Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 102 of 175
Found at i:32552103 original size:45 final size:45
Alignment explanation
Indices: 32552033--32552164 Score: 131
Period size: 45 Copynumber: 2.9 Consensus size: 45
32552023 CTATACGCCT
* * * * * *
32552033 AAAATGAGTAATACCATAGTTGAAAGACATTTTGAG-ATCATGATT
1 AAAATAAGTAAGACCATAGCTGAAAGACACTATG-GCATCATGATA
* *
32552078 AAGATAAGTAAGACCATAGCTGAAAGATACTATGGCATCATGATA
1 AAAATAAGTAAGACCATAGCTGAAAGACACTATGGCATCATGATA
* * ** *
32552123 AAAATGAGTAAGACCATAGCTAAAAGACGGTATGACATCATG
1 AAAATAAGTAAGACCATAGCTGAAAGACACTATGGCATCATG
32552165 TGAAAGTATG
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 1 0.01
45 70 0.99
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (45 bp):
AAAATAAGTAAGACCATAGCTGAAAGACACTATGGCATCATGATA
Found at i:32556810 original size:353 final size:353
Alignment explanation
Indices: 32556163--32556871 Score: 1409
Period size: 353 Copynumber: 2.0 Consensus size: 353
32556153 TTAGGATCAG
32556163 AGTGCTTAGGATCAGACTCTGGCTTGGTCCCCTCAACTTCTAGGTATTTAATTATCCTGTATTTG
1 AGTGCTTAGGATCAGACTCTGGCTTGGTCCCCTCAACTTCTAGGTATTTAATTATCCTGTATTTG
32556228 AGTAGAAAACTTATAAGTTTGGAAAAATTTAGTGAGATCCACATATAGATTTTAAGAAGAAATTT
66 AGTAGAAAACTTATAAGTTTGGAAAAATTTAGTGAGATCCACATATAGATTTTAAGAAGAAATTT
32556293 TGATGTGTTCAGGTCAGATTTTTAACTCCCTAATAAACACGGTCATCATTTTTGGTGGGCGACGC
131 TGATGTGTTCAGGTCAGATTTTTAACTCCCTAATAAACACGGTCATCATTTTTGGTGGGCGACGC
32556358 TTGGTGATTTCCCAAGTGATTTCTACCTTTGGGTCATTCCCAGATTTCGTTGTCTTTACGGCCTT
196 TTGGTGATTTCCCAAGTGATTTCTACCTTTGGGTCATTCCCAGATTTCGTTGTCTTTACGGCCTT
32556423 GGAGTACTAGGGCTCACTAACAGCACTAAAACACTTGCTCTATCGATCTATTGCCAATTGAGGCT
261 GGAGTACTAGGGCTCACTAACAGCACTAAAACACTTGCTCTATCGATCTATTGCCAATTGAGGCT
32556488 TTTTAGGACTTGCAATTCAAATCTTTGA
326 TTTTAGGACTTGCAATTCAAATCTTTGA
32556516 AGTGCTTAGGATCAGACTCTGGCTTGGTCCCCTCAACTTCTAGGTATTTAATTATCCTGTATTTG
1 AGTGCTTAGGATCAGACTCTGGCTTGGTCCCCTCAACTTCTAGGTATTTAATTATCCTGTATTTG
32556581 AGTAGAAAACTTATAAGTTTGGAAAAATTTAGTGAGATCCACATATAGATTTTAAGAAGAAATTT
66 AGTAGAAAACTTATAAGTTTGGAAAAATTTAGTGAGATCCACATATAGATTTTAAGAAGAAATTT
32556646 TGATGTGTTCAGGTCAGATTTTTAACTCCCTAATAAACACGGTCATCATTTTTGGTGGGCGACGC
131 TGATGTGTTCAGGTCAGATTTTTAACTCCCTAATAAACACGGTCATCATTTTTGGTGGGCGACGC
32556711 TTGGTGATTTCCCAAGTGATTTCTACCTTTGGGTCATTCCCAGATTTCGTTGTCTTTACGGCCTT
196 TTGGTGATTTCCCAAGTGATTTCTACCTTTGGGTCATTCCCAGATTTCGTTGTCTTTACGGCCTT
*
32556776 GGAGTACTAGGGCTCACTAACAGCACTGAAACACTTGCTCTATCGATCTATTGCCAATTGAGGCT
261 GGAGTACTAGGGCTCACTAACAGCACTAAAACACTTGCTCTATCGATCTATTGCCAATTGAGGCT
32556841 TTTTAGGACTTGCAATTCAAATCTTTGA
326 TTTTAGGACTTGCAATTCAAATCTTTGA
32556869 AGT
1 AGT
32556872 TCAATAAGAG
Statistics
Matches: 355, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
353 355 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (353 bp):
AGTGCTTAGGATCAGACTCTGGCTTGGTCCCCTCAACTTCTAGGTATTTAATTATCCTGTATTTG
AGTAGAAAACTTATAAGTTTGGAAAAATTTAGTGAGATCCACATATAGATTTTAAGAAGAAATTT
TGATGTGTTCAGGTCAGATTTTTAACTCCCTAATAAACACGGTCATCATTTTTGGTGGGCGACGC
TTGGTGATTTCCCAAGTGATTTCTACCTTTGGGTCATTCCCAGATTTCGTTGTCTTTACGGCCTT
GGAGTACTAGGGCTCACTAACAGCACTAAAACACTTGCTCTATCGATCTATTGCCAATTGAGGCT
TTTTAGGACTTGCAATTCAAATCTTTGA
Found at i:32561529 original size:56 final size:52
Alignment explanation
Indices: 32561468--32561604 Score: 172
Period size: 49 Copynumber: 2.6 Consensus size: 52
32561458 GAGACCACAT
* *
32561468 GTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCCTAC
1 GTAAGACCATGTCTGGGACATGGCATTGGCATTACTGA-G--AT-AGAGGTCCCAC
* *
32561524 GTAAGACCATGTCTGGGACATGGCGTTGG---TACTGAGATAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCATTACTGAGATAGAGGTCCCAC
*
32561573 GTAAGACCATGTCTGGGACATGGCATGGGCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCAT
32561605 CGATATGAGA
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
49 36 0.50
50 2 0.03
52 1 0.01
53 5 0.07
56 28 0.39
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (52 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCATTACTGAGATAGAGGTCCCAC
Found at i:32568427 original size:8 final size:8
Alignment explanation
Indices: 32568414--32568443 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
32568404 CCATCCTAGA
32568414 AAAATTAT
1 AAAATTAT
32568422 AAAATTAT
1 AAAATTAT
32568430 AAAATTAT
1 AAAATTAT
32568438 AAAATT
1 AAAATT
32568444 CACCCCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AAAATTAT
Found at i:32583302 original size:52 final size:52
Alignment explanation
Indices: 32583224--32583323 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
32583214 GAGACTTTTC
32583224 ATATTTGGCCTTTAACTAGTACAATTACAAGCACTAATTTCATGTTTAGAGG
1 ATATTTGGCCTTTAACTAGTACAATTACAAGCACTAATTTCATGTTTAGAGG
* * *
32583276 ATATTTTGCCTTTAACTATTACAATTACAAGCACTAATTTCATTTTTA
1 ATATTTGGCCTTTAACTAGTACAATTACAAGCACTAATTTCATGTTTA
32583324 ACTCTTGTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (52 bp):
ATATTTGGCCTTTAACTAGTACAATTACAAGCACTAATTTCATGTTTAGAGG
Found at i:32585421 original size:209 final size:209
Alignment explanation
Indices: 32585061--32585483 Score: 756
Period size: 209 Copynumber: 2.0 Consensus size: 209
32585051 ATTTAAAAAA
* *
32585061 AAATCAAATAATATAAAAAAATGGATAGATTGTAAGTTAACAAGAATAAGATAGTAAGCATACCC
1 AAATCAAATAATATAAAAAAATGAATAGATTGTAAGTTAAAAAGAATAAGATAGTAAGCATACCC
* *
32585126 TTCAACTCACGAAAGTCATGAATTTAGGGTAGGTTCTGATGCATTCCAAGAAATGTCTAAACATT
66 TTCAACTCACAAAAGTCATGAATTTAGGGTAGGTTCTGATGCATTCCAAGAAAAGTCTAAACATT
32585191 GAATTGATTAAATAAGTTAATGTAGGAGTGATGTGCTAAAAATTTGAAACTATTAAATTAAAAAT
131 GAATTGATTAAATAAGTTAATGTAGGAGTGATGTGCTAAAAATTTGAAACTATTAAATTAAAAAT
32585256 AAATATACAATTTT
196 AAATATACAATTTT
* *
32585270 AAATCAAATAATATAAACAAATGAATAGATTGTAAGTTAAAAATAATAAGATAGTAAGCATACCC
1 AAATCAAATAATATAAAAAAATGAATAGATTGTAAGTTAAAAAGAATAAGATAGTAAGCATACCC
* *
32585335 TTCAACTCACAAAAGTCATGAGTTTAGGGTAGGTTTTGATGCATTCCAAGAAAAGTCTAAACATT
66 TTCAACTCACAAAAGTCATGAATTTAGGGTAGGTTCTGATGCATTCCAAGAAAAGTCTAAACATT
32585400 GAATTGATTAAATAAGTTAATGTAGGAGTGATGTGCTAAAAATTTGAAACTATTAAATTAAAAAT
131 GAATTGATTAAATAAGTTAATGTAGGAGTGATGTGCTAAAAATTTGAAACTATTAAATTAAAAAT
*
32585465 AAATATACCATTTT
196 AAATATACAATTTT
*
32585479 GAATC
1 AAATC
32585484 TTCTCAAGCT
Statistics
Matches: 204, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
209 204 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (209 bp):
AAATCAAATAATATAAAAAAATGAATAGATTGTAAGTTAAAAAGAATAAGATAGTAAGCATACCC
TTCAACTCACAAAAGTCATGAATTTAGGGTAGGTTCTGATGCATTCCAAGAAAAGTCTAAACATT
GAATTGATTAAATAAGTTAATGTAGGAGTGATGTGCTAAAAATTTGAAACTATTAAATTAAAAAT
AAATATACAATTTT
Found at i:32587568 original size:34 final size:35
Alignment explanation
Indices: 32587529--32587599 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
32587519 GTGGACATTC
32587529 TACAAG-AAAAATTATATAATAGATCAAAAAACAT
1 TACAAGAAAAAATTATATAATAGATCAAAAAACAT
* *
32587563 TACAAGAAAAAAATTATATAATAGATTAAAATACAT
1 TACAAG-AAAAAATTATATAATAGATCAAAAAACAT
32587599 T
1 T
32587600 TATAATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 6 0.18
36 27 0.82
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.27
Consensus pattern (35 bp):
TACAAGAAAAAATTATATAATAGATCAAAAAACAT
Found at i:32593468 original size:50 final size:50
Alignment explanation
Indices: 32593232--32593473 Score: 269
Period size: 50 Copynumber: 4.9 Consensus size: 50
32593222 GATAATAACA
* * *
32593232 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTT-TC-CTGTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTC-G--G
* * * * * * * * *
32593281 TGCCAATGTCATATCCCAGATATGGTCTTACATGAGA-ATTTTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT-ATCTCGG
* * * *
32593331 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
32593381 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
32593431 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
32593474 TACCCAAATG
Statistics
Matches: 164, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 32 0.20
50 128 0.78
51 2 0.01
52 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:32597242 original size:40 final size:41
Alignment explanation
Indices: 32597181--32597324 Score: 204
Period size: 41 Copynumber: 3.5 Consensus size: 41
32597171 AACTTTATGT
32597181 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
32597222 CTAGCAGGCT-AGTGCCGGTGATCTGAATTAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * *
32597262 CTAGTAGTCTAAGTGCCGATGATCTGAATCA-GTCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT-TATAAAC
32597303 CTAGC-GGACTAAGTGCCGGTGA
1 CTAGCAGG-CTAAGTGCCGGTGA
32597325 ATATGTTAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
40 40 0.44
41 51 0.56
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:32599854 original size:44 final size:43
Alignment explanation
Indices: 32599749--32599873 Score: 139
Period size: 44 Copynumber: 2.9 Consensus size: 43
32599739 GTAATCAACT
* * * *
32599749 ATCGATGCC-ACTGTCCCAGACAGGGTCTTATAC-AAA-ATCAT
1 ATCGATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCTCAA
*
32599790 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 AT-CGATGCCAACGTCCCAGACATGGTCTTACACG-AAATCTCAA
* *
32599835 ATCGATGCCAACGTCCCAGACGTGGTCCTACACGAAATC
1 ATCGATGCCAACGTCCCAGACATGGTCTTACACGAAATC
32599874 ACATATCGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
41 2 0.03
42 26 0.37
43 6 0.08
44 32 0.45
45 5 0.07
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
ATCGATGCCAACGTCCCAGACATGGTCTTACACGAAATCTCAA
Found at i:32602461 original size:40 final size:40
Alignment explanation
Indices: 32602413--32602593 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
32602403 TTGTCAGATC
* * *
32602413 AACC-AAACACACCAGACAGAAGCTCATAAGAGCTAATCC
1 AACCGAAACACGCCAGACAGAAGCTCACAAGAGCTAATCT
* * * *
32602452 AACCGAAACACGCCAAAAAAAAGCTCACAAGAGTTAATCT
1 AACCGAAACACGCCAGACAGAAGCTCACAAGAGCTAATCT
* * *
32602492 AATCGAAACACGCTAGACAGAAGCTCACAAGAGTTAATCT
1 AACCGAAACACGCCAGACAGAAGCTCACAAGAGCTAATCT
* * * *
32602532 AATCGAAACACGCCAGACATAAGCTTATAAGAGCTAATCT
1 AACCGAAACACGCCAGACAGAAGCTCACAAGAGCTAATCT
* * *
32602572 AACTGAAACACACCAAACAGAA
1 AACCGAAACACGCCAGACAGAA
32602594 AGTATAACAC
Statistics
Matches: 119, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 4 0.03
40 115 0.97
ACGTcount: A:0.47, C:0.25, G:0.14, T:0.14
Consensus pattern (40 bp):
AACCGAAACACGCCAGACAGAAGCTCACAAGAGCTAATCT
Found at i:32608565 original size:43 final size:42
Alignment explanation
Indices: 32608455--32608616 Score: 155
Period size: 43 Copynumber: 3.8 Consensus size: 42
32608445 TACCGTAACA
* * * *
32608455 ATGCCATATCCCAGATATGGTCTTACAAGTAATCTA-GTATCG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATC-ACATATCG
* * * *
32608497 ATGCCAATAGCCTAGCCATGTTCTTACACGAAATCACATATCG
1 ATGCC-ATATCCCAGACATGGTCTTACACGAAATCACATATCG
* * *
32608540 ATGCCAATGTCCCAGACATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGACATGGTCTTACACGAAATCACATATCG
* * * *
32608583 ATGTCATATCCTAGATATGGTCTTACACGTAATC
1 ATGCCATATCCCAGACATGGTCTTACACGAAATC
32608617 TCAGTAACCC
Statistics
Matches: 97, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 30 0.31
43 67 0.69
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:32616170 original size:21 final size:21
Alignment explanation
Indices: 32616145--32616184 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
32616135 TATAATTACT
32616145 TCATG-CCAAAACATATATATA
1 TCATGTCCAAAAC-TATATATA
32616166 TCATGTCCAAAACTATATA
1 TCATGTCCAAAACTATATA
32616185 ACCCAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (21 bp):
TCATGTCCAAAACTATATATA
Found at i:32618432 original size:43 final size:43
Alignment explanation
Indices: 32618371--32618528 Score: 205
Period size: 43 Copynumber: 3.7 Consensus size: 43
32618361 TAACAATGCC
*
32618371 ATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGTCA
1 ATATCCCAGATATGGTCTTACACGTAATCTCGTATCGATGTCA
* * * *
32618414 ATATCCCAGCTATGGTCTTACACGAAATCACATATCGATGTCA
1 ATATCCCAGATATGGTCTTACACGTAATCTCGTATCGATGTCA
* * *
32618457 ATGTCCCAGATATGGTCTTACACG-AAGTCTTAG-ATCGATG-CC
1 ATATCCCAGATATGGTCTTACACGTAA-TC-TCGTATCGATGTCA
32618499 ATATCCCAGATATGGTCTTACACGTAATCT
1 ATATCCCAGATATGGTCTTACACGTAATCT
32618529 TGGAAACCCT
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 28 0.28
43 71 0.71
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACGTAATCTCGTATCGATGTCA
Found at i:32619906 original size:22 final size:22
Alignment explanation
Indices: 32619876--32619918 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
32619866 AATTTCTAAA
*
32619876 TTTCAAAAGATATTAATAAATC
1 TTTCAAAAGATATTAAAAAATC
* *
32619898 TTTCCAAAGATGTTAAAAAAT
1 TTTCAAAAGATATTAAAAAAT
32619919 AATTAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (22 bp):
TTTCAAAAGATATTAAAAAATC
Found at i:32621833 original size:113 final size:114
Alignment explanation
Indices: 32621432--32622011 Score: 642
Period size: 114 Copynumber: 5.1 Consensus size: 114
32621422 AAAATAAGCA
* * * * * * *
32621432 TTAGCGGCG-TTTCCATAAAGCGCCGC-AAAATACCTAAGCACAACGACCCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * * *
32621495 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCTAATGCTCCGGGCT
66 TCGAGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* *
32621544 TTAGTGGCGTTTTCGAGAAAGCGCCACCAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
32621609 TCGAGGATTTAGTGGCATTTTTTAGT-AGACGCCGCTAATGCTCAGGGCT
66 TCGAGGATTTAGTGGCGTTTTTAAGTAAG-CGCCGCTAATGCTCAGGGCT
* * * *
32621658 TTAGCGGCGTTTTCGGGAAAGCGCCGA-AAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCA
1 TTAGCGGCGTTTTCGAGAAAGCGCC-ACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCT
* * * * *
32621722 TTCGAGGATTTAGTGGTGTTTTTAGGTAAGTGCCACTAATGCTCA-AGCT
65 TTCGAGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * *
32621771 TTAGCAGCGCTTTT-GAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCATTTTTTGAGCT
1 TTAGCGGCG-TTTTCGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCT
* *
32621835 TTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGTTCAGGGCT
65 TTCGAGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * * * *
32621885 TTAGCGGCGTTTAT-GAGAAAGCGCCGCAACAAAAACTAAA-TCGAACTACACCGTTTTCTGA-C
1 TTAGCGGCGTTT-TCGAGAAAGCGCCACAA-AAAAACCAAAGCCCAACGACGCCGTTTTCTGAGC
* * * * *
32621947 AATTCGTGGGCTTTAGCGGCG-TTTTAAG-AATGCGCCGCTAATGCTTAGGGCT
64 -TTTCG-AGGATTTAGTGGCGTTTTTAAGTAA-GCGCCGCTAATGCTCAGGGCT
32621999 TTAGCGGCGTTTT
1 TTAGCGGCGTTTT
32622012 TGTTCAAGCG
Statistics
Matches: 399, Mismatches: 56, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
112 9 0.02
113 115 0.29
114 251 0.63
115 24 0.06
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTCGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGAGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:32622042 original size:227 final size:226
Alignment explanation
Indices: 32621432--32622013 Score: 696
Period size: 227 Copynumber: 2.6 Consensus size: 226
32621422 AAAATAAGCA
* * * * * * *
32621432 TTAGCGGCG-TTTCCATAAAGCGCCG-CAAAATACCTAAGCACAACGACCCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCGAGAAAGCGCCGAAAAAATACCTAAACCCAACGACACCGTTTTCTGAGCAT
* * * *
32621495 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCTAATGCTCCGGGCTTTAGTGGCGTTTTCGA
66 TCGGGGATTTAGCGGCGTTTTTAAG-AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
*
32621560 GAAAGCGCCACCAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAGTGGC
130 GAAAGCGCCA-CAAAAAACCAAAGCCCAACGACGCCATTTTCTGAGCTTTCGAGGATTTAGTGGC
*
32621625 ATTTTTTAGTAGACGCCGCTAATGCTCAGGGCT
194 ATTTTTAAGTAGACGCCGCTAATGCTCAGGGCT
* * *
32621658 TTAGCGGCGTTTTCGGGAAAGCGCCGAAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCAT
1 TTAGCGGCGTTTTCGAGAAAGCGCCGAAAAAATACCTAAACCCAACGACACCGTTTTCTGAGCAT
* * * * * * * * *
32621723 TCGAGGATTTAGTGGTGTTTTTAGGTAAGTGCCACTAATGCTCA-AGCTTTAGCAGCGCTTTTGA
66 TCGGGGATTTAGCGGCGTTTTTAAG-AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
* *
32621787 GAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCATTTTTTGAGCTTTCGGGGATTTAGTGGC
130 GAAAGCGCCAC-AAAAAACCAAAGCCCAACGACGCCATTTTCTGAGCTTTCGAGGATTTAGTGGC
* *
32621852 GTTTTTAAGTA-AGCGCCGCTAATGTTCAGGGCT
194 ATTTTTAAGTAGA-CGCCGCTAATGCTCAGGGCT
* * *
32621885 TTAGCGGCGTTTAT-GAGAAAGCGCCGCAACAAAA-A-CTAAATCGAACTACACCGTTTTCTGA-
1 TTAGCGGCGTTT-TCGAGAAAGCGCCG-AA-AAAATACCTAAACCCAACGACACCGTTTTCTGAG
* *
32621946 CAATTCGTGGGCTTTAGCGGCG-TTTTAAGAATGCGCCGCTAATGCTTAGGGCTTTAGCGGCGTT
63 C-ATTCG-GGGATTTAGCGGCGTTTTTAAGAA-GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTT
32622010 TTTG
125 TTTG
32622014 TTCAAGCGGC
Statistics
Matches: 301, Mismatches: 44, Indels: 20
0.82 0.12 0.05
Matches are distributed among these distances:
226 14 0.05
227 184 0.61
228 99 0.33
229 4 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (226 bp):
TTAGCGGCGTTTTCGAGAAAGCGCCGAAAAAATACCTAAACCCAACGACACCGTTTTCTGAGCAT
TCGGGGATTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
AAAGCGCCACAAAAAACCAAAGCCCAACGACGCCATTTTCTGAGCTTTCGAGGATTTAGTGGCAT
TTTTAAGTAGACGCCGCTAATGCTCAGGGCT
Found at i:32622706 original size:14 final size:14
Alignment explanation
Indices: 32622662--32622707 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
32622652 TATTAAATAA
*
32622662 GGTTTAGGGTTAGT
1 GGTTTGGGGTTAGT
* *
32622676 AGTTAGGGGTTAGT
1 GGTTTGGGGTTAGT
*
32622690 GGTTTGGGGTTAAT
1 GGTTTGGGGTTAGT
32622704 GGTT
1 GGTT
32622708 AGAAGTTAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.43, T:0.41
Consensus pattern (14 bp):
GGTTTGGGGTTAGT
Found at i:32623075 original size:14 final size:14
Alignment explanation
Indices: 32623056--32623104 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
32623046 GGAATATTAC
32623056 GGTTTAAGATTTGG
1 GGTTTAAGATTTGG
* *
32623070 GGTTTAGGGTTTGG
1 GGTTTAAGATTTGG
* *
32623084 GGTTT-GGTTTTGG
1 GGTTTAAGATTTGG
32623097 GGTTTAAG
1 GGTTTAAG
32623105 GTTTAGAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.12, C:0.00, G:0.43, T:0.45
Consensus pattern (14 bp):
GGTTTAAGATTTGG
Found at i:32623097 original size:13 final size:14
Alignment explanation
Indices: 32623065--32623108 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
32623055 CGGTTTAAGA
32623065 TTTGGGGTTTAGGG
1 TTTGGGGTTTAGGG
*
32623079 TTTGGGGTTT-GGT
1 TTTGGGGTTTAGGG
*
32623092 TTTGGGGTTTAAGG
1 TTTGGGGTTTAGGG
32623106 TTT
1 TTT
32623109 AGAATTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (14 bp):
TTTGGGGTTTAGGG
Found at i:32624468 original size:146 final size:146
Alignment explanation
Indices: 32624124--32624471 Score: 364
Period size: 146 Copynumber: 2.4 Consensus size: 146
32624114 AACTGTTGGG
* * * *
32624124 GAAACGACTTCG-TTTGAGCTTATAGTTAGTGGCGCTTTACTCAAAACGCTGCAAAATTGTTCTA
1 GAAACGACTTCGTTTTGA-CTTTTAGTTAGTGGCGC-TTACTTAAAACGCCGCAAAAATGTTCTA
** * * *
32624188 ACATTTATAGAAACGCTGCCATTTTGTAAATGTTATTAGTGGCGTTTTTGCAAAAACGCCACGGG
64 ACATTTATAGAAACGAGGCCATTTTGTAAATATTATTAGTGGCGTTTTTGCAAAAACACCACAGG
* * *
32624253 TTTGAGGTAAGTGTTGAT
129 TGTGAGCTAAGTATTGAT
* * * * *
32624271 GAAGCGACTGCGTTTTGA-TTTATAGTTTGTGGCGCTT-CGGTTAAAATGCCGCAAAAATGTTTT
1 GAAACGACTTCGTTTTGACTTT-TAGTTAGTGGCGCTTAC--TTAAAACGCCGCAAAAATGTTCT
* * * * *
32624334 AACATTTATTGATACGAGGCCGTTTTG-CAGTATTATTAGTGGCGTTTATT-CAAAAACACCACA
63 AACATTTATAGAAACGAGGCCATTTTGTAAATATTATTAGTGGCGTTT-TTGCAAAAACACCACA
**
32624397 GGTGTGAGCTATTTATTGAT
127 GGTGTGAGCTAAGTATTGAT
* *
32624417 GAAACGGCTTCGTTTTGACTTTTAGTTAGTGGCGCTTATTTATAAACGCCGCAAA
1 GAAACGACTTCGTTTTGACTTTTAGTTAGTGGCGCTTACTTA-AAACGCCGCAAA
32624472 TGGATAATTT
Statistics
Matches: 163, Mismatches: 30, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
145 4 0.02
146 87 0.53
147 67 0.41
148 5 0.03
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (146 bp):
GAAACGACTTCGTTTTGACTTTTAGTTAGTGGCGCTTACTTAAAACGCCGCAAAAATGTTCTAAC
ATTTATAGAAACGAGGCCATTTTGTAAATATTATTAGTGGCGTTTTTGCAAAAACACCACAGGTG
TGAGCTAAGTATTGAT
Found at i:32625433 original size:15 final size:15
Alignment explanation
Indices: 32625413--32625444 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32625403 AGGGTTGAAG
*
32625413 TATTTGGTACTAGTT
1 TATTTGGTACTAATT
32625428 TATTTGGTACTAATT
1 TATTTGGTACTAATT
32625443 TA
1 TA
32625445 CTGTTATCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.16, T:0.53
Consensus pattern (15 bp):
TATTTGGTACTAATT
Found at i:32626433 original size:13 final size:13
Alignment explanation
Indices: 32626417--32626528 Score: 109
Period size: 13 Copynumber: 8.5 Consensus size: 13
32626407 TTACTAAAAT
*
32626417 TTACTTTAATATA
1 TTACTTAAATATA
*
32626430 TTACTTTAATATA
1 TTACTTAAATATA
*
32626443 TTACTTAAATAAA
1 TTACTTAAATATA
*
32626456 TTACTTAAATACA
1 TTACTTAAATATA
*
32626469 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
32626483 TTGGTTAAATTTA
1 TTACTTAAATATA
*
32626496 TTACTTAAATATG
1 TTACTTAAATATA
*
32626509 TTACTTAAATACA
1 TTACTTAAATATA
32626522 TTACTTA
1 TTACTTA
32626529 CTAAAATTTA
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
12 3 0.04
13 70 0.86
14 5 0.06
15 3 0.04
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:32626708 original size:29 final size:29
Alignment explanation
Indices: 32626670--32626868 Score: 100
Period size: 29 Copynumber: 6.4 Consensus size: 29
32626660 TATGTACAAG
32626670 AACTTACATAACTTATTAATATTTATATA
1 AACTTACATAACTTATTAATATTTATATA
* *
32626699 AACTTACATAAC-TATCACATAAACTTATATGTA
1 AACTTACATAACTTATTA-AT--A-TT-TATATA
* * * *
32626732 AACTTACATAATACATAACTT-ATATGTAAACA
1 AACTTACAT-A-AC-TTA-TTAATATTTATATA
* * *
32626764 TACATAATACATAACTTATAAATTTTTTTTATATA
1 AAC-T--TACATAACTTATTAA---TATTTATATA
* * ** *
32626799 AACTTACATAA-TACATTACT-TACATATT
1 AACTTACATAACT-TATTAATATTTATATA
32626827 AACTTACATAACTTATTAATATTTATATA
1 AACTTACATAACTTATTAATATTTATATA
32626856 AACTTACATAACT
1 AACTTACATAACT
32626869 ATCACATAAA
Statistics
Matches: 123, Mismatches: 27, Indels: 40
0.65 0.14 0.21
Matches are distributed among these distances:
28 25 0.20
29 34 0.28
31 3 0.02
32 20 0.16
33 18 0.15
34 4 0.03
35 15 0.12
36 2 0.02
37 1 0.01
38 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (29 bp):
AACTTACATAACTTATTAATATTTATATA
Found at i:32626814 original size:67 final size:64
Alignment explanation
Indices: 32626730--32626910 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
32626720 AACTTATATG
*
32626730 TAAACTTACATAATACATAACTTATATGTAAACATACATAATACATAACTTATAAATTTTTTTTA
1 TAAACTTACATAATACATAACTTATATGTAAACATACATAATACATAACTTATAAA---TATTTA
32626795 TA
63 TA
* * ** *
32626797 TAAACTTACATAATACATTACTTACA--T-ATTA-AC-T--TACATAACTTATTAATATTTATA
1 TAAACTTACATAATACATAACTTATATGTAAACATACATAATACATAACTTATAAATATTTATA
*
32626854 TAAACTTACATAACTATCACATAAACTTATATGTAAACTTACATAATACATAACTTA
1 TAAACTTACAT-A--AT-ACAT-AACTTATATGTAAACATACATAATACATAACTTA
32626911 CATGTTAACT
Statistics
Matches: 91, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
57 18 0.20
58 1 0.01
60 16 0.18
61 4 0.04
62 7 0.08
63 2 0.02
64 3 0.03
65 2 0.02
66 2 0.02
67 25 0.27
69 11 0.12
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (64 bp):
TAAACTTACATAATACATAACTTATATGTAAACATACATAATACATAACTTATAAATATTTATA
Found at i:32626830 original size:28 final size:28
Alignment explanation
Indices: 32626794--32626938 Score: 123
Period size: 28 Copynumber: 5.0 Consensus size: 28
32626784 AATTTTTTTT
*
32626794 ATATAAACTTACATAATACATTACTTAC
1 ATATAAACTTACATAATACATAACTTAC
* * **
32626822 ATATTAACTTACATAACTTA-TTAA-TATTT
1 ATATAAACTTACATAA--TACATAACT-TAC
*
32626851 ATATAAACTTACATAACTATCACATAAACTTAT
1 ATATAAACTTACAT-A--AT-ACAT-AACTTAC
*
32626884 ATGTAAACTTACATAATACATAACTTAC
1 ATATAAACTTACATAATACATAACTTAC
* *
32626912 ATGTTAACTTACATAATACATAACTTA
1 ATATAAACTTACATAATACATAACTTA
32626939 TAAAATTTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
28 48 0.50
29 20 0.21
30 6 0.06
31 1 0.01
32 3 0.03
33 17 0.18
34 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.37
Consensus pattern (28 bp):
ATATAAACTTACATAATACATAACTTAC
Found at i:32626838 original size:157 final size:157
Alignment explanation
Indices: 32626670--32626999 Score: 606
Period size: 157 Copynumber: 2.1 Consensus size: 157
32626660 TATGTACAAG
32626670 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
1 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
* *
32626735 TTACATAATACATAACTTATATGTAAACATACATAATACATAACTTATAAATTTTTTTTATATAA
66 TTACATAATACATAACTTACATGTAAACATACATAATACATAACTTATAAAATTTTTTTATATAA
*
32626800 ACTTACATAATACATTACTTACATATT
131 ACTTACATAACACATTACTTACATATT
32626827 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
1 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
* *
32626892 TTACATAATACATAACTTACATGTTAACTTACATAATACATAACTTATAAAATTTTTTTATATAA
66 TTACATAATACATAACTTACATGTAAACATACATAATACATAACTTATAAAATTTTTTTATATAA
32626957 ACTTACATAACACATTACTTACATATT
131 ACTTACATAACACATTACTTACATATT
*
32626984 AACTTACATAAGTTAT
1 AACTTACATAACTTAT
32627000 CTACAAGCTT
Statistics
Matches: 167, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 167 1.00
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.39
Consensus pattern (157 bp):
AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
TTACATAATACATAACTTACATGTAAACATACATAATACATAACTTATAAAATTTTTTTATATAA
ACTTACATAACACATTACTTACATATT
Found at i:32626910 original size:16 final size:16
Alignment explanation
Indices: 32626889--32626938 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
32626879 CTTATATGTA
32626889 AACTTACATAATACAT
1 AACTTACATAATACAT
*
32626905 AACTTACAT-GT---T
1 AACTTACATAATACAT
32626917 AACTTACATAATACAT
1 AACTTACATAATACAT
32626933 AACTTA
1 AACTTA
32626939 TAAAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
15 1 0.04
16 16 0.57
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:32627054 original size:157 final size:157
Alignment explanation
Indices: 32626670--32627062 Score: 564
Period size: 157 Copynumber: 2.5 Consensus size: 157
32626660 TATGTACAAG
* * *
32626670 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
1 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTAACATGAAAAC
* *
32626735 TTACATAATACATAACTTATATGTAAACATACATAATACATAACTTATAAATTTTTTTTATATAA
66 TTACATAATACATAACTTACATGTAAACATACATAATACATAACTTATAAAATTTTTTTATATAA
*
32626800 ACTTACATAATACATTACTTACATATT
131 ACTTACATAACACATTACTTACATATT
* * *
32626827 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
1 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTAACATGAAAAC
* *
32626892 TTACATAATACATAACTTACATGTTAACTTACATAATACATAACTTATAAAATTTTTTTATATAA
66 TTACATAATACATAACTTACATGTAAACATACATAATACATAACTTATAAAATTTTTTTATATAA
32626957 ACTTACATAACACATTACTTACATATT
131 ACTTACATAACACATTACTTACATATT
* * *
32626984 AACTTACATAAGTTATCTACA-AGCTTATATATAAACTTGCATAACT-T-ACGT-AA-TAACAT-
1 AACTTACATAACTTAT-TA-ATA--TT-TATATAAACTTACATAACTATCACATAAACTAACATG
32627043 AACAACTTACATAATACATA
61 AA-AACTTACATAATACATA
32627063 GCATACGTAA
Statistics
Matches: 219, Mismatches: 11, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
156 1 0.00
157 188 0.86
158 5 0.02
159 4 0.02
160 3 0.01
161 18 0.08
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (157 bp):
AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTAACATGAAAAC
TTACATAATACATAACTTACATGTAAACATACATAATACATAACTTATAAAATTTTTTTATATAA
ACTTACATAACACATTACTTACATATT
Found at i:32627074 original size:25 final size:25
Alignment explanation
Indices: 32627046--32627305 Score: 112
Period size: 25 Copynumber: 10.1 Consensus size: 25
32627036 ATAACATAAC
*
32627046 AACTTACATAA-TACATAGCATACGT
1 AACTTACATAACTACATA-CATACAT
*
32627071 AACTTACATAACTTACATA-ATACAA
1 AACTTACATAAC-TACATACATACAT
* *
32627096 AACTTCCATAACTTACATAACCTACAT
1 AACTTACATAAC-TACAT-ACATACAT
* *
32627123 AACCTACATAA-TACATTTAACTTACAT
1 AACTTACATAACTACA--T-ACATACAT
32627150 AACTTACATAACTTACATA-ATACATAAT
1 AACTTACATAAC-TACATACATAC---AT
*
32627178 AACTTAC--AACTTAAATAACATACAT
1 AACTTACATAAC-TACAT-ACATACAT
* ** *
32627203 TACTTTGATAACTTACATAACTTACAT
1 AACTTACATAAC-TACAT-ACATACAT
* * *
32627230 AA--TACACAACTTACATAGCTTACTT
1 AACTTACATAAC-TACATA-CATACAT
*
32627255 AAC--ACATAACT-TATACACGTACAT
1 AACTTACATAACTACATACA--TACAT
*
32627279 AACTTACATAACTTACTTA-ATACAT
1 AACTTACATAAC-TACATACATACAT
32627304 AA
1 AA
32627306 ATATATATCA
Statistics
Matches: 185, Mismatches: 27, Indels: 46
0.72 0.10 0.18
Matches are distributed among these distances:
22 1 0.01
23 3 0.02
24 9 0.05
25 77 0.42
26 17 0.09
27 59 0.32
28 15 0.08
29 4 0.02
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (25 bp):
AACTTACATAACTACATACATACAT
Found at i:32627082 original size:9 final size:9
Alignment explanation
Indices: 32627046--32627294 Score: 195
Period size: 9 Copynumber: 28.8 Consensus size: 9
32627036 ATAACATAAC
32627046 AACTTACAT
1 AACTTACAT
32627055 AA--TACAT
1 AACTTACAT
* * *
32627062 AGCATACGT
1 AACTTACAT
32627071 AACTTACAT
1 AACTTACAT
32627080 AACTTACAT
1 AACTTACAT
*
32627089 AA--TACAA
1 AACTTACAT
*
32627096 AACTTCCAT
1 AACTTACAT
32627105 AACTTACAT
1 AACTTACAT
*
32627114 AACCTACAT
1 AACTTACAT
*
32627123 AACCTACAT
1 AACTTACAT
32627132 AA--TACATTT
1 AACTTACA--T
32627141 AACTTACAT
1 AACTTACAT
32627150 AACTTACAT
1 AACTTACAT
32627159 AACTTACAT
1 AACTTACAT
*
32627168 AATACATA-AT
1 -A-ACTTACAT
32627178 AACTTAC--
1 AACTTACAT
*
32627185 AACTTAAAT
1 AACTTACAT
*
32627194 AACATACAT
1 AACTTACAT
* **
32627203 TACTTTGAT
1 AACTTACAT
32627212 AACTTACAT
1 AACTTACAT
32627221 AACTTACAT
1 AACTTACAT
*
32627230 AA--TACAC
1 AACTTACAT
32627237 AACTTACAT
1 AACTTACAT
* *
32627246 AGCTTACTT
1 AACTTACAT
32627255 AAC--ACAT
1 AACTTACAT
32627262 AACTT--AT
1 AACTTACAT
*
32627269 ACACGTACAT
1 A-ACTTACAT
32627279 AACTTACAT
1 AACTTACAT
32627288 AACTTAC
1 AACTTAC
32627295 TTAATACATA
Statistics
Matches: 190, Mismatches: 30, Indels: 40
0.73 0.12 0.15
Matches are distributed among these distances:
7 37 0.19
8 7 0.04
9 132 0.69
10 6 0.03
11 8 0.04
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:32627100 original size:70 final size:68
Alignment explanation
Indices: 32627026--32627302 Score: 173
Period size: 71 Copynumber: 4.0 Consensus size: 68
32627016 AAACTTGCAT
*
32627026 AACTTACGTAA-TAACATAACAACTTACATAA-TACATAGCATAC-GTAACTTACATAACTTACA
1 AACTTACATAACTAACATAAC--C-TACATAACTACATA--ATACAGTAACTTACATAACTTACA
32627088 TAATACAA
61 TAATACAA
* * *
32627096 AACTTCCATAACTTACATAACCTACATAACCTACATAATACATTTAACTTACATAACTTACATAA
1 AACTTACATAACTAACATAACCTACATAA-CTACATAATACA-GTAACTTACATAACTTACATAA
*
32627161 CTTACAT
64 --TACAA
* * * *
32627168 AA--TACATAA-TAACTTACAACTTAAATAACATACAT--TACTTTGATAACTTACATAACTTAC
1 AACTTACATAACTAAC--ATAACCTACATAAC-TACATAATAC--AG-TAACTTACATAACTTAC
*
32627228 ATAATACAC
60 ATAATACAA
* * * * *
32627237 AACTTACATAGCTTACTTAA-C-ACATAACT-TATACACGTACA-TAACTTACATAACTTACTTA
1 AACTTACATAACTAACATAACCTACATAACTACATA-A--TACAGTAACTTACATAACTTACATA
32627298 ATACA
63 ATACA
32627303 TAAATATATA
Statistics
Matches: 164, Mismatches: 22, Indels: 45
0.71 0.10 0.19
Matches are distributed among these distances:
66 2 0.01
67 25 0.15
68 17 0.10
69 13 0.08
70 45 0.27
71 53 0.32
72 9 0.05
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (68 bp):
AACTTACATAACTAACATAACCTACATAACTACATAATACAGTAACTTACATAACTTACATAATA
CAA
Found at i:32627106 original size:79 final size:77
Alignment explanation
Indices: 32627016--32627173 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 77
32627006 GCTTATATAT
* * * *
32627016 AAACTTGCATAACTTACGTAA-TAACATAACAACTTACATAATACA-TAGCATACGTAACTTACA
1 AAACTTCCATAACTTACATAACT-ACATAAC--C-TACATAATACATTAACATACATAACTTACA
32627079 TAACTTACATAATACA
62 TAACTTACATAATACA
*
32627095 AAACTTCCATAACTTACATAACCTACATAACCTACATAATACATTTAACTTACATAACTTACATA
1 AAACTTCCATAACTTACATAA-CTACATAACCTACATAATACA-TTAACATACATAACTTACATA
32627160 ACTTACATAATACA
64 ACTTACATAATACA
32627174 TAATAACTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
77 11 0.16
78 1 0.01
79 50 0.71
80 7 0.10
81 1 0.01
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.29
Consensus pattern (77 bp):
AAACTTCCATAACTTACATAACTACATAACCTACATAATACATTAACATACATAACTTACATAAC
TTACATAATACA
Found at i:32633433 original size:42 final size:41
Alignment explanation
Indices: 32633228--32633499 Score: 258
Period size: 43 Copynumber: 6.4 Consensus size: 41
32633218 AATCTCAAAA
* * *
32633228 TTAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGAACAT-TTCT
1 TTAGCGGCGTTTTTT-T-TAAGCGCCGCTAAAGAACATGATCT
* * ** *
32633270 TTCCGCGGCGTTTGTGATGAAAGCGCCACTAAAGAACATGATCT
1 TT-AGCGGCGTTT-T-TTTTAAGCGCCGCTAAAGAACATGATCT
* * * *
32633314 ATAGCGGCCTTTTTTTACCAAGCGCCGCTAAAGAACATTATCT
1 TTAGCGGCGTTTTTTT--TAAGCGCCGCTAAAGAACATGATCT
* *
32633357 TTAGCGGCGTCTTTATTTTAAGCGCCGCTAAAGAAAATGTTCT
1 TTAGCGGCGT-TTT-TTTTAAGCGCCGCTAAAGAACATGATCT
* *
32633400 TTAGCGGCGTTTTTTGTTAAGTGCCACTAAAGAACATGATCT
1 TTAGCGGCGTTTTTT-TTAAGCGCCGCTAAAGAACATGATCT
***
32633442 TTAGCGGCGTTTTTTTTTAAATACCGCTAAAGAACATGATCT
1 TTAGCGGCG-TTTTTTTTAAGCGCCGCTAAAGAACATGATCT
*
32633484 TTAGCGGCATTTTTTT
1 TTAGCGGCGTTTTTTT
32633500 CTGTAAACGC
Statistics
Matches: 192, Mismatches: 28, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
41 10 0.05
42 68 0.35
43 102 0.53
44 8 0.04
45 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (41 bp):
TTAGCGGCGTTTTTTTTAAGCGCCGCTAAAGAACATGATCT
Found at i:32633498 original size:85 final size:85
Alignment explanation
Indices: 32633298--32633499 Score: 253
Period size: 85 Copynumber: 2.4 Consensus size: 85
32633288 GAAAGCGCCA
* * *
32633298 CTAAAGAACATGATCTATAGCGGCCTTTTTTTACCAAGCGCCGCTAAAGAACATTATCTTTAGCG
1 CTAAAGAACATGATCTTTAGCGG-CTTTTTTTACCAAGCGCCACTAAAGAACATGATCTTTAGCG
* *
32633363 GCGTCTTTATTTTAAGCGCCG
65 GCGTCTTTATTTTAAACACCG
* * * *** *
32633384 CTAAAGAAAATGTTCTTTAGCGGCGTTTTTTGTTAAGTGCCACTAAAGAACATGATCTTTAGCGG
1 CTAAAGAACATGATCTTTAGCGGCTTTTTTTACCAAGCGCCACTAAAGAACATGATCTTTAGCGG
* *
32633449 CGT-TTTTTTTTAAATACCG
66 CGTCTTTATTTTAAACACCG
32633468 CTAAAGAACATGATCTTTAGCGGCATTTTTTT
1 CTAAAGAACATGATCTTTAGCGGC-TTTTTTT
32633500 CTGTAAACGC
Statistics
Matches: 98, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 34 0.35
85 44 0.45
86 20 0.20
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (85 bp):
CTAAAGAACATGATCTTTAGCGGCTTTTTTTACCAAGCGCCACTAAAGAACATGATCTTTAGCGG
CGTCTTTATTTTAAACACCG
Found at i:32635748 original size:14 final size:14
Alignment explanation
Indices: 32635729--32635767 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
32635719 TGGGTGGCAC
32635729 TTGAAGAAAAATTT
1 TTGAAGAAAAATTT
32635743 TTGAAGAAAAATTT
1 TTGAAGAAAAATTT
32635757 TTGAAGAAAAA
1 TTGAAGAAAAA
32635768 CAGTCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (14 bp):
TTGAAGAAAAATTT
Found at i:32637633 original size:21 final size:21
Alignment explanation
Indices: 32637607--32637647 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32637597 AGACGAGCAA
* *
32637607 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
32637628 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
32637648 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:32640505 original size:20 final size:20
Alignment explanation
Indices: 32640469--32640512 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32640459 TTTTGAGAAA
*
32640469 TATTTTTACTGAGTTTAAAC
1 TATTTTTAATGAGTTTAAAC
*
32640489 TATTTTTAATGTA-TTTAAAG
1 TATTTTTAATG-AGTTTAAAC
32640509 TATT
1 TATT
32640513 ATAAATTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (20 bp):
TATTTTTAATGAGTTTAAAC
Found at i:32640687 original size:13 final size:13
Alignment explanation
Indices: 32640669--32640698 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
32640659 TGTTTTATTT
32640669 AAAATATTAAATA
1 AAAATATTAAATA
32640682 AAAATATTAAATA
1 AAAATATTAAATA
32640695 AAAA
1 AAAA
32640699 AAAGCCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAATATTAAATA
Found at i:32643632 original size:54 final size:54
Alignment explanation
Indices: 32643596--32643756 Score: 232
Period size: 54 Copynumber: 3.0 Consensus size: 54
32643586 CAATGTATTA
32643596 TTCATTTCCCCATATGATGTCATAGCAAACGGCTAGGCCTTACACTATATGGTC
1 TTCATTTCCCCATATGATGTCATAGCAAACGGCTAGGCCTTACACTATATGGTC
* * * *
32643650 TTCATTTCCCCATATGATGCCATAACAAACGACTAGGGCTTACACTATATGGTC
1 TTCATTTCCCCATATGATGTCATAGCAAACGGCTAGGCCTTACACTATATGGTC
* * * * * *
32643704 TTTATTTCCCAATATAAAGTCATTGCAAATGGCTAGGCCTTACACTATATGGT
1 TTCATTTCCCCATATGATGTCATAGCAAACGGCTAGGCCTTACACTATATGGT
32643757 ATTCGCTTAC
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 93 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (54 bp):
TTCATTTCCCCATATGATGTCATAGCAAACGGCTAGGCCTTACACTATATGGTC
Found at i:32646135 original size:39 final size:40
Alignment explanation
Indices: 32646037--32646219 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
32646027 GAATGATGTC
* * * *
32646037 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TA
* *
32646077 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTA
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTA
*
32646117 CGGGCTAAG-CCCGAAGGCATTTGTCCGAGTTACTAAATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATTA
* *
32646156 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTA
*
32646195 CCGGGCTATGTCCCGAAGGCATTTG
1 -CGGGCTAAGTCCCGAAGGCATTTG
32646220 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTA
Found at i:32646241 original size:79 final size:79
Alignment explanation
Indices: 32646088--32646252 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
32646078 GGACTAAGAT
* **
32646088 CCGAAGGCATTTGTGCGAGATACTAATTACGGGCTAAGCCCGAAGGCATTTGTCCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
32646153 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* *
32646167 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAATAA-CGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
32646230 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
32646246 CCGAAGG
1 CCGAAGG
32646253 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.04
79 49 0.66
80 22 0.30
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:32662884 original size:17 final size:17
Alignment explanation
Indices: 32662864--32662902 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
32662854 AAAAAAATTG
32662864 AAAATAA-AGAATAAATA
1 AAAATAATA-AATAAATA
32662881 AAAATAATAAATAAATA
1 AAAATAATAAATAAATA
*
32662898 TAAAT
1 AAAAT
32662903 TAGAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AAAATAATAAATAAATA
Found at i:32667377 original size:14 final size:14
Alignment explanation
Indices: 32667358--32667384 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32667348 ATAATAAAAA
32667358 TAAATAAAAAATTT
1 TAAATAAAAAATTT
32667372 TAAATAAAAAATT
1 TAAATAAAAAATT
32667385 AATTTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATAAAAAATTT
Found at i:32667439 original size:29 final size:28
Alignment explanation
Indices: 32667369--32667445 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
32667359 AAATAAAAAA
* *
32667369 TTTTAA-ATAAAAAATTAATTTATTTTT
1 TTTTAATAGAAAAAATTAATTTATTTAT
32667396 TGATTTAAT-GTAAAAATATTAATTTATTTAT
1 T--TTTAATAG-AAAAA-ATTAATTTATTTAT
*
32667427 TTTTAATAGAAAAAGTTAA
1 TTTTAATAGAAAAAATTAA
32667446 AAACAATTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
27 1 0.02
28 4 0.10
29 16 0.39
30 6 0.15
31 14 0.34
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (28 bp):
TTTTAATAGAAAAAATTAATTTATTTAT
Found at i:32672076 original size:12 final size:12
Alignment explanation
Indices: 32672059--32672083 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32672049 TATATTGTTA
32672059 CGATGATTTTTC
1 CGATGATTTTTC
32672071 CGATGATTTTTC
1 CGATGATTTTTC
32672083 C
1 C
32672084 CGTGAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (12 bp):
CGATGATTTTTC
Found at i:32675857 original size:13 final size:13
Alignment explanation
Indices: 32675839--32675863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32675829 TAATTTATAT
32675839 GTGTGAAAATTTC
1 GTGTGAAAATTTC
32675852 GTGTGAAAATTT
1 GTGTGAAAATTT
32675864 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:32677093 original size:43 final size:43
Alignment explanation
Indices: 32676954--32677112 Score: 189
Period size: 43 Copynumber: 3.7 Consensus size: 43
32676944 TATGTGATAT
*
32676954 CGTGTAAGACCACGTCTGGGACATTGGCATCGATT-TACGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATC-ATTATATGA-TTA
* * * *
32676998 CGTGTAAGACCATGTTTGGGACATTGACATC-GTATATGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCATTATATGATTA
* * *
32677040 CGTGTTAGACC-CTGTCTGGGACAGTGGCATCATTATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCATTATATGATTA
*
32677083 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
32677113 TGTATGAGAT
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 29 0.30
43 38 0.40
44 29 0.30
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCATTATATGATTA
Found at i:32684644 original size:22 final size:22
Alignment explanation
Indices: 32684618--32684664 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
32684608 GTCTATGCAT
*
32684618 GAAGAATTAAATTAATTTGAAA
1 GAAGAATTAAATCAATTTGAAA
*
32684640 GAAGAATTAAATCAATTTTAAA
1 GAAGAATTAAATCAATTTGAAA
32684662 GAA
1 GAA
32684665 ATCAAGTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.55, C:0.02, G:0.13, T:0.30
Consensus pattern (22 bp):
GAAGAATTAAATCAATTTGAAA
Found at i:32689060 original size:122 final size:122
Alignment explanation
Indices: 32688834--32689092 Score: 283
Period size: 122 Copynumber: 2.1 Consensus size: 122
32688824 CTACCGATAT
* * * * *
32688834 CCTCAGAGTTCTACCGCTACCTTGAGGACTTTTACCGCAACAAGTCAAAATAGTAGCTAAGGTTC
1 CCTCAGAGTTCTACCGATACCTTGAGGACTTGTACCGAAACAAGTCAAAATAGTAGCCAAAGTTC
* * * * * **
32688899 ATCCTCTCCCACATTTCTTCGGAAACTCTGGTGGCTTCTACCGATACGAGTTGAAAC
66 AGCATCTCCCACACTTCTTCGGAAACTCTGGTGGCTTCTACCAATACCAAATGAAAC
* ** *
32688956 CAC-CAGAGTTCTACTGATACCTTGAGGACTTGTATTGAAACAAGTCAAGATAGTAGCCAAAGTT
1 C-CTCAGAGTTCTACCGATACCTTGAGGACTTGTACCGAAACAAGTCAAAATAGTAGCCAAAGTT
* * *
32689020 CAGCATC-CCCTGCACTTCTATC-GATACTCTGATTGG-TTCTACCAATACCAAATGAAAC
65 CAGCATCTCCC-ACACTTCT-TCGGAAACTCTG-GTGGCTTCTACCAATACCAAATGAAAC
32689078 CCTCAGAGTTCTACC
1 CCTCAGAGTTCTACC
32689093 AATAAAAAGG
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
121 4 0.04
122 102 0.91
123 6 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (122 bp):
CCTCAGAGTTCTACCGATACCTTGAGGACTTGTACCGAAACAAGTCAAAATAGTAGCCAAAGTTC
AGCATCTCCCACACTTCTTCGGAAACTCTGGTGGCTTCTACCAATACCAAATGAAAC
Found at i:32691507 original size:20 final size:20
Alignment explanation
Indices: 32691478--32691520 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32691468 TTTCTATATA
*
32691478 ATTATACAATTTTATAAAAT
1 ATTATACAATTATATAAAAT
* *
32691498 ATTATTCAATTATATAAATT
1 ATTATACAATTATATAAAAT
32691518 ATT
1 ATT
32691521 GTAACATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTATACAATTATATAAAAT
Found at i:32692553 original size:15 final size:15
Alignment explanation
Indices: 32692503--32692553 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
32692493 TAATTTTATT
32692503 AAAACTATTTCTTAA
1 AAAACTATTTCTTAA
* *
32692518 AAAATTATATT-ATAA
1 AAAACTAT-TTCTTAA
32692533 CTAAAACTATTTCTTAA
1 --AAAACTATTTCTTAA
32692550 AAAA
1 AAAA
32692554 AGAATATTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 14 0.50
16 4 0.14
17 10 0.36
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAACTATTTCTTAA
Found at i:32692561 original size:33 final size:32
Alignment explanation
Indices: 32692502--32692567 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
32692492 GTAATTTTAT
** *
32692502 TAAAACTATTTCTTAAAAAATTATATTATAAC
1 TAAAACTATTTCTTAAAAAAGAATATTACAAC
32692534 TAAAACTATTTCTTAAAAAAAGAATATTACAAC
1 TAAAACTATTTCTT-AAAAAAGAATATTACAAC
32692567 T
1 T
32692568 TTTGTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (32 bp):
TAAAACTATTTCTTAAAAAAGAATATTACAAC
Found at i:32706770 original size:273 final size:274
Alignment explanation
Indices: 32706282--32706829 Score: 875
Period size: 273 Copynumber: 2.0 Consensus size: 274
32706272 CCAAGGATGG
* * * *
32706282 TCCATCCTTGAATCAAAGTCAAACAGAGAGAAGAATCAAATGATTTCTTTTTATTTAAGAAATTT
1 TCCATCCTTGAATCAAAGCCAAACAGAGACAAAAATCAAAGGATTTCTTTTTATTTAAGAAATTT
* * * *
32706347 TTAGAGATTTAAATCTTTCAAATTTTATACAAATTTTTGGCATACCTAGTGGGACAATCTCTACC
66 TTAGAGATTTAAATATTTCAAAGTTTATACAAAATTTTGGCACACCTAGTGGGACAATCTCTACC
* * *
32706412 TTTTATCTCTTCTCTCAAAATTCAAAGTTCAAAGTTACAATGAACTCAAAGAAGATTATCATCAA
131 TTTCATCTCTTCTCTCAAAATTCAAAGTTCAAAGTTACAATGAACTCAAAGAAGATCACCATCAA
* *
32706477 CAAACCCAACTTGCAAGTCTGCTAAAGCTAATCTTGTAGCTCGTCCAGCTGTTGGATCTGGTGCC
196 CAAACCCAACTTGCAAGTCTGCTAAAGCGAATCTTGTAGCCCGTCCAGCTGTTGGATCTGGTGCC
32706542 CTAAGTGTAGTATT
261 CTAAGTGTAGTATT
*
32706556 TCCATCCTTGAATCAAAGCCAAACGGAGACAAAAATCAAAGGA-TT-TTTTTATTTAAGAAATTT
1 TCCATCCTTGAATCAAAGCCAAACAGAGACAAAAATCAAAGGATTTCTTTTTATTTAAGAAATTT
* *
32706619 TTAGAGGTTTAAACTATTTCAAAGTTTATACAAAATTTTGGCACACCTAGTGGGACAATCTCTAT
66 TTAGAGATTTAAA-TATTTCAAAGTTTATACAAAATTTTGGCACACCTAGTGGGACAATCTCTAC
32706684 CTTTCATCTCTTCTCTCAAAATTCAAAGTTCAAAGTTACAATGAACTCAAAGAAGATCACCATCA
130 CTTTCATCTCTTCTCTCAAAATTCAAAGTTCAAAGTTACAATGAACTCAAAGAAGATCACCATCA
* * * * * *
32706749 ACAGACCTAACTTGCAAGTCTGCTCAAGCGACTCTTGTAGCCCGTTCTGCTGTTGGATCTGGTGC
195 ACAAACCCAACTTGCAAGTCTGCTAAAGCGAATCTTGTAGCCCGTCCAGCTGTTGGATCTGGTGC
32706814 CCTAAGTGTAGTATT
260 CCTAAGTGTAGTATT
32706829 T
1 T
32706830 TCGTCTATGT
Statistics
Matches: 251, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
272 30 0.12
273 183 0.73
274 38 0.15
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (274 bp):
TCCATCCTTGAATCAAAGCCAAACAGAGACAAAAATCAAAGGATTTCTTTTTATTTAAGAAATTT
TTAGAGATTTAAATATTTCAAAGTTTATACAAAATTTTGGCACACCTAGTGGGACAATCTCTACC
TTTCATCTCTTCTCTCAAAATTCAAAGTTCAAAGTTACAATGAACTCAAAGAAGATCACCATCAA
CAAACCCAACTTGCAAGTCTGCTAAAGCGAATCTTGTAGCCCGTCCAGCTGTTGGATCTGGTGCC
CTAAGTGTAGTATT
Found at i:32710346 original size:45 final size:45
Alignment explanation
Indices: 32710279--32710402 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 45
32710269 CATATGAACT
*
32710279 CTTATCACTTGTC-CTTGATCAGATAAGTGTAGCT--AGACTACCA
1 CTTATCACTTTTCACTTGATCAGATAAGTGTAGCTGAAG-CTACCA
32710322 CTTATCACTTTTCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTT-CACTTGATCAGATAAGTGTAGCTGAAGCTACCA
32710368 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTT-TCACTTGATCAGATAAGTGTAGC
32710403 CACTTATCAC
Statistics
Matches: 75, Mismatches: 1, Indels: 7
0.90 0.01 0.08
Matches are distributed among these distances:
43 11 0.15
44 1 0.01
45 21 0.28
46 39 0.52
47 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (45 bp):
CTTATCACTTTTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:32710406 original size:37 final size:37
Alignment explanation
Indices: 32710364--32710577 Score: 356
Period size: 37 Copynumber: 5.8 Consensus size: 37
32710354 AGCTGAAGCT
*
32710364 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
* *
32710401 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
**
32710438 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
**
32710475 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
*
32710512 GCCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
32710549 ACCACTTATCACTTTGTCACTTGATCAGA
1 ACCACTTATCACTTTGTCACTTGATCAGA
32710578 AGTACTCAAA
Statistics
Matches: 168, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 168 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
Found at i:32718042 original size:20 final size:20
Alignment explanation
Indices: 32718019--32718058 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
32718009 TTTGGACAAA
32718019 GGACTAAATCATAATA-AACT
1 GGACTAAATCA-AATAGAACT
32718039 GGACTAAATCAAATAGAACT
1 GGACTAAATCAAATAGAACT
32718059 AAAAACTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (20 bp):
GGACTAAATCAAATAGAACT
Found at i:32734359 original size:208 final size:208
Alignment explanation
Indices: 32734001--32734417 Score: 834
Period size: 208 Copynumber: 2.0 Consensus size: 208
32733991 TAAAAGAAAG
32734001 GTCTTATCCCACCGCTACACTCCACAATAAGAGTTCCCCAGAACTCTTTTAACCTAGACACTCTA
1 GTCTTATCCCACCGCTACACTCCACAATAAGAGTTCCCCAGAACTCTTTTAACCTAGACACTCTA
32734066 GTTTGTGGATGAACCACCAGTATTGTAGGTTAATATGTTACTGGTAGATTGTGAATGCACAATAG
66 GTTTGTGGATGAACCACCAGTATTGTAGGTTAATATGTTACTGGTAGATTGTGAATGCACAATAG
32734131 GTTTGCAGATAAAAGTTGTCAATAAATTTGTGGATAAACCACCAGTGATTTCATGTTAATACGCT
131 GTTTGCAGATAAAAGTTGTCAATAAATTTGTGGATAAACCACCAGTGATTTCATGTTAATACGCT
32734196 GTCATTAGGTTGT
196 GTCATTAGGTTGT
32734209 GTCTTATCCCACCGCTACACTCCACAATAAGAGTTCCCCAGAACTCTTTTAACCTAGACACTCTA
1 GTCTTATCCCACCGCTACACTCCACAATAAGAGTTCCCCAGAACTCTTTTAACCTAGACACTCTA
32734274 GTTTGTGGATGAACCACCAGTATTGTAGGTTAATATGTTACTGGTAGATTGTGAATGCACAATAG
66 GTTTGTGGATGAACCACCAGTATTGTAGGTTAATATGTTACTGGTAGATTGTGAATGCACAATAG
32734339 GTTTGCAGATAAAAGTTGTCAATAAATTTGTGGATAAACCACCAGTGATTTCATGTTAATACGCT
131 GTTTGCAGATAAAAGTTGTCAATAAATTTGTGGATAAACCACCAGTGATTTCATGTTAATACGCT
32734404 GTCATTAGGTTGT
196 GTCATTAGGTTGT
32734417 G
1 G
32734418 AATACACAAC
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
208 209 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (208 bp):
GTCTTATCCCACCGCTACACTCCACAATAAGAGTTCCCCAGAACTCTTTTAACCTAGACACTCTA
GTTTGTGGATGAACCACCAGTATTGTAGGTTAATATGTTACTGGTAGATTGTGAATGCACAATAG
GTTTGCAGATAAAAGTTGTCAATAAATTTGTGGATAAACCACCAGTGATTTCATGTTAATACGCT
GTCATTAGGTTGT
Found at i:32735394 original size:37 final size:36
Alignment explanation
Indices: 32735341--32735416 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
32735331 ATTCCCAAAA
*
32735341 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
32735377 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
32735414 TAA
1 TAA
32735417 AGTGATTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:32736226 original size:25 final size:25
Alignment explanation
Indices: 32736198--32736248 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
32736188 CTGAAGATCC
32736198 AAGGAATGCCTTGTGGTGAAAAACT
1 AAGGAATGCCTTGTGGTGAAAAACT
32736223 AAGGAATGCCTTGTGGTGAAAAACT
1 AAGGAATGCCTTGTGGTGAAAAACT
32736248 A
1 A
32736249 TGTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (25 bp):
AAGGAATGCCTTGTGGTGAAAAACT
Found at i:32747384 original size:11 final size:11
Alignment explanation
Indices: 32747370--32747394 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32747360 CCCATAATTA
32747370 TTTTTTAAAAT
1 TTTTTTAAAAT
32747381 TTTTTTAAAAT
1 TTTTTTAAAAT
32747392 TTT
1 TTT
32747395 CCAAAGTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:32747739 original size:23 final size:22
Alignment explanation
Indices: 32747696--32747739 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
32747686 TTCTAAGTAA
32747696 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
32747719 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
32747740 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:32747850 original size:45 final size:45
Alignment explanation
Indices: 32747786--32747872 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
32747776 CAGATACTCG
* * *
32747786 GTGGATTCAGCACATAGCAATCACCTTATTAATTAATGATGTCTA
1 GTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGTCTA
32747831 GTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
1 GTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
32747873 TCGGTTCACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGTCTA
Found at i:32747944 original size:51 final size:50
Alignment explanation
Indices: 32747872--32748068 Score: 202
Period size: 51 Copynumber: 3.9 Consensus size: 50
32747862 ATTAATGATG
* * * *
32747872 TTCGGTTCACATAGTAGCCTGCACATAGTACTATACATGTGACCATTATCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCA
* * * * *
32747923 TTCGATATACGTAATAGCCTGCACATAGTACTACACACGTGATCGA-AAC-
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATATCA
* * * **
32747972 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACC-TATCA
1 T-TC-GGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATCA
32748023 TTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
32748069 ACACTTTCAC
Statistics
Matches: 115, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
49 1 0.01
50 44 0.38
51 68 0.59
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATCA
Found at i:32748061 original size:101 final size:101
Alignment explanation
Indices: 32747881--32748065 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
32747871 GTTCGGTTCA
* ** *
32747881 CATAGTAGCCTGCACATAGTACTATACATGTGACCATTATCATTCGATATACGTAATAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCA-TATCATTCGATACACGTAATAGCCTGCA
32747946 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* *
32747983 CATAGTAGCCTGCACATAGTACTACACATGCAACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCATATCATT-CGATACACGTAATAGCCTGCA
32748047 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
32748066 CCAACACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 7 0.09
101 37 0.49
102 32 0.42
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCAACCATATCATTCGATACACGTAATAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:32748969 original size:30 final size:31
Alignment explanation
Indices: 32748930--32748989 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
32748920 GCAGGTGGGA
*
32748930 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
32748961 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
32748990 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:32750690 original size:19 final size:19
Alignment explanation
Indices: 32750650--32750690 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
32750640 TTGAACTTGA
*
32750650 AAATTGGACCTGAGATCAT
1 AAATTGGACCTGAGAGCAT
* *
32750669 AAATTGGACCTGGGAGCCT
1 AAATTGGACCTGAGAGCAT
32750688 AAA
1 AAA
32750691 ACTGAGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (19 bp):
AAATTGGACCTGAGAGCAT
Found at i:32751023 original size:37 final size:37
Alignment explanation
Indices: 32750974--32751044 Score: 85
Period size: 37 Copynumber: 1.9 Consensus size: 37
32750964 CAAAATCATA
32750974 TTATTTTAATAAT-TTAATATTAAATTTAAT-TTAATAC
1 TTATTTTAATAATATT-ATATT-AATTTAATATTAATAC
*
32751011 TTATCTTT-ATAATATTTTATTAATTTAATATTAA
1 TTAT-TTTAATAATATTATATTAATTTAATATTAA
32751045 AGTGATTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
36 8 0.27
37 17 0.57
38 5 0.17
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (37 bp):
TTATTTTAATAATATTATATTAATTTAATATTAATAC
Found at i:32751253 original size:14 final size:14
Alignment explanation
Indices: 32751234--32751268 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
32751224 CCTGAATTCA
*
32751234 AGAGAAAGTTATAG
1 AGAGAAAATTATAG
32751248 AGAGAAAATTATAG
1 AGAGAAAATTATAG
32751262 AGAGAAA
1 AGAGAAA
32751269 TTACGTGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (14 bp):
AGAGAAAATTATAG
Found at i:32754620 original size:9 final size:9
Alignment explanation
Indices: 32754606--32754664 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
32754596 TTTGGTTAAA
32754606 AATTACCCG
1 AATTACCCG
32754615 AATTACCCG
1 AATTACCCG
*
32754624 AATTAACCG
1 AATTACCCG
32754633 AATTA-CCG
1 AATTACCCG
* *
32754641 AAAAATACCTG
1 --AATTACCCG
32754652 AATTACCCG
1 AATTACCCG
32754661 AATT
1 AATT
32754665 TTTTTATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
8 3 0.07
9 33 0.79
10 4 0.10
11 2 0.05
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:32758746 original size:11 final size:11
Alignment explanation
Indices: 32758730--32758762 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
32758720 CCTTTCTCCC
32758730 TTTCTTTTCTT
1 TTTCTTTTCTT
32758741 TTTC-TTTCTT
1 TTTCTTTTCTT
*
32758751 TTTTTTTTCTT
1 TTTCTTTTCTT
32758762 T
1 T
32758763 ATTTTCTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:32758749 original size:15 final size:15
Alignment explanation
Indices: 32758729--32758771 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
32758719 TCCTTTCTCC
32758729 CTTTCTTTTCTTTTT
1 CTTTCTTTTCTTTTT
*
32758744 CTTTCTTTTTTTTTT
1 CTTTCTTTTCTTTTT
*
32758759 CTTTATTTTCTTT
1 CTTTCTTTTCTTT
32758772 CTTAATTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTCTTTTCTTTTT
Found at i:32766329 original size:21 final size:21
Alignment explanation
Indices: 32766290--32766357 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
32766280 ACATAAATCC
* * *
32766290 TAAACCCCTGACCCCTAAACCT
1 TAAACCCC-AACCCTTAAACCA
32766312 TAAACCCCAACCCTTAAACCA
1 TAAACCCCAACCCTTAAACCA
** *
32766333 TAAACCATAATCCTTAAACCCA
1 TAAACCCCAACCCTTAAA-CCA
32766355 TAA
1 TAA
32766358 TCCGTAACCT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 25 0.64
22 14 0.36
ACGTcount: A:0.41, C:0.38, G:0.01, T:0.19
Consensus pattern (21 bp):
TAAACCCCAACCCTTAAACCA
Found at i:32766368 original size:21 final size:21
Alignment explanation
Indices: 32766327--32766423 Score: 67
Period size: 21 Copynumber: 4.6 Consensus size: 21
32766317 CCCAACCCTT
32766327 AAACCATAAACCATAATCCTT
1 AAACCATAAACCATAATCCTT
* *
32766348 AAACCCATAATCCGTAA-CCTT
1 AAA-CCATAAACCATAATCCTT
* *
32766369 AAA--ATAGTAACTCCTAAACCTT
1 AAACCATA--AAC-CATAATCCTT
* *
32766391 AAACCCTAAACCAT-ATACCCT
1 AAACCATAAACCATAAT-CCTT
32766412 AAACCATAAACC
1 AAACCATAAACC
32766424 CTAAACTATA
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
18 3 0.05
20 3 0.05
21 30 0.51
22 21 0.36
24 2 0.03
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (21 bp):
AAACCATAAACCATAATCCTT
Found at i:32766395 original size:7 final size:7
Alignment explanation
Indices: 32766381--32766429 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
32766371 AATAGTAACT
32766381 CCTAAAC
1 CCTAAAC
*
32766388 CTTAAAC
1 CCTAAAC
32766395 CCTAAAC
1 CCTAAAC
* *
32766402 CATATAC
1 CCTAAAC
32766409 CCTAAAC
1 CCTAAAC
*
32766416 CATAAAC
1 CCTAAAC
32766423 CCTAAAC
1 CCTAAAC
32766430 TATAATGATA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:32766398 original size:14 final size:14
Alignment explanation
Indices: 32766381--32766434 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
32766371 AATAGTAACT
*
32766381 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
*
32766395 CCTAAACCATATAC
1 CCTAAACCATAAAC
32766409 CCTAAACCATAAAC
1 CCTAAACCATAAAC
*
32766423 CCTAAACTATAA
1 CCTAAACCATAA
32766435 TGATAATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:32766607 original size:30 final size:31
Alignment explanation
Indices: 32766551--32766612 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
32766541 TTTAAAACTA
* *
32766551 TTTTAAATAATATATTTTAATTTTTTTTCAT
1 TTTTAAATAATATATTTTAATATTTTTACAT
*
32766582 TTTTAAA-AA-ATATTTTCTATATTTTTACAT
1 TTTTAAATAATATATTTT-AATATTTTTACAT
32766612 T
1 T
32766613 CAAATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 7 0.26
30 13 0.48
31 7 0.26
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTAAATAATATATTTTAATATTTTTACAT
Found at i:32766820 original size:39 final size:40
Alignment explanation
Indices: 32766740--32766885 Score: 195
Period size: 40 Copynumber: 3.7 Consensus size: 40
32766730 ATGTTTTTTA
* * *
32766740 CGGCGTTTTTGATAAAGCACCACTAAAGCTCGATCTATAG
1 CGGCGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAG
* *
32766780 CGGCGTTTTTCAAAAAGCGCC-GTAATGCTCGATCTATAG
1 CGGCGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAG
* *
32766819 CGGCGTTTTTCAAAAAGAACCACTAATGCTCGATCTTTAG
1 CGGCGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAG
* * *
32766859 CAGCGTTTTTCGAAAAGCACCGCTAAT
1 CGGCGTTTTTCAAAAAGCACCACTAAT
32766886 ACCACTAAAG
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 35 0.38
40 57 0.62
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (40 bp):
CGGCGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAG
Found at i:32770443 original size:29 final size:29
Alignment explanation
Indices: 32770365--32770444 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 29
32770355 AAATTCCGTT
** *
32770365 ATATATATATACATACATGTGTTTTTATA
1 ATATATATATACATACACATATTTTTATA
* *
32770394 ATATATATATACATGCGCATATTTTTATA
1 ATATATATATACATACACATATTTTTATA
* * *
32770423 ATTTATCTATATATACACATAT
1 ATATATATATACATACACATAT
32770445 ATACCTATAT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (29 bp):
ATATATATATACATACACATATTTTTATA
Found at i:32770615 original size:39 final size:37
Alignment explanation
Indices: 32770560--32770640 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 37
32770550 ATATATTTTG
* *
32770560 TATATATTCTTTATATTTTATGATTCATATATACCTA
1 TATATATACTTTATATTTTATGATACATATATACCTA
** *
32770597 TATATATACTTTTAATATTTTATGATAGTTATATACGTA
1 TATATATAC-TTT-ATATTTTATGATACATATATACCTA
32770636 TATAT
1 TATAT
32770641 GTATGTACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 8 0.22
38 3 0.08
39 26 0.70
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (37 bp):
TATATATACTTTATATTTTATGATACATATATACCTA
Found at i:32770719 original size:34 final size:35
Alignment explanation
Indices: 32770681--32770754 Score: 80
Period size: 34 Copynumber: 2.1 Consensus size: 35
32770671 ATGTATAATA
**
32770681 ATTTT-AAAATATGTATACATGTATATAT-TTTCAT
1 ATTTTCAAAAT-TGTATACACATATATATCTTTCAT
* * *
32770715 ATTTTCATAATTTTATACACATATATATCTTTTAT
1 ATTTTCAAAATTGTATACACATATATATCTTTCAT
32770750 ATTTT
1 ATTTT
32770755 TATAATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
34 19 0.58
35 14 0.42
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (35 bp):
ATTTTCAAAATTGTATACACATATATATCTTTCAT
Found at i:32782117 original size:2 final size:2
Alignment explanation
Indices: 32782110--32782149 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
32782100 TATCTATATC
32782110 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
32782150 TATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:32791712 original size:69 final size:69
Alignment explanation
Indices: 32791601--32792007 Score: 357
Period size: 69 Copynumber: 5.9 Consensus size: 69
32791591 CGCAGGCAGT
* * * ** * ** *
32791601 AACCTCTAAAACAGTTAGCGAGAGTAAAGCTCCCAGTTGTCATATTAAAGTTCGTAGGAAAAGAA
1 AACCTCCAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
32791666 CTAC
66 CTAC
* * * *
32791670 AACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCCAACTGTCATATTAATGTTCGCAAGCGAAGAG
1 AACCTCCAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
**
32791735 CTGT
66 CTAC
* * * * *
32791739 AACCTCCAAAAAAATTAGCGAGAGTAAAGCTCTCAGCTGTCATATTAAATTTCGCAGGCGAAGAG
1 AACCTCCAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
*
32791804 CTGC
66 CTAC
* * * * * * * *
32791808 AACCTCCAAAATAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAGGTTCACAGGTGAAGAG
1 AACCTCCAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
*
32791873 CCAC
66 CTAC
* * * * * ** *
32791877 AACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTTACAGGTGAAGA-
1 AACCTCCAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
*
32791941 ATCAC
66 CT-AC
* ** * * ** * * *
32791946 AACCTCCAAAACAGTTAGTAAGAGCAAAACTCCTAGTTGTCATATTAAGGTTTGCAGACGAA
1 AACCTCCAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAA
32792008 AAACCAGAAC
Statistics
Matches: 272, Mismatches: 65, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
69 272 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (69 bp):
AACCTCCAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
CTAC
Found at i:32791811 original size:138 final size:137
Alignment explanation
Indices: 32791599--32791997 Score: 431
Period size: 138 Copynumber: 2.9 Consensus size: 137
32791589 CTCGCAGGCA
* * * * * * *
32791599 GTAACCTCTAAAACAGTTAGCGAGAGTAAAGCTCCCAGTTGTCATATTAAAGTTCGTAGGAAAAG
1 GTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCCCAGCTGTCATATTAAATTTCGCAGGAGAAG
* * *
32791664 AACTACAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCCAACTGTCATATTAATGTTCGCAAGC
66 -ACTACAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCACAAGC
*
32791729 GAAGAGCT
130 GAAGAGCC
* *
32791737 GTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCTCAGCTGTCATATTAAATTTCGCAGGCGAAG
1 GTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCCCAGCTGTCATATTAAATTTCGCAGGAGAAG
* * * * * * *
32791802 AGCTGCAACCTCCAAAATAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAGGTTCACAGGT
66 A-CTACAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCACAAGC
32791867 GAAGAGCC
130 GAAGAGCC
** * * * * * * * *
32791875 ACAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTT-ACAGGTGAA
1 GTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCCCAGCTGTCATATTAA-ATTTCGCAGGAGAA
* * * * * *
32791939 GAATCACAACCTCCAAAACAGTTAGTAAGAGCAAAACTCCTAGTTGTCATATTAAGGTT
65 GACT-ACAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTT
32791998 TGCAGACGAA
Statistics
Matches: 216, Mismatches: 42, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
137 2 0.01
138 211 0.98
139 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (137 bp):
GTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCCCAGCTGTCATATTAAATTTCGCAGGAGAAG
ACTACAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCACAAGCG
AAGAGCC
Found at i:32791989 original size:207 final size:207
Alignment explanation
Indices: 32791601--32791993 Score: 439
Period size: 207 Copynumber: 1.9 Consensus size: 207
32791591 CGCAGGCAGT
* * ** * * **
32791601 AACCTCTAAAACAGTTAGCGAGAGTAAAGCTCCCAGTTGTCATATTAAAGTTCGTAGGAAAAGAA
1 AACCTCCAAAACAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAAGTTCACAGGAAAAGAA
* * * ** * * * *
32791666 CTACAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCCAACTGTCATATTAATGTTCGCAAGCGA
66 CCACAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTCACAAGCGA
** * * *
32791731 AGAGCTGTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCTCAGCTGTCATATTAAATTTCGCAG
131 AGAGCTACAACCTCCAAAAAAATTAGCAAGAGCAAAACTCTCAGCTGTCATATTAAATTTCGCAG
32791796 GCGAAGAGCTGC
196 GCGAAGAGCTGC
* * ** *
32791808 AACCTCCAAAATAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAGGTTCACAGGTGAAGAG
1 AACCTCCAAAACAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAAGTTCACAGGAAAAGAA
* * *
32791873 CCACAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTTACAGGTGA
66 CCACAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTCACAAGCGA
* * * * *
32791938 AGA-ATCACAACCTCCAAAACAGTTAGTAAGAGCAAAACTC-CTAGTTGTCATATTAA
131 AGAGCT-ACAACCTCCAAAAAAATTAGCAAGAGCAAAACTCTC-AGCTGTCATATTAA
32791994 GGTTTGCAGA
Statistics
Matches: 149, Mismatches: 35, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
206 2 0.01
207 147 0.99
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (207 bp):
AACCTCCAAAACAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAAGTTCACAGGAAAAGAA
CCACAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTCACAAGCGA
AGAGCTACAACCTCCAAAAAAATTAGCAAGAGCAAAACTCTCAGCTGTCATATTAAATTTCGCAG
GCGAAGAGCTGC
Found at i:32794391 original size:36 final size:36
Alignment explanation
Indices: 32794344--32794417 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
32794334 GGAGGAGCAC
* *
32794344 ATCAGTTAGAATAGATCCGAAAGGCTAATGAATTGA
1 ATCAGTCAGAATAGATCCAAAAGGCTAATGAATTGA
*
32794380 ATCAGTCAGAATAGATCCAAAAGGCTACTGAATTGA
1 ATCAGTCAGAATAGATCCAAAAGGCTAATGAATTGA
32794416 AT
1 AT
32794418 AGAGCTTGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCCAAAAGGCTAATGAATTGA
Found at i:32795978 original size:45 final size:45
Alignment explanation
Indices: 32795922--32796016 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
32795912 TACTATATGA
* *
32795922 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
32795967 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
32796012 ACCGA
1 ACCGA
32796017 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:32812078 original size:25 final size:25
Alignment explanation
Indices: 32812043--32812155 Score: 111
Period size: 25 Copynumber: 4.6 Consensus size: 25
32812033 GGACACACCA
* *
32812043 CAGCTCCTATGAGCTTCCCGTTATT
1 CAGCTCGTATGAGCTTCCCATTATT
* *
32812068 TAGCTCGTATGAGCTTTCCATTATT
1 CAGCTCGTATGAGCTTCCCATTATT
** *
32812093 CAGCTCACATGATCTTCCCATTATT
1 CAGCTCGTATGAGCTTCCCATTATT
* * * * *
32812118 CAGCTCGGAAGAGCTTGCTATT-TA
1 CAGCTCGTATGAGCTTCCCATTATT
32812142 CAGCTCGTATGAGC
1 CAGCTCGTATGAGC
32812156 ATACATAAAT
Statistics
Matches: 70, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
24 13 0.19
25 57 0.81
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.35
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTCCCATTATT
Found at i:32819809 original size:40 final size:42
Alignment explanation
Indices: 32819730--32819809 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 42
32819720 TAGTATATAT
*
32819730 AAATTTATTTTTCTTTTTTCTTGGGGGAAGATCTATCAATAAC
1 AAATTTATTATTCTTTTTTCTT-GGGGAAGATCTATCAATAAC
32819773 AAATTTATTATTCTTTTTT-TT-GGGAAGATCTATCAAT
1 AAATTTATTATTCTTTTTTCTTGGGGAAGATCTATCAAT
32819810 TACTTTCTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
40 16 0.44
42 2 0.06
43 18 0.50
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (42 bp):
AAATTTATTATTCTTTTTTCTTGGGGAAGATCTATCAATAAC
Found at i:32821382 original size:22 final size:22
Alignment explanation
Indices: 32821346--32821387 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
32821336 ATATTTTTAT
*
32821346 AATTTAAAACTTAAAATTTTAAA
1 AATTAAAAACTT-AAATTTTAAA
32821369 AATTAAAAAC-TAAATTTTA
1 AATTAAAAACTTAAATTTTA
32821388 CATTTTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTAAAAACTTAAATTTTAAA
Found at i:32824701 original size:13 final size:12
Alignment explanation
Indices: 32824680--32824731 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
32824670 AAAAAGGTGA
32824680 TTTTTTTTTCTT
1 TTTTTTTTTCTT
32824692 TTTTTATTTTCTCT
1 TTTTT-TTTTCT-T
* *
32824706 TGTTGTTTTC-T
1 TTTTTTTTTCTT
*
32824717 TTTTCTTTTCTT
1 TTTTTTTTTCTT
32824729 TTT
1 TTT
32824732 GGTTGTTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 9 0.27
12 9 0.27
13 11 0.33
14 4 0.12
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:32842479 original size:25 final size:25
Alignment explanation
Indices: 32842451--32842498 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
32842441 CGGAGAGCCA
*
32842451 TTAATCGGGAA-TATCACAAAGAGCT
1 TTAATCGAGAAGT-TCACAAAGAGCT
*
32842476 TTAATTGAGAAGTTCACAAAGAG
1 TTAATCGAGAAGTTCACAAAGAG
32842499 TCATATAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (25 bp):
TTAATCGAGAAGTTCACAAAGAGCT
Found at i:32846584 original size:12 final size:12
Alignment explanation
Indices: 32846567--32846610 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
32846557 ATTATGTAAT
32846567 ACATAAAACAAA
1 ACATAAAACAAA
32846579 ACATAAAA-AAA
1 ACATAAAACAAA
32846590 TACATAAAACAAA
1 -ACATAAAACAAA
32846603 ACATAAAA
1 ACATAAAA
32846611 AAATATCACG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.10
12 24 0.80
13 3 0.10
ACGTcount: A:0.75, C:0.14, G:0.00, T:0.11
Consensus pattern (12 bp):
ACATAAAACAAA
Found at i:32846593 original size:24 final size:24
Alignment explanation
Indices: 32846564--32846615 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
32846554 ATTATTATGT
32846564 AATACATAAAACAAAACATAAAAA
1 AATACATAAAACAAAACATAAAAA
32846588 AATACATAAAACAAAACATAAAAA
1 AATACATAAAACAAAACATAAAAA
32846612 AATA
1 AATA
32846616 TCACGCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.13
Consensus pattern (24 bp):
AATACATAAAACAAAACATAAAAA
Found at i:32847552 original size:82 final size:81
Alignment explanation
Indices: 32847402--32847597 Score: 268
Period size: 82 Copynumber: 2.4 Consensus size: 81
32847392 GAAAGTCGAG
* * * * * *
32847402 ATAGCTTCGGTTATTAATGGCACTTAGTGTGCGATTTGGAATAGCTTTGGCTATATATGGCACTT
1 ATAGCTTCGGCTATTAATGGCACTTAGTGTGCGAATTAGAATAGCTTCGGCTATAGAAGGCACTT
32847467 AGTGTGCAGAATTATA
66 AGTGTGCAGAATTATA
*
32847483 ATAGCTTCGGCTATGTAA-GGCACTTAGTGTGCGAAATTATAATAGCTTCGGCTATAGAAGGCAC
1 ATAGCTTCGGCTAT-TAATGGCACTTAGTGTGCG-AATTAGAATAGCTTCGGCTATAGAAGGCAC
32847547 TTAGTGTGCAGAATTATA
64 TTAGTGTGCAGAATTATA
* *
32847565 ATAGCTTCGGCTATATGATTGGCAATTAGTGTG
1 ATAGCTTCGGCTAT-T-AATGGCACTTAGTGTG
32847598 TGACACATTG
Statistics
Matches: 101, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
81 28 0.28
82 60 0.59
83 1 0.01
84 12 0.12
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (81 bp):
ATAGCTTCGGCTATTAATGGCACTTAGTGTGCGAATTAGAATAGCTTCGGCTATAGAAGGCACTT
AGTGTGCAGAATTATA
Found at i:32847579 original size:41 final size:40
Alignment explanation
Indices: 32847402--32847597 Score: 234
Period size: 41 Copynumber: 4.8 Consensus size: 40
32847392 GAAAGTCGAG
* * **
32847402 ATAGCTTCGGTTATTA-ATGGCACTTAGTGTGCGATTTGGA
1 ATAGCTTCGGCTA-TAGATGGCACTTAGTGTGCGAATTATA
* *
32847442 ATAGCTTTGGCTATATATGGCACTTAGTGTGCAGAATTATA
1 ATAGCTTCGGCTATAGATGGCACTTAGTGTGC-GAATTATA
*
32847483 ATAGCTTCGGCTAT-GTAAGGCACTTAGTGTGCGAAATTATA
1 ATAGCTTCGGCTATAG-ATGGCACTTAGTGTGCG-AATTATA
*
32847524 ATAGCTTCGGCTATAGAAGGCACTTAGTGTGCAGAATTATA
1 ATAGCTTCGGCTATAGATGGCACTTAGTGTGC-GAATTATA
*
32847565 ATAGCTTCGGCTATATGATTGGCAATTAGTGTG
1 ATAGCTTCGGCTATA-GA-TGGCACTTAGTGTG
32847598 TGACACATTG
Statistics
Matches: 138, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
39 2 0.01
40 28 0.20
41 92 0.67
42 4 0.03
43 12 0.09
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (40 bp):
ATAGCTTCGGCTATAGATGGCACTTAGTGTGCGAATTATA
Found at i:32854864 original size:41 final size:41
Alignment explanation
Indices: 32854761--32854978 Score: 269
Period size: 41 Copynumber: 5.3 Consensus size: 41
32854751 GAAATTCGAG
* * **
32854761 ATAGCTTCGGTTAT-TAATGGCACTTAGTGTGC-GATTTGGA
1 ATAGCTTCGGCTATGTAA-GGCACTTAGTGTGCAGAATTATA
* * * *
32854801 ATAGCTTTGGCTATATATGGCACTTAGTGTGCATAATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
* *
32854842 ATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGGAATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
* * * **
32854883 ATAGCTTTGGCTATGGAAGGCACTTAGTTTGTGGAATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
*
32854924 ATAGCTTCGGCTAGGTAAGGCACTTAGTGTGCAGAATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
32854965 ATAGCTTCGGCTAT
1 ATAGCTTCGGCTAT
32854979 ATGATTGGTA
Statistics
Matches: 155, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
40 26 0.17
41 129 0.83
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (41 bp):
ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
Found at i:32857422 original size:25 final size:25
Alignment explanation
Indices: 32857370--32857433 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
32857360 GTTTGGGCAG
* *
32857370 CATATATACAAC-AAAATTGAGCAG
1 CATATATACAACAAAAATTGAACAA
* *
32857394 CATATTTACACCAAAAATTGAACAA
1 CATATATACAACAAAAATTGAACAA
32857419 CATATATACAACAAA
1 CATATATACAACAAA
32857434 TTGGGCAGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 10 0.30
25 23 0.70
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (25 bp):
CATATATACAACAAAAATTGAACAA
Found at i:32857445 original size:23 final size:23
Alignment explanation
Indices: 32857344--32857674 Score: 169
Period size: 23 Copynumber: 14.0 Consensus size: 23
32857334 AAAATTTGAA
**
32857344 CAGCATATATACAACAGTTTGGG
1 CAGCATATATACAACAAATTGGG
*
32857367 CAGCATATATACAACAAAATTGAG
1 CAGCATATATACAAC-AAATTGGG
* * **
32857391 CAGCATATTTACACCAAAAATTGAA
1 CAGCATATATACA--ACAAATTGGG
*
32857416 CAACATATATACAACAAATTGGG
1 CAGCATATATACAACAAATTGGG
* * *
32857439 CAGCATATATATATATATCAAATAGAG
1 CAGC--ATATATACA-A-CAAATTGGG
** * * * **
32857466 CAATATTTTTACATCAAAATTGAA
1 CAGCATATATACAAC-AAATTGGG
* * *
32857490 CAACATATATACAACAATTTAGG
1 CAGCATATATACAACAAATTGGG
* * *
32857513 CAGCATATATATACCAAATTGAG
1 CAGCATATATACAACAAATTGGG
* * * * *
32857536 CAACATTTTTACATCAAAATTGGA
1 CAGCATATATACAAC-AAATTGGG
* *
32857560 CAGCATATATACAACAATTTAGG
1 CAGCATATATACAACAAATTGGG
* *
32857583 CAGCATATATA-TACAAAATTGAG
1 CAGCATATATACAAC-AAATTGGG
* * * * *
32857606 CAACATTTTTACATCAAAATTGGA
1 CAGCATATATACAAC-AAATTGGG
* * *
32857630 CAACATATATACAACAATTTAGG
1 CAGCATATATACAACAAATTGGG
* *
32857653 CAGCATAAATACAACGAATTGG
1 CAGCATATATACAACAAATTGG
32857675 ATAGCATTTA
Statistics
Matches: 224, Mismatches: 73, Indels: 22
0.70 0.23 0.07
Matches are distributed among these distances:
22 2 0.01
23 108 0.48
24 71 0.32
25 32 0.14
26 2 0.01
27 9 0.04
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.27
Consensus pattern (23 bp):
CAGCATATATACAACAAATTGGG
Found at i:32857567 original size:70 final size:70
Alignment explanation
Indices: 32857334--32857666 Score: 445
Period size: 70 Copynumber: 4.7 Consensus size: 70
32857324 TTTTCACACG
* * * * * *
32857334 AAAATTTGAACAGCATATATACAACAGTTTGGGCAGCATATATACAACAAAATTGAGCAGCATAT
1 AAAA-TTGAACAACATATATACAACAATTTAGGCAGCATATATA-TACAAAATTGAGCAACATTT
*
32857399 TTACACC
64 TTACATC
* * * * *
32857406 AAAAATTGAACAACATATATACAACAAATTGGGCAGCATATATATATATATCAAATAGAGCAATA
1 -AAAATTGAACAACATATATACAACAATTTAGGCAGC--ATATATATACA--AAATTGAGCAACA
32857471 TTTTTACATC
61 TTTTTACATC
*
32857481 AAAATTGAACAACATATATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTT
1 AAAATTGAACAACATATATACAACAATTTAGGCAGCATATATATACAAAATTGAGCAACATTTTT
32857546 ACATC
66 ACATC
* *
32857551 AAAATTGGACAGCATATATACAACAATTTAGGCAGCATATATATACAAAATTGAGCAACATTTTT
1 AAAATTGAACAACATATATACAACAATTTAGGCAGCATATATATACAAAATTGAGCAACATTTTT
32857616 ACATC
66 ACATC
*
32857621 AAAATTGGACAACATATATACAACAATTTAGGCAGCATA-A-ATACAA
1 AAAATTGAACAACATATATACAACAATTTAGGCAGCATATATATACAA
32857667 CGAATTGGAT
Statistics
Matches: 236, Mismatches: 20, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
68 6 0.03
69 1 0.00
70 126 0.53
72 38 0.16
73 6 0.03
74 41 0.17
75 18 0.08
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (70 bp):
AAAATTGAACAACATATATACAACAATTTAGGCAGCATATATATACAAAATTGAGCAACATTTTT
ACATC
Found at i:32858421 original size:24 final size:24
Alignment explanation
Indices: 32858394--32858474 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 24
32858384 TCAAAAATAT
*
32858394 TTAATAAGTTCGCACACTTAGTGC
1 TTAATAAATTCGCACACTTAGTGC
32858418 TTAATAATCAATCTCGCACACTTAGTGC
1 TTAAT-A--AAT-TCGCACACTTAGTGC
*
32858446 TTTACAATTAAACTCGCACACTTAGTGC
1 -TT--AA-TAAATTCGCACACTTAGTGC
32858474 T
1 T
32858475 AATCTCATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
24 5 0.11
25 1 0.02
27 3 0.06
28 30 0.64
29 4 0.09
31 3 0.06
32 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (24 bp):
TTAATAAATTCGCACACTTAGTGC
Found at i:32858435 original size:28 final size:28
Alignment explanation
Indices: 32858403--32858474 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
32858393 TTTAATAAGT
* *
32858403 TCGCACACTTAGTGCTTAATAATCAATC
1 TCGCACACTTAGTGCTTAACAATCAAAC
* *
32858431 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTAACAATCAAAC
32858459 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
32858475 AATCTCATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTAACAATCAAAC
Found at i:32864958 original size:23 final size:23
Alignment explanation
Indices: 32864935--32865343 Score: 197
Period size: 23 Copynumber: 17.5 Consensus size: 23
32864925 ACACCAAAAT
*
32864935 TTGGACAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
** *
32864958 TTGGGTAGCATATACACAACAAAA
1 TTGGACAGCATATATACAAC-AAA
* * *
32864982 TT-GAGCAGCATTTTTACACCAAAAA
1 TTGGA-CAGCATATATACA--ACAAA
32865007 TTGGACAGCATATATACAACAAA
1 TTGGACAGCATATATACAACAAA
** * * *
32865030 TTGGGTAGGATATATATACCAAA
1 TTGGACAGCATATATACAACAAA
* * * * *
32865053 TT-AAGCAACATTTTTACATCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
*
32865077 TTGGACAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
* *
32865100 TTAGG-CAGCATATATATACCAAA
1 TT-GGACAGCATATATACAACAAA
* * * *
32865123 TT-GAGCAACATTTTTACATCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
* *
32865147 TTGGAAAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
* * * *
32865170 TTAGG-CAGAATTTATATACCAAA
1 TT-GGACAGCATATATACAACAAA
* * * *
32865193 TT-GAGCAACATTTTTACATCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
* *
32865217 TTGGAAAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
* *
32865240 TTAGG-CAGCATATATATACCAAA
1 TT-GGACAGCATATATACAACAAA
* * * *
32865263 TT-GAGCAACATTTTTACATCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
*
32865287 TTGGACAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
* *
32865310 TTAGG-CAGCATAAATACAACGAA
1 TT-GGACAGCATATATACAACAAA
*
32865333 TTGGGCAGCAT
1 TTGGACAGCAT
32865344 TTAAGCATCA
Statistics
Matches: 280, Mismatches: 81, Indels: 50
0.68 0.20 0.12
Matches are distributed among these distances:
21 3 0.01
22 2 0.01
23 166 0.59
24 83 0.30
25 23 0.08
26 3 0.01
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.27
Consensus pattern (23 bp):
TTGGACAGCATATATACAACAAA
Found at i:32865024 original size:25 final size:25
Alignment explanation
Indices: 32864929--32865029 Score: 93
Period size: 25 Copynumber: 4.2 Consensus size: 25
32864919 ATTTTCACAC
*
32864929 CAAAATTTGGACAGCATATATACAA
1 CAAAAATTGGACAGCATATATACAA
* ** *
32864954 C--AATTTGGGTAGCATATACACAA
1 CAAAAATTGGACAGCATATATACAA
* * *
32864977 C-AAAATT-GAGCAGCATTTTTACAC
1 CAAAAATTGGA-CAGCATATATACAA
32865001 CAAAAATTGGACAGCATATATACAA
1 CAAAAATTGGACAGCATATATACAA
32865026 CAAA
1 CAAA
32865030 TTGGGTAGGA
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
23 21 0.36
24 14 0.24
25 22 0.37
26 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.24
Consensus pattern (25 bp):
CAAAAATTGGACAGCATATATACAA
Found at i:32865159 original size:47 final size:47
Alignment explanation
Indices: 32865106--32865304 Score: 133
Period size: 47 Copynumber: 4.3 Consensus size: 47
32865096 CAATTTAGGC
* *
32865106 AGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGAA
1 AGCATATATACACCAAATTGAGCAACATTTATACATCAAAATTGGAA
* * * * *
32865153 AGCATATATACAAC-AATTTAGGCAGA-ATTTATATA-CCAAATTGAGCA
1 AGCATATATACACCAAATTGA-GCA-ACATTTATACATCAAAATTG-GAA
* * * * * * * *
32865200 A-CATTTTTACATCAAAATTG-GAAAGCATATATACAAC-AATTTAGG-C
1 AGCATATATACA-CCAAATTGAGCAA-CATTTATACATCAAAATT-GGAA
* * *
32865246 AGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGAC
1 AGCATATATACACCAAATTGAGCAACATTTATACATCAAAATTGGAA
32865293 AGCATATATACA
1 AGCATATATACA
32865305 ACAATTTAGG
Statistics
Matches: 112, Mismatches: 27, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
45 1 0.01
46 41 0.37
47 63 0.56
48 7 0.06
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (47 bp):
AGCATATATACACCAAATTGAGCAACATTTATACATCAAAATTGGAA
Found at i:32865357 original size:70 final size:70
Alignment explanation
Indices: 32864877--32865321 Score: 635
Period size: 70 Copynumber: 6.3 Consensus size: 70
32864867 GGACAGCCCT
* * * * *
32864877 TATACATCAATTT-GGACAG-ATTTATATACCAAACT-AGACAACATTTTCACACCAAAATTTGG
1 TATACAACAATTTAGG-CAGCATATATATACCAAATTGAG-CAACATTTTTACATCAAAA-TTGG
32864939 ACAGCATA
63 ACAGCATA
* * * * * * *
32864947 TATACAACAATTTGGGTAGCATATACACAACAAAATTGAGCAGCATTTTTACACCAAAAATTGGA
1 TATACAACAATTTAGGCAGCATATATA-TACCAAATTGAGCAACATTTTTACATC-AAAATTGGA
32865012 CAGCATA
64 CAGCATA
* * * * *
32865019 TATACAACAAATTGGGTAGGATATATATACCAAATTAAGCAACATTTTTACATCAAAATTGGACA
1 TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
32865084 GCATA
66 GCATA
*
32865089 TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGAAA
1 TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
32865154 GCATA
66 GCATA
* * *
32865159 TATACAACAATTTAGGCAGAATTTATATACCAAATTGAGCAACATTTTTACATCAAAATTGGAAA
1 TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
32865224 GCATA
66 GCATA
32865229 TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
1 TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
32865294 GCATA
66 GCATA
32865299 TATACAACAATTTAGGCAGCATA
1 TATACAACAATTTAGGCAGCATA
32865322 AATACAACGA
Statistics
Matches: 342, Mismatches: 28, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
70 252 0.74
71 29 0.08
72 55 0.16
73 6 0.02
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (70 bp):
TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
GCATA
Found at i:32866080 original size:24 final size:24
Alignment explanation
Indices: 32866053--32866133 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 24
32866043 TCAAAAATAT
*
32866053 TTAATAAGTTCGCACACTTAGTGC
1 TTAATAAATTCGCACACTTAGTGC
32866077 TTAATAATCAATCTCGCACACTTAGTGC
1 TTAAT-A--AAT-TCGCACACTTAGTGC
*
32866105 TTTACAATTAAACTCGCACACTTAGTGC
1 -TT--AA-TAAATTCGCACACTTAGTGC
32866133 T
1 T
32866134 AATCTCATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
24 5 0.11
25 1 0.02
27 3 0.06
28 30 0.64
29 4 0.09
31 3 0.06
32 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (24 bp):
TTAATAAATTCGCACACTTAGTGC
Found at i:32866094 original size:28 final size:28
Alignment explanation
Indices: 32866062--32866133 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
32866052 TTTAATAAGT
* *
32866062 TCGCACACTTAGTGCTTAATAATCAATC
1 TCGCACACTTAGTGCTTAACAATCAAAC
* *
32866090 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTAACAATCAAAC
32866118 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
32866134 AATCTCATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTAACAATCAAAC
Found at i:32868628 original size:18 final size:19
Alignment explanation
Indices: 32868584--32868629 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
32868574 AAAAAAAGCT
*
32868584 ATAACATATTTTTTTATGA
1 ATAATATATTTTTTTATGA
32868603 ATAAATATATTATTTTTAT-A
1 AT-AATATATT-TTTTTATGA
32868623 AT-ATATA
1 ATAATATA
32868630 GTACAGACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 2 0.08
20 10 0.42
21 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
ATAATATATTTTTTTATGA
Found at i:32870425 original size:16 final size:17
Alignment explanation
Indices: 32870404--32870437 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32870394 AATTTTCATG
*
32870404 TATTTTTT-TAAATATT
1 TATTTTTTAAAAATATT
32870420 TATTTTTTAAAAATATT
1 TATTTTTTAAAAATATT
32870437 T
1 T
32870438 TATTATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTTTAAAAATATT
Found at i:32871678 original size:25 final size:22
Alignment explanation
Indices: 32871650--32871704 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 22
32871640 AAATTATAAA
*
32871650 ATTAAAATAGTACAGCATAATGTCG
1 ATTAAAATAG-A-AG-AAAATGTCG
*
32871675 ATTAAATTAGAAGAAAATGTCG
1 ATTAAAATAGAAGAAAATGTCG
32871697 ATTTAAAA
1 A-TTAAAA
32871705 AAAATAGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 9 0.35
23 7 0.27
24 1 0.04
25 9 0.35
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (22 bp):
ATTAAAATAGAAGAAAATGTCG
Found at i:32878486 original size:18 final size:18
Alignment explanation
Indices: 32878463--32878497 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32878453 CTCTCGGTGA
32878463 GGTTGTGGAGGATGTTGT
1 GGTTGTGGAGGATGTTGT
* *
32878481 GGTTGTTGAGGCTGTTG
1 GGTTGTGGAGGATGTTG
32878498 CTCTGATTTG
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:0.09, C:0.03, G:0.49, T:0.40
Consensus pattern (18 bp):
GGTTGTGGAGGATGTTGT
Found at i:32881865 original size:50 final size:49
Alignment explanation
Indices: 32881811--32881933 Score: 135
Period size: 49 Copynumber: 2.5 Consensus size: 49
32881801 GAGGTCCCCC
*
32881811 GTAAGGCCATGTCTGGGACATGGCATGGGCA-T-CGATATAAGAAC-TCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCAGTAC-A-A-AA-AACATCCCAT
* * * *
32881861 GTAAGACCATATCTGGGATATGGCATTGGTAGTACAAAAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCAGTACAAAAAACATCCCAT
*
32881910 GTAAGACTATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
32881934 TTTGGCATGT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
48 3 0.05
49 29 0.47
50 27 0.44
51 2 0.03
52 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCAGTACAAAAAACATCCCAT
Found at i:32885378 original size:18 final size:19
Alignment explanation
Indices: 32885341--32885378 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
32885331 AATTTGATTA
*
32885341 ATTATTGATTTCATCCATG
1 ATTATTGATTTCATACATG
*
32885360 ATTATTGA-TTCATATATG
1 ATTATTGATTTCATACATG
32885378 A
1 A
32885379 ATTTACATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (19 bp):
ATTATTGATTTCATACATG
Found at i:32886169 original size:21 final size:23
Alignment explanation
Indices: 32886139--32886181 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
32886129 ATGGATATAT
32886139 GTGGCCTTAATT-TGGTTGAGGG
1 GTGGCCTTAATTGTGGTTGAGGG
32886161 GTGG-CTTAATTGGTGGTTGAG
1 GTGGCCTTAATT-GTGGTTGAG
32886182 TGATGAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.14, C:0.07, G:0.42, T:0.37
Consensus pattern (23 bp):
GTGGCCTTAATTGTGGTTGAGGG
Found at i:32890508 original size:26 final size:25
Alignment explanation
Indices: 32890479--32890531 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 25
32890469 ACAATGATAT
32890479 AAAAATAATATAAATAATAAATAAAC
1 AAAAATAATATAAATAATAAA-AAAC
*
32890505 AAAATTAATATAAATAATAAAAAAC
1 AAAAATAATATAAATAATAAAAAAC
32890530 AA
1 AA
32890532 TGACATGCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (25 bp):
AAAAATAATATAAATAATAAAAAAC
Found at i:32890723 original size:14 final size:15
Alignment explanation
Indices: 32890704--32890742 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
32890694 AAAAATAAAA
32890704 AAATTATAAA-TTAT
1 AAATTATAAATTTAT
32890718 AAATTATAAAATTTAT
1 AAATTAT-AAATTTAT
32890734 AAATATATA
1 AAAT-TATA
32890743 TATAATGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 3 0.14
16 9 0.41
17 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTATAAATTTAT
Found at i:32890737 original size:8 final size:7
Alignment explanation
Indices: 32890704--32890742 Score: 51
Period size: 7 Copynumber: 5.1 Consensus size: 7
32890694 AAAAATAAAA
32890704 AAATTAT
1 AAATTAT
32890711 AAATTAT
1 AAATTAT
32890718 AAATTAT
1 AAATTAT
32890725 AAAATTTAT
1 -AAA-TTAT
32890734 AAATATAT
1 AAAT-TAT
32890742 A
1 A
32890743 TATAATGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 15 0.52
8 10 0.34
9 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATTAT
Found at i:32890798 original size:18 final size:18
Alignment explanation
Indices: 32890777--32890821 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
32890767 AAAAATATGT
*
32890777 ATATATAGAAATTATAAA
1 ATATATAGAAAATATAAA
*
32890795 ATATGTATAGAAAATATAAT
1 ATA--TATAGAAAATATAAA
32890815 ATATATA
1 ATATATA
32890822 CGTATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (18 bp):
ATATATAGAAAATATAAA
Found at i:32890805 original size:20 final size:20
Alignment explanation
Indices: 32890780--32890818 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32890770 AATATGTATA
*
32890780 TATAGAAATTATAAAATATG
1 TATAGAAAATATAAAATATG
*
32890800 TATAGAAAATATAATATAT
1 TATAGAAAATATAAAATAT
32890819 ATACGTATAT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (20 bp):
TATAGAAAATATAAAATATG
Done.