Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 49 of 51
Found at i:9626818 original size:22 final size:22
Alignment explanation
Indices: 9626744--9626820 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
9626734 GCTACCCCAT
*
9626744 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
* *
9626766 CAAACCTATGAGCATTAAATGC
1 CAAACCTTTGAGCATCAAATGC
9626788 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
9626810 CAAACCTTTGA
1 CAAACCTTTGA
9626821 CCAAACATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:9627747 original size:106 final size:106
Alignment explanation
Indices: 9627562--9627896 Score: 598
Period size: 106 Copynumber: 3.2 Consensus size: 106
9627552 TCGAGAGTAG
9627562 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
9627627 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * * * *
9627668 AGTTCAACTTCACAACGAAGAGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
9627733 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
9627774 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
* *
9627839 TTCAACTTCACAGCGTAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
9627880 AGTTCAACTTCACGACG
1 AGTTCAACTTCACGACG
9627897 GAGGATATTG
Statistics
Matches: 216, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 216 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (106 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
Found at i:9628696 original size:37 final size:37
Alignment explanation
Indices: 9628643--9628747 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
9628633 CCTTTTCGTC
*
9628643 CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
9628680 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
9628717 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
9628748 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:9629248 original size:19 final size:22
Alignment explanation
Indices: 9629206--9629249 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
9629196 ATTGATTTTT
9629206 TACACTATATATTATTATTATA
1 TACACTATATATTATTATTATA
*
9629228 TACA-TATAT-TTTTTATTTATA
1 TACACTATATATTATTA-TTATA
9629249 T
1 T
9629250 TCATTTGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 11 0.55
22 4 0.20
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (22 bp):
TACACTATATATTATTATTATA
Found at i:9629286 original size:22 final size:22
Alignment explanation
Indices: 9629258--9629323 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 22
9629248 ATTCATTTGG
*
9629258 TTATTTTTTAATACTATATTTA-
1 TTATTTTTTAATA-TATATATAC
*
9629280 TTATTTTAT-ATATATATATAC
1 TTATTTTTTAATATATATATAC
*
9629301 TT-TTTTTTAA-ATAT-TTTAC
1 TTATTTTTTAATATATATATAC
9629320 TTAT
1 TTAT
9629324 AAGCGTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 6 0.16
20 17 0.46
21 6 0.16
22 8 0.22
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTTTTTAATATATATATAC
Found at i:9629583 original size:2 final size:2
Alignment explanation
Indices: 9629578--9629609 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9629568 TTTACTCATT
9629578 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9629610 TTCATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9629638 original size:5 final size:4
Alignment explanation
Indices: 9629557--9629648 Score: 60
Period size: 4 Copynumber: 22.5 Consensus size: 4
9629547 GTTATGATTA
* * * * * * * * *
9629557 TTAT TTTT TTAT TTAC TCAT TTAT ATAT ATAT ATAT ATAT ATAT ATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
*
9629605 TATAT TTCAT TTAT TTAT TTAT TTATT TTAT TT-T TTAC TTAT TT
1 T-TAT TT-AT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TT
9629649 TTATTCTTCA
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
3 3 0.04
4 59 0.80
5 12 0.16
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.66
Consensus pattern (4 bp):
TTAT
Found at i:9629646 original size:24 final size:24
Alignment explanation
Indices: 9629610--9629664 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
9629600 TATATTATAT
*
9629610 TTCATTTATTTA-TT-TATTTATT-
1 TTCATTT-TTTACTTATTTTTATTC
9629632 TT-ATTTTTTACTTATTTTTATTC
1 TTCATTTTTTACTTATTTTTATTC
9629655 TTCATTTTTT
1 TTCATTTTTT
9629665 TCATTTATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 9 0.32
23 2 0.07
24 7 0.25
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (24 bp):
TTCATTTTTTACTTATTTTTATTC
Found at i:9630220 original size:16 final size:16
Alignment explanation
Indices: 9630199--9630234 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
9630189 GAACTGATAG
9630199 TGGTGGTATAGAAGGA
1 TGGTGGTATAGAAGGA
9630215 TGGTGGTATAGAAGGA
1 TGGTGGTATAGAAGGA
9630231 TGGT
1 TGGT
9630235 TGGCAGGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.44, T:0.28
Consensus pattern (16 bp):
TGGTGGTATAGAAGGA
Found at i:9632204 original size:37 final size:38
Alignment explanation
Indices: 9632149--9632230 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 38
9632139 TTCTAAGACT
* *
9632149 TTACCGC-AGACTCCTGCTTTGTGCTCATGGTAAGTCC
1 TTACCGCAAGACTCATGCTTTGTGCTCAAGGTAAGTCC
9632186 TTACCGCAAG-CTCATGCTTTGTGCTCAAGGTAAGTCC
1 TTACCGCAAGACTCATGCTTTGTGCTCAAGGTAAGTCC
9632223 TTACCGCA
1 TTACCGCA
9632231 TGTCCTTATG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 40 0.95
38 2 0.05
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (38 bp):
TTACCGCAAGACTCATGCTTTGTGCTCAAGGTAAGTCC
Found at i:9632644 original size:2 final size:2
Alignment explanation
Indices: 9632639--9632671 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9632629 TGTGTGTGTG
9632639 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9632672 GCAGGGTCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9634983 original size:17 final size:17
Alignment explanation
Indices: 9634957--9635007 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
9634947 TTATGTCATC
*
9634957 TTTATAATATTTTTTAT
1 TTTATTATATTTTTTAT
* *
9634974 TTTATTATATTATATAT
1 TTTATTATATTTTTTAT
9634991 TTATATATATATTTTTT
1 TT-TAT-TATATTTTTT
9635008 TAATTTTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 16 0.59
18 3 0.11
19 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTATATTTTTTAT
Found at i:9636784 original size:30 final size:30
Alignment explanation
Indices: 9636740--9636803 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
9636730 AGAATCGGCA
* *
9636740 GTTCACACCGGTTTTGCCAGTTTTCAGCCG
1 GTTCACACCGGTTTTACCAGTTCTCAGCCG
* * * *
9636770 GTTCACCCCTGTTTTATCGGTTCTCAGCCG
1 GTTCACACCGGTTTTACCAGTTCTCAGCCG
9636800 GTTC
1 GTTC
9636804 TATCGGTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.11, C:0.31, G:0.22, T:0.36
Consensus pattern (30 bp):
GTTCACACCGGTTTTACCAGTTCTCAGCCG
Found at i:9640437 original size:423 final size:411
Alignment explanation
Indices: 9639663--9640497 Score: 1546
Period size: 423 Copynumber: 2.0 Consensus size: 411
9639653 ATTGATGTTG
9639663 AAATTAATTTGAATTTAATTGAAAGGAGTCGACATCGACCTTTATGTTAGGTAGTCGAATACCAA
1 AAATTAATTTGAATTTAATTGAAAGGAGTCGACATCGACCTTTATGTTAGGTAGTCGAATACCAA
9639728 AAAACGTCTTTTAAAACAATTTAATAAAAATATTTTTAGACAAAATTCGGTATGCGTTACCAAAG
66 AAAACGTCTTTTAAAACAATTTAATAAAAATATTTTTAGACAAAATTCGGTATGCGTTACCAAAG
9639793 ATTCATTTCGGGTTCGGGAGTCGGTTACGCGTAGGAATGATAAACATCCATAGCGCCCAAAATGA
131 ATTCATTTCGGGTTCGGGAGTCGGTTACGCGTAGGAATGATAAACATCCATAGCGCCCAAAATGA
9639858 GTATTGTGTCGCTTCATATCGTTGTAAACGGTGGAAATATGAATAAAATATAAAGTTAAAAAATG
196 GTATTGTGTCGCTTCATATCGTTGTAAACGGTGGAAATATGAATAAAATATAAAGTTAAAAAATG
9639923 ATTCATTTGTTGAATATGATTAATTTGTTTCAAATTGTTTAGGGAAAATTCTTTAACTTGAAAAG
261 ATTCATTTGTTGAATATGATTAATTTGTTTCAAATTGTTTAGGGAAAATTCTTTAACTTGAAAAG
9639988 AAATCTCGAGATTAGCTATCATCCGTCGAGAAAACTATCTCGTCTATTT-TTATCTTTAAAGAAT
326 AAATCTCGAGATTAGCTATCATCCGTCGAGAAAACTATCTCGTCTATTTCTTATCTTTAAAGAAT
9640052 ATTCCCTTCTTAATAAAATGC
391 ATTCCCTTCTTAATAAAATGC
9640073 AAATTAATTTGAATTTAATTGAAAGGAGTCGACATCGACCTTTATGTTAGGTAGGTCGAATACCA
1 AAATTAATTTGAATTTAATTGAAAGGAGTCGACATCGACCTTTATGTTAGGTA-GTCGAATACCA
9640138 AAAAACGTCTTTTAAAACAATTTTAATAAAAATTATTTTTAGACAAAATTCGGTATGCGTTACCA
65 AAAAACGTCTTTTAAAACAA-TTTAATAAAAA-TATTTTTAGACAAAATTCGGTATGCGTTACCA
9640203 AAGATTCATTTAAACGGGTTCGGGAGTCGGTTACGCGTAGGAATGATAAACATCCCATAGCGCCC
128 AAGATTCATTT---CGGGTTCGGGAGTCGGTTACGCGTAGGAATGATAAACAT-CCATAGCGCCC
9640268 AAAATGAGTATTGTGTCGCTTTCATATCGTTGTAAACGGTGGAAATATGAATAAAATATAAAGTT
189 AAAATGAGTATTGTGTCGC-TTCATATCGTTGTAAACGGTGGAAATATGAATAAAATATAAAGTT
9640333 AAAAAAATGATTCATTTGTTGAATATTGATTAATTTGTTTCAAATTGTTTATTAGGGAAAATTCT
253 -AAAAAATGATTCATTTGTTGAATA-TGATTAATTTGTTTCAAATTG--T-TTAGGGAAAATTCT
9640398 TTAACTTGAAAAGAAATCTCGAGATTAGCTATCATCCGTCGAGAAAACTATCTCGTCTATTTCTT
313 TTAACTTGAAAAGAAATCTCGAGATTAGCTATCATCCGTCGAGAAAACTATCTCGTCTATTTCTT
9640463 ATCTTTAAAGAATATTCCCTTCTTAATAAAATGC
378 ATCTTTAAAGAATATTCCCTTCTTAATAAAATGC
9640497 A
1 A
9640498 TATTGAATAT
Statistics
Matches: 411, Mismatches: 0, Indels: 14
0.97 0.00 0.03
Matches are distributed among these distances:
410 53 0.13
411 31 0.08
412 11 0.03
413 43 0.10
416 39 0.09
417 30 0.07
418 45 0.11
419 24 0.06
420 21 0.05
422 1 0.00
423 76 0.18
424 37 0.09
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (411 bp):
AAATTAATTTGAATTTAATTGAAAGGAGTCGACATCGACCTTTATGTTAGGTAGTCGAATACCAA
AAAACGTCTTTTAAAACAATTTAATAAAAATATTTTTAGACAAAATTCGGTATGCGTTACCAAAG
ATTCATTTCGGGTTCGGGAGTCGGTTACGCGTAGGAATGATAAACATCCATAGCGCCCAAAATGA
GTATTGTGTCGCTTCATATCGTTGTAAACGGTGGAAATATGAATAAAATATAAAGTTAAAAAATG
ATTCATTTGTTGAATATGATTAATTTGTTTCAAATTGTTTAGGGAAAATTCTTTAACTTGAAAAG
AAATCTCGAGATTAGCTATCATCCGTCGAGAAAACTATCTCGTCTATTTCTTATCTTTAAAGAAT
ATTCCCTTCTTAATAAAATGC
Found at i:9642126 original size:14 final size:15
Alignment explanation
Indices: 9642070--9642127 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
9642060 CCTTCAAATG
9642070 TAATCAAAATTAATAA
1 TAAT-AAAATTAATAA
9642086 -AA-AAAATTAATAA
1 TAATAAAATTAATAA
*
9642099 TAAT-ATATCT-ATAA
1 TAATAAAAT-TAATAA
9642113 TAATAAAA-TAATAA
1 TAATAAAATTAATAA
9642127 T
1 T
9642128 TTTTTTCGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
13 12 0.34
14 18 0.51
15 5 0.14
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATAAAATTAATAA
Found at i:9642270 original size:2 final size:2
Alignment explanation
Indices: 9642265--9642307 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
9642255 AAAAATCCTC
9642265 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9642306 AT
1 AT
9642308 GAAAGAACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9645392 original size:51 final size:51
Alignment explanation
Indices: 9645309--9645413 Score: 165
Period size: 51 Copynumber: 2.1 Consensus size: 51
9645299 TTGATGAACG
* * * *
9645309 TAAGGACTAAATTGAATACATGATGAACTTTGGATTTCAAACTGTGAAGCT
1 TAAGGACTAAATTAAATACATGATAAACTTTGGATTTCAAACTGCGAAACT
*
9645360 TAAGGACTAAATTAAATACATGATAAATTTTGGATTTCAAACTGCGAAACT
1 TAAGGACTAAATTAAATACATGATAAACTTTGGATTTCAAACTGCGAAACT
9645411 TAA
1 TAA
9645414 AATATTTAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (51 bp):
TAAGGACTAAATTAAATACATGATAAACTTTGGATTTCAAACTGCGAAACT
Found at i:9645598 original size:53 final size:53
Alignment explanation
Indices: 9645518--9645626 Score: 182
Period size: 53 Copynumber: 2.1 Consensus size: 53
9645508 AATAAACAAA
* *
9645518 TAAACACAAACTGAACATAAATACTTTTGATATTGAGCAAACCAACATGAATT
1 TAAACACAAACTGAACATAAATACTTTTGAAATTGAACAAACCAACATGAATT
* *
9645571 TAAACACAAACTGAACCTGAATACTTTTGAAATTGAACAAACCAACATGAATT
1 TAAACACAAACTGAACATAAATACTTTTGAAATTGAACAAACCAACATGAATT
9645624 TAA
1 TAA
9645627 CCTTATTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (53 bp):
TAAACACAAACTGAACATAAATACTTTTGAAATTGAACAAACCAACATGAATT
Found at i:9645642 original size:30 final size:30
Alignment explanation
Indices: 9645608--9645674 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
9645598 TGAAATTGAA
9645608 CAAACCAACATGAATTTA-A-CCTTATTTGTT
1 CAAACCAA-ATG-ATTTACACCCTTATTTGTT
*
9645638 CAAACCCAATTGATTTACACCCTTATTTGTT
1 CAAA-CCAAATGATTTACACCCTTATTTGTT
9645669 CAAACC
1 CAAACC
9645675 TCGTTGATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 5 0.15
30 9 0.27
31 19 0.58
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (30 bp):
CAAACCAAATGATTTACACCCTTATTTGTT
Found at i:9645663 original size:31 final size:31
Alignment explanation
Indices: 9645627--9645690 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
9645617 ATGAATTTAA
9645627 CCTTATTTGTTCAAACC-CAATTGATTTACAC
1 CCTTATTTGTTCAAACCTC-ATTGATTTACAC
*
9645658 CCTTATTTGTTCAAACCTCGTTGATTTACAC
1 CCTTATTTGTTCAAACCTCATTGATTTACAC
9645689 CC
1 CC
9645691 GTAATACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (31 bp):
CCTTATTTGTTCAAACCTCATTGATTTACAC
Found at i:9652623 original size:20 final size:21
Alignment explanation
Indices: 9652598--9652690 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
9652588 TTTTCCCAAT
*
9652598 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
9652618 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
9652639 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
9652659 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
9652680 TCGCAATGCGA
1 TCGCAATGCGA
9652691 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:9652643 original size:41 final size:41
Alignment explanation
Indices: 9652598--9652690 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
9652588 TTTTCCCAAT
9652598 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
9652639 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
9652680 TCGCAATGCGA
1 TCGCAATGCGA
9652691 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:9652703 original size:41 final size:41
Alignment explanation
Indices: 9652617--9652751 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
9652607 GAATAAGTAA
* *
9652617 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
9652658 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
9652699 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
9652740 TTCGCAACGCGA
1 ATCGCAACGCGA
9652752 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:9652704 original size:20 final size:20
Alignment explanation
Indices: 9652679--9652773 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
9652669 AATTGGGAAA
*
9652679 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
9652699 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
9652720 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
9652740 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
9652760 TTCACAACGCGATA
1 ATCGCAACGCGATA
9652774 ATATATAATC
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:9652989 original size:22 final size:22
Alignment explanation
Indices: 9652961--9653004 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9652951 CACTCTCTCA
9652961 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
9652983 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
9653005 TATCACAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:9653262 original size:20 final size:20
Alignment explanation
Indices: 9653237--9653274 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9653227 CGATTCTCTC
9653237 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
9653257 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
9653275 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:9654093 original size:18 final size:18
Alignment explanation
Indices: 9654067--9654111 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
9654057 TCCACTTCGG
*
9654067 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
9654085 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
9654103 GAGTCATCA
1 GAGCCATCA
9654112 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:9654643 original size:19 final size:20
Alignment explanation
Indices: 9654600--9654655 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
9654590 CGTAACACGA
9654600 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
9654620 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
9654639 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
9654656 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:9654682 original size:19 final size:19
Alignment explanation
Indices: 9654608--9654691 Score: 70
Period size: 19 Copynumber: 4.6 Consensus size: 19
9654598 GAAAATGACT
***
9654608 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGAAA
*
9654628 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
9654647 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
9654661 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
9654680 ATCGCAATGCGA
1 ATCGCAACGCGA
9654692 TTTGTGTTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 27 0.52
20 9 0.17
ACGTcount: A:0.42, C:0.23, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:9654761 original size:19 final size:19
Alignment explanation
Indices: 9654698--9654820 Score: 87
Period size: 20 Copynumber: 6.7 Consensus size: 19
9654688 GCGATTTGTG
9654698 TTTCGCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTCA
9654716 TTTCGCGTTGCGA-TTT--
1 TTTCGCGTTGCGATTTTCA
*
9654732 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
* ***
9654749 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATTTTCA
* * **
9654768 TTTCCGCTTTGTGATAGTCA
1 TTT-CGCGTTGCGATTTTCA
*
9654788 TTTCGCGTTGCGATTTTAA
1 TTTCGCGTTGCGATTTTCA
*
9654807 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
9654821 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 16 0.19
19 24 0.29
20 28 0.34
ACGTcount: A:0.13, C:0.20, G:0.24, T:0.44
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:9656672 original size:14 final size:14
Alignment explanation
Indices: 9656653--9656688 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9656643 ATTGTTTAAT
9656653 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
9656667 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
9656681 TGATTTGT
1 TGATTTGT
9656689 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:9656829 original size:19 final size:19
Alignment explanation
Indices: 9656805--9656872 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
9656795 ATCGCAACGA
9656805 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
9656824 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
9656843 AAAAATCGCAA-G-G--A-
1 GAAAATCGCAATGCGAAAT
9656857 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
9656873 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 10 0.23
15 2 0.05
16 1 0.02
17 1 0.02
18 1 0.02
19 29 0.66
ACGTcount: A:0.49, C:0.16, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:9656890 original size:19 final size:19
Alignment explanation
Indices: 9656862--9656915 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
9656852 AAGGAGAAAA
*
9656862 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
9656881 TCGCATTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
9656900 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
9656916 TCGTTGTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:9657763 original size:21 final size:21
Alignment explanation
Indices: 9657697--9657763 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
9657687 GTGAATCGGG
*
9657697 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
9657717 CCTCTTCAACGATGAAAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
9657739 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
9657760 CTCT
1 CTCT
9657764 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:9657782 original size:42 final size:41
Alignment explanation
Indices: 9657697--9657819 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
9657687 GTGAATCGGG
* * * * *
9657697 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGAAAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
9657739 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
9657781 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
9657820 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:9659851 original size:20 final size:19
Alignment explanation
Indices: 9659820--9660018 Score: 123
Period size: 19 Copynumber: 10.8 Consensus size: 19
9659810 TCTTTTGGTT
9659820 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
9659839 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
9659860 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
9659879 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
9659893 GAAATGACTATCG---CGA
1 GAAATGAAAATCGCAACGA
** * * *
9659909 -CCA-GACAATCGCAATGC
1 GAAATGAAAATCGCAACGA
* *
9659926 GAAATGAAAATCACAACTGC
1 GAAATGAAAATCGCAAC-GA
*
9659946 GAAATAAAAATCGCAACGCA
1 GAAATGAAAATCGCAACG-A
* *
9659966 -AAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGA
*
9659984 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
9660003 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
9660019 TGCGATTTTG
Statistics
Matches: 139, Mismatches: 26, Indels: 30
0.71 0.13 0.15
Matches are distributed among these distances:
14 17 0.12
15 1 0.01
16 4 0.03
17 3 0.02
18 1 0.01
19 65 0.47
20 46 0.33
21 2 0.01
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:9659902 original size:33 final size:33
Alignment explanation
Indices: 9659845--9659932 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
9659835 ACGAGATAAT
*
9659845 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
9659879 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* *
9659912 GACAATCGCAATGCGAAATGA
1 GAGAATCGCAACGCGAAATGA
9659933 AAATCACAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 36 0.72
34 14 0.28
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:9659937 original size:19 final size:19
Alignment explanation
Indices: 9659915--9660023 Score: 164
Period size: 19 Copynumber: 5.7 Consensus size: 19
9659905 GCGACCAGAC
9659915 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
9659934 AATCACAACTGCGAAATAAA
1 AATCGCAA-TGCGAAATGAA
* *
9659954 AATCGCAACGCAAAATGAA
1 AATCGCAATGCGAAATGAA
9659973 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
9659992 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
9660011 AATCGCAATGCGA
1 AATCGCAATGCGA
9660024 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
19 62 0.78
20 17 0.22
ACGTcount: A:0.49, C:0.19, G:0.18, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:9660628 original size:20 final size:20
Alignment explanation
Indices: 9660603--9660655 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
9660593 GCGCTATGTA
9660603 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
9660623 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
9660643 TATCTCGTTGCGA
1 AATCGCGTTGCGA
9660656 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:9660689 original size:20 final size:20
Alignment explanation
Indices: 9660664--9660717 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
9660654 GATTTTGTAT
*
9660664 TATCGCATTGTGATAGTAAG
1 TATCGCATTGCGATAGTAAG
* *
9660684 TATCGCATTACGATAGTCAG
1 TATCGCATTGCGATAGTAAG
9660704 TATCGCATTGCGAT
1 TATCGCATTGCGAT
9660718 TTTCCCAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:9663535 original size:37 final size:36
Alignment explanation
Indices: 9663460--9663535 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
9663450 TTTTTATATT
*
9663460 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
9663496 TTTAATTTTTTAAATAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
9663533 TTT
1 TTT
9663536 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:9668020 original size:22 final size:22
Alignment explanation
Indices: 9667994--9668037 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9667984 TAATCTAATC
*
9667994 GAACTCGAGCTAATTGGAACTA
1 GAACTCGAGCCAATTGGAACTA
9668016 GAACTCGAGCCAATTGGAACTA
1 GAACTCGAGCCAATTGGAACTA
9668038 CTCAACTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (22 bp):
GAACTCGAGCCAATTGGAACTA
Found at i:9668132 original size:21 final size:21
Alignment explanation
Indices: 9668108--9668148 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9668098 ATGTCTTTTT
9668108 TATTTTATTTTAAAAATTTAA
1 TATTTTATTTTAAAAATTTAA
*
9668129 TATTTTATTTTTAAAATTTA
1 TATTTTATTTTAAAAATTTA
9668149 GAGTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTATTTTAAAAATTTAA
Found at i:9680654 original size:16 final size:17
Alignment explanation
Indices: 9680635--9680674 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9680625 AAAATATTAG
*
9680635 TAATAATTAA-TATGAT
1 TAATAATTAACAATGAT
9680651 TAATAATTAACAATGAT
1 TAATAATTAACAATGAT
*
9680668 AAATAAT
1 TAATAAT
9680675 ACTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (17 bp):
TAATAATTAACAATGAT
Found at i:9682610 original size:24 final size:24
Alignment explanation
Indices: 9682583--9682638 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
9682573 AAAGGGGTAC
*
9682583 CGATACTACTTTACATAGTAGTAT
1 CGATACCACTTTACATAGTAGTAT
9682607 CGATACCACTTTACATAGTAGTAT
1 CGATACCACTTTACATAGTAGTAT
9682631 CGATACCA
1 CGATACCA
9682639 TTGGCTTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (24 bp):
CGATACCACTTTACATAGTAGTAT
Found at i:9682792 original size:20 final size:21
Alignment explanation
Indices: 9682747--9682792 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9682737 ATTTTTGCAG
*
9682747 AGAAAACATCCCCAAAAGGCT
1 AGAAAACATCCCCAAAAGGAT
* *
9682768 AGAAATCATCCCC-AACGGAT
1 AGAAAACATCCCCAAAAGGAT
9682788 AGAAA
1 AGAAA
9682793 CGATCATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.48, C:0.26, G:0.15, T:0.11
Consensus pattern (21 bp):
AGAAAACATCCCCAAAAGGAT
Found at i:9685896 original size:18 final size:18
Alignment explanation
Indices: 9685870--9685904 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9685860 AAAGTCCATT
* *
9685870 AAAAGTGAATTTGAACAC
1 AAAAATGAATTTCAACAC
9685888 AAAAATGAATTTCAACA
1 AAAAATGAATTTCAACA
9685905 TATGTAGTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (18 bp):
AAAAATGAATTTCAACAC
Found at i:9691105 original size:8 final size:8
Alignment explanation
Indices: 9691092--9691117 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9691082 ATATATAATA
9691092 TTTTATTT
1 TTTTATTT
9691100 TTTTATTT
1 TTTTATTT
9691108 TTTTATTT
1 TTTTATTT
9691116 TT
1 TT
9691118 GATATATCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:9703866 original size:26 final size:24
Alignment explanation
Indices: 9703795--9703866 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
9703785 TTATATTTGT
9703795 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
9703820 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
9703842 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
9703867 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:9706732 original size:33 final size:33
Alignment explanation
Indices: 9706688--9706822 Score: 107
Period size: 33 Copynumber: 4.2 Consensus size: 33
9706678 TACTGTGACT
*
9706688 AAATAAT-TTTGTTACAATTTGTTATTGTGA-A
1 AAATAATATTTGTTACAATTTGTTATTATGAGA
* * * *
9706719 AGAATATTATTTGTCACAATTTTTTATAATGAGA
1 A-AATAATATTTGTTACAATTTGTTATTATGAGA
* * * **
9706753 AATTAATATTTGTTAGAATTTGTTATTTTGATT
1 AAATAATATTTGTTACAATTTGTTATTATGAGA
* * *
9706786 AAATAA-ATTTGTCACAATTT-TTCATTTTGATA
1 AAATAATATTTGTTACAATTTGTT-ATTATGAGA
9706818 AAATA
1 AAATA
9706823 TTGGGAAGAA
Statistics
Matches: 82, Mismatches: 18, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
31 3 0.04
32 30 0.37
33 47 0.57
34 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.48
Consensus pattern (33 bp):
AAATAATATTTGTTACAATTTGTTATTATGAGA
Found at i:9706995 original size:32 final size:32
Alignment explanation
Indices: 9706959--9707021 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
9706949 AGAAATTAAT
* *
9706959 ATTTGTTATAAATTATTATTTTGATTAAATAA
1 ATTTGTTACAAATTATTATTTTGATAAAATAA
* *
9706991 ATTTGTTACAATTTTTTATTTTGATAAAATA
1 ATTTGTTACAAATTATTATTTTGATAAAATA
9707022 TTGTGACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (32 bp):
ATTTGTTACAAATTATTATTTTGATAAAATAA
Found at i:9709549 original size:38 final size:38
Alignment explanation
Indices: 9709497--9709580 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
9709487 TCAAATAGTT
* * * * *
9709497 ATAATTATTTAAATTCTTTACTTTATTAATTTTTTTAC
1 ATAATTATTCAAATTATTTACTTGATTAAATTATTTAC
9709535 ATAATTATTCAAATTATTTACTTGATTAAATTATTTAC
1 ATAATTATTCAAATTATTTACTTGATTAAATTATTTAC
9709573 ATAATTAT
1 ATAATTAT
9709581 AATTAGAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (38 bp):
ATAATTATTCAAATTATTTACTTGATTAAATTATTTAC
Found at i:9709579 original size:17 final size:17
Alignment explanation
Indices: 9709545--9709585 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9709535 ATAATTATTC
* *
9709545 AAATTATTTACTTGATT
1 AAATTATTTACATAATT
9709562 AAATTATTTACATAATT
1 AAATTATTTACATAATT
9709579 ATAATTA
1 A-AATTA
9709586 GAGAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (17 bp):
AAATTATTTACATAATT
Found at i:9709668 original size:2 final size:2
Alignment explanation
Indices: 9709661--9709686 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9709651 AATGCCATTG
9709661 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9709687 CACATAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9710928 original size:21 final size:21
Alignment explanation
Indices: 9710890--9710929 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9710880 TTTAAGTGAC
* *
9710890 AAATATTATTTGTCACAAAAA
1 AAATATTAATAGTCACAAAAA
*
9710911 AAATATTAATAGTGACAAA
1 AAATATTAATAGTCACAAA
9710930 TTAATTTTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
AAATATTAATAGTCACAAAAA
Found at i:9721226 original size:14 final size:16
Alignment explanation
Indices: 9721206--9721250 Score: 67
Period size: 14 Copynumber: 2.9 Consensus size: 16
9721196 TAACAGACTT
9721206 GTCTGTTTTCTACA-A
1 GTCTGTTTTCTACACA
9721221 -TCTGTTTTCTACACA
1 GTCTGTTTTCTACACA
*
9721236 GTTTGTTTTCTACAC
1 GTCTGTTTTCTACAC
9721251 TAAGTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.48
15 1 0.04
16 13 0.48
ACGTcount: A:0.18, C:0.22, G:0.11, T:0.49
Consensus pattern (16 bp):
GTCTGTTTTCTACACA
Found at i:9724431 original size:16 final size:17
Alignment explanation
Indices: 9724410--9724442 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9724400 AAGAAGTTGT
*
9724410 CACCAAC-CTTCAATTC
1 CACCAACGCATCAATTC
9724426 CACCAACGCATCAATTC
1 CACCAACGCATCAATTC
9724443 TCGAATCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.42, G:0.03, T:0.21
Consensus pattern (17 bp):
CACCAACGCATCAATTC
Found at i:9729837 original size:33 final size:33
Alignment explanation
Indices: 9729800--9729896 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 33
9729790 TATGAAATGA
* *
9729800 CATATTATGATCAATATAGTAAGGATTATGCTG
1 CATATTATGATCAATATATTAAGGAATATGCTG
* *
9729833 CATATTATGGTCAATATATTAAGGAATACGCTG
1 CATATTATGATCAATATATTAAGGAATATGCTG
*
9729866 CATATCATGATCAATATATTAAGGAATATGC
1 CATATTATGATCAATATATTAAGGAATATGC
9729897 CGCTGCTGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (33 bp):
CATATTATGATCAATATATTAAGGAATATGCTG
Found at i:9739738 original size:20 final size:19
Alignment explanation
Indices: 9739693--9739743 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
9739683 TATTAAATAA
9739693 ATGGTTTGATAAATTTAAT
1 ATGGTTTGATAAATTTAAT
*
9739712 ATGGGTTTTATAAATTTAGACT
1 AT-GGTTTGATAAATTTA-A-T
9739734 -TGGTTTGATA
1 ATGGTTTGATA
9739744 GGTTTGCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 2 0.07
22 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (19 bp):
ATGGTTTGATAAATTTAAT
Found at i:9747118 original size:44 final size:45
Alignment explanation
Indices: 9747058--9747149 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 45
9747048 AGAATCGTTT
*
9747058 TAAAACTTATAATTAAAATTAATGCAAAACTTAATATTTAACAAC
1 TAAAACTTATAATTAAAATTAATGCAAAACTTAAAATTTAACAAC
* * * *
9747103 TAAAA-TTATAATTAAAGTTAATGCAGAATTTAAAATTTAATAAC
1 TAAAACTTATAATTAAAATTAATGCAAAACTTAAAATTTAACAAC
9747147 TAA
1 TAA
9747150 CTATATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 37 0.88
45 5 0.12
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (45 bp):
TAAAACTTATAATTAAAATTAATGCAAAACTTAAAATTTAACAAC
Found at i:9747157 original size:44 final size:44
Alignment explanation
Indices: 9747061--9747159 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
9747051 ATCGTTTTAA
*
9747061 AACT-TATAATTAAAATTAATGCAAAACTTAATATTTAACAACT
1 AACTATATAATTAAAATTAATGCAAAACTTAAAATTTAACAACT
* * * * *
9747104 AA-AATTATAATTAAAGTTAATGCAGAATTTAAAATTTAATAACT
1 AACTA-TATAATTAAAATTAATGCAAAACTTAAAATTTAACAACT
9747148 AACTATATAATT
1 AACTATATAATT
9747160 TATTTTTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
43 2 0.04
44 43 0.93
45 1 0.02
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (44 bp):
AACTATATAATTAAAATTAATGCAAAACTTAAAATTTAACAACT
Found at i:9753616 original size:94 final size:94
Alignment explanation
Indices: 9753455--9753636 Score: 364
Period size: 94 Copynumber: 1.9 Consensus size: 94
9753445 TCACAAGGTG
9753455 AATGGGAGGATGCTTCTTCACAAGGTGAGGTGCTGAGATCGTAAATGCGGCCTATTGATATTTTT
1 AATGGGAGGATGCTTCTTCACAAGGTGAGGTGCTGAGATCGTAAATGCGGCCTATTGATATTTTT
9753520 CAGTGTAAAAATATAAGCTGAAAATGACT
66 CAGTGTAAAAATATAAGCTGAAAATGACT
9753549 AATGGGAGGATGCTTCTTCACAAGGTGAGGTGCTGAGATCGTAAATGCGGCCTATTGATATTTTT
1 AATGGGAGGATGCTTCTTCACAAGGTGAGGTGCTGAGATCGTAAATGCGGCCTATTGATATTTTT
9753614 CAGTGTAAAAATATAAGCTGAAA
66 CAGTGTAAAAATATAAGCTGAAA
9753637 TTCTTGAAAC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (94 bp):
AATGGGAGGATGCTTCTTCACAAGGTGAGGTGCTGAGATCGTAAATGCGGCCTATTGATATTTTT
CAGTGTAAAAATATAAGCTGAAAATGACT
Found at i:9758678 original size:3 final size:3
Alignment explanation
Indices: 9758670--9758702 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9758660 TTTTATCTAA
9758670 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9758703 GTTTATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9770601 original size:24 final size:24
Alignment explanation
Indices: 9770559--9770610 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
9770549 ATATTTTTTA
* *
9770559 ATAATAATATTATGATATTATCTT
1 ATAATAATATTAAGATATTACCTT
9770583 ATAATAATATGTAAG-TATTACCTT
1 ATAATAATAT-TAAGATATTACCTT
9770607 -TAAT
1 ATAAT
9770611 TTTTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 18 0.72
25 3 0.12
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (24 bp):
ATAATAATATTAAGATATTACCTT
Found at i:9770655 original size:25 final size:26
Alignment explanation
Indices: 9770613--9770683 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
9770603 CCTTTAATTT
*
9770613 TTTAATAATAAATAATTAAATT-TAAA
1 TTTAA-AATAAAAAATTAAATTATAAA
* * **
9770639 TTTAAAATATAACATT-AATTATATT
1 TTTAAAATAAAAAATTAAATTATAAA
9770664 TTTAAAATAAAAAATTAAAT
1 TTTAAAATAAAAAATTAAAT
9770684 GATCAAAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
24 4 0.11
25 24 0.67
26 8 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (26 bp):
TTTAAAATAAAAAATTAAATTATAAA
Found at i:9771538 original size:21 final size:21
Alignment explanation
Indices: 9771487--9771539 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
9771477 ATTATGACTA
9771487 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
** *
9771508 TCGCGTTGCGATTTTCTTAA-T
1 TCGCAATGCGATTTTC-CAATT
9771529 TCGCAATGCGA
1 TCGCAATGCGA
9771540 ATTTGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:9771553 original size:21 final size:21
Alignment explanation
Indices: 9771529--9771581 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
9771519 TTTTCTTAAT
9771529 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
*
9771550 TCGCAATGCGGATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
*
9771571 TCGCAACGCGA
1 TCGCAATGCGA
9771582 TAATACAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:9771624 original size:20 final size:20
Alignment explanation
Indices: 9771592--9771656 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
9771582 TAATACAAAA
*
9771592 TCGCAACGCGATACTGACTT
1 TCGCAGCGCGATACTGACTT
*** * *
9771612 TCGCAGTTTGATACTTAATT
1 TCGCAGCGCGATACTGACTT
*
9771632 TCGCAGCGCAATACTGACTT
1 TCGCAGCGCGATACTGACTT
9771652 TCGCA
1 TCGCA
9771657 ACGAGATAAT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (20 bp):
TCGCAGCGCGATACTGACTT
Found at i:9772206 original size:20 final size:20
Alignment explanation
Indices: 9772157--9772215 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
9772147 TTTATTCTCT
* **
9772157 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
9772177 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
9772197 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
9772216 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:9772406 original size:25 final size:24
Alignment explanation
Indices: 9772352--9772406 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
9772342 TGTTTATTAT
* *
9772352 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
9772376 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
9772402 TGTTT
1 TGTTT
9772407 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:9773556 original size:18 final size:18
Alignment explanation
Indices: 9773535--9773582 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
9773525 TCCACTTCGG
9773535 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
9773553 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
9773571 GAGCCATCACCT
1 GAGCCATCACCT
9773583 GATCGACCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:9774177 original size:19 final size:20
Alignment explanation
Indices: 9774123--9774189 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
9774113 TAGTTTACTT
* *
9774123 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
9774143 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
9774163 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
9774182 TCGCAACG
1 TCGCAACG
9774190 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:9774216 original size:19 final size:19
Alignment explanation
Indices: 9774162--9774244 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
9774152 GGAAATGGCT
9774162 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9774181 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
9774195 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9774214 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
9774233 ATCGCAATGCGA
1 ATCGCAATGCGA
9774245 TTTACTTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 39 0.71
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:9774317 original size:20 final size:19
Alignment explanation
Indices: 9774283--9774337 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
9774273 TTGCGATTTT
*
9774283 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
9774302 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
9774322 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
9774338 AAGTAAGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:9774348 original size:20 final size:20
Alignment explanation
Indices: 9774311--9774362 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
9774301 CCATTTCCGC
* * *
9774311 GTTGCGATAGTCATTTTCGT
1 GTTGCGAAAGTAAGTTTCGT
9774331 GTTGCGAAAGTAAGTTTCGT
1 GTTGCGAAAGTAAGTTTCGT
9774351 GTTGCGAAAGTA
1 GTTGCGAAAGTA
9774363 GACTATTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.23, C:0.12, G:0.29, T:0.37
Consensus pattern (20 bp):
GTTGCGAAAGTAAGTTTCGT
Found at i:9775840 original size:20 final size:19
Alignment explanation
Indices: 9775813--9775906 Score: 81
Period size: 20 Copynumber: 5.1 Consensus size: 19
9775803 GTCTTTTGGT
9775813 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
9775832 GATAATGAAAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
9775853 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
9775872 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
9775886 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
9775905 GA
1 GA
9775907 GAATCGCAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
14 10 0.17
16 2 0.03
17 2 0.03
19 14 0.23
20 30 0.50
21 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:9775881 original size:14 final size:14
Alignment explanation
Indices: 9775862--9775950 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
9775852 GGAAATGACT
9775862 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
9775876 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
9775893 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
*
9775909 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
*
9775926 CTATCGCAACAAGAGA
1 --ATCGCAACGAGAGA
9775942 ATCGCAACG
1 ATCGCAACG
9775951 CGAAATAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 22 0.37
16 12 0.20
17 11 0.19
19 14 0.24
ACGTcount: A:0.40, C:0.25, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:9775967 original size:33 final size:33
Alignment explanation
Indices: 9775841--9775956 Score: 214
Period size: 33 Copynumber: 3.5 Consensus size: 33
9775831 AGATAATGAA
9775841 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGACTATCGCAACGAGAG
9775875 AATCGCAACGCGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGAAATGACTATCGCAACGAGAG
*
9775908 AATCGCAACGCGAAATGACTATCGCAACAAGAG
1 AATCGCAACGCGAAATGACTATCGCAACGAGAG
9775941 AATCGCAACGCGAAAT
1 AATCGCAACGCGAAAT
9775957 AAAAATCGCA
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
33 70 0.86
34 11 0.14
ACGTcount: A:0.41, C:0.24, G:0.23, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGACTATCGCAACGAGAG
Found at i:9776022 original size:19 final size:20
Alignment explanation
Indices: 9775998--9776052 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
9775988 GCGATTATCT
9775998 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATTTTCATTTCCG
*
9776017 CGTTGCGATAGTT-ATTTCCG
1 CGTTGCGAT-TTTCATTTCCG
9776037 CGTTGCGATTTTCATT
1 CGTTGCGATTTTCATT
9776053 CTCGAAACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:9776640 original size:21 final size:20
Alignment explanation
Indices: 9776593--9776643 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
9776583 TAGTAAGATG
*
9776593 CGCATTGCGATTTACGTATT
1 CGCATTGCGATTTACCTATT
* *
9776613 CGTATTGCGATTTTCCTAATT
1 CGCATTGCGATTTACCT-ATT
9776634 CGCATTGCGA
1 CGCATTGCGA
9776644 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (20 bp):
CGCATTGCGATTTACCTATT
Found at i:9776657 original size:21 final size:21
Alignment explanation
Indices: 9776633--9776681 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
9776623 TTTTCCTAAT
9776633 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATT-GGAAAA
**
9776654 TCGCAACGCGAAATTGGAAAA
1 TCGCATTGCGAAATTGGAAAA
9776675 TCGCATT
1 TCGCATT
9776682 ACGATAGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (21 bp):
TCGCATTGCGAAATTGGAAAA
Found at i:9777895 original size:6 final size:6
Alignment explanation
Indices: 9777886--9777910 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9777876 TAGGGCTCTG
9777886 CTGGTT CTGGTT CTGGTT CTGGTT C
1 CTGGTT CTGGTT CTGGTT CTGGTT C
9777911 CGGATCTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.20, G:0.32, T:0.48
Consensus pattern (6 bp):
CTGGTT
Found at i:9780212 original size:17 final size:17
Alignment explanation
Indices: 9780176--9780212 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9780166 TAATATTTTT
*
9780176 AAAAATTAAATTATATA
1 AAAAATTAAATTATAGA
*
9780193 AAAAATTAAATTTTAGA
1 AAAAATTAAATTATAGA
9780210 AAA
1 AAA
9780213 TGATCACTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAAATTAAATTATAGA
Found at i:9781460 original size:2 final size:2
Alignment explanation
Indices: 9781453--9781516 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
9781443 TTTTTCAGAC
9781453 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9781495 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
9781517 TGATAATAGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9785571 original size:51 final size:50
Alignment explanation
Indices: 9785454--9785576 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 50
9785444 CAGTAAAGCA
* * * *
9785454 CGCCCCTGACCCGCGCTATACGTTGATTTGGCGCCACGTGGGGTAACGTG
1 CGCCCCTGAACCGCGCTATATGCTGATTTGGCGCCACGTGGGGTAACGCG
9785504 CGCCCTCTGTAA-CGCGCTATATGCTGATTTGGCGCCACGTGGGGTATA-GCG
1 CGCCC-CTG-AACCGCGCTATATGCTGATTTGGCGCCACGTGGGGTA-ACGCG
9785555 CGTCCCCTGAACCGCGCTATAT
1 CG-CCCCTGAACCGCGCTATAT
9785577 CTGTAACATC
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
50 7 0.11
51 52 0.81
52 5 0.08
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (50 bp):
CGCCCCTGAACCGCGCTATATGCTGATTTGGCGCCACGTGGGGTAACGCG
Found at i:9786331 original size:21 final size:21
Alignment explanation
Indices: 9786289--9786331 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9786279 TTTCTGGGTT
* * *
9786289 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
9786310 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
9786331 A
1 A
9786332 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:9786397 original size:67 final size:68
Alignment explanation
Indices: 9786311--9786462 Score: 218
Period size: 68 Copynumber: 2.2 Consensus size: 68
9786301 ACCCATTCAA
* *
9786311 GGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATG-TTAGAGGGGAATCGGTACCCCC
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTT-GAGGGGAATCGATACCCCC
9786374 AGGG
65 AGGG
* * * *
9786378 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCTA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
9786443 GGG
66 GGG
*
9786446 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
9786463 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
67 22 0.29
68 52 0.68
69 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
GGG
Found at i:9786804 original size:29 final size:29
Alignment explanation
Indices: 9786767--9786838 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
9786757 CATATTATGA
** *
9786767 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAACGTAT
* *
9786796 TATATGACATGAATTCATATTATACGTAT
1 TACATGACATGAATTCATATTAAACGTAT
*
9786825 TGCATGACATGAAT
1 TACATGACATGAAT
9786839 ATGCAGAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAACGTAT
Found at i:9787206 original size:22 final size:22
Alignment explanation
Indices: 9787132--9787198 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
9787122 TTATGGACAT
9787132 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
9787154 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
9787176 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
9787198 A
1 A
9787199 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:9793271 original size:21 final size:21
Alignment explanation
Indices: 9793229--9793271 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9793219 TTTCTGGGTT
* * *
9793229 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
9793250 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
9793271 A
1 A
9793272 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:9793337 original size:67 final size:68
Alignment explanation
Indices: 9793251--9793402 Score: 218
Period size: 68 Copynumber: 2.2 Consensus size: 68
9793241 ACCCATTCAA
* *
9793251 GGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATG-TTAGAGGGGAATCGGTACCCCC
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTT-GAGGGGAATCGATACCCCC
9793314 AGGG
65 AGGG
* * * *
9793318 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCTA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
9793383 GGG
66 GGG
*
9793386 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
9793403 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
67 22 0.29
68 52 0.68
69 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
GGG
Found at i:9793743 original size:29 final size:29
Alignment explanation
Indices: 9793706--9793777 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
9793696 CATATTATGA
** *
9793706 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAACGTAT
* *
9793735 TATATGACATGAATTCATATTATACGTAT
1 TACATGACATGAATTCATATTAAACGTAT
*
9793764 TGCATGACATGAAT
1 TACATGACATGAAT
9793778 ATGCAGAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAACGTAT
Found at i:9794145 original size:22 final size:22
Alignment explanation
Indices: 9794071--9794137 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
9794061 TTATGGACAT
9794071 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
9794093 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
9794115 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
9794137 A
1 A
9794138 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:9800023 original size:17 final size:18
Alignment explanation
Indices: 9799980--9800020 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9799970 AAATTATATT
9799980 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
9799997 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
9800015 ATTAAA
1 AGTAAA
9800021 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:9803750 original size:14 final size:14
Alignment explanation
Indices: 9803731--9803765 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
9803721 GTGCAGATGG
9803731 ATGCTTTAGATAAA
1 ATGCTTTAGATAAA
*
9803745 ATGCTTAAGATAAA
1 ATGCTTTAGATAAA
9803759 ATGCTTT
1 ATGCTTT
9803766 TAGGAAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (14 bp):
ATGCTTTAGATAAA
Found at i:9806435 original size:27 final size:27
Alignment explanation
Indices: 9806397--9806457 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
9806387 GATTATCCTC
9806397 TCATACAAGAATACCAATTCCCTGTTT
1 TCATACAAGAATACCAATTCCCTGTTT
9806424 TCATACAAGAATACCAATTCCCTGTTT
1 TCATACAAGAATACCAATTCCCTGTTT
9806451 TCATACA
1 TCATACA
9806458 CAATGTATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (27 bp):
TCATACAAGAATACCAATTCCCTGTTT
Found at i:9808252 original size:2 final size:2
Alignment explanation
Indices: 9808245--9808301 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
9808235 ACAAAAATTG
9808245 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9808287 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
9808302 GTACTATGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9810524 original size:14 final size:14
Alignment explanation
Indices: 9810505--9810534 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9810495 ATCAATATCT
*
9810505 AGGGGGCGTGGCTG
1 AGGGGGCATGGCTG
9810519 AGGGGGCATGGCTG
1 AGGGGGCATGGCTG
9810533 AG
1 AG
9810535 CGACCGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.60, T:0.13
Consensus pattern (14 bp):
AGGGGGCATGGCTG
Found at i:9810643 original size:56 final size:56
Alignment explanation
Indices: 9810570--9810727 Score: 262
Period size: 56 Copynumber: 2.8 Consensus size: 56
9810560 AGGGGCACCG
* * *
9810570 AATCGAATATATTTATCAGTTGTTGCCATTAATAAGTATAAAAATAAGGGTCCTTA
1 AATCAAATATATCTATCAGTTGTTGCCATTAATAAGTATAAAAATAAAGGTCCTTA
*
9810626 AATCAAATATATCTATCAGTTGTTGTCATTAATAAGTATAAAAATAAAGGTCCTTA
1 AATCAAATATATCTATCAGTTGTTGCCATTAATAAGTATAAAAATAAAGGTCCTTA
* *
9810682 AATCAAATATATCTATCGGTTGTTCCCATTAATAAGTATAAAAATA
1 AATCAAATATATCTATCAGTTGTTGCCATTAATAAGTATAAAAATA
9810728 GAGCCCCGAA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 95 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (56 bp):
AATCAAATATATCTATCAGTTGTTGCCATTAATAAGTATAAAAATAAAGGTCCTTA
Found at i:9814711 original size:15 final size:15
Alignment explanation
Indices: 9814686--9814737 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
9814676 GATGATTTTA
9814686 ATTATAAATAAACTAT
1 ATTA-AAATAAACTAT
9814702 ATTAAAAT-AA-T-T
1 ATTAAAATAAACTAT
9814714 A-T-AAATAAACTAT
1 ATTAAAATAAACTAT
9814727 ATTAAAATAAA
1 ATTAAAATAAA
9814738 TAATTGGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
10 4 0.13
11 3 0.10
12 3 0.10
13 3 0.10
14 3 0.10
15 11 0.35
16 4 0.13
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTAAAATAAACTAT
Found at i:9814712 original size:25 final size:25
Alignment explanation
Indices: 9814684--9814736 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
9814674 TGGATGATTT
9814684 TAATTATAAATAAACTATATTAAAA
1 TAATTATAAATAAACTATATTAAAA
9814709 TAATTATAAATAAACTATATTAAAA
1 TAATTATAAATAAACTATATTAAAA
9814734 TAA
1 TAA
9814737 ATAATTGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (25 bp):
TAATTATAAATAAACTATATTAAAA
Found at i:9816423 original size:181 final size:181
Alignment explanation
Indices: 9816102--9816750 Score: 853
Period size: 182 Copynumber: 3.6 Consensus size: 181
9816092 CGATACAAAT
* *
9816102 TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGATAAAATC-GGTGTC-ATTAA-
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGA-AAAAACAGGTCTCGA--AAT
* ** * *
9816164 GATAAAACCGATAAAGCGCTACCGGATATGTTGAAAGTGTCGATAAATTAATATAAGTGTCGACA
63 GATAAAACCGGTAAAGAACTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACA
* *
9816229 CTTTTGTAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAGGTATCGATACTTTA
128 CTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAA-GTGTCGATACTTTA
* *
9816284 TAAAAATGTGTCGATCCATAGCAATATAACAGGTAATAATATGAAAAAACAGGTCTCGAAATGAT
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGAAAAAACAGGTCTCGAAATGAT
9816349 AAAACCGGTAAA-AACTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
66 AAAACCGGTAAAGAACTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
9816413 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTGAAAAGTGTCGATACTTTA
131 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGTGTCGATACTTTA
* * * * * * * * *
9816465 TACAAATGTATCGATCAATAGTAATGTATCCGGTAATAATATGACAAAAGAGGTCTCGAAATGAT
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGAAAAAACAGGTCTCGAAATGAT
* *
9816530 AAAACCGGTAAA-AAGATATCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACT
66 AAAACCGGTAAAGAA-CTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACT
* *
9816594 TTCGTAATTTAAAAGAGAAGAAATTATAGCGCCTAAAAAGTGTCGATACTTTA
130 TTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGTGTCGATACTTTA
* * * * *
9816647 -AGAAAATGTATCGATCTATAACAATATAATAGGTAAAAATAT-AATAAAACCGGTATCGAAATG
1 TA-AAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGAA-AAAACAGGTCTCGAAATG
* * ** * *
9816710 ACAACACCGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCG
64 ATAAAACCGGTAAAGAACTACCGGATATATTGAAAGTGTCG
9816751 GTACTTTAAT
Statistics
Matches: 413, Mismatches: 46, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
181 172 0.42
182 240 0.58
183 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (181 bp):
TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGAAAAAACAGGTCTCGAAATGAT
AAAACCGGTAAAGAACTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAGTGTCGATACTTTA
Found at i:9818994 original size:22 final size:21
Alignment explanation
Indices: 9818966--9819011 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9818956 TAAAAAAAGG
*
9818966 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
9818988 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
9819009 TAT
1 TAT
9819012 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:9819242 original size:399 final size:399
Alignment explanation
Indices: 9818745--9820786 Score: 3031
Period size: 399 Copynumber: 5.2 Consensus size: 399
9818735 TTACAATGTA
9818745 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
1 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
9818810 GTTGTCCAGAATGTATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
66 GTTGTCCAGAATGTATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
9818875 CGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCT
131 CGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCT
*
9818940 AAGTTTACTGGTTATTTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGAC
196 AAATTTACTGGTTATTTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGAC
9819005 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAG
261 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAG
9819070 TGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGG
326 TGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGG
9819135 TTTAAATTT
391 TTTAAATTT
*
9819144 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATATAT
1 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
* * *
9819209 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATATATTTATAAAAAGTAT
66 GTTGTCCAGAATGTATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
* * * * * *
9819274 CGATCCTAAAAATATCAAAATC-CGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTC
131 CGATCCTACAAACATCGAAA-CACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTC
* * * * * * * * * **
9819338 TAAATATACCGATT-TATGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACC
195 TAAATTTACTGGTTAT-TTA-AAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTC
* * *** *
9819402 GATACTTTGTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACACATT
258 GACACTTTATGTCCATAATAAATTTT-C---C-AAACAAGTTCACGAAA-AAGTGTCGATACATT
* ** * *
9819466 TATATCAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAA
317 TAGAAAAAGTGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAA
9819531 --T-----G--T--A---
382 TGTAACCGGTTTAAATTT
9819535 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
1 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
9819600 GTTGTCCAGAATGTATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
66 GTTGTCCAGAATGTATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
9819665 CGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCT
131 CGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCT
*
9819730 AAATTTACTGGTTATTTAAAAAAAGGTATACATAATGTATTGATACTTTATACATTTGTGTCGAC
196 AAATTTACTGGTTATTTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGAC
9819795 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAG
261 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAG
9819860 TGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGG
326 TGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGG
9819925 TTTAAATTT
391 TTTAAATTT
*
9819934 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATATAT
1 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
* * *
9819999 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATATATTTATAAAAAGTAT
66 GTTGTCCAGAATGTATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
* * * * * *
9820064 CGATCCTAAAAATATCAAAATC-CGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTC
131 CGATCCTACAAACATCGAAA-CACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTC
* * * * * * * * * **
9820128 TAAATATACCGATT-TATGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACC
195 TAAATTTACTGGTTAT-TTA-AAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTC
* * *** *
9820192 GATACTTTGTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACACATT
258 GACACTTTATGTCCATAATAAATTTT-C---C-AAACAAGTTCACGAAA-AAGTGTCGATACATT
* ** * *
9820256 TATATCAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAA
317 TAGAAAAAGTGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAA
9820321 TGTAACC-G---------
382 TGTAACCGGTTTAAATTT
9820329 A----TTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
1 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
9820390 GTTGTCCAGAATGTATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
66 GTTGTCCAGAATGTATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
9820455 CGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCT
131 CGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCT
9820520 AAATTTACTGGTTATTTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGAC
196 AAATTTACTGGTTATTTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGAC
9820585 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAG
261 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAG
9820650 TGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGG
326 TGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGG
9820715 TTTAAATTT
391 TTTAAATTT
* * *
9820724 ACCGGTTTTATGAGAAAATAGGTCTACAGA-ATGTATCGACACTTT-TTAAATTAGTGTCGATAC
1 ACCGGTTTTATGAGAAAATAGGTCTACA-ATATGTGTCGACACTTTATT-CATTTGTGTCGATAC
9820787 TTTTGAAAAT
Statistics
Matches: 1455, Mismatches: 134, Indels: 108
0.86 0.08 0.06
Matches are distributed among these distances:
385 179 0.12
386 9 0.01
387 1 0.00
389 2 0.00
390 117 0.08
391 385 0.26
392 3 0.00
394 2 0.00
395 2 0.00
396 2 0.00
398 5 0.00
399 439 0.30
400 118 0.08
401 2 0.00
403 1 0.00
404 9 0.01
405 179 0.12
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (399 bp):
ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
GTTGTCCAGAATGTATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
CGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCT
AAATTTACTGGTTATTTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGAC
ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAG
TGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGG
TTTAAATTT
Found at i:9819633 original size:391 final size:385
Alignment explanation
Indices: 9819144--9820717 Score: 2224
Period size: 391 Copynumber: 4.0 Consensus size: 385
9819134 GTTTAAATTT
*
9819144 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATATAT
1 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
*
9819209 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATATATTTATAAAAAGTAT
66 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTAT
* *
9819274 CGATCCTAAAAATATCAAAATC-CGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTC
131 CGATCCTAAAAACATCAAAA-CACATAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTC
* * *
9819338 TAAATATACCGATT-TATGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACC
195 TAAATATACCGGTTAT-TGA-AAAAAAGGTATACATAAAGTATCGACACTTTATAAATTTGTACC
* * ***
9819402 GATACTTTGTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACACATT
258 GACACTTTATGTCCATAATAAATTTT-C---C-AAACAAGTTCACGAAA-AAGTGTCGACACATT
* **
9819466 TATATCAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAA
317 TAGAAAAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAA
9819531 TGTA
382 TGTA
9819535 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
1 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
* *
9819600 GTTGTCCAGAATGTATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
66 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTAT
* * * *
9819665 CGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCT
131 CGATCCTAAAAACATCAAAACACATAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCT
* * * * * * * **
9819730 AAATTTACTGGTTATTTAAAAAAAGGTATACATAATGTATTGATACTTTATACATTTGTGTCGAC
196 AAATATACCGGTTATTGAAAAAAAGGTATACATAAAGTATCGACACTTTATAAATTTGTACCGAC
*
9819795 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAG
261 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGACACATTTAGAAAAAG
* *
9819860 TGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGG
326 TGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAA--T-----G
9819925 TTTAAA
384 --T--A
9819931 TTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATA
1 ---ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATA
* *
9819996 TATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATATATTTATAAAAAG
63 CATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAAAAG
* *
9820061 TATCGATCCTAAAAATATCAAAATC-CGTAATTATAATGTAATAGGTAAAATAACAATGTAACCG
128 TATCGATCCTAAAAACATCAAAA-CACATAATTATAATGTAATAGGTAAAATAACAATGTAACCG
* * *
9820125 GTCTAAATATACCGATT-TATGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGT
192 GTCTAAATATACCGGTTAT-TGA-AAAAAAGGTATACATAAAGTATCGACACTTTATAAATTTGT
* * ***
9820189 ACCGATACTTTGTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACAC
255 ACCGACACTTTATGTCCATAATAAATTTT-C---C-AAACAAGTTCACGAAA-AAGTGTCGACAC
* **
9820253 ATTTATATCAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTA
314 ATTTAGAAAAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTA
9820318 CAATGTA
379 CAATGTA
*
9820325 ACCGATTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
1 ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
* *
9820390 GTTGTCCAGAATGTATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
66 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTAT
* * * *
9820455 CGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCT
131 CGATCCTAAAAACATCAAAACACATAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCT
* * * * * * **
9820520 AAATTTACTGGTTATTTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGAC
196 AAATATACCGGTTATTGAAAAAAAGGTATACATAAAGTATCGACACTTTATAAATTTGTACCGAC
*
9820585 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAG
261 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGACACATTTAGAAAAAG
* *
9820650 TGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTA
326 TGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTA
9820710 ACCGGTTT
1 ACCGGTTT
9820718 AAATTTACCG
Statistics
Matches: 1054, Mismatches: 100, Indels: 64
0.87 0.08 0.05
Matches are distributed among these distances:
385 183 0.17
386 8 0.01
387 1 0.00
389 2 0.00
390 117 0.11
391 389 0.37
392 3 0.00
394 2 0.00
396 2 0.00
398 2 0.00
399 195 0.19
400 58 0.06
401 1 0.00
403 1 0.00
404 4 0.00
405 86 0.08
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (385 bp):
ACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACAT
GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTAT
CGATCCTAAAAACATCAAAACACATAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCT
AAATATACCGGTTATTGAAAAAAAGGTATACATAAAGTATCGACACTTTATAAATTTGTACCGAC
ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGACACATTTAGAAAAAG
TGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTA
Found at i:9819812 original size:790 final size:790
Alignment explanation
Indices: 9818241--9820785 Score: 4909
Period size: 790 Copynumber: 3.2 Consensus size: 790
9818231 TTTCCAAACA
* * * ** *
9818241 AAACAAGTTCAC-AAATAAGTATCGACACATTTATATCAAGTGTCGATCC-CAAAACATCGAAAC
1 AAACAAGTTCACGAAA-AAGTGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAAAC
* *
9818304 CCATAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGA
65 CCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGA
9818369 AAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATATATGTTGTCCAGAATGTA
130 AAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATATATGTTGTCCAGAATGTA
9818434 TTTCCAAACCAAGTGCACGAACAAAGTGTCGATATATTTATAAAAAGTATCGATCCTAAAAATAT
195 TTTCCAAACCAAGTGCACGAACAAAGTGTCGATATATTTATAAAAAGTATCGATCCTAAAAATAT
9818499 CAAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCTAAATATACCGATTTA
260 CAAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCTAAATATACCGATTTA
9818564 TGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACCGATACTTTGTGTCCATA
325 TGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACCGATACTTTGTGTCCATA
9818629 ATGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAGTGTCGATCC
390 ATGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAGTGTCGATCC
9818694 CAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTTATGAG
455 CAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTTATGAG
9818759 AAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGT
520 AAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGT
9818824 ATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGTCGATCCTACAAACA
585 ATTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGTCGATCCTACAAACA
*
9818889 TCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCTAAGTTTACTGGTTA
650 TCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCTAAATTTACTGGTTA
9818954 TTTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGACACTTTATGTCCATA
715 TTTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGACACTTTATGTCCATA
9819019 ATAAATTTTCC
780 ATAAATTTTCC
9819030 AAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAAACC
1 AAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAAACC
9819095 CGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAA
66 CGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAA
9819160 AATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATATATGTTGTCCAGAATGTAT
131 AATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATATATGTTGTCCAGAATGTAT
9819225 TTCCAAACCAAGTGCACGAACAAAGTGTCGATATATTTATAAAAAGTATCGATCCTAAAAATATC
196 TTCCAAACCAAGTGCACGAACAAAGTGTCGATATATTTATAAAAAGTATCGATCCTAAAAATATC
9819290 AAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCTAAATATACCGATTTAT
261 AAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCTAAATATACCGATTTAT
9819355 GAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACCGATACTTTGTGTCCATAA
326 GAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACCGATACTTTGTGTCCATAA
9819420 TGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAGTGTCGATCCC
391 TGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAGTGTCGATCCC
9819485 AAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTTATGAGA
456 AAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTTATGAGA
9819550 AAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTA
521 AAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTA
9819615 TTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGTCGATCCTACAAACAT
586 TTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGTCGATCCTACAAACAT
9819680 CGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCTAAATTTACTGGTTAT
651 CGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCTAAATTTACTGGTTAT
*
9819745 TTAAAAAAAGGTATACATAATGTATTGATACTTTATACATTTGTGTCGACACTTTATGTCCATAA
716 TTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGACACTTTATGTCCATAA
9819810 TAAATTTTCC
781 TAAATTTTCC
9819820 AAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAAACC
1 AAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAAACC
9819885 CGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAA
66 CGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAA
9819950 AATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATATATGTTGTCCAGAATGTAT
131 AATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATATATGTTGTCCAGAATGTAT
9820015 TTCCAAACCAAGTGCACGAACAAAGTGTCGATATATTTATAAAAAGTATCGATCCTAAAAATATC
196 TTCCAAACCAAGTGCACGAACAAAGTGTCGATATATTTATAAAAAGTATCGATCCTAAAAATATC
9820080 AAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCTAAATATACCGATTTAT
261 AAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCTAAATATACCGATTTAT
9820145 GAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACCGATACTTTGTGTCCATAA
326 GAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACCGATACTTTGTGTCCATAA
9820210 TGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAGTGTCGATCCC
391 TGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAGTGTCGATCCC
*
9820275 AAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGATTTTATGAGA
456 AAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTTATGAGA
9820340 AAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTA
521 AAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTA
9820405 TTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGTCGATCCTACAAACAT
586 TTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGTCGATCCTACAAACAT
9820470 CGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCTAAATTTACTGGTTAT
651 CGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCTAAATTTACTGGTTAT
9820535 TTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGACACTTTATGTCCATAA
716 TTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGACACTTTATGTCCATAA
9820600 TAAATTTTCC
781 TAAATTTTCC
9820610 AAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAAACC
1 AAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAAACC
9820675 CGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAA
66 CGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAA
* * *
9820740 AATAGGTCTACAGA-ATGTATCGACACTTT-TTAAATTAGTGTCGATA
131 AATAGGTCTACA-ATATGTGTCGACACTTTATT-CATTTGTGTCGATA
9820786 CTTTTGAAAA
Statistics
Matches: 1737, Mismatches: 15, Indels: 7
0.99 0.01 0.00
Matches are distributed among these distances:
789 42 0.02
790 1694 0.98
791 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (790 bp):
AAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAAACC
CGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAA
AATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATATATGTTGTCCAGAATGTAT
TTCCAAACCAAGTGCACGAACAAAGTGTCGATATATTTATAAAAAGTATCGATCCTAAAAATATC
AAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCTAAATATACCGATTTAT
GAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACCGATACTTTGTGTCCATAA
TGTGTTTTCCAAACAAAACAAGTTCACAAATAAGTGTCGACACATTTATATCAAGTGTCGATCCC
AAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTTATGAGA
AAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTA
TTTCCAAACCACGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGTCGATCCTACAAACAT
CGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCTAAATTTACTGGTTAT
TTAAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGACACTTTATGTCCATAA
TAAATTTTCC
Found at i:9820574 original size:22 final size:21
Alignment explanation
Indices: 9820546--9820591 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9820536 TAAAAAAAGG
*
9820546 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
9820568 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
9820589 TAT
1 TAT
9820592 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:9824093 original size:21 final size:22
Alignment explanation
Indices: 9824069--9824122 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
9824059 GTATACGCAT
9824069 AAAGTGTCGATACATTTTT-AA
1 AAAGTGTCGATACATTTTTAAA
*
9824090 AAAGTGTCGATATATTTTTAAA
1 AAAGTGTCGATACATTTTTAAA
*
9824112 AAAGTATCGAT
1 AAAGTGTCGAT
9824123 CATCGAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (22 bp):
AAAGTGTCGATACATTTTTAAA
Found at i:9824379 original size:20 final size:20
Alignment explanation
Indices: 9824341--9824379 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9824331 CGAAATCGAT
*
9824341 ATTTATAATGTAATAGGTTA
1 ATTTATAATGTAACAGGTTA
*
9824361 ATTTATAATGTAACCGGTT
1 ATTTATAATGTAACAGGTT
9824380 TAAATTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (20 bp):
ATTTATAATGTAACAGGTTA
Found at i:9824523 original size:23 final size:23
Alignment explanation
Indices: 9824473--9824517 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9824463 TGCCTATTTT
*
9824473 ATTATATAAACGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
* *
9824496 ATTATCTAAGCGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
9824518 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:9833579 original size:2 final size:2
Alignment explanation
Indices: 9833558--9833613 Score: 87
Period size: 2 Copynumber: 28.0 Consensus size: 2
9833548 TTTGAGTGGA
*
9833558 AT AT A- AT ACT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9833600 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
9833614 TAATAAGAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 1 0.02
2 47 0.94
3 2 0.04
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9834893 original size:3 final size:3
Alignment explanation
Indices: 9834885--9834910 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9834875 ATCGGCATTT
9834885 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9834911 TATTTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9837214 original size:2 final size:2
Alignment explanation
Indices: 9837207--9837232 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9837197 GCTTACGCTT
9837207 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9837233 AGAGCATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9838407 original size:5 final size:5
Alignment explanation
Indices: 9838397--9838422 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9838387 CTAGCTCTAG
9838397 CTTTC CTTTC CTTTC CTTTC CTTTC C
1 CTTTC CTTTC CTTTC CTTTC CTTTC C
9838423 AAAGCCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (5 bp):
CTTTC
Found at i:9839242 original size:28 final size:28
Alignment explanation
Indices: 9839202--9839258 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
9839192 TTTAAAATAC
9839202 GTATCAATGAACGTAAGAAAGGTGACAT
1 GTATCAATGAACGTAAGAAAGGTGACAT
*
9839230 GTATCAATGAACGTAAGAAATGTGACAT
1 GTATCAATGAACGTAAGAAAGGTGACAT
9839258 G
1 G
9839259 ATAATCGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.23
Consensus pattern (28 bp):
GTATCAATGAACGTAAGAAAGGTGACAT
Found at i:9843354 original size:106 final size:106
Alignment explanation
Indices: 9843169--9844259 Score: 1857
Period size: 106 Copynumber: 10.3 Consensus size: 106
9843159 GTACTGTTCC
* * *
9843169 GAGTCCAATATCC-TCTGTCGTGAAGTTGAAATTGGTTCT-AGAACTGAGAAGTTGTTTGTTGAC
1 GAGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGA-AATTGAGAAGTTGTTTGTTGAC
9843232 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
9843275 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
9843340 CTAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
9843381 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
9843446 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
9843487 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
9843552 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
9843593 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
9843658 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * **
9843699 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTCATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
9843763 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
9843804 GAGTCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
9843869 CCAGCGGTCCCTTCCTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
9843910 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
9843975 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
9844016 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
9844081 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
9844122 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
9844186 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
9844227 GAGTCCAATATCCTTCGTGGTGAAGTTGAAATT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
9844260 TACTCTCGAG
Statistics
Matches: 938, Mismatches: 44, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
105 182 0.19
106 753 0.80
107 3 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:9843956 original size:423 final size:423
Alignment explanation
Indices: 9843169--9844259 Score: 1918
Period size: 423 Copynumber: 2.6 Consensus size: 423
9843159 GTACTGTTCC
* * *
9843169 GAGTCCAATATCC-TCTG-TCGTGAAGTTGAAATTGGTTCT-AGAACTGAGAAGTTGTTTGTTGA
1 GAGTCCAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTGTTGA
9843231 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
63 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
* * * * *
9843296 GAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACTAGCGGTCCCTTCGTCGTGA
128 GAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGA
* *
9843361 AGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
192 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT
* *
9843426 GAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
257 GAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCCTCGTGAAGTTGAACTTACGTTGTCTGGAGT
*
9843491 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAG
322 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAG
*
9843556 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
387 CGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
9843593 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
9843658 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
*
9843723 GTTGAAATTGACTCTGAAATCGAGAAATGTTCATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 GTTGAAATTGACTCTGAAATCGAGAAATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
9843788 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGA
196 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
* *
9843853 AGTTGTTTGTTGACAACCAGCGGTCCCTTCCTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAA
261 AGTTGGTTATTGACAACCAGCGGTCCCTTCCTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAA
*
9843918 TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGT
326 TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGT
9843983 CCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
391 CCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
*
9844016 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
9844081 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
9844146 GTTGAAATTGACTCTGAAATCGAGAAATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 GTTGAAATTGACTCTGAAATCGAGAAATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
9844211 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGGTGAAGTTGAAATT
196 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
9844260 TACTCTCGAG
Statistics
Matches: 638, Mismatches: 26, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
423 491 0.77
424 143 0.22
425 4 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (423 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGACTCTGAAATCGAGAAATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
AGTTGGTTATTGACAACCAGCGGTCCCTTCCTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAA
TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
Found at i:9854121 original size:17 final size:17
Alignment explanation
Indices: 9854077--9854122 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
9854067 TTTTAAAGAA
*
9854077 AATATATAAATATTTTAC
1 AATATAT-AATATTATAC
* *
9854095 AATTTGTAATATTATAC
1 AATATATAATATTATAC
9854112 AATATATAATA
1 AATATATAATA
9854123 AGGACAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
AATATATAATATTATAC
Found at i:9858036 original size:21 final size:20
Alignment explanation
Indices: 9857996--9858041 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
9857986 TCGATAGTTA
9857996 AATTATATTTAAGAAATAAT
1 AATTATATTTAAGAAATAAT
*
9858016 AATT-TATTTAATTGAATTAAT
1 AATTATATTTAA--GAAATAAT
9858037 AATTA
1 AATTA
9858042 AATGATGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
AATTATATTTAAGAAATAAT
Found at i:9859373 original size:28 final size:28
Alignment explanation
Indices: 9859341--9859394 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
9859331 CTTGTTTATT
*
9859341 TTATGTCGTCGAATCAATGTTTGAAACA
1 TTATGTCGTCGAATCAATGCTTGAAACA
* *
9859369 TTATGTCGTCGAGTCAGTGCTTGAAA
1 TTATGTCGTCGAATCAATGCTTGAAA
9859395 GCAACGATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (28 bp):
TTATGTCGTCGAATCAATGCTTGAAACA
Done.