 Consensus size: 30
19006859 TTCTGGGGCT
** * *
19006869 AAATGAAATTTTTAGAAAATTTA-GGGTTA
1 AAATGAAATTTAAAGAAAGTTTAGGGGTCA
* *
19006898 AAATGAAATTTAAGGAAAGTTTAGGGGTCT
1 AAATGAAATTTAAAGAAAGTTTAGGGGTCA
*
19006928 AAGTGAAATTTAAAGAAAGTTTAGGGGTCA
1 AAATGAAATTTAAAGAAAGTTTAGGGGTCA
*
19006958 AAATGCAATTT
1 AAATGAAATTT
19006969 TTTTATTAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
29 19 0.32
30 40 0.68
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (30 bp):
AAATGAAATTTAAAGAAAGTTTAGGGGTCA
Found at i:19008929 original size:5 final size:5
Alignment explanation
Indices: 19008919--19008946 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
19008909 ATGATGAAAT
19008919 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
19008947 TAAATAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:19011772 original size:24 final size:26
Alignment explanation
Indices: 19011722--19011775 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
19011712 CATACTATTC
*
19011722 ATATATTTTTATGTTATTTCATATAT
1 ATATATCTTTATGTTATTTCATATAT
**
19011748 ATATATCTTTATGTTATTTGTTATAT
1 ATATATCTTTATGTTATTTCATATAT
19011774 AT
1 AT
19011776 TTCTTTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (26 bp):
ATATATCTTTATGTTATTTCATATAT
Found at i:19011780 original size:24 final size:26
Alignment explanation
Indices: 19011722--19011806 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 26
19011712 CATACTATTC
19011722 ATATA-TT-TTTATGTTATTTCATAT
1 ATATATTTCTTTATGTTATTTCATAT
* *
19011746 ATATATATCTTTATGTTATTT-GT-T
1 ATATATTTCTTTATGTTATTTCATAT
** *
19011770 ATATATTTCTTT-TACTATTTCATGT
1 ATATATTTCTTTATGTTATTTCATAT
*
19011795 ATATGTTT-TTTA
1 ATATATTTCTTTA
19011807 AATACCATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
23 6 0.12
24 21 0.43
25 10 0.20
26 12 0.24
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (26 bp):
ATATATTTCTTTATGTTATTTCATAT
Found at i:19011991 original size:16 final size:16
Alignment explanation
Indices: 19011952--19012007 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
19011942 TGTTTTCAAC
*
19011952 ATTATTATTATGTATGT
1 ATTA-TATTATGTAAGT
*
19011969 A-TATATTATGTAAAT
1 ATTATATTATGTAAGT
19011984 ATTATATTATGTAAGT
1 ATTATATTATGTAAGT
19012000 ATGTATAT
1 AT-TATAT
19012008 ATATATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 11 0.32
16 17 0.50
17 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.52
Consensus pattern (16 bp):
ATTATATTATGTAAGT
Done.