Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 92 of 161
Found at i:29220678 original size:265 final size:265
Alignment explanation
Indices: 29220205--29220735 Score: 1053
Period size: 265 Copynumber: 2.0 Consensus size: 265
29220195 TGTATAAGTG
29220205 CATGTGCAAGTGAAATGGGTAAGATTATGCATGTGTAAGTGATTGAAATTGCTAAGAAATGTTTG
1 CATGTGCAAGTGAAATGGGTAAGATTATGCATGTGTAAGTGATTGAAATTGCTAAGAAATGTTTG
29220270 ATTAGTTATATGAGAGAAATGTCAATTATTAAATGAGTACTTATTGTTTACATGTAACTTACTAA
66 ATTAGTTATATGAGAGAAATGTCAATTATTAAATGAGTACTTATTGTTTACATGTAACTTACTAA
29220335 GCTATTTGTAGCTTACACATTTTCTCCTTTCCTTTGTTTTATAGTGATTTAAGCTTGTTCGAGTT
131 GCTATTTGTAGCTTACACATTTTCTCCTTTCCTTTGTTTTATAGTGATTTAAGCTTGTTCGAGTT
29220400 GGGGATCGTCGGAGCTCGTATCACACTATCATAACCATCTCGGTATTATGTGTTTTCAAAATGTT
196 GGGGATCGTCGGAGCTCGTATCACACTATCATAACCATCTCGGTATTATGTGTTTTCAAAATGTT
29220465 TAAAA
261 TAAAA
*
29220470 CATGTGCAAGTGAAATGGGTAAGGTTATGCATGTGTAAGTGATTGAAATTGCTAAGAAATGTTTG
1 CATGTGCAAGTGAAATGGGTAAGATTATGCATGTGTAAGTGATTGAAATTGCTAAGAAATGTTTG
29220535 ATTAGTTATATGAGAGAAATGTCAATTATTAAATGAGTACTTATTGTTTACATGTAACTTACTAA
66 ATTAGTTATATGAGAGAAATGTCAATTATTAAATGAGTACTTATTGTTTACATGTAACTTACTAA
29220600 GCTATTTGTAGCTTACACATTTTCTCCTTTCCTTTGTTTTATAGTGATTTAAGCTTGTTCGAGTT
131 GCTATTTGTAGCTTACACATTTTCTCCTTTCCTTTGTTTTATAGTGATTTAAGCTTGTTCGAGTT
29220665 GGGGATCGTCGGAGCTCGTATCACACTATCATAACCATCTCGGTATTATGTGTTTTCAAAATGTT
196 GGGGATCGTCGGAGCTCGTATCACACTATCATAACCATCTCGGTATTATGTGTTTTCAAAATGTT
29220730 TAAAA
261 TAAAA
29220735 C
1 C
29220736 TATGGCATGT
Statistics
Matches: 265, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
265 265 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (265 bp):
CATGTGCAAGTGAAATGGGTAAGATTATGCATGTGTAAGTGATTGAAATTGCTAAGAAATGTTTG
ATTAGTTATATGAGAGAAATGTCAATTATTAAATGAGTACTTATTGTTTACATGTAACTTACTAA
GCTATTTGTAGCTTACACATTTTCTCCTTTCCTTTGTTTTATAGTGATTTAAGCTTGTTCGAGTT
GGGGATCGTCGGAGCTCGTATCACACTATCATAACCATCTCGGTATTATGTGTTTTCAAAATGTT
TAAAA
Found at i:29223961 original size:20 final size:19
Alignment explanation
Indices: 29223907--29223967 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
29223897 GATATCCCTA
*
29223907 TTTGCACTGCAGTGCCTCTG
1 TTTGCACTTC-GTGCCTCTG
*
29223927 CTTGCA-TAATCGTGCCTCTG
1 TTTGCACT--TCGTGCCTCTG
29223947 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTC-GTGCCTCTG
29223967 T
1 T
29223968 AATTATCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
19 3 0.09
20 29 0.85
21 2 0.06
ACGTcount: A:0.10, C:0.30, G:0.23, T:0.38
Consensus pattern (19 bp):
TTTGCACTTCGTGCCTCTG
Found at i:29225024 original size:28 final size:28
Alignment explanation
Indices: 29224992--29225046 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
29224982 ACAATGTCAA
*
29224992 CAATTACAAAACCATATATACATGCCAT
1 CAATTACAAAACCACATATACATGCCAT
*
29225020 CAATTATAAAACCACATATACATGCCA
1 CAATTACAAAACCACATATACATGCCA
29225047 ACATAACAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.24
Consensus pattern (28 bp):
CAATTACAAAACCACATATACATGCCAT
Found at i:29230942 original size:17 final size:17
Alignment explanation
Indices: 29230922--29230973 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
29230912 CATAAGTACA
29230922 AATAATATAAAATTTAT
1 AATAATATAAAATTTAT
**
29230939 AAT-ATATAACTTTTAT
1 AATAATATAAAATTTAT
*
29230955 AAATAA-ATAAAAATTAT
1 -AATAATATAAAATTTAT
29230972 AA
1 AA
29230974 ATTGTCTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
16 13 0.46
17 14 0.50
18 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAATATAAAATTTAT
Found at i:29231637 original size:3 final size:3
Alignment explanation
Indices: 29231631--29231657 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
29231621 GTAACGTTGA
29231631 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
29231658 TCAACCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:29231828 original size:12 final size:12
Alignment explanation
Indices: 29231809--29231839 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
29231799 TTGTTGATAC
29231809 ACAAAAATAAAA
1 ACAAAAATAAAA
*
29231821 ATAAAAATAAAA
1 ACAAAAATAAAA
29231833 ACAAAAA
1 ACAAAAA
29231840 CGTAGAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (12 bp):
ACAAAAATAAAA
Found at i:29235200 original size:17 final size:16
Alignment explanation
Indices: 29235180--29235224 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
29235170 ATAAAATCTA
29235180 ATAAACTTTAAAAATTT
1 ATAAA-TTTAAAAATTT
*
29235197 ATAAATTTATAAATTT
1 ATAAATTTAAAAATTT
*
29235213 ATAAAATTAAAA
1 ATAAATTTAAAA
29235225 TAAAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAATTTAAAAATTT
Found at i:29235202 original size:8 final size:8
Alignment explanation
Indices: 29235180--29235217 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
29235170 ATAAAATCTA
29235180 ATAAACTTT
1 ATAAA-TTT
*
29235189 AAAAATTT
1 ATAAATTT
29235197 ATAAATTT
1 ATAAATTT
29235205 ATAAATTT
1 ATAAATTT
29235213 ATAAA
1 ATAAA
29235218 ATTAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 23 0.85
9 4 0.15
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAAATTT
Found at i:29240701 original size:18 final size:18
Alignment explanation
Indices: 29240678--29240721 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
29240668 TCCTGAATAT
29240678 CTATCCAACTCAAATTTA
1 CTATCCAACTCAAATTTA
*
29240696 CTATCCAACTCAGATTTA
1 CTATCCAACTCAAATTTA
*
29240714 CTTTCCAA
1 CTATCCAA
29240722 GCCAACATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (18 bp):
CTATCCAACTCAAATTTA
Found at i:29242210 original size:22 final size:22
Alignment explanation
Indices: 29242185--29242230 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
29242175 AAATTTTAAA
29242185 ATTTCAATATAATCAT-GCATAT
1 ATTTCAATATAAT-ATAGCATAT
*
29242207 ATTTCAATCTAATATAGCATAT
1 ATTTCAATATAATATAGCATAT
29242229 AT
1 AT
29242231 CGAAACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.41
Consensus pattern (22 bp):
ATTTCAATATAATATAGCATAT
Found at i:29251509 original size:24 final size:22
Alignment explanation
Indices: 29251476--29251523 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
29251466 TTATCAAATA
29251476 TAAAAGTAAAATAAATTATATATT
1 TAAAAGTAAAAT-AATTATA-ATT
*
29251500 TAAAATTAAAATAATTATAATT
1 TAAAAGTAAAATAATTATAATT
29251522 TA
1 TA
29251524 TTTGAATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 7 0.30
24 11 0.48
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAAAGTAAAATAATTATAATT
Found at i:29251737 original size:43 final size:43
Alignment explanation
Indices: 29251682--29251990 Score: 430
Period size: 43 Copynumber: 7.3 Consensus size: 43
29251672 TTTTTGAAAT
** *
29251682 AAACGCCGCTATAGATTA-GTACCTTTAGCGGCGCTATTCCCAC
1 AAACGCCGCTATAGACCATG-ACCTTTAGCGGCGCTTTTCCCAC
**
29251725 AAACGATGCTAT--A-CATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
29251765 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
29251808 AAACGCCGCTAAAGACCATGACCTTTAGCAGCACTTTTCCCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
29251851 AAACGCCACTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
29251894 AAACGCCACTAAAGACCA-GTACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCATG-ACCTTTAGCGGCGCTTTTCCCAC
* * *
29251937 AAACGCCGCTATAGACCATGACCTTTAACGGCGCTTTTCACAA
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
29251980 AAACGCCGCTA
1 AAACGCCGCTA
29251991 AAAACTTATC
Statistics
Matches: 241, Mismatches: 19, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
40 32 0.13
41 2 0.01
42 2 0.01
43 204 0.85
44 1 0.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:29252315 original size:43 final size:44
Alignment explanation
Indices: 29252267--29252364 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 44
29252257 ACATATGCAA
* * *
29252267 GGTAATAAA-ATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAGATATACAATACATTTACTTAATCAAGGAAATCTT
*
29252310 GGTAATAAAAGATATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAAT-AAAGATATACAATACATTTACTTAATCAAGGAAATCTT
29252355 GGTAATAAAG
1 GGTAATAAAG
29252365 TATCCTGAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 6 0.12
44 7 0.14
45 36 0.73
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (44 bp):
GGTAATAAAGATATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:29254841 original size:615 final size:615
Alignment explanation
Indices: 29253671--29254900 Score: 2424
Period size: 615 Copynumber: 2.0 Consensus size: 615
29253661 CTGTAACTTT
*
29253671 GGAGACCAGTTAACCATGTAAGACCCTAAAAGAAGATATCATATCAGTTAAACTAGATTAGTTAC
1 GGAGACCAATTAACCATGTAAGACCCTAAAAGAAGATATCATATCAGTTAAACTAGATTAGTTAC
29253736 TGAGACTAATATGGTGCAATTAACAATAAAATCAAATCAGAAAAATCTGCGCTGAGTTGTATAGT
66 TGAGACTAATATGGTGCAATTAACAATAAAATCAAATCAGAAAAATCTGCGCTGAGTTGTATAGT
29253801 TGAATATTTGATAAATTAACAAACAAACAAAAAAAAAGTAGTTCCCACATCCTACCACCAAACAC
131 TGAATATTTGATAAATTAACAAACAAACAAAAAAAAAGTAGTTCCCACATCCTACCACCAAACAC
29253866 CAAAGAATATATTCAAGTCACCATGAAAAATAACTGTACTTGAAGTCCAAAAGAAAGCTTTTAAG
196 CAAAGAATATATTCAAGTCACCATGAAAAATAACTGTACTTGAAGTCCAAAAGAAAGCTTTTAAG
29253931 TTTAAAACCTCCTTCCCTTCAGTCTTTTGCTCAGCTATTTTCAGACCAGACATTCTATATGCACA
261 TTTAAAACCTCCTTCCCTTCAGTCTTTTGCTCAGCTATTTTCAGACCAGACATTCTATATGCACA
29253996 TGTACAATAATAAGTACAAAAAAGTCTATTTACATCAGTTCCATGTTACCAAGTTTGGACCAGTC
326 TGTACAATAATAAGTACAAAAAAGTCTATTTACATCAGTTCCATGTTACCAAGTTTGGACCAGTC
29254061 AGTGACTAACTCAGACTAGATGTCAAATTGAACCATCAGTATTTCTAAATCAATACACTCTAAGG
391 AGTGACTAACTCAGACTAGATGTCAAATTGAACCATCAGTATTTCTAAATCAATACACTCTAAGG
29254126 GGGAAAAGATATATAAAATTCCTTTTAAATGTTAATACTAGTCTTTCTTTGTTGTTTTTCATTTG
456 GGGAAAAGATATATAAAATTCCTTTTAAATGTTAATACTAGTCTTTCTTTGTTGTTTTTCATTTG
29254191 ATATCATAATTTCTTCTAGATTTTTAGTGCACAGAAAGAGAATATTGACATTCTTTTCTTTTCCC
521 ATATCATAATTTCTTCTAGATTTTTAGTGCACAGAAAGAGAATATTGACATTCTTTTCTTTTCCC
29254256 TATGATAGGCAGCTGAAGCAAAGGAGGAAG
586 TATGATAGGCAGCTGAAGCAAAGGAGGAAG
29254286 GGAGACCAATTAACCATGTAAGACCCTAAAAGAAGATATCATATCAGTTAAACTAGATTAGTTAC
1 GGAGACCAATTAACCATGTAAGACCCTAAAAGAAGATATCATATCAGTTAAACTAGATTAGTTAC
29254351 TGAGACTAATATGGTGCAATTAACAATAAAATCAAATCAGAAAAATCTGCGCTGAGTTGTATAGT
66 TGAGACTAATATGGTGCAATTAACAATAAAATCAAATCAGAAAAATCTGCGCTGAGTTGTATAGT
29254416 TGAATATTTGATAAATTAACAAACAAACAAAAAAAAAGTAGTTCCCACATCCTACCACCAAACAC
131 TGAATATTTGATAAATTAACAAACAAACAAAAAAAAAGTAGTTCCCACATCCTACCACCAAACAC
29254481 CAAAGAATATATTCAAGTCACCATGAAAAATAACTGTACTTGAAGTCCAAAAGAAAGCTTTTAAG
196 CAAAGAATATATTCAAGTCACCATGAAAAATAACTGTACTTGAAGTCCAAAAGAAAGCTTTTAAG
29254546 TTTAAAACCTCCTTCCCTTCAGTCTTTTGCTCAGCTATTTTCAGACCAGACATTCTATATGCACA
261 TTTAAAACCTCCTTCCCTTCAGTCTTTTGCTCAGCTATTTTCAGACCAGACATTCTATATGCACA
*
29254611 TGTACAATAATAAGTACAGAAAAGTCTATTTACATCAGTTCCATGTTACCAAGTTTGGACCAGTC
326 TGTACAATAATAAGTACAAAAAAGTCTATTTACATCAGTTCCATGTTACCAAGTTTGGACCAGTC
29254676 AGTGACTAACTCAGACTAGATGTCAAATTGAACCATCAGTATTTCTAAATCAATACACTCTAAGG
391 AGTGACTAACTCAGACTAGATGTCAAATTGAACCATCAGTATTTCTAAATCAATACACTCTAAGG
29254741 GGGAAAAGATATATAAAATTCCTTTTAAATGTTAATACTAGTCTTTCTTTGTTGTTTTTCATTTG
456 GGGAAAAGATATATAAAATTCCTTTTAAATGTTAATACTAGTCTTTCTTTGTTGTTTTTCATTTG
* *
29254806 ATATCATAATTTCTTCTTGATTTTTAGTGCACAGAAAGATAATATTGACATTCTTTTCTTTTCCC
521 ATATCATAATTTCTTCTAGATTTTTAGTGCACAGAAAGAGAATATTGACATTCTTTTCTTTTCCC
29254871 TATGATAGGCAGCTGAAGCAAAGGAGGAAG
586 TATGATAGGCAGCTGAAGCAAAGGAGGAAG
29254901 ATAGAATATT
Statistics
Matches: 611, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
615 611 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (615 bp):
GGAGACCAATTAACCATGTAAGACCCTAAAAGAAGATATCATATCAGTTAAACTAGATTAGTTAC
TGAGACTAATATGGTGCAATTAACAATAAAATCAAATCAGAAAAATCTGCGCTGAGTTGTATAGT
TGAATATTTGATAAATTAACAAACAAACAAAAAAAAAGTAGTTCCCACATCCTACCACCAAACAC
CAAAGAATATATTCAAGTCACCATGAAAAATAACTGTACTTGAAGTCCAAAAGAAAGCTTTTAAG
TTTAAAACCTCCTTCCCTTCAGTCTTTTGCTCAGCTATTTTCAGACCAGACATTCTATATGCACA
TGTACAATAATAAGTACAAAAAAGTCTATTTACATCAGTTCCATGTTACCAAGTTTGGACCAGTC
AGTGACTAACTCAGACTAGATGTCAAATTGAACCATCAGTATTTCTAAATCAATACACTCTAAGG
GGGAAAAGATATATAAAATTCCTTTTAAATGTTAATACTAGTCTTTCTTTGTTGTTTTTCATTTG
ATATCATAATTTCTTCTAGATTTTTAGTGCACAGAAAGAGAATATTGACATTCTTTTCTTTTCCC
TATGATAGGCAGCTGAAGCAAAGGAGGAAG
Found at i:29256104 original size:841 final size:841
Alignment explanation
Indices: 29254483--29256164 Score: 3346
Period size: 841 Copynumber: 2.0 Consensus size: 841
29254473 CCAAACACCA
29254483 AAGAATATATTCAAGTCACCATGAAAAATAACTGTACTTGAAGTCCAAAAGAAAGCTTTTAAGTT
1 AAGAATATATTCAAGTCACCATGAAAAATAACTGTACTTGAAGTCCAAAAGAAAGCTTTTAAGTT
29254548 TAAAACCTCCTTCCCTTCAGTCTTTTGCTCAGCTATTTTCAGACCAGACATTCTATATGCACATG
66 TAAAACCTCCTTCCCTTCAGTCTTTTGCTCAGCTATTTTCAGACCAGACATTCTATATGCACATG
29254613 TACAATAATAAGTACAGAAAAGTCTATTTACATCAGTTCCATGTTACCAAGTTTGGACCAGTCAG
131 TACAATAATAAGTACAGAAAAGTCTATTTACATCAGTTCCATGTTACCAAGTTTGGACCAGTCAG
29254678 TGACTAACTCAGACTAGATGTCAAATTGAACCATCAGTATTTCTAAATCAATACACTCTAAGGGG
196 TGACTAACTCAGACTAGATGTCAAATTGAACCATCAGTATTTCTAAATCAATACACTCTAAGGGG
29254743 GAAAAGATATATAAAATTCCTTTTAAATGTTAATACTAGTCTTTCTTTGTTGTTTTTCATTTGAT
261 GAAAAGATATATAAAATTCCTTTTAAATGTTAATACTAGTCTTTCTTTGTTGTTTTTCATTTGAT
*
29254808 ATCATAATTTCTTCTTGATTTTTAGTGCACAGAAAGATAATATTGACATTCTTTTCTTTTCCCTA
326 ATCATAATTTCTTCTTGATTTTTAGTGCACAGAAAGAGAATATTGACATTCTTTTCTTTTCCCTA
29254873 TGATAGGCAGCTGAAGCAAAGGAGGAAGATAGAATATTATGATCAAATGAGAAAGTAAACATGCT
391 TGATAGGCAGCTGAAGCAAAGGAGGAAGATAGAATATTATGATCAAATGAGAAAGTAAACATGCT
29254938 AAATATCAGTTAGCAAAGTGAAACATGATAGTAAGCAATGGAATTTTGGCATATACCTTGATAAA
456 AAATATCAGTTAGCAAAGTGAAACATGATAGTAAGCAATGGAATTTTGGCATATACCTTGATAAA
29255003 TTAATCCTTTTTCGTGAAGTCTAATAAATGCCTCTATAACAGCTCCTGCAATAGGAATGCAAGGT
521 TTAATCCTTTTTCGTGAAGTCTAATAAATGCCTCTATAACAGCTCCTGCAATAGGAATGCAAGGT
29255068 TCAGAACACAAACTTACCCTACTGTTATTTGAAAAAATGTAAGCGCGAATTGTTAACCTGTCAAA
586 TCAGAACACAAACTTACCCTACTGTTATTTGAAAAAATGTAAGCGCGAATTGTTAACCTGTCAAA
29255133 ATGCGAATTGAGGGAGTGAAGAGCTTATTGTTAGGCAAAAATTAAAGGAAGAATGAAAAGTATTC
651 ATGCGAATTGAGGGAGTGAAGAGCTTATTGTTAGGCAAAAATTAAAGGAAGAATGAAAAGTATTC
29255198 ACTTGAAACTCAAATGATTGGAGGAGAGCTCTTGAGAACGACTGAAAATTGGAAAAGATATTCAA
716 ACTTGAAACTCAAATGATTGGAGGAGAGCTCTTGAGAACGACTGAAAATTGGAAAAGATATTCAA
29255263 ATAAATGACATCTTTGAATAGCAGAAGAAATTAACTGACAATACAAAAAATGAAAGGAAAT
781 ATAAATGACATCTTTGAATAGCAGAAGAAATTAACTGACAATACAAAAAATGAAAGGAAAT
*
29255324 AAGAATATATTCAAGTCACCATGAAAAATAATTGTACTTGAAGTCCAAAAGAAAGCTTTTAAGTT
1 AAGAATATATTCAAGTCACCATGAAAAATAACTGTACTTGAAGTCCAAAAGAAAGCTTTTAAGTT
29255389 TAAAACCTCCTTCCCTTCAGTCTTTTGCTCAGCTATTTTCAGACCAGACATTCTATATGCACATG
66 TAAAACCTCCTTCCCTTCAGTCTTTTGCTCAGCTATTTTCAGACCAGACATTCTATATGCACATG
29255454 TACAATAATAAGTACAGAAAAGTCTATTTACATCAGTTCCATGTTACCAAGTTTGGACCAGTCAG
131 TACAATAATAAGTACAGAAAAGTCTATTTACATCAGTTCCATGTTACCAAGTTTGGACCAGTCAG
29255519 TGACTAACTCAGACTAGATGTCAAATTGAACCATCAGTATTTCTAAATCAATACACTCTAAGGGG
196 TGACTAACTCAGACTAGATGTCAAATTGAACCATCAGTATTTCTAAATCAATACACTCTAAGGGG
29255584 GAAAAGATATATAAAATTCCTTTTAAATGTTAATACTAGTCTTTCTTTGTTGTTTTTCATTTGAT
261 GAAAAGATATATAAAATTCCTTTTAAATGTTAATACTAGTCTTTCTTTGTTGTTTTTCATTTGAT
29255649 ATCATAATTTCTTCTTGATTTTTAGTGCACAGAAAGAGAATATTGACATTCTTTTCTTTTCCCTA
326 ATCATAATTTCTTCTTGATTTTTAGTGCACAGAAAGAGAATATTGACATTCTTTTCTTTTCCCTA
29255714 TGATAGGCAGCTGAAGCAAAGGAGGAAGATAGAATATTATGATCAAATGAGAAAGTAAACATGCT
391 TGATAGGCAGCTGAAGCAAAGGAGGAAGATAGAATATTATGATCAAATGAGAAAGTAAACATGCT
29255779 AAATATCAGTTAGCAAAGTGAAACATGATAGTAAGCAATGGAATTTTGGCATATACCTTGATAAA
456 AAATATCAGTTAGCAAAGTGAAACATGATAGTAAGCAATGGAATTTTGGCATATACCTTGATAAA
29255844 TTAATCCTTTTTCGTGAAGTCTAATAAATGCCTCTATAACAGCTCCTGCAATAGGAATGCAAGGT
521 TTAATCCTTTTTCGTGAAGTCTAATAAATGCCTCTATAACAGCTCCTGCAATAGGAATGCAAGGT
29255909 TCAGAACACAAACTTACCCTACTGTTATTTGAAAAAATGTAAGCGCGAATTGTTAACCTGTCAAA
586 TCAGAACACAAACTTACCCTACTGTTATTTGAAAAAATGTAAGCGCGAATTGTTAACCTGTCAAA
29255974 ATGCGAATTGAGGGAGTGAAGAGCTTATTGTTAGGCAAAAATTAAAGGAAGAATGAAAAGTATTC
651 ATGCGAATTGAGGGAGTGAAGAGCTTATTGTTAGGCAAAAATTAAAGGAAGAATGAAAAGTATTC
29256039 ACTTGAAACTCAAATGATTGGAGGAGAGCTCTTGAGAACGACTGAAAATTGGAAAAGATATTCAA
716 ACTTGAAACTCAAATGATTGGAGGAGAGCTCTTGAGAACGACTGAAAATTGGAAAAGATATTCAA
29256104 ATAAATGACATCTTTGAATAGCAGAAGAAATTAACTGACAATACAAAAAATGAAAGGAAAT
781 ATAAATGACATCTTTGAATAGCAGAAGAAATTAACTGACAATACAAAAAATGAAAGGAAAT
29256165 TAAAGAAAAA
Statistics
Matches: 839, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
841 839 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (841 bp):
AAGAATATATTCAAGTCACCATGAAAAATAACTGTACTTGAAGTCCAAAAGAAAGCTTTTAAGTT
TAAAACCTCCTTCCCTTCAGTCTTTTGCTCAGCTATTTTCAGACCAGACATTCTATATGCACATG
TACAATAATAAGTACAGAAAAGTCTATTTACATCAGTTCCATGTTACCAAGTTTGGACCAGTCAG
TGACTAACTCAGACTAGATGTCAAATTGAACCATCAGTATTTCTAAATCAATACACTCTAAGGGG
GAAAAGATATATAAAATTCCTTTTAAATGTTAATACTAGTCTTTCTTTGTTGTTTTTCATTTGAT
ATCATAATTTCTTCTTGATTTTTAGTGCACAGAAAGAGAATATTGACATTCTTTTCTTTTCCCTA
TGATAGGCAGCTGAAGCAAAGGAGGAAGATAGAATATTATGATCAAATGAGAAAGTAAACATGCT
AAATATCAGTTAGCAAAGTGAAACATGATAGTAAGCAATGGAATTTTGGCATATACCTTGATAAA
TTAATCCTTTTTCGTGAAGTCTAATAAATGCCTCTATAACAGCTCCTGCAATAGGAATGCAAGGT
TCAGAACACAAACTTACCCTACTGTTATTTGAAAAAATGTAAGCGCGAATTGTTAACCTGTCAAA
ATGCGAATTGAGGGAGTGAAGAGCTTATTGTTAGGCAAAAATTAAAGGAAGAATGAAAAGTATTC
ACTTGAAACTCAAATGATTGGAGGAGAGCTCTTGAGAACGACTGAAAATTGGAAAAGATATTCAA
ATAAATGACATCTTTGAATAGCAGAAGAAATTAACTGACAATACAAAAAATGAAAGGAAAT
Found at i:29256649 original size:7 final size:7
Alignment explanation
Indices: 29256604--29256654 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
29256594 CAGGTGAAGA
29256604 AGAAAGAG
1 AGAAAG-G
29256612 AGAAAGG
1 AGAAAGG
*
29256619 -GAGAGG
1 AGAAAGG
*
29256625 GGAAAGG
1 AGAAAGG
*
29256632 ATAATAGG
1 AGAA-AGG
29256640 AGAAAGG
1 AGAAAGG
29256647 AGAAAGG
1 AGAAAGG
29256654 A
1 A
29256655 AAGGGAACGG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
6 5 0.14
7 19 0.53
8 12 0.33
ACGTcount: A:0.53, C:0.00, G:0.43, T:0.04
Consensus pattern (7 bp):
AGAAAGG
Found at i:29257652 original size:14 final size:15
Alignment explanation
Indices: 29257630--29257662 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
29257620 CTTAAACTAG
*
29257630 AATCTCTAA-TCCAT
1 AATCCCTAATTCCAT
29257644 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
29257659 AATC
1 AATC
29257663 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:29258111 original size:41 final size:41
Alignment explanation
Indices: 29258058--29258319 Score: 299
Period size: 41 Copynumber: 6.1 Consensus size: 41
29258048 GAGATAAAAT
* * ** *
29258058 CTCTGAGCATTAGCGGCGCTTGTTCAAAAACGCTACTAAAT
1 CTCTGAGCATTAGCGGCGCCTCTTCAAAAACGCCGCTAAAG
29258099 CTCTGAGCATTAGCGGCGCCTCTTCAAAAACGCCGCTAAAGACGCCGCTAAAG
1 CTCTGAGCATTAGCGGCGCCTCTTC----A-------AAA-ACGCCGCTAAAG
* *
29258152 CTCTAAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAG
1 CTCTGAGCATTAGCGGCGCCTCTTCAAAAACGCCGCTAAAG
29258193 CTCTGAGCATTAGCGGCGCCTCTTCAAAAACGCCGCTAAAG
1 CTCTGAGCATTAGCGGCGCCTCTTCAAAAACGCCGCTAAAG
*
29258234 CTCTGAGGCATTAGCGGCGCCTATTCAAAAACGCCGCTAAAG
1 CTCTGA-GCATTAGCGGCGCCTCTTCAAAAACGCCGCTAAAG
* * * *
29258276 CTCTAAGCATTAGCAGCGCTTCTTCAAAAACGCCGCTAATG
1 CTCTGAGCATTAGCGGCGCCTCTTCAAAAACGCCGCTAAAG
29258317 CTC
1 CTC
29258320 ATTTTTAACG
Statistics
Matches: 193, Mismatches: 15, Indels: 26
0.82 0.06 0.11
Matches are distributed among these distances:
41 114 0.59
42 42 0.22
45 1 0.01
49 1 0.01
52 3 0.02
53 32 0.17
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (41 bp):
CTCTGAGCATTAGCGGCGCCTCTTCAAAAACGCCGCTAAAG
Found at i:29258278 original size:83 final size:82
Alignment explanation
Indices: 29258140--29258319 Score: 288
Period size: 83 Copynumber: 2.2 Consensus size: 82
29258130 GCCGCTAAAG
* * *
29258140 ACGCCGCTAAAGCTCTAAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCTCTGAGCATTA
1 ACGCCGCTAAAGCTCTAAGCATTAGCGGCGCCTATTCAAAAACGCCGCTAAAGCTCTAAGCATTA
*
29258205 GCGGCGCCTCTTCAAAA
66 GCAGCGCCTCTTCAAAA
*
29258222 ACGCCGCTAAAGCTCTGAGGCATTAGCGGCGCCTATTCAAAAACGCCGCTAAAGCTCTAAGCATT
1 ACGCCGCTAAAGCTCT-AAGCATTAGCGGCGCCTATTCAAAAACGCCGCTAAAGCTCTAAGCATT
*
29258287 AGCAGCGCTTCTTCAAAA
65 AGCAGCGCCTCTTCAAAA
*
29258305 ACGCCGCTAATGCTC
1 ACGCCGCTAAAGCTC
29258320 ATTTTTAACG
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 16 0.18
83 74 0.82
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (82 bp):
ACGCCGCTAAAGCTCTAAGCATTAGCGGCGCCTATTCAAAAACGCCGCTAAAGCTCTAAGCATTA
GCAGCGCCTCTTCAAAA
Found at i:29263043 original size:20 final size:20
Alignment explanation
Indices: 29263018--29263070 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
29263008 TATTAGATTA
*
29263018 AAAAATTGTAAACA-TTTATT
1 AAAAATTGTAAA-AGTATATT
*
29263038 AAAAATCG-AAAAGTATATT
1 AAAAATTGTAAAAGTATATT
29263057 AAAAATTTGTAAAA
1 AAAAA-TTGTAAAA
29263071 AGAAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.04
19 13 0.48
20 9 0.33
21 4 0.15
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (20 bp):
AAAAATTGTAAAAGTATATT
Found at i:29263509 original size:19 final size:19
Alignment explanation
Indices: 29263487--29263523 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29263477 TAAAAATTAA
*
29263487 ATAATATTTTATTATTTTT
1 ATAATATTTTATAATTTTT
*
29263506 ATAATTTTTTATAATTTT
1 ATAATATTTTATAATTTT
29263524 AAAGTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATAATATTTTATAATTTTT
Found at i:29264216 original size:120 final size:121
Alignment explanation
Indices: 29264075--29264319 Score: 465
Period size: 120 Copynumber: 2.0 Consensus size: 121
29264065 AAAATTTCAC
29264075 AAAAAATTGAAAAAAATATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAA
1 AAAAAATTGAAAAAAATATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAA
*
29264140 GCAAAAATTGTGCATAGTAGATTTCCCAGTAAAGTAAAATAAAGAATAAAAATGAT
66 GCAAAAATTGTGCATAGTAAATTTCCCAGTAAAGTAAAATAAAGAATAAAAATGAT
29264196 AAAAAATTGAAAAAAA-ATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAA
1 AAAAAATTGAAAAAAATATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAA
*
29264260 GCAAAAATTGTGCATAGTAAATTTCCCAGTAAAGTAAAATAAAGAATATAAATGAT
66 GCAAAAATTGTGCATAGTAAATTTCCCAGTAAAGTAAAATAAAGAATAAAAATGAT
29264316 AAAA
1 AAAA
29264320 GAAAAGGTTG
Statistics
Matches: 122, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
120 106 0.87
121 16 0.13
ACGTcount: A:0.55, C:0.10, G:0.11, T:0.24
Consensus pattern (121 bp):
AAAAAATTGAAAAAAATATATAATGTAACACCCCTAAAATCGTAATGCTAAAAAAGTAATATTAA
GCAAAAATTGTGCATAGTAAATTTCCCAGTAAAGTAAAATAAAGAATAAAAATGAT
Found at i:29270643 original size:15 final size:16
Alignment explanation
Indices: 29270623--29270656 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
29270613 TTACATTGGT
29270623 TAATTCAGTT-AATGA
1 TAATTCAGTTCAATGA
*
29270638 TAATTCGGTTCAATGA
1 TAATTCAGTTCAATGA
29270654 TAA
1 TAA
29270657 CCGAATTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (16 bp):
TAATTCAGTTCAATGA
Found at i:29273221 original size:3 final size:3
Alignment explanation
Indices: 29273213--29273241 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
29273203 TTATTGATAC
29273213 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
29273242 ATTCAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:29283265 original size:48 final size:48
Alignment explanation
Indices: 29283209--29283303 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
29283199 TGCAGATCGA
29283209 TGAACTAGATGAATGGCGAATGAAAGTTAATGAGAAACCGAGAAAACT
1 TGAACTAGATGAATGGCGAATGAAAGTTAATGAGAAACCGAGAAAACT
* *
29283257 TGAACTAGATGAATGGCGAATGAAGGTTGATGAGAAACCGAGAAAAC
1 TGAACTAGATGAATGGCGAATGAAAGTTAATGAGAAACCGAGAAAAC
29283304 ACAAGGAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.18
Consensus pattern (48 bp):
TGAACTAGATGAATGGCGAATGAAAGTTAATGAGAAACCGAGAAAACT
Found at i:29283704 original size:13 final size:13
Alignment explanation
Indices: 29283670--29283708 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
29283660 TGTTTTTTTG
*
29283670 TTAATTTGAAAGC
1 TTAATTTGAAAAC
29283683 TTAAGTTTGAAAAC
1 TTAA-TTTGAAAAC
29283697 TTAATTTGAAAA
1 TTAATTTGAAAA
29283709 TTTGGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (13 bp):
TTAATTTGAAAAC
Found at i:29283746 original size:29 final size:27
Alignment explanation
Indices: 29283672--29283746 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
29283662 TTTTTTTGTT
* * * *
29283672 AATTTGAAAGCTTAAGTTTGAAAACTT
1 AATTTGAAAACTTAAATTTAAAAACTA
*
29283699 AATTTGAAAATTTGGAAATTTAAAAACTA
1 AATTTGAAAACTT--AAATTTAAAAACTA
29283728 AATTTTTGAAAACTTAAAT
1 AA--TTTGAAAACTTAAAT
29283747 GTCTTGAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 11 0.29
29 17 0.45
31 10 0.26
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (27 bp):
AATTTGAAAACTTAAATTTAAAAACTA
Found at i:29284008 original size:35 final size:33
Alignment explanation
Indices: 29283969--29284160 Score: 217
Period size: 35 Copynumber: 5.7 Consensus size: 33
29283959 TTGTCTTTTC
*
29283969 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTG
1 TTGCAGGGAATCTTTCCTGTTCAC-CATTATT-TG
* *
29284004 TTGCAGGGAATCTTTCCTGTTCA-CATCATTTC
1 TTGCAGGGAATCTTTCCTGTTCACCATTATTTG
*
29284036 TTGTAGGGAATCTTTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTTTCCTGTTCAC-CATTA-TTTG
* * * *
29284071 TTACAGAGAATCTCTCTTGTTCACACATTATTTTG
1 TTGCAGGGAATCTTTCCTGTTCAC-CATTA-TTTG
* *
29284106 TTGCAGGGAATCTTTCCTGTTCA-CATAATTTC
1 TTGCAGGGAATCTTTCCTGTTCACCATTATTTG
*
29284138 TTGCAGGGAATCTCTCCTGTTCA
1 TTGCAGGGAATCTTTCCTGTTCA
29284161 TGTATTATTT
Statistics
Matches: 136, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
32 48 0.35
33 10 0.07
34 4 0.03
35 74 0.54
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (33 bp):
TTGCAGGGAATCTTTCCTGTTCACCATTATTTG
Found at i:29284170 original size:67 final size:65
Alignment explanation
Indices: 29283964--29284160 Score: 216
Period size: 67 Copynumber: 2.9 Consensus size: 65
29283954 TTCACTTGTC
* * *
29283964 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCA--CATAATT-TGTTGCAGGGAATCTCTCCTGTTCACA
*
29284029 TCA
63 TTA
* * * * *
29284032 -TTTCTTGTAGGGAATCTTTCCTGTTCACACATTATTTTGTTACAGAGAATCTCTCTTGTTCACA
1 TTTTCTTGCAGGGAATCTTTCCTGTT--CACA-TAATTTGTTGCAGGGAATCTCTCCTGTT--CA
29284096 CATTA
61 CATTA
* *
29284101 TTTTGTTGCAGGGAATCTTTCCTGTTCACATAATTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACATAATTTGTTGCAGGGAATCTCTCCTGTTCA
29284161 TGTATTATTT
Statistics
Matches: 107, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
65 2 0.02
67 67 0.63
68 7 0.07
69 8 0.07
70 23 0.21
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.42
Consensus pattern (65 bp):
TTTTCTTGCAGGGAATCTTTCCTGTTCACATAATTTGTTGCAGGGAATCTCTCCTGTTCACATTA
Found at i:29286520 original size:14 final size:14
Alignment explanation
Indices: 29286501--29286562 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
29286491 ACTTCTCCCC
*
29286501 TTCTTTTTTTATTT
1 TTCTTTTATTATTT
*
29286515 TTCTTTTATTATTA
1 TTCTTTTATTATTT
*
29286529 TTATTATTATTTATTAT
1 TTCTT-TTA-TTATT-T
* *
29286546 TACTATTATTATTT
1 TTCTTTTATTATTT
29286560 TTC
1 TTC
29286563 CAAAAGTAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
14 19 0.51
15 8 0.22
16 8 0.22
17 2 0.05
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCTTTTATTATTT
Found at i:29286526 original size:3 final size:3
Alignment explanation
Indices: 29286520--29286558 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
29286510 TATTTTTCTT
*
29286520 TTA TTA TTA TTA TTA TTA TTTA TTA TTA CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
29286559 TTTCCAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:29286543 original size:19 final size:19
Alignment explanation
Indices: 29286519--29286559 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
29286509 TTATTTTTCT
*
29286519 TTTATTATTATTATTATTA
1 TTTATTATTACTATTATTA
29286538 TTTATTATTACTATTATTA
1 TTTATTATTACTATTATTA
29286557 TTT
1 TTT
29286560 TTCCAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATTATTACTATTATTA
Found at i:29286544 original size:16 final size:16
Alignment explanation
Indices: 29286523--29286555 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29286513 TTTTCTTTTA
*
29286523 TTATTATTATTATTAT
1 TTATTATTACTATTAT
29286539 TTATTATTACTATTAT
1 TTATTATTACTATTAT
29286555 T
1 T
29286556 ATTTTTCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTATTACTATTAT
Found at i:29291030 original size:45 final size:46
Alignment explanation
Indices: 29290966--29291223 Score: 257
Period size: 45 Copynumber: 5.7 Consensus size: 46
29290956 GAAGGAAACA
* *
29290966 AATAAGACTATGGCTGAAAGACACTATGGCA-CTATACCG-GAACTG
1 AATAAGACCATGGTTGAAAGACACTATGGCATC-ATACCGAGAACTG
* *
29291011 AATAAGACCATAGTTGAAAGACACTATGGCATCATACCGAAAACATG
1 AATAAGACCATGGTTGAAAGACACTATGGCATCATACCGAGAAC-TG
* * ** *** *
29291058 --TAAGACCATAGCTGAAAGACGTTATGGCATCATGAATAAG-AC-A
1 AATAAGACCATGGTTGAAAGACACTATGGCATCAT-ACCGAGAACTG
*
29291101 AATAAGACCATGGTTGAAAGACACTATGGCATCA-AGGCGAGAA-TG
1 AATAAGACCATGGTTGAAAGACACTATGGCATCATA-CCGAGAACTG
* * *
29291146 TATAAGACCATGGTTGAAAGACACTATGGCATTA-AGACGAGAA-TG
1 AATAAGACCATGGTTGAAAGACACTATGGCATCATA-CCGAGAACTG
29291191 AATAAGACCATGGTTGAAAGACACTATGGCATC
1 AATAAGACCATGGTTGAAAGACACTATGGCATC
29291224 TTTCAGTCAT
Statistics
Matches: 179, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.01
44 2 0.01
45 168 0.94
46 6 0.03
47 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (46 bp):
AATAAGACCATGGTTGAAAGACACTATGGCATCATACCGAGAACTG
Found at i:29291209 original size:135 final size:135
Alignment explanation
Indices: 29290963--29291223 Score: 318
Period size: 135 Copynumber: 1.9 Consensus size: 135
29290953 CTTGAAGGAA
*
29290963 ACAAATAAGACTATGGCTGAAAGACACTATGGCACTATACCGGAACTGAATAAGACCATAGTTGA
1 ACAAATAAGACCATGGCTGAAAGACACTATGGCACTATACCGGAACTGAATAAGACCATAGTTGA
* **
29291028 AAGACACTATGGCATCATACCGAAAACATGTAAGACCATAGCTGAAAGACGTTATGGCATCATGA
66 AAGACACTATGGCATCATAACGAAAACATGTAAGACCATAGCTGAAAGACACTATGGCATCATGA
29291093 ATAAG
131 ATAAG
* * * *
29291098 ACAAATAAGACCATGGTTGAAAGACACTATGGCA-TCA-AGGCGAGAA-TGTATAAGACCATGGT
1 ACAAATAAGACCATGGCTGAAAGACACTATGGCACT-ATA-CCG-GAACTGAATAAGACCATAGT
* * * *
29291160 TGAAAGACACTATGGCATTA-AGACG-AGA-ATGAATAAGACCATGGTTGAAAGACACTATGGCA
63 TGAAAGACACTATGGCATCATA-ACGAAAACATG--TAAGACCATAGCTGAAAGACACTATGGCA
29291222 TC
125 TC
29291224 TTTCAGTCAT
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
133 3 0.03
134 5 0.05
135 97 0.90
136 3 0.03
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (135 bp):
ACAAATAAGACCATGGCTGAAAGACACTATGGCACTATACCGGAACTGAATAAGACCATAGTTGA
AAGACACTATGGCATCATAACGAAAACATGTAAGACCATAGCTGAAAGACACTATGGCATCATGA
ATAAG
Found at i:29301001 original size:10 final size:10
Alignment explanation
Indices: 29300986--29301145 Score: 90
Period size: 10 Copynumber: 16.3 Consensus size: 10
29300976 GAAGGAGAGG
29300986 GAAAGAAGAA
1 GAAAGAAGAA
29300996 GAAAG-A-AA
1 GAAAGAAGAA
*
29301004 GAAAGAAAAA
1 GAAAGAAGAA
29301014 GAAAGAA-AA
1 GAAAGAAGAA
** *
29301023 GGAAAGGGGAG
1 -GAAAGAAGAA
29301034 GAAAGAAAGAAA
1 GAAAG-AAG-AA
29301046 GAAAGAA-AA
1 GAAAGAAGAA
29301055 GGAAAGAA-AA
1 -GAAAGAAGAA
*
29301065 GGAAAGGA-AA
1 -GAAAGAAGAA
*
29301075 G-GAGAAGAA
1 GAAAGAAGAA
29301084 -AAA-AAGAAA
1 GAAAGAAG-AA
29301093 GAAA-AAGAA
1 GAAAGAAGAA
29301102 GGAAAGAA-AA
1 -GAAAGAAGAA
*
29301112 GGAAAGGAGAA
1 -GAAAGAAGAA
* *
29301123 GAAAAAAAAA
1 GAAAGAAGAA
29301133 GAAAGAAGAA
1 GAAAGAAGAA
29301143 GAA
1 GAA
29301146 GATGAGGGAA
Statistics
Matches: 120, Mismatches: 16, Indels: 28
0.73 0.10 0.17
Matches are distributed among these distances:
8 13 0.11
9 14 0.12
10 79 0.66
11 8 0.07
12 6 0.05
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:29301053 original size:42 final size:42
Alignment explanation
Indices: 29300994--29301178 Score: 195
Period size: 42 Copynumber: 4.5 Consensus size: 42
29300984 GGGAAAGAAG
*
29300994 AAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAGGA
* *
29301036 AAGAAAGAAAGAAAGAAAAGGAAAGAAAAGGAAAGGAAAGGA
1 AAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAGGA
* *
29301078 GAAGAAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGA
1 -AAGAAAGAAAGAAAG--AAA-AA-GAAAGAAAAGGAAAGGAGAGGA
* ** *
29301125 AA-AAA-AAAGAAAGAAGAAG-AAGATGAGGGAAGGA-AGG-
1 AAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAGGA
29301162 AA-AAAGAAAGAAA-AAAA
1 AAGAAAGAAAGAAAGAAAA
29301179 GGTAATTTTT
Statistics
Matches: 124, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
37 8 0.06
38 9 0.07
39 12 0.10
40 1 0.01
41 2 0.02
42 41 0.33
43 14 0.11
44 8 0.06
45 6 0.05
46 3 0.02
47 20 0.16
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (42 bp):
AAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAGGA
Found at i:29301090 original size:47 final size:45
Alignment explanation
Indices: 29300989--29301139 Score: 197
Period size: 42 Copynumber: 3.4 Consensus size: 45
29300979 GGAGAGGGAA
* *
29300989 AGAAG-AAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGG-GG
1 AGAAGAAAAAAAGAAAGAAAGAAAAGGAAAGAAAAGGAAAGGAGG
*
29301032 AG--GAAAGAAAGAAAGAAAGAAAAGGAAAGAAAAGGAAAGGAAAGG
1 AGAAGAAAAAAAGAAAGAAAGAAAAGGAAAGAAAAGGAAAGG--AGG
*
29301077 AGAAGAAAAAAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGA
1 AGAAGAAAAAAAGAAAGAAAGAA-AAGGAAAGAAAAGGAAAGGAGG
29301122 AGAA-AAAAAAAGAAAGAA
1 AGAAGAAAAAAAGAAAGAA
29301140 GAAGAAGATG
Statistics
Matches: 98, Mismatches: 3, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
41 1 0.01
42 35 0.36
43 2 0.02
44 14 0.14
45 10 0.10
46 2 0.02
47 34 0.35
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (45 bp):
AGAAGAAAAAAAGAAAGAAAGAAAAGGAAAGAAAAGGAAAGGAGG
Found at i:29301142 original size:47 final size:47
Alignment explanation
Indices: 29300977--29301139 Score: 171
Period size: 47 Copynumber: 3.5 Consensus size: 47
29300967 GGGGGAAGAG
* *
29300977 AAGGAG-AGGGAAAGAAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGA
1 AAGGAGAAGAGAAA-AA-AAGAAAGAAAGAAA-AAAAGGAAAGAAAAGGA
* *
29301026 AAGG-GGAG-GAAAGAAAGAAAGAAAG---AAAAGGAAAGAAAAGGA
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAAAAAAGGAAAGAAAAGGA
*
29301068 AAGGA-AAGGAGAAGAAAA-AAAGAAAGAAAAAGAAGGAAAGAAAAGGA
1 AAGGAGAA-GAGAAAAAAAGAAAGAAAGAAAAA-AAGGAAAGAAAAGGA
*
29301115 AAGGAGAAGAAAAAAAAAGAAAGAA
1 AAGGAGAAGAGAAAAAAAGAAAGAA
29301140 GAAGAAGATG
Statistics
Matches: 97, Mismatches: 7, Indels: 21
0.78 0.06 0.17
Matches are distributed among these distances:
42 21 0.22
43 9 0.09
44 6 0.06
46 13 0.13
47 29 0.30
48 13 0.13
49 6 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (47 bp):
AAGGAGAAGAGAAAAAAAGAAAGAAAGAAAAAAAGGAAAGAAAAGGA
Found at i:29301639 original size:157 final size:153
Alignment explanation
Indices: 29301503--29301957 Score: 440
Period size: 157 Copynumber: 2.9 Consensus size: 153
29301493 AAAAAAATGG
*
29301503 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAA
* *
29301568 TAAAATTATAATTATGATATTTTTTAAAGTAATAAAATGCGGAAAAAAAAATACGAACAAATGGC
66 TAAAATTAAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAA-GGC
* * * *
29301633 TGAAGTAAGAGTGTTTTACTAAA-
130 TGAAGTAATAATATTTAACTAAAT
** * * * * *
29301656 T-TATTTAGAAATTCAGA-AATAATTAATATAAATATTTCAAACAAAATATACTGAAATAATATA
1 TATATTTA-AAAAACACACTA-AATT-A-AT-AA-ATTTCAAACATAATGTACTGAAATAATGTA
* * ** *
29301719 AAATAATAAAATAAGAAAATAAT-ATATTTTTATTGAAAGTAATAAAAT-TTGAGAAAATAATAC
60 AAATAATAAAAT--TAAAATTATGATA-TTTT-TT-AAAGTAATAAAATGCGGAGAAAAAAATAC
* * * *
29301782 GAGCAAA-G-TGCAGGAATAAGGGGTTTTTTACACTAAAT
120 GAACAAAGGCTGAAGTAATAA-----TATTTA-ACTAAAT
* *
29301820 TA-ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTA
1 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAA
29301884 TAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGG
66 TAAAATTA-AAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAA-GG
*
29301949 CCGAAGTAA
129 CTGAAGTAA
29301958 GCGTCTTTTA
Statistics
Matches: 236, Mismatches: 40, Indels: 45
0.74 0.12 0.14
Matches are distributed among these distances:
152 7 0.03
153 11 0.05
154 1 0.00
155 2 0.01
156 15 0.06
157 66 0.28
158 14 0.06
159 51 0.22
160 26 0.11
161 15 0.06
162 5 0.02
163 16 0.07
164 7 0.03
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (153 bp):
TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAA
TAAAATTAAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGCT
GAAGTAATAATATTTAACTAAAT
Found at i:29302000 original size:21 final size:21
Alignment explanation
Indices: 29301974--29302016 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
29301964 TTTACTAAAT
*
29301974 TTTTTAAAAATTCAGAAATAA
1 TTTTTAAAAATTCAAAAATAA
29301995 TTTTTAAAAATTCAAAAATAA
1 TTTTTAAAAATTCAAAAATAA
29302016 T
1 T
29302017 ATATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (21 bp):
TTTTTAAAAATTCAAAAATAA
Found at i:29302127 original size:13 final size:13
Alignment explanation
Indices: 29302111--29302157 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
29302101 AAAGCTAATG
29302111 TAAAATAATATAC
1 TAAAATAATATAC
* *
29302124 TAAAATGATGTAC
1 TAAAATAATATAC
29302137 TAAAATAATA-A-
1 TAAAATAATATAC
29302148 TAAAATAATA
1 TAAAATAATA
29302158 AAATACGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 10 0.33
12 1 0.03
13 19 0.63
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (13 bp):
TAAAATAATATAC
Found at i:29307434 original size:39 final size:40
Alignment explanation
Indices: 29307390--29307467 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 40
29307380 ACTAACACAA
*
29307390 TAACAATAACAA-TA-GTTTTATACTCAAAATAAT-ACTAAT
1 TAACAATAACAATTAGGGTTT-TACT-AAAATAATAACTAAT
*
29307429 TAACAATAATAATTAGGGTTTTACTAAAATAATAACTAA
1 TAACAATAACAATTAGGGTTTTACTAAAATAATAACTAA
29307468 CCATAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 19 0.56
40 11 0.32
41 4 0.12
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (40 bp):
TAACAATAACAATTAGGGTTTTACTAAAATAATAACTAAT
Found at i:29307694 original size:10 final size:10
Alignment explanation
Indices: 29307666--29307702 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
29307656 ATACCCTTTT
29307666 TTTTTCTCTTC
1 TTTTTCTC-TC
*
29307677 TATTTCTCTC
1 TTTTTCTCTC
29307687 TTTTTCTCTC
1 TTTTTCTCTC
29307697 TTTTTC
1 TTTTTC
29307703 CGGCAGTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:29308103 original size:6 final size:6
Alignment explanation
Indices: 29308092--29308129 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
29308082 GATTCTAAAA
29308092 AAAATT AAAATT AAAATT AAAATT AAAATT -AAATT AAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAA
29308130 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:29308221 original size:46 final size:45
Alignment explanation
Indices: 29308134--29308222 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 45
29308124 ATTAAATTTT
* *
29308134 TTATTATTTATTTGAAAAATAATAATTTTAAGATATGTTTTAAAG
1 TTATTATTTATTTGAAAAATAATAATTTTAAAATATATTTTAAAG
29308179 TTATTA-TTATTTGTACCAAAA-AATAATTTTAAAATATATTTTAA
1 TTATTATTTATTTG-A--AAAATAATAATTTTAAAATATATTTTAA
29308223 TTTTAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 7 0.18
45 7 0.18
46 21 0.54
47 4 0.10
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (45 bp):
TTATTATTTATTTGAAAAATAATAATTTTAAAATATATTTTAAAG
Found at i:29308237 original size:48 final size:45
Alignment explanation
Indices: 29308138--29308238 Score: 107
Period size: 46 Copynumber: 2.2 Consensus size: 45
29308128 AATTTTTTAT
* * *
29308138 TATTTATTTGAAAAATAATAATTTTAAGATATGTTTTAAAGTTAT
1 TATTTATTTGAAAAATAATAATTTTAAAATATATTTTAAAGTTAA
**
29308183 TA-TTATTTGTACCAAAA-AATAATTTTAAAATATATTTTAATTTTAAA
1 TATTTATTTG-A--AAAATAATAATTTTAAAATATATTTTAAAGTT-AA
29308230 TATTTATTT
1 TATTTATTT
29308239 ATTGAGATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
44 7 0.15
45 3 0.07
46 23 0.50
47 7 0.15
48 6 0.13
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (45 bp):
TATTTATTTGAAAAATAATAATTTTAAAATATATTTTAAAGTTAA
Found at i:29309172 original size:9 final size:9
Alignment explanation
Indices: 29309152--29309190 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
29309142 AAAACTCTTT
29309152 AAAATT-AA
1 AAAATTAAA
29309160 AAAATTAAA
1 AAAATTAAA
29309169 AAAATTAAA
1 AAAATTAAA
29309178 AAAATATAAA
1 AAAAT-TAAA
29309188 AAA
1 AAA
29309191 TTTTCAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 6 0.21
9 16 0.55
10 7 0.24
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAATTAAA
Found at i:29309172 original size:17 final size:18
Alignment explanation
Indices: 29309152--29309192 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
29309142 AAAACTCTTT
*
29309152 AAAATTAAAAAATTA-AA
1 AAAATTAAAAAAATATAA
29309169 AAAATTAAAAAAATATAA
1 AAAATTAAAAAAATATAA
29309187 AAAATT
1 AAAATT
29309193 TTCAAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATTAAAAAAATATAA
Found at i:29311112 original size:15 final size:17
Alignment explanation
Indices: 29311082--29311113 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
29311072 ATGAATATGG
29311082 TAAAATAATATTAAAAA
1 TAAAATAATATTAAAAA
29311099 TAAAA-AAT-TTAAAAA
1 TAAAATAATATTAAAAA
29311114 AATTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAATAATATTAAAAA
Found at i:29311235 original size:16 final size:17
Alignment explanation
Indices: 29311215--29311260 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
29311205 CAAATATTGT
29311215 AAAAAATATTAAAAT-A
1 AAAAAATATTAAAATGA
*
29311231 TAAAAATATTAAAATGA
1 AAAAAATATTAAAATGA
29311248 AAAAAATA-TAAAA
1 AAAAAATATTAAAA
29311261 CAATTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 19 0.70
17 8 0.30
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAAAATATTAAAATGA
Found at i:29311260 original size:8 final size:8
Alignment explanation
Indices: 29311216--29311260 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
29311206 AAATATTGTA
29311216 AAAAATAT
1 AAAAATAT
*
29311224 TAAAATAT
1 AAAAATAT
29311232 AAAAATAT
1 AAAAATAT
* *
29311240 TAAAATGAA
1 AAAAAT-AT
29311249 AAAAATAT
1 AAAAATAT
29311257 AAAA
1 AAAA
29311261 CAATTATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 24 0.80
9 6 0.20
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (8 bp):
AAAAATAT
Found at i:29312311 original size:18 final size:18
Alignment explanation
Indices: 29312290--29312334 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
29312280 ATTTATGATA
*
29312290 TTTATAATTTTTACCATT
1 TTTATAATTTTTACAATT
*
29312308 TTTAATATTTTTTACAATT
1 TTT-ATAATTTTTACAATT
*
29312327 CTTATAAT
1 TTTATAAT
29312335 ACTTAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTATAATTTTTACAATT
Found at i:29320001 original size:35 final size:35
Alignment explanation
Indices: 29319954--29320079 Score: 173
Period size: 35 Copynumber: 3.6 Consensus size: 35
29319944 ACTCTCTATT
29319954 TTGGTGTGTTTCGGATGGATTAGCTCT-TATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCT-TGTATGAGCA
* *
29319989 ATGGTGTGTTTCGGATGGTTTAGCTTGTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTTGTATGAGCA
* * *
29320024 TTGGTGTGTTTCAGATGGTTTAGCTTGTATAAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTTGTATGAGCA
* *
29320059 TTGGTGTGTTTTGGTTGGATT
1 TTGGTGTGTTTCGGATGGATT
29320080 GTCGATGTAC
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
34 1 0.01
35 80 0.99
ACGTcount: A:0.16, C:0.08, G:0.33, T:0.44
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAGCTTGTATGAGCA
Found at i:29324597 original size:20 final size:20
Alignment explanation
Indices: 29324572--29324632 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
29324562 AATTAGGTTT
29324572 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATTAA
* *
29324592 ATTTAAATTAAAAATA-AAA
1 ATTTAAAATAAAAATATTAA
* *
29324611 ATTTATAATATTAAATATTAA
1 ATTTAAAATA-AAAATATTAA
29324632 A
1 A
29324633 AACCCACCGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 10 0.30
20 20 0.61
21 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTAAAATAAAAATATTAA
Found at i:29329407 original size:12 final size:12
Alignment explanation
Indices: 29329392--29329420 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
29329382 AATTTAAATT
29329392 TTATTGTTAAGA
1 TTATTGTTAAGA
29329404 TTATTGTTAAGA
1 TTATTGTTAAGA
29329416 TTATT
1 TTATT
29329421 ATGATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (12 bp):
TTATTGTTAAGA
Found at i:29335234 original size:43 final size:43
Alignment explanation
Indices: 29335185--29335271 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
29335175 TCATATCTCA
*
29335185 TTTCTCATATCATAATCATTTCTCATATTTGCCATTTCAATAT
1 TTTCTCATATCATAATCATTTCTCATATTTACCATTTCAATAT
* * *
29335228 TTTCTCATCTCATAGTCATTTCTCATCTTTACCATTTCAATAT
1 TTTCTCATATCATAATCATTTCTCATATTTACCATTTCAATAT
29335271 T
1 T
29335272 AATCACATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.02, T:0.49
Consensus pattern (43 bp):
TTTCTCATATCATAATCATTTCTCATATTTACCATTTCAATAT
Found at i:29344156 original size:37 final size:37
Alignment explanation
Indices: 29344095--29344313 Score: 264
Period size: 37 Copynumber: 5.9 Consensus size: 37
29344085 CTGTATATCC
* * *
29344095 GTAGATTTTGCTCGTTTAAACTTCATTCAGTATAACA
1 GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* *
29344132 GTAGAAATTT-CTTGTTTGAGCTTCATTCAGTATAATA
1 GTAG-AATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* *
29344169 GT-GAAATTTTCTCGTTTGAGCTTCATTTAGTATAACA
1 GTAG-AATTTGCTCGTTTGAGCTTCATTCAGTATAACA
*
29344206 GTAGAATTTGCTCGCTTGAGCTTCATTCAGTATAACA
1 GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* * *
29344243 ATAGAATTTGCTCATTTGAGCTTCATTTAGTATAAC-
1 GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
* * *
29344279 GATAGAATTTGCTCATTTTAGCTCCATTCAGTATA
1 G-TAGAATTTGCTCGTTTGAGCTTCATTCAGTATA
29344314 CAACATCATA
Statistics
Matches: 159, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
36 7 0.04
37 147 0.92
38 5 0.03
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.41
Consensus pattern (37 bp):
GTAGAATTTGCTCGTTTGAGCTTCATTCAGTATAACA
Found at i:29346178 original size:36 final size:38
Alignment explanation
Indices: 29346121--29346191 Score: 119
Period size: 36 Copynumber: 1.9 Consensus size: 38
29346111 AAATATATAA
*
29346121 TAAATATATTTTTTTATTTTTTTATTTTTAAAATATTT
1 TAAATATAATTTTTTATTTTTTTATTTTTAAAATATTT
29346159 TAAA-ATAATTTTTTA-TTTTTTATTTTTAAAATA
1 TAAATATAATTTTTTATTTTTTTATTTTTAAAATA
29346192 AATTTTTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 18 0.56
37 10 0.31
38 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (38 bp):
TAAATATAATTTTTTATTTTTTTATTTTTAAAATATTT
Found at i:29346206 original size:26 final size:26
Alignment explanation
Indices: 29346156--29346208 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
29346146 TTTTAAAATA
* * *
29346156 TTTTAAAATAATTTTTTATTTTTTAT
1 TTTTAAAATAAATTTTTAGTGTTTAT
*
29346182 TTTTAAAATAAATTTTTGGTGTTTAT
1 TTTTAAAATAAATTTTTAGTGTTTAT
29346208 T
1 T
29346209 AAAAAAATGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (26 bp):
TTTTAAAATAAATTTTTAGTGTTTAT
Found at i:29349218 original size:100 final size:101
Alignment explanation
Indices: 29349003--29349220 Score: 287
Period size: 100 Copynumber: 2.2 Consensus size: 101
29348993 GTAGTAAAAA
* * * *
29349003 TTATGGATGAACCA-CTGATATTTTTAGTAAAAAGTTTGTAGAAAAGCTACTAGTAGGATATGGA
1 TTATGAATGAACCACCAGATATTTTCAGTAAAAAATTTGTAGAAAAGCTACTAGTAGGATATGGA
* * *
29349067 AGCAGAACATTTTTGTAGATAAAAGCTGCTAGTAAT
66 AGCACAACATTTTTGAAAATAAAAGCTGCTAGTAAT
* * * * *
29349103 TTATGGATGAACCACCAGA-ATTTTCAGTAAAAAATTTGTAGACAAGCTGCTAGTAGGTTGTGGA
1 TTATGAATGAACCACCAGATATTTTCAGTAAAAAATTTGTAGAAAAGCTACTAGTAGGATATGGA
* *
29349167 TGCACAACTTTTTTGAAAATAAAAGCTGCTAGTAAT
66 AGCACAACATTTTTGAAAATAAAAGCTGCTAGTAAT
*
29349203 TTGTGAATGAACCACCAG
1 TTATGAATGAACCACCAG
29349221 TGTTGCAGAT
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
100 100 0.97
101 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (101 bp):
TTATGAATGAACCACCAGATATTTTCAGTAAAAAATTTGTAGAAAAGCTACTAGTAGGATATGGA
AGCACAACATTTTTGAAAATAAAAGCTGCTAGTAAT
Found at i:29355598 original size:5 final size:5
Alignment explanation
Indices: 29355590--29355619 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
29355580 TTCGAATTTG
29355590 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
29355620 CTTGTTAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:29355675 original size:56 final size:56
Alignment explanation
Indices: 29355606--29355775 Score: 268
Period size: 56 Copynumber: 3.0 Consensus size: 56
29355596 AAATAAAATA
* * *
29355606 AAATAAAATAAAATCTTGTTAGACGGTGGGAATAAATCCTGAAACAGATTTTATTT
1 AAATCAAATAAAATCTTGTTAAACGGTGGGAATAAATCCCGAAACAGATTTTATTT
*
29355662 AAATCAAATAAAATCTTGTTAAAAGGTGGGAATAAATCCCGAAACAGATTTTATTT
1 AAATCAAATAAAATCTTGTTAAACGGTGGGAATAAATCCCGAAACAGATTTTATTT
* * **
29355718 AAATCAAATAAAATCTTGTTAAACAGCGAAAATAAATCCCGAAACAGATTTTATTT
1 AAATCAAATAAAATCTTGTTAAACGGTGGGAATAAATCCCGAAACAGATTTTATTT
29355774 AA
1 AA
29355776 TTCTATTATA
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 105 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (56 bp):
AAATCAAATAAAATCTTGTTAAACGGTGGGAATAAATCCCGAAACAGATTTTATTT
Found at i:29362111 original size:84 final size:84
Alignment explanation
Indices: 29361979--29362135 Score: 206
Period size: 84 Copynumber: 1.9 Consensus size: 84
29361969 TACGTCTTTG
* * * * *
29361979 TTTGGAAACTAAACAATATCGAATAGAATCTTGTTAAACGGCGAGAATAAATTCCGAAACAAATT
1 TTTGGAAACAAAACAAAATCAAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAAATT
29362044 TTATTTAATTCAATTCGAA
66 TTATTTAATTCAATTCGAA
* * * * * * *
29362063 TTTGGAAACAAAATAAAATCAAATAAAATTTTGTTAAGCGGTGGGAATAAATCCCGAAATAGATT
1 TTTGGAAACAAAACAAAATCAAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAAATT
29362128 TTATTTAA
66 TTATTTAA
29362136 ATAAAATAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
84 61 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (84 bp):
TTTGGAAACAAAACAAAATCAAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAAATT
TTATTTAATTCAATTCGAA
Found at i:29362260 original size:140 final size:139
Alignment explanation
Indices: 29362000--29362274 Score: 408
Period size: 140 Copynumber: 2.0 Consensus size: 139
29361990 AACAATATCG
* * * *
29362000 AATAGAATCTTGTTAAACGGCGAGAATAAATTCCGAAACAAATTTTATTTAATTCAATTCGAATT
1 AATAAAATCTTGTTAAACGACGAGAATAAATCCCAAAACAAATTTTATTTAATTCAATTCGAATT
* * *
29362065 TGGAAACAAAATAAAATCAAATAAAATTTTGTTAAGCGGTGGGAATAAATCCCGAAATAGATTTT
66 TGAAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGTGGGAATAAATCCCGAAATAGA-TTT
29362130 ATTTAAATAA
130 ATTTAAATAA
* * * *
29362140 AATAAAATCTTGTTAAACGAC-AGCAATAAGTCCCAAAACAGATTTTATTTAATTCTATTCTAAT
1 AATAAAATCTTGTTAAACGACGAG-AATAAATCCCAAAACAAATTTTATTTAATTCAATTCGAAT
* *
29362204 TTGAAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGTTGGAATAAATTCCGAAATAGATTT
65 TTGAAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGTGGGAATAAATCCCGAAATAGATTT
29362269 ATTTAA
130 ATTTAA
29362275 TTCTATTCTA
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
139 11 0.09
140 110 0.91
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (139 bp):
AATAAAATCTTGTTAAACGACGAGAATAAATCCCAAAACAAATTTTATTTAATTCAATTCGAATT
TGAAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGTGGGAATAAATCCCGAAATAGATTTA
TTTAAATAA
Found at i:29362302 original size:83 final size:84
Alignment explanation
Indices: 29362134--29362443 Score: 340
Period size: 83 Copynumber: 3.7 Consensus size: 84
29362124 GATTTTATTT
* * * * *
29362134 AAATAAAATAAAATCTTGTTAAACGACAGCAATAAGTCCCAAAACAGATTTTATTTAATTCTATT
1 AAATCAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTAATTCTATT
*
29362199 CTAATTTGAAAACAAAATA
66 CTAATTTGGAAACAAAATA
** * *
29362218 AAATCAAATAAAATCTTGTTAAACGGTTGGAATAAATTCCGAAATAGA-TTTATTTAATTCTATT
1 AAATCAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTAATTCTATT
* *
29362282 CTAATTTGGGAACAAGATA
66 CTAATTTGGAAACAAAATA
* * *
29362301 AAATCAAATAAAATCTTGGTAAACGGCAGTAATAAATCCCGAAACAGATTTTATTTTATT-TAAT
1 AAATCAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTAATTCT-A-
* *
29362365 TTCTCATTTTTGGCAACAAAATA
64 TTCT-A-ATTTGGAAACAAAATA
* * * * *
29362388 AAATCAAAT-AAATCTTTATTAAATGG-TGAGAATAAATCCCGAAATAGATTTAATTT
1 AAATCAAATAAAATC-TTGTTAAACGGCAG-GAATAAATCCCGAAACAGATTTTATTT
29362444 TATTTAATTT
Statistics
Matches: 190, Mismatches: 29, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
83 75 0.39
84 50 0.26
85 4 0.02
86 7 0.04
87 54 0.28
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.34
Consensus pattern (84 bp):
AAATCAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTAATTCTATT
CTAATTTGGAAACAAAATA
Found at i:29362422 original size:87 final size:87
Alignment explanation
Indices: 29362134--29362531 Score: 349
Period size: 87 Copynumber: 4.7 Consensus size: 87
29362124 GATTTTATTT
* ** * * * *
29362134 AAATAAAATAAAATCTTGTTAAAC-GACAGCAATAAGTCCCAAAACAGATTTTATTTAATTCT-A
1 AAATCAAATAAAATCTTGTTAAACGGTGAG-AATAAATCCCGAAATAGATTTTATTTTATT-TAA
* **
29362197 -TTCT-A-ATTTGAAAACAAAATA
64 TTTCTCATTTTTGGCAACAAAATA
* *
29362218 AAATCAAATAAAATCTTGTTAAACGGTTG-GAATAAATTCCGAAATAGA-TTTATTTAATTCT-A
1 AAATCAAATAAAATCTTGTTAAACGG-TGAGAATAAATCCCGAAATAGATTTTATTTTATT-TAA
* * *
29362280 -TTCT-A-ATTTGGGAACAAGATA
64 TTTCTCATTTTTGGCAACAAAATA
* * *
29362301 AAATCAAATAAAATCTTGGTAAACGG-CAGTAATAAATCCCGAAACAGATTTTATTTTATTTAAT
1 AAATCAAATAAAATCTTGTTAAACGGTGAG-AATAAATCCCGAAATAGATTTTATTTTATTTAAT
29362365 TTCTCATTTTTGGCAACAAAATA
65 TTCTCATTTTTGGCAACAAAATA
* * *
29362388 AAATCAAAT-AAATCTTTATTAAATGGTGAGAATAAATCCCGAAATAGATTTAATTTTATTTAAT
1 AAATCAAATAAAATC-TTGTTAAACGGTGAGAATAAATCCCGAAATAGATTTTATTTTATTTAAT
*
29362452 TTCTCATTTTTAGCAACAAAATCA
65 TTCTCATTTTTGGCAACAAAAT-A
** * *** * * *
29362476 AAATGTAAT-AAAT-TTGTTGAACAACGAGAATCAATCCCAAAATGGATTTTATTTTA
1 AAATCAAATAAAATCTTGTTAAACGGTGAGAATAAATCCCGAAATAGATTTTATTTTA
29362532 CTCGTTTTTG
Statistics
Matches: 265, Mismatches: 37, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
82 1 0.00
83 74 0.28
84 48 0.18
85 6 0.02
86 39 0.15
87 83 0.31
88 14 0.05
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (87 bp):
AAATCAAATAAAATCTTGTTAAACGGTGAGAATAAATCCCGAAATAGATTTTATTTTATTTAATT
TCTCATTTTTGGCAACAAAATA
Found at i:29362423 original size:170 final size:167
Alignment explanation
Indices: 29362134--29362439 Score: 420
Period size: 167 Copynumber: 1.8 Consensus size: 167
29362124 GATTTTATTT
* *
29362134 AAATAAAATAAAATCTTGTTAAACGACAGCAATAAGTCCCAAAACAGATTTTATTTAATTCTATT
1 AAATAAAATAAAATCTTGGTAAACGACAGCAATAAATCCCAAAACAGATTTTATTTAATTCTATT
* *
29362199 CTAATTTGAAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGTTGGAATAAATTCCGAAATA
66 CTAATTTGAAAACAAAATAAAATCAAATAAAATCTTATTAAACGGTTGGAATAAATCCCGAAATA
29362264 GATTTATTTAATTCTATTCTAATTTGGGAACAAGATA
131 GATTTATTTAATTCTATTCTAATTTGGGAACAAGATA
* * * * *
29362301 AAATCAAATAAAATCTTGGTAAACGGCAGTAATAAATCCCGAAACAGATTTTATTTTATT-TAAT
1 AAATAAAATAAAATCTTGGTAAACGACAGCAATAAATCCCAAAACAGATTTTATTTAATTCT-A-
* ** *
29362365 TTCTCATTTTTGGCAACAAAATAAAATCAAAT-AAATCTTTATTAAATGG-TGAGAATAAATCCC
64 TTCT-A-ATTTGAAAACAAAATAAAATCAAATAAAATC-TTATTAAACGGTTG-GAATAAATCCC
29362428 GAAATAGATTTA
125 GAAATAGATTTA
29362440 ATTTTATTTA
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
166 1 0.01
167 54 0.45
168 4 0.03
169 8 0.07
170 53 0.44
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (167 bp):
AAATAAAATAAAATCTTGGTAAACGACAGCAATAAATCCCAAAACAGATTTTATTTAATTCTATT
CTAATTTGAAAACAAAATAAAATCAAATAAAATCTTATTAAACGGTTGGAATAAATCCCGAAATA
GATTTATTTAATTCTATTCTAATTTGGGAACAAGATA
Found at i:29362682 original size:77 final size:78
Alignment explanation
Indices: 29362503--29362800 Score: 267
Period size: 79 Copynumber: 3.7 Consensus size: 78
29362493 TGAACAACGA
* * * * *
29362503 GAATCAATCCCAAAATGGATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATTTGGAATAAAA
1 GAATAAATCCCGAAACGGATTTTATTTTACTTGTTTTTGGAAATAAAACAAAA-TTAGAATAAAA
*
29362568 TCGTTGAACGGAAA
65 TCGTTGAACGGAAG
* * *
29362582 AAATCAATCCCGAAATGGATTTTATTTTACTTGTTTTTGGAAATAAAA-AAAATTAGAATAAAAT
1 GAATAAATCCCGAAACGGATTTTATTTTACTTGTTTTTGGAAATAAAACAAAATTAGAATAAAAT
* **
29362646 CGTTAAACGGTGG
66 CGTTGAACGGAAG
* * * * *
29362659 GAATAAATCCCGAAACCGATTTTATGTACCTTTAATTCATGTTTGGAAATAAAATCAAAATAATG
1 GAATAAATCCCGAAACGGATTTTA--T---TTTACTT-GTTTTTGGAAATAAAA-CAAAATTA-G
*
29362724 TAATAAAATCTGTTGAACGGCAG
58 -AATAAAATC-GTTGAACGGAAG
* * *
29362747 GAATAAATCCCAAAACGGATTTTA-TTTACTTTTAATTTTGGAAACAAAATCAAA
1 GAATAAATCCCGAAACGGATTTTATTTTACTTGT--TTTTGGAAATAAAA-CAAA
29362801 TAAAATTTGT
Statistics
Matches: 181, Mismatches: 25, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 40 0.22
78 4 0.02
79 46 0.25
81 1 0.01
82 12 0.07
83 31 0.17
85 6 0.03
86 1 0.01
87 9 0.05
88 31 0.17
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (78 bp):
GAATAAATCCCGAAACGGATTTTATTTTACTTGTTTTTGGAAATAAAACAAAATTAGAATAAAAT
CGTTGAACGGAAG
Found at i:29362768 original size:88 final size:83
Alignment explanation
Indices: 29362617--29362783 Score: 217
Period size: 88 Copynumber: 2.0 Consensus size: 83
29362607 TTTACTTGTT
* ** *
29362617 TTTGGAAATAAAAAAAATTAGAATAAAATCGTTAAACGGTGGGAATAAATCCCGAAACCGATTTT
1 TTTGGAAATAAAAAAAATAAGAATAAAATCGTTAAACGGCAGGAATAAATCCCAAAACCGATTTT
29362682 ATGTACCTTTAATTCATG
66 ATGTACCTTTAATTCATG
* *
29362700 TTTGGAAATAAAATCAAAATAATGTAATAAAATCTGTTGAACGGCAGGAATAAATCCCAAAACGG
1 TTTGGAAATAAAA--AAAATAA-G-AATAAAATC-GTTAAACGGCAGGAATAAATCCCAAAACCG
* *
29362765 ATTTTATTTACTTTTAATT
61 ATTTTATGTACCTTTAATT
29362784 TTGGAAACAA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
83 13 0.18
85 6 0.08
86 1 0.01
87 9 0.13
88 42 0.59
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (83 bp):
TTTGGAAATAAAAAAAATAAGAATAAAATCGTTAAACGGCAGGAATAAATCCCAAAACCGATTTT
ATGTACCTTTAATTCATG
Found at i:29364485 original size:139 final size:139
Alignment explanation
Indices: 29364235--29364512 Score: 556
Period size: 139 Copynumber: 2.0 Consensus size: 139
29364225 TTTCAATGAT
29364235 GGGGTTGTTTGTGAAATGAGATTAGTTAAGGTTTGGTAGTAAGAGAATGGTGAAGATAATAAAGT
1 GGGGTTGTTTGTGAAATGAGATTAGTTAAGGTTTGGTAGTAAGAGAATGGTGAAGATAATAAAGT
29364300 TGTGGGATATATGGCGTTTTGGAATAATTCATTATTTAGCATACATTTCTCTTCATTTTTCTTAT
66 TGTGGGATATATGGCGTTTTGGAATAATTCATTATTTAGCATACATTTCTCTTCATTTTTCTTAT
29364365 GGTAAATAA
131 GGTAAATAA
29364374 GGGGTTGTTTGTGAAATGAGATTAGTTAAGGTTTGGTAGTAAGAGAATGGTGAAGATAATAAAGT
1 GGGGTTGTTTGTGAAATGAGATTAGTTAAGGTTTGGTAGTAAGAGAATGGTGAAGATAATAAAGT
29364439 TGTGGGATATATGGCGTTTTGGAATAATTCATTATTTAGCATACATTTCTCTTCATTTTTCTTAT
66 TGTGGGATATATGGCGTTTTGGAATAATTCATTATTTAGCATACATTTCTCTTCATTTTTCTTAT
29364504 GGTAAATAA
131 GGTAAATAA
29364513 AAAATACGAA
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 139 1.00
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (139 bp):
GGGGTTGTTTGTGAAATGAGATTAGTTAAGGTTTGGTAGTAAGAGAATGGTGAAGATAATAAAGT
TGTGGGATATATGGCGTTTTGGAATAATTCATTATTTAGCATACATTTCTCTTCATTTTTCTTAT
GGTAAATAA
Found at i:29365254 original size:28 final size:27
Alignment explanation
Indices: 29365197--29365260 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
29365187 ATTTAATATT
* * *
29365197 TTTTATATTTTATATAATTTTTTAGGA
1 TTTTATATTATAAATAATTTTTTAGAA
*
29365224 TTTATATATTATAAATAATTTTTTATAA
1 TTT-TATATTATAAATAATTTTTTAGAA
29365252 TTTTATATT
1 TTTTATATT
29365261 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTATATTATAAATAATTTTTTAGAA
Found at i:29365977 original size:62 final size:62
Alignment explanation
Indices: 29365880--29366005 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
29365870 ATCTGGCTAA
29365880 TTAGGGGACTAATTTGCAAAATGGTTGAAATTATAGGGTTTTTCCATGAGAGAATTTTAGTT
1 TTAGGGGACTAATTTGCAAAATGGTTGAAATTATAGGGTTTTTCCATGAGAGAATTTTAGTT
29365942 TTAGGGGACTAATTTGCAAAATGGTTGAAATTATAGGGTTTTTCCATGAGAGAATTTTAGTT
1 TTAGGGGACTAATTTGCAAAATGGTTGAAATTATAGGGTTTTTCCATGAGAGAATTTTAGTT
29366004 TT
1 TT
29366006 TCTTGAAGTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (62 bp):
TTAGGGGACTAATTTGCAAAATGGTTGAAATTATAGGGTTTTTCCATGAGAGAATTTTAGTT
Found at i:29366662 original size:25 final size:26
Alignment explanation
Indices: 29366610--29366697 Score: 96
Period size: 25 Copynumber: 3.5 Consensus size: 26
29366600 TTACCGATTC
*
29366610 CAGCTCTTATGAGCTTA-C-TTATACT
1 CAGCTCGTATGAGCTTACCGTTATA-T
29366635 CAGCTCGTATGAGCTTACCGTTAT-T
1 CAGCTCGTATGAGCTTACCGTTATAT
* * *
29366660 CAGCTTGGAGGAGCTTACCGTT-TAT
1 CAGCTCGTATGAGCTTACCGTTATAT
29366685 C-GCTCGTATGAGC
1 CAGCTCGTATGAGC
29366698 ATACATGTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
24 10 0.19
25 38 0.72
26 1 0.02
27 4 0.08
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
CAGCTCGTATGAGCTTACCGTTATAT
Found at i:29368532 original size:25 final size:25
Alignment explanation
Indices: 29368504--29368551 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
29368494 GAAATAATAA
*
29368504 TTTAAATACTAAAATGAAAAAAAGG
1 TTTAAATACCAAAATGAAAAAAAGG
* * *
29368529 TTTAGATACCATAATTAAAAAAA
1 TTTAAATACCAAAATGAAAAAAA
29368552 TATAATTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.27
Consensus pattern (25 bp):
TTTAAATACCAAAATGAAAAAAAGG
Found at i:29370209 original size:29 final size:30
Alignment explanation
Indices: 29370177--29370235 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
29370167 TCACTTGTAT
*
29370177 AATTGCATA-AAATTAAAGTTCATGTATAC
1 AATTGCATATAAATCAAAGTTCATGTATAC
*
29370206 AATTGCATATTAAATCAATGTTCATGTATA
1 AATTGCATA-TAAATCAAAGTTCATGTATA
29370236 ATTTTGAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 9 0.35
31 17 0.65
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (30 bp):
AATTGCATATAAATCAAAGTTCATGTATAC
Found at i:29370238 original size:29 final size:27
Alignment explanation
Indices: 29370172--29370238 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 27
29370162 GAGTTTCACT
*
29370172 TGTATAATTGCATAAAATTAAAGTTCA
1 TGTATAATTGCATAAAATCAAAGTTCA
*
29370199 TGTATACAATTGCATATTAAATCAATGTTCA
1 TGTAT--AATTGCATA--AAATCAAAGTTCA
29370230 TGTATAATT
1 TGTATAATT
29370239 TTGAGATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.15
29 13 0.38
31 16 0.47
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.40
Consensus pattern (27 bp):
TGTATAATTGCATAAAATCAAAGTTCA
Found at i:29380541 original size:17 final size:18
Alignment explanation
Indices: 29380501--29380542 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
29380491 GAAAGCTGAA
* *
29380501 TCATCCTTTTATTTTTTT
1 TCATTCTTTTATTTTTGT
*
29380519 TTATTCTTTTA-TTTTGT
1 TCATTCTTTTATTTTTGT
29380536 TCATTCT
1 TCATTCT
29380543 ATAATTCTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (18 bp):
TCATTCTTTTATTTTTGT
Found at i:29381162 original size:16 final size:17
Alignment explanation
Indices: 29381131--29381165 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
29381121 TTCTTAATTC
29381131 TAGACATTATATATTTT
1 TAGACATTATATATTTT
*
29381148 TAGACTTTA-ATATTTT
1 TAGACATTATATATTTT
29381164 TA
1 TA
29381166 AAAATTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TAGACATTATATATTTT
Found at i:29396265 original size:20 final size:20
Alignment explanation
Indices: 29396237--29396274 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29396227 AATATCAAAA
*
29396237 TTTATTTAT-TTACAAATATT
1 TTTAATTATATTA-AAATATT
29396257 TTTAATTATATTAAAATA
1 TTTAATTATATTAAAATA
29396275 AAATAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAATTATATTAAAATATT
Found at i:29397318 original size:27 final size:27
Alignment explanation
Indices: 29397289--29397340 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
29397279 AAATTTCAAA
*
29397289 AAAACAAATA-ATAAACAAAAATAAAT
1 AAAACAAATACAAAAACAAAAATAAAT
* *
29397315 AAAACCAATACAAAAACAAAATTAAA
1 AAAACAAATACAAAAACAAAAATAAA
29397341 AGTCCAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.13
Consensus pattern (27 bp):
AAAACAAATACAAAAACAAAAATAAAT
Found at i:29412125 original size:21 final size:22
Alignment explanation
Indices: 29412077--29412127 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
29412067 TTAATTATTG
29412077 TTAAAAAT-TTTAAAATATATA
1 TTAAAAATATTTAAAATATATA
*
29412098 TT-TAAATATTT-AAATATACT-
1 TTAAAAATATTTAAAATATA-TA
29412118 TTAAAAATAT
1 TTAAAAATAT
29412128 ATTTTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAAAATATTTAAAATATATA
Found at i:29413603 original size:16 final size:16
Alignment explanation
Indices: 29413582--29413615 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29413572 AAAATAATTT
*
29413582 CTTGAAACTTCTATCC
1 CTTGAAACTTCCATCC
*
29413598 CTTGAAATTTCCATCC
1 CTTGAAACTTCCATCC
29413614 CT
1 CT
29413616 AAAATTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.38
Consensus pattern (16 bp):
CTTGAAACTTCCATCC
Found at i:29418391 original size:46 final size:45
Alignment explanation
Indices: 29418200--29418442 Score: 299
Period size: 45 Copynumber: 5.4 Consensus size: 45
29418190 GATCAGAGTG
* * *
29418200 TGCCATGGTATCTTTCAACCATGGTCTTATTTACTCTCGTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
* *
29418245 TGCCATAATGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGG
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
* * *
29418290 TGCCATGGTGTCTTTCAACCATTGTCATATTTATTCTCGTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
* * * * *
29418335 TGCCATAGTGTCTTTCAAACATGGTCTTATTCATTTTCCGTCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCT-CGTCTTGA
* ** *
29418381 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATT-TAATTTGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCT-TGA
*
29418426 TGCCATAGCGTCTTTCA
1 TGCCATAGTGTCTTTCA
29418443 GTTGTGGTCT
Statistics
Matches: 171, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 130 0.76
46 40 0.23
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
Found at i:29424497 original size:49 final size:48
Alignment explanation
Indices: 29424384--29424823 Score: 721
Period size: 49 Copynumber: 9.2 Consensus size: 48
29424374 AATTCTAAAT
*
29424384 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGAG-TATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
29424431 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATA
29424480 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATA
29424529 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATA
29424578 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATA
29424627 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
29424674 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
29424721 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
* * * * * * *
29424768 TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATA-A-A
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATA
29424815 TGTGATAAG
1 TGTGATAAG
29424824 TCCCGAAGGG
Statistics
Matches: 379, Mismatches: 10, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
47 182 0.48
48 1 0.00
49 196 0.52
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (48 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
Found at i:29433966 original size:40 final size:41
Alignment explanation
Indices: 29433915--29438154 Score: 1146
Period size: 43 Copynumber: 96.3 Consensus size: 41
29433905 GTAGCTTCAG
* * *
29433915 TCTGCTGCACTACTGCTTAGGGAGATAAGACTT-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTCGA
* **
29433955 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* *** *
29433998 TCCGCTCCACTACAAATTCAGGGAGATAGGA-TTGGTTTTTCTTCTG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG----T-TTC-GA
* * * * *
29434044 TCTACTCCACTACTGCTTAAGGAGATAAGACTT-GATGCAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTCGA
* **
29434084 TCTGCTCCACTACTGCATAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * * ** *
29434127 TC-GCTACAGTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTCTG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG----T-TTC-GA
* * *
29434172 TCTGCTCCACTACGGCTTAGGGAGATAAGACTT-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTCGA
**
29434212 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTATGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
**** *
29434255 T-TCGCTCCACTGGAACTTCAGGGAGATAGGA-TTGGTTTTTCTTCTG-
1 TCT-GCTCCACTACTGCTT-AGGGAGATAAGACTTGG----T-TTC-GA
* *
29434301 TCTGCTCCACTACTGCTTAGGGAGATAAGACTT-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTCGA
**
29434341 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * *
29434384 TCCGCTCCACTGCAACTTCAGGGAGATATGA-TTGGTTTTTC-T
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTCGA
* * *
29434426 TCTGCCTGCTCTACTACTGCTTAGAGAGATAAGACTT-GATGCGA
1 TCTG-CT-C-C-ACTACTGCTTAGGGAGATAAGACTTGGTTTCGA
**
29434470 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * *
29434513 TCCGCTCCACTGCAACTTCAGGGAGATATGA-TTGGTTTTTC-T
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTCGA
* * *
29434555 TCTGCCTGCTCTACTACTGCTTAGAGAGATAAGACTT-GATGCGA
1 TCTG-CT-C-C-ACTACTGCTTAGGGAGATAAGACTTGGTTTCGA
**
29434599 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29434642 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
* *
29434686 TGCCTGCTCCACTACTGCTTAGGGAGATAAGACTT-GATACGA
1 T--CTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTCGA
** **
29434728 TCTGCTCCACTACTGCACAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29434771 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29434815 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29434860 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29434904 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29434949 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29434993 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29435038 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29435082 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29435127 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29435171 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29435216 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29435260 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29435305 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29435349 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29435394 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29435438 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29435483 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29435527 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29435572 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29435616 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29435661 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29435705 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29435750 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29435794 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29435839 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29435883 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29435928 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29435972 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436017 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29436061 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436106 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29436150 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436195 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29436239 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436284 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29436328 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436373 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29436417 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436462 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29436506 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436551 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29436595 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436640 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29436684 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436729 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29436773 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436818 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29436862 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436907 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29436951 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29436996 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29437040 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29437085 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29437129 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29437174 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29437218 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29437263 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29437307 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29437352 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29437396 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29437441 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29437485 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29437530 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29437574 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29437619 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29437663 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29437708 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29437752 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29437797 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
**
29437841 TGCTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29437886 TCCGCTCCACTGCAACTTTAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGC-TTAGGGAGATAAGACTTGG--TTTC-GA
* *
29437930 TGCTTGCTCCACTACTGCTTAGGGAGATAAGACTT-GATGCGA
1 T-C-TGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTCGA
* * **
29437972 TCTGCTCCACTACTGCTCAGGGAGATAAGATCTGTAGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
* * ** * **
29438015 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTCTTC
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG--TTTC-GA
* * *
29438059 TGCCTGCTCCACTACTGCTTAGGGAAATAAGACTT-GATACGA
1 T--CTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTCGA
** **
29438101 TCTGCTCCACTACTGCACAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGA
*
29438144 TCCGCTCCACT
1 TCTGCTCCACT
29438155 GCAACTTCAA
Statistics
Matches: 3044, Mismatches: 745, Indels: 819
0.66 0.16 0.18
Matches are distributed among these distances:
39 2 0.00
40 245 0.08
41 147 0.05
42 72 0.02
43 701 0.23
44 548 0.18
45 558 0.18
46 630 0.21
47 36 0.01
48 105 0.03
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (41 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTCGA
Found at i:29434309 original size:89 final size:89
Alignment explanation
Indices: 29434214--29437961 Score: 6504
Period size: 89 Copynumber: 42.3 Consensus size: 89
29434204 TGATGCGATC
* * *
29434214 TGCTCCACTACTGCTTAGGGAGATAAGATCTATGGTTTTAATTCGCTCCACTGGAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29434279 GATAGGATTGGTTTTTCTTCTG-T
66 GATAGGATTGGTTTTTCTTCTGCT
* *** * * **
29434302 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGCGATCTGCTCCACTACTGCTT-AGGG
1 -TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGG
* * **
29434363 AGATAAGATCTGTGGTTTTAATC--C-
65 AGATAGGAT-TG-GTTTTTCTTCTGCT
* ** * * ** * * **
29434387 -GCTCCACTGCAACTTCAGGGAGATATGAT-TG-GTTTTTCTTCTGCCTGCTCTACTACTGCTT-
1 TGCTCCACTACTGCTT-AGGGAGATAAGATCTGTG-GTTT-TAAT-CC-GCTCCACTGCAACTTC
* * * * **
29434448 AGAGAGATAAGACTT-G--ATGC-GAT-C-
61 AGGGAGATAGGA-TTGGTTTTTCTTCTGCT
29434472 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
* *
29434537 GATATGATTGGTTTTTCTTCTGCC
66 GATAGGATTGGTTTTTCTTCTGCT
* * * *** * * **
29434561 TGCTCTACTACTGCTTAGAGAGATAAGA-CT-T-GATGCGATCTGCTCCACTACTGCTT-AGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
* * **
29434622 GATAAGATCTGTGGTTTTAATC--C-
66 GATAGGAT-TG-GTTTTTCTTCTGCT
* ** * * ** * **
29434645 -GCTCCACTGCAACTTCAGGGAGATAGGAT-TG-GTTTTTCTTCTGCCTGCTCCACTACTGCTT-
1 TGCTCCACTACTGCTT-AGGGAGATAAGATCTGTG-GTTT-TAAT-CC-GCTCCACTGCAACTTC
* * * **
29434706 AGGGAGATAAGACTT-G--ATAC-GAT-C-
61 AGGGAGATAGGA-TTGGTTTTTCTTCTGCT
**
29434730 TGCTCCACTACTGCACAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29434795 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29434819 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29434884 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29434908 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29434973 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29434997 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29435062 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29435086 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29435151 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29435175 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29435240 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29435264 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29435329 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29435353 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29435418 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29435442 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29435507 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29435531 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29435596 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29435620 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29435685 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29435709 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29435774 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29435798 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29435863 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29435887 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29435952 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29435976 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29436041 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29436065 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29436130 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29436154 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29436219 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29436243 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29436308 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29436332 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29436397 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29436421 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29436486 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29436510 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29436575 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29436599 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29436664 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29436688 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29436753 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29436777 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29436842 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29436866 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29436931 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29436955 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29437020 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29437044 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29437109 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29437133 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29437198 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29437222 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29437287 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29437311 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29437376 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29437400 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29437465 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29437489 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29437554 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29437578 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29437643 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29437667 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29437732 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29437756 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29437821 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
*
29437845 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
29437910 GATAGGATTGGTTTTTCTTCTGCT
66 GATAGGATTGGTTTTTCTTCTGCT
29437934 TGCTCCACTACTGCTTAGGGAGATAAGA
1 TGCTCCACTACTGCTTAGGGAGATAAGA
29437962 CTTGATGCGA
Statistics
Matches: 3513, Mismatches: 101, Indels: 90
0.95 0.03 0.02
Matches are distributed among these distances:
83 50 0.01
84 50 0.01
85 57 0.02
86 74 0.02
87 24 0.01
88 8 0.00
89 3248 0.92
90 2 0.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (89 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTGGTTTTTCTTCTGCT
Found at i:29438266 original size:50 final size:50
Alignment explanation
Indices: 29438211--29439020 Score: 526
Period size: 50 Copynumber: 16.3 Consensus size: 50
29438201 GTCGAGGAAC
29438211 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* *
29438261 AAGATTCACCGTTGT-GACTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
1 AAGATTCGCCGTTGTAG-CTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * ** * * ** * * ** **
29438311 AAGATTTGCCATTGCGGCTTCAGTCTTTTTAATTGCAATTTCAGGGAAAC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * * * * * *
29438361 GAGATTCGTCGTGGTAGTTTCAATTTATTCCACTGCACCGTCAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * ** * * * * *
29438411 AACATTCACCGTTGTGGCTTCAATCT-TTGTAATTGCAATGTCAGAGAA-C
1 AAGATTCGCCGTTGTAGCTTCAATCTGTT-CCACTGCACTGCCAGGGAAGT
* *
29438460 AAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTACAGC-GCCAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA-CTGCCAGGGAAGT
*** * ** * * * **
29438510 AAGATTCGCCGTTCCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAAC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * *
29438560 GAGATTCACCGTTATAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * ** * * * ** * * * *
29438610 AAAATTCACTATTGCAGCTTCAATATTTTTAATTGCAATGTCAGGGAA-C
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * *
29438659 AAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCA-TCACCAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACT-GCCAGGGAAGT
** * * *
29438709 AAGATTCGCCGTTGCGGCTTCAATCT-TT-AACTATG-A-TGTCAGGGAAAT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCAC--TGCACTGCCAGGGAAGT
* ** *
29438757 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACTAAGGG-AGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGC-CAGGGAAGT
** * * ** * * * *
29438807 AAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAAGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * *
29438857 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGGAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * * ** * * * ** *
29438907 AAGATTCACCGTTGCAACTTCAATCTTTTTAATTGTAATGTTAGGGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
* * * *
29438957 AAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCAAGAAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
*
29439007 AAGATTCACCGTTG
1 AAGATTCGCCGTTG
29439021 CGACTTCAAT
Statistics
Matches: 550, Mismatches: 193, Indels: 34
0.71 0.25 0.04
Matches are distributed among these distances:
48 36 0.07
49 79 0.14
50 430 0.78
51 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGT
Found at i:29438506 original size:199 final size:199
Alignment explanation
Indices: 29438261--29439038 Score: 994
Period size: 199 Copynumber: 3.9 Consensus size: 199
29438251 CCAGGGAAGT
* *
29438261 AAGATTCACCGTTGT-GACTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTTGCCATTG
1 AAGATTCACCGTTGTAG-CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTG
* * * ** * * * *
29438325 CGGCTTCAGTCTTTTTAATTGCAATTTCAGGGAAACGAGATTCGTCGTGGTAGTTTCAATTTATT
65 CGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTT
* * * * *
29438390 CCACTGCACCGTCAGGGAAGTAACATTCACCGTTGTGGCTTCAATCTTTGTAATTGCAATGTCAG
130 CCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAG
29438455 AGAAC
195 AGAAC
** * * *
29438460 AAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTACAGCGCCAGGGAAGTAAGATTCGCCGTTCC
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
* *
29438525 GGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACGAGATTCACCGTTATAGCTTCAATCTGTTC
66 GGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTTC
* ** * *
29438590 CACTGCACCGCCAGGGAAGTAAAATTCACTATTGCAGCTTCAATATTTTTAATTGCAATGTCAGG
131 CACTGCACCGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAGA
29438655 GAAC
196 GAAC
* * *
29438659 AAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCATCACCAGGGAAGTAAGATTCGCCGTTGC
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
*
29438724 GGCTTCAATC--TTTAACTATG--ATGTCAGGGAAATAAGATTCACCGTTGTAGCTTCAATCTGT
66 GGCTTCAATCTTTTTAA-T-TGCAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGT
* * *
29438785 TCCACTGCACCACTAAGGG-AGTAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGTC
129 TCCACTGCACCGC-CAGGGAAGTAAGATTCACCGTTGCGGCTTCAATATTTTTAATTGCAATGTC
*
29438849 A-AGGAAGT
193 AGA-GAA-C
* * * *
29438857 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGGAGTAAGATTCACCGTTGC
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
** * * * * *
29438922 AACTTCAATCTTTTTAATTGTAATGTTAGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTC
66 GGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTTC
* * * *
29438987 CACTGCACCGCCAAGAAAGTAAGATTCACCGTTGCGACTTCAATCTTTTTAA
131 CACTGCACCGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAATATTTTTAA
29439039 CCGTAATGCC
Statistics
Matches: 503, Mismatches: 65, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
197 99 0.20
198 73 0.15
199 245 0.49
200 86 0.17
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (199 bp):
AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGC
GGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTTC
CACTGCACCGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAGA
GAAC
Found at i:29439046 original size:100 final size:100
Alignment explanation
Indices: 29438211--29439038 Score: 970
Period size: 100 Copynumber: 8.3 Consensus size: 100
29438201 GTCGAGGAAC
* ** * ** * * * **
29438211 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGTAAGATTCACCGTTGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGT
29438276 -GACTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
66 AG-CTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
** * * * * ** *
29438311 AAGATTTGCCATTGCGGCTTCAGTCTTTTTAATTGCAATTTCAGGGAAACGAGATTCGTCGTGGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGT
* * * *
29438376 AGTTTCAATTTATTCCACTGCACCGTCAGGGAAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* * * * **
29438411 AACATTCACCGTTGTGGCTTCAATCTTTGTAATTGCAATGTCAGAG-AACAAGATTCGTCGTTGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGT
* *
29438475 AGCTTCAATCTGTTCCACTACAGCGCCAGGGAAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* * * *
29438510 AAGATTCGCCGTTCCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACGAGATTCACCGTTAT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGT
29438575 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* ** * *
29438610 AAAATTCACTATTGCAGCTTCAATATTTTTAATTGCAATGTCAGGG-AACAAGATTCACCGTTGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGT
* * *
29438674 AGCTTCAATCTGATCCACTGCATCACCAGGGAAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* *
29438709 AAGATTCGCCGTTGCGGCTTCAATC--TTTAACTATG--ATGTCAGGGAAATAAGATTCACCGTT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAA-T-TGCAATGTCAGGGAAACAAGATTCACCGTT
* *
29438770 GTAGCTTCAATCTGTTCCACTGCACCACTAAGGG-AGT
64 GTAGCTTCAATCTGTTCCACTGCACCGC-CAGGGAAGT
* * * ** *
29438807 AAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAAGGAAGTAAGATTCGCCGTTGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGT
* *
29438872 AGCTTCAATCTGTTCCACTGCACCGCTAGGGGAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
** * * * * *
29438907 AAGATTCACCGTTGCAACTTCAATCTTTTTAATTGTAATGTTAGGGAAGCAAGATTCGCCATTGT
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGT
* *
29438972 AGCTTCAATCTGTTCCACTGCACCGCCAAGAAAGT
66 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
*
29439007 AAGATTCACCGTTGCGACTTCAATCTTTTTAA
1 AAGATTCACCGTTGCGGCTTCAATCTTTTTAA
29439039 CCGTAATGCC
Statistics
Matches: 624, Mismatches: 93, Indels: 22
0.84 0.13 0.03
Matches are distributed among these distances:
97 14 0.02
98 71 0.11
99 163 0.26
100 375 0.60
101 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (100 bp):
AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGT
AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
Found at i:29439050 original size:50 final size:50
Alignment explanation
Indices: 29438804--29439050 Score: 143
Period size: 50 Copynumber: 4.9 Consensus size: 50
29438794 CCACTAAGGG
* ** * * * * *
29438804 AGTAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAAGGA
1 AGTAAGATTCACCGTTGCAACTTCAATCTTTTTAACTGTAATGCCAAGAA
* * * * ** * ** * * **
29438854 AGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGG
1 AGTAAGATTCACCGTTGCAACTTCAATCTTTTTAACTGTAATGCCAAGAA
* ** * *
29438904 AGTAAGATTCACCGTTGCAACTTCAATCTTTTTAATTGTAATGTTAGGGA
1 AGTAAGATTCACCGTTGCAACTTCAATCTTTTTAACTGTAATGCCAAGAA
* * * * * * ** * **
29438954 AGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCAAGAA
1 AGTAAGATTCACCGTTGCAACTTCAATCTTTTTAACTGTAATGCCAAGAA
* *
29439004 AGTAAGATTCACCGTTGCGACTTCAATCTTTTTAACCGTAATGCCAA
1 AGTAAGATTCACCGTTGCAACTTCAATCTTTTTAACTGTAATGCCAA
29439051 AGAGATAGGA
Statistics
Matches: 143, Mismatches: 54, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
50 143 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (50 bp):
AGTAAGATTCACCGTTGCAACTTCAATCTTTTTAACTGTAATGCCAAGAA
Found at i:29440550 original size:7 final size:7
Alignment explanation
Indices: 29440538--29440592 Score: 65
Period size: 7 Copynumber: 7.3 Consensus size: 7
29440528 CCCGGTAGAG
29440538 GTTTTTT
1 GTTTTTT
29440545 GTTTTTT
1 GTTTTTT
29440552 GTTTTTT
1 GTTTTTT
*
29440559 TTCTTTTT
1 GT-TTTTT
29440567 GTTTTTGT
1 GTTTTT-T
29440575 GTTTTTGGT
1 GTTTTT--T
29440584 GTTTTTT
1 GTTTTTT
29440591 GT
1 GT
29440593 CCACTAGACC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 22 0.51
8 13 0.30
9 8 0.19
ACGTcount: A:0.00, C:0.02, G:0.18, T:0.80
Consensus pattern (7 bp):
GTTTTTT
Found at i:29440557 original size:8 final size:8
Alignment explanation
Indices: 29440539--29440590 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
29440529 CCGGTAGAGG
29440539 TTTTTTG-
1 TTTTTTGT
29440546 TTTTTTGT
1 TTTTTTGT
29440554 TTTTTT-T
1 TTTTTTGT
*
29440561 CTTTTTGT
1 TTTTTTGT
*
29440569 TTTTGTGT
1 TTTTTTGT
*
29440577 TTTTGGTGT
1 TTTT-TTGT
29440586 TTTTT
1 TTTTT
29440591 GTCCACTAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
7 13 0.34
8 17 0.45
9 8 0.21
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (8 bp):
TTTTTTGT
Found at i:29440588 original size:22 final size:22
Alignment explanation
Indices: 29440541--29440588 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
29440531 GGTAGAGGTT
** *
29440541 TTTTGTTTTTTGTTTTTTTTCT
1 TTTTGTTTTTTGTTTTTGGTCG
29440563 TTTTGTTTTTGTGTTTTTGGT-G
1 TTTTGTTTTT-TGTTTTTGGTCG
29440585 TTTT
1 TTTT
29440589 TTGTCCACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.81
Consensus pattern (22 bp):
TTTTGTTTTTTGTTTTTGGTCG
Found at i:29448134 original size:33 final size:33
Alignment explanation
Indices: 29448095--29448160 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
29448085 GAACTGTTTC
29448095 CAGCAGTGCTGGGGTGATAAGTGAGTGAGGCAG
1 CAGCAGTGCTGGGGTGATAAGTGAGTGAGGCAG
*
29448128 CAGCAGTGCTGGGGTGATAGGTGAGTGAGGCAG
1 CAGCAGTGCTGGGGTGATAAGTGAGTGAGGCAG
29448161 GGATGATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.12, G:0.47, T:0.18
Consensus pattern (33 bp):
CAGCAGTGCTGGGGTGATAAGTGAGTGAGGCAG
Found at i:29448916 original size:61 final size:60
Alignment explanation
Indices: 29448851--29449038 Score: 188
Period size: 61 Copynumber: 3.1 Consensus size: 60
29448841 ATTTTATAGT
*
29448851 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAA-ACTAAGAATTTTATTAA
* * * * * * * * * *
29448912 ATTATATATTTTTA-TTAAATTATATTTA-ATAATTATTATTTTAAA-TTA-TATTTTA-TAGT
1 ATTATATATTATGATTTTAA-TAAATTCATATAA-GAATA-TTTAAACTAAGAATTTTATTA-A
29448971 ATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAACACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAA-ACTAAGAATTTTATTAA
29449032 ATTATAT
1 ATTATAT
29449039 TTAATAATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 7 0.07
59 28 0.29
60 19 0.20
61 35 0.36
62 7 0.07
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (60 bp):
ATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAAACTAAGAATTTTATTAA
Found at i:29448987 original size:120 final size:120
Alignment explanation
Indices: 29448807--29449038 Score: 437
Period size: 120 Copynumber: 1.9 Consensus size: 120
29448797 AAGTAGATTA
*
29448807 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAAT
*
29448872 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAACACTAAGAATTTTATTAAATTATATATTTTTAT
*
29448927 TAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAAT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAAT
29448992 AAATTCATATAAGAATATTTAACACTAAGAATTTTATTAAATTATAT
66 AAATTCATATAAGAATATTTAACACTAAGAATTTTATTAAATTATAT
29449039 TTAATAATAA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAAT
AAATTCATATAAGAATATTTAACACTAAGAATTTTATTAAATTATATATTTTTAT
Found at i:29449011 original size:59 final size:59
Alignment explanation
Indices: 29448828--29449011 Score: 187
Period size: 59 Copynumber: 3.1 Consensus size: 59
29448818 TAATAATAAT
*
29448828 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
1 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAATAAATTCATATAAGAA
* * * * * * * * * *
29448887 TA-TTTAATACTAAGAATTTTATTA-AATTATATATTTTTA-TTAAATTATATTTA-ATAATTAT
1 TATTTTAA-A-TTA-TATTTTA-TAGTATTATATATTATGATTTTAA-TAAATTCATATAA-GAA
29448948 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAATAAATTCATATAAGAA
1 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAATAAATTCATATAAGAA
29449007 TATTT
1 TATTT
29449012 AACACTAAGA
Statistics
Matches: 94, Mismatches: 21, Indels: 20
0.70 0.16 0.15
Matches are distributed among these distances:
58 7 0.07
59 33 0.35
60 19 0.20
61 28 0.30
62 7 0.07
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (59 bp):
TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAATAAATTCATATAAGAA
Found at i:29449035 original size:102 final size:100
Alignment explanation
Indices: 29448906--29449158 Score: 355
Period size: 102 Copynumber: 2.5 Consensus size: 100
29448896 CTAAGAATTT
* * * *
29448906 TATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGT
1 TATTAAACTATAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
29448971 ATTATATATTATGATTTTAATAAATTCATATAAGAA
66 ATTATATATTATGATTTTAATAAATTCATAT-AGAA
29449007 TATTTAACACTA-AGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATA
1 TA-TTAA-ACTATAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATA
* * ***
29449071 GTATTGTATATTATGATTTTAGTAAATTCATATATTT
64 GTATTATATATTATGATTTTAATAAATTCATATAGAA
* * * *
29449108 TATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATATTAAA
1 TATTAAACTATAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAA
29449159 ATATGATTAA
Statistics
Matches: 136, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
99 3 0.02
100 41 0.30
101 5 0.04
102 84 0.62
103 3 0.02
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (100 bp):
TATTAAACTATAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
ATTATATATTATGATTTTAATAAATTCATATAGAA
Found at i:29449038 original size:59 final size:58
Alignment explanation
Indices: 29448855--29449039 Score: 159
Period size: 59 Copynumber: 3.1 Consensus size: 58
29448845 TATAGTATTA
*
29448855 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAAT
1 TATATTATGATTTTAATAAATTCATATAAGAATATTTAA-ACTAAGAATTTTATTAAAT
* * * *
29448914 TATA-TAT--TTTTATTAAATT-ATATTTAATAATTATTATTTTAAA-TTA-TATTTTA-TAGTA
1 TATATTATGATTTTAATAAATTCATA--TAA-GA--A-TA-TTTAAACTAAGAATTTTATTA--A
*
29448972 TT
57 AT
29448974 ATATATTATGATTTTAATAAATTCATATAAGAATATTTAACACTAAGAATTTTATTAAAT
1 -TATATTATGATTTTAATAAATTCATATAAGAATATTTAA-ACTAAGAATTTTATTAAAT
29449034 TATATT
1 TATATT
29449040 TAATAATAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 36
0.68 0.07 0.25
Matches are distributed among these distances:
55 3 0.03
56 11 0.11
57 3 0.03
58 11 0.11
59 19 0.19
60 10 0.10
61 13 0.13
62 11 0.11
63 3 0.03
64 11 0.11
65 3 0.03
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTTAATAAATTCATATAAGAATATTTAAACTAAGAATTTTATTAAAT
Found at i:29449109 original size:18 final size:17
Alignment explanation
Indices: 29449086--29449138 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
29449076 GTATATTATG
*
29449086 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
29449104 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
29449121 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
29449139 TTAATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:29449158 original size:26 final size:26
Alignment explanation
Indices: 29448924--29449066 Score: 97
Period size: 26 Copynumber: 5.6 Consensus size: 26
29448914 TATATATTTT
*
29448924 TATTAAATTATATTTAATAATTATTA
1 TATTAAATTATATTTAATAATAATTA
* * *
29448950 TTTTAAATTATATTTTATAGT-ATTA
1 TATTAAATTATATTTAATAATAATTA
29448975 TA-T--ATTATGATTT--TAATAAATTCA
1 TATTAAATTAT-ATTTAATAAT-AATT-A
* *
29448999 TA-TAAGA--ATATTTAACACTAAGAATTT
1 TATTAA-ATTATATTT-A-A-TAATAATTA
29449026 TATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATTTAATAATAATTA
*
29449052 TTTTAAATTATATTT
1 TATTAAATTATATTT
29449067 TATAGTATTG
Statistics
Matches: 92, Mismatches: 10, Indels: 30
0.70 0.08 0.23
Matches are distributed among these distances:
21 3 0.03
22 5 0.05
23 7 0.08
24 9 0.10
25 7 0.08
26 39 0.42
27 5 0.05
28 8 0.09
29 9 0.10
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TATTAAATTATATTTAATAATAATTA
Found at i:29449381 original size:46 final size:44
Alignment explanation
Indices: 29449298--29449390 Score: 132
Period size: 46 Copynumber: 2.1 Consensus size: 44
29449288 TTACAACATT
* *
29449298 ATTCCATTCAACTAAACAGAAGAATACTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTCC
* *
29449342 ATTCCATTCAACCGAACAAAAGGATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAA-GAATA-CTATTACGCCTCTATTCC
29449388 ATT
1 ATT
29449391 ACAGCGAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 18 0.42
45 4 0.09
46 21 0.49
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (44 bp):
ATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTCC
Found at i:29478354 original size:23 final size:22
Alignment explanation
Indices: 29478328--29478380 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
29478318 TTGAGAGTGA
*
29478328 AAAAGAAATT-GAAGAAAGAAGAG
1 AAAAGAAATTAGAA-AAAGAA-AC
29478351 AAAATG-AATTAGAAAAAGAAAC
1 AAAA-GAAATTAGAAAAAGAAAC
29478373 AAAAGAAA
1 AAAAGAAA
29478381 AAGACGTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.04
22 7 0.27
23 14 0.54
24 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAGAAATTAGAAAAAGAAAC
Found at i:29486462 original size:47 final size:47
Alignment explanation
Indices: 29486393--29486491 Score: 189
Period size: 47 Copynumber: 2.1 Consensus size: 47
29486383 CTTGTTTTTG
29486393 ATAATGCATGTGTGAGTGAATCTATAGACCGTCGATTAATGCATGGT
1 ATAATGCATGTGTGAGTGAATCTATAGACCGTCGATTAATGCATGGT
*
29486440 ATAATGCATGTGTGAGTGAATCTATGGACCGTCGATTAATGCATGGT
1 ATAATGCATGTGTGAGTGAATCTATAGACCGTCGATTAATGCATGGT
29486487 ATAAT
1 ATAAT
29486492 TATGCAACTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.32
Consensus pattern (47 bp):
ATAATGCATGTGTGAGTGAATCTATAGACCGTCGATTAATGCATGGT
Found at i:29486999 original size:30 final size:30
Alignment explanation
Indices: 29486943--29486999 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
29486933 TGGGCTCAAA
* **
29486943 TCAAGAAAATCAAGATTCACTTTCTTGTTT
1 TCAAGAAAATCAAGAATCACAATCTTGTTT
29486973 TCAAGAAAATCAAGAAATC-CAATCTTG
1 TCAAGAAAATCAAG-AATCACAATCTTG
29487000 GCCGAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 20 0.87
31 3 0.13
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (30 bp):
TCAAGAAAATCAAGAATCACAATCTTGTTT
Found at i:29487089 original size:30 final size:30
Alignment explanation
Indices: 29487033--29487089 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
29487023 ATTTCAAGAA
* **
29487033 TCAAGAAAATCAAGATTCACTTTCTTGTTT
1 TCAAGAAAATCAAGAATCACAATCTTGTTT
29487063 TCAAGAAAATCAAGAAATC-CAATCTTG
1 TCAAGAAAATCAAG-AATCACAATCTTG
29487090 GCCGAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 20 0.87
31 3 0.13
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (30 bp):
TCAAGAAAATCAAGAATCACAATCTTGTTT
Found at i:29487179 original size:30 final size:30
Alignment explanation
Indices: 29487123--29487179 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
29487113 ATTTCAAGAA
* **
29487123 TCAAGAAAATCAAGATTCACTTTCTTGTTT
1 TCAAGAAAATCAAGAATCACAATCTTGTTT
29487153 TCAAGAAAATCAAGAAATC-CAATCTTG
1 TCAAGAAAATCAAG-AATCACAATCTTG
29487180 GCCGAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 20 0.87
31 3 0.13
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (30 bp):
TCAAGAAAATCAAGAATCACAATCTTGTTT
Found at i:29487269 original size:30 final size:30
Alignment explanation
Indices: 29487213--29487269 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
29487203 ATTTCAAGAA
* **
29487213 TCAAGAAAATCAAGATTCACTTTCTTGTTT
1 TCAAGAAAATCAAGAATCACAATCTTGTTT
29487243 TCAAGAAAATCAAGAAATC-CAATCTTG
1 TCAAGAAAATCAAG-AATCACAATCTTG
29487270 GCCGAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 20 0.87
31 3 0.13
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (30 bp):
TCAAGAAAATCAAGAATCACAATCTTGTTT
Found at i:29487329 original size:90 final size:90
Alignment explanation
Indices: 29486941--29487319 Score: 758
Period size: 90 Copynumber: 4.2 Consensus size: 90
29486931 GATGGGCTCA
29486941 AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAATCCAATCTTGGCCGAA
1 AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAATCCAATCTTGGCCGAA
29487006 TTTTGCTGTTCGGAGCAATTTCAAG
66 TTTTGCTGTTCGGAGCAATTTCAAG
29487031 AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAATCCAATCTTGGCCGAA
1 AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAATCCAATCTTGGCCGAA
29487096 TTTTGCTGTTCGGAGCAATTTCAAG
66 TTTTGCTGTTCGGAGCAATTTCAAG
29487121 AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAATCCAATCTTGGCCGAA
1 AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAATCCAATCTTGGCCGAA
29487186 TTTTGCTGTTCGGAGCAATTTCAAG
66 TTTTGCTGTTCGGAGCAATTTCAAG
29487211 AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAATCCAATCTTGGCCGAA
1 AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAATCCAATCTTGGCCGAA
29487276 TTTTGCTGTTCGGAGCAATTTCAAG
66 TTTTGCTGTTCGGAGCAATTTCAAG
29487301 AATCAAGAAAATCAAGATT
1 AATCAAGAAAATCAAGATT
29487320 TCAAATCTTG
Statistics
Matches: 289, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 289 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (90 bp):
AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAATCCAATCTTGGCCGAA
TTTTGCTGTTCGGAGCAATTTCAAG
Found at i:29492256 original size:42 final size:42
Alignment explanation
Indices: 29492196--29492279 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
29492186 TCATACGAAG
* *
29492196 CAAATAGCAACGAGAGGTAGAAATAATATATTTATTTGTTAA
1 CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
29492238 CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
1 CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
29492280 AATATTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (42 bp):
CAAATAGCAACGACAGGTAGAAACAATATATTTATTTGTTAA
Found at i:29492852 original size:14 final size:15
Alignment explanation
Indices: 29492821--29492854 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
29492811 TGACATGTGT
29492821 AAATATGTTTTAAAA
1 AAATATGTTTTAAAA
29492836 AAATATGTTTTAAAA
1 AAATATGTTTTAAAA
29492851 AAAT
1 AAAT
29492855 TCATATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
AAATATGTTTTAAAA
Found at i:29496920 original size:943 final size:940
Alignment explanation
Indices: 29495420--29497302 Score: 3532
Period size: 943 Copynumber: 2.0 Consensus size: 940
29495410 ATTGAATCAA
29495420 TAGATGTTATTTTTTTATGAAAATAGATTTAATTCTATATCAAGACAATTATAACCACAACAATT
1 TAGATGTTATTTTTTTATGAAAATAGATTTAATTCTATATCAAGACAATTATAACCACAACAATT
29495485 GATTCATTCTTCAAATAAGAATGAGATTCCATTGGAACAAATTGATAATAATGATGAATCTTGTC
66 GATTCATTCTTCAAATAAGAATGAGATTCCATTGGAACAAATTGATAATAATGATGAATCTTGTC
29495550 AAGAATTAAGAAGTAAGAGGATTAAAAAGGTCAAAGATTTTGGACCAGATTTCATTATGTTTCAT
131 AAGAATTAAGAAGTAAGAGGATTAAAAAGGTCAAAGATTTTGGACCAGATTTCATTATGTTTCAT
29495615 GTAGAAGGAAAGGGTGAAAGTATATGCAATAAAATACCTTATTATTATAATACAAAATCTGATCC
196 GTAGAAGGAAAGGGTGAAAGTATATGCAATAAAATACCTTATTATTATAATACAAAATCTGATCC
29495680 TATTACATTTGAAGAGGTAATGAAATCCCAAGACTCTACTTTTTGGAAAGTAGTAATAAATGATG
261 TATTACATTTGAAGAGGTAATGAAATCCCAAGACTCTACTTTTTGGAAAGTAGTAATAAATGATG
29495745 AGATGGATTTAATAATGGGAAATCAAACTTGGATCTTAGTTGATCTTCTACCGGGTTCCAAACCA
326 AGATGGATTTAATAATGGGAAATCAAACTTGGATCTTAGTTGATCTTCTACCGGGTTCCAAACCA
29495810 ATAGGTTGTAAATGTATCTTCAAAAAGAAAATTAAGGTCGATGGAACCATTGATAAATTTAAAGC
391 ATAGGTTGTAAATGTATCTTCAAAAAGAAAATTAAGGTCGATGGAACCATTGATAAATTTAAAGC
*
29495875 AAGGTTGGTAGCCAAAGGTTTTACACAAAAACAAGGTATCAATTACTTTGATACCTATGCTCCAG
456 AAGGTTGGTAGCAAAAGGTTTTACACAAAAACAAGGTATCAATTACTTTGATACCTATGCTCCAG
*
29495940 TAGCAAGAATTGCTACAATTAGACTCTTAATATCACTTACCTCTATATATAATTTGGTTGTTCAC
521 TAGCAAGAATTGCTACAATTAGACTATTAATATCACTTACCTCTATATATAATTTGGTTGTTCAC
29496005 CAAATGGATGTTAAAACTGCATTTTTAAATGGAGAATTGGAAGAGGAAGTGTACATGGAACAACC
586 CAAATGGATGTTAAAACTGCATTTTTAAATGGAGAATTGGAAGAGGAAGTGTACATGGAACAACC
*
29496070 GGAAGGATTTATTGTTTCAGGACAAGAGCATAAGGTATGTAAGCTTGTTAAATATTTATATGGAC
651 GGAAGGATTTATTGTTCCAGGACAAGAGCATAAGGTATGTAAGCTTGTTAAATATTTATATGGAC
29496135 TTAAACAAGCACCAAAACAATGACACCAAAAGTTTGACAAGGTTGTTTTAGCTAATGGCTATAAA
716 TTAAACAAGCACCAAAACAATGACACCAAAAGTTTGACAAGGTTGTTTTAGCTAATGGCTATAAA
29496200 ATAAATGAATCCGATAAGTGCATACATAGCAAATTTAAAAATGGAAAAGGTCTTATAATTTGCTT
781 ATAAATGAATCCGATAAGTGCATACATAGCAAATTTAAAAATGGAAAAGGTCTTATAATTTGCTT
29496265 ATATGTAGATGACATGAGAATTTTTGGCACGAATTTCGAACAAATAGAAAACACAAAGAAATTCT
846 ATATGTAGATGACATGAGAATTTTTGGCACGAATTTCGAACAAATAGAAAACACAAAGAAATTCT
29496330 TGTCAAACAACTTTGCTATGAAGGATATGG
911 TGTCAAACAACTTTGCTATGAAGGATATGG
29496360 TAGATGTTATTTTTTTATGAAAATAGATTTAATTCTATATCAAGACAATTATAACCACAACAATT
1 TAGATGTTATTTTTTTATGAAAATAGATTTAATTCTATATCAAGACAATTATAACCACAACAATT
29496425 GATTCATTCTTCAAATAAGAATGAGATTCCATTGGAACAAATTGATAATAATGATGAATCTTGTC
66 GATTCATTCTTCAAATAAGAATGAGATTCCATTGGAACAAATTGATAATAATGATGAATCTTGTC
29496490 AAGAATTAAGAAGAAGTAAGAGGATTAAAAAGGTCAAAGATTTTGGACCAGATTTCATTATGTTT
131 AAGAATT---AAGAAGTAAGAGGATTAAAAAGGTCAAAGATTTTGGACCAGATTTCATTATGTTT
29496555 CATGTAGAAGGAAAGGGTGAAAGTATATGCAATAAAATACCTTATTATTATAATACAAAATCTGA
193 CATGTAGAAGGAAAGGGTGAAAGTATATGCAATAAAATACCTTATTATTATAATACAAAATCTGA
29496620 TCCTATTACATTTGAAGAGGTAATGAAATCCCAAGACTCTACTTTTTGGAAAGTAGTAATAAATG
258 TCCTATTACATTTGAAGAGGTAATGAAATCCCAAGACTCTACTTTTTGGAAAGTAGTAATAAATG
29496685 ATGAGATGGATTTAATAATGGGAAATCAAACTTGGATCTTAGTTGATCTTCTACCGGGTTCCAAA
323 ATGAGATGGATTTAATAATGGGAAATCAAACTTGGATCTTAGTTGATCTTCTACCGGGTTCCAAA
29496750 CCAATAGGTTGTAAATGTATCTTCAAAAAGAAAATTAAGGTCGATGGAACCATTGATAAATTTAA
388 CCAATAGGTTGTAAATGTATCTTCAAAAAGAAAATTAAGGTCGATGGAACCATTGATAAATTTAA
* **
29496815 AGCAAGGTTGGTAGCAAAAGGTTTTACACAAAGACAAGGTATTGATTACTTTGATACCTATGCTC
453 AGCAAGGTTGGTAGCAAAAGGTTTTACACAAAAACAAGGTATCAATTACTTTGATACCTATGCTC
29496880 CAGTAGCAAGAATTGCTACAATTAGACTATTAATATCACTTACCTCTATATATAATTTGGTTGTT
518 CAGTAGCAAGAATTGCTACAATTAGACTATTAATATCACTTACCTCTATATATAATTTGGTTGTT
* *
29496945 CACCAAATGGATGTTAAAACTGCATTTTTAAATGGTGAATTGGAAGAGGAAGTGTACATGGAGCA
583 CACCAAATGGATGTTAAAACTGCATTTTTAAATGGAGAATTGGAAGAGGAAGTGTACATGGAACA
* *
29497010 ACCGGAAGGATTTGTTGTTCCAGGACAAGAGCATAAGGTATGTAAGCTTGTTAAATCTTTATATG
648 ACCGGAAGGATTTATTGTTCCAGGACAAGAGCATAAGGTATGTAAGCTTGTTAAATATTTATATG
* *
29497075 GGCTTAAACAAGCACCAAAACAATGGCACCAAAAGTTTGACAAGGTTGTTTTAGCTAATGGCTAT
713 GACTTAAACAAGCACCAAAACAATGACACCAAAAGTTTGACAAGGTTGTTTTAGCTAATGGCTAT
* * * * * *
29497140 AAAATAAATGAATCCGATAAGTGCATATATAGTAAATTTGATAATGGAAAGGGTGTTATAATTTG
778 AAAATAAATGAATCCGATAAGTGCATACATAGCAAATTTAAAAATGGAAAAGGTCTTATAATTTG
*** * *
29497205 CTTATATGTAGATGACATGCTCATTTTTGGCACGGATTTGGAACAAATAGAAAACACAAAGAAAT
843 CTTATATGTAGATGACATGAGAATTTTTGGCACGAATTTCGAACAAATAGAAAACACAAAGAAAT
29497270 TCTTGTCAAACAACTTTGCTATGAAGGATATGG
908 TCTTGTCAAACAACTTTGCTATGAAGGATATGG
29497303 GTGTAGCAGA
Statistics
Matches: 917, Mismatches: 23, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
940 137 0.15
943 780 0.85
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (940 bp):
TAGATGTTATTTTTTTATGAAAATAGATTTAATTCTATATCAAGACAATTATAACCACAACAATT
GATTCATTCTTCAAATAAGAATGAGATTCCATTGGAACAAATTGATAATAATGATGAATCTTGTC
AAGAATTAAGAAGTAAGAGGATTAAAAAGGTCAAAGATTTTGGACCAGATTTCATTATGTTTCAT
GTAGAAGGAAAGGGTGAAAGTATATGCAATAAAATACCTTATTATTATAATACAAAATCTGATCC
TATTACATTTGAAGAGGTAATGAAATCCCAAGACTCTACTTTTTGGAAAGTAGTAATAAATGATG
AGATGGATTTAATAATGGGAAATCAAACTTGGATCTTAGTTGATCTTCTACCGGGTTCCAAACCA
ATAGGTTGTAAATGTATCTTCAAAAAGAAAATTAAGGTCGATGGAACCATTGATAAATTTAAAGC
AAGGTTGGTAGCAAAAGGTTTTACACAAAAACAAGGTATCAATTACTTTGATACCTATGCTCCAG
TAGCAAGAATTGCTACAATTAGACTATTAATATCACTTACCTCTATATATAATTTGGTTGTTCAC
CAAATGGATGTTAAAACTGCATTTTTAAATGGAGAATTGGAAGAGGAAGTGTACATGGAACAACC
GGAAGGATTTATTGTTCCAGGACAAGAGCATAAGGTATGTAAGCTTGTTAAATATTTATATGGAC
TTAAACAAGCACCAAAACAATGACACCAAAAGTTTGACAAGGTTGTTTTAGCTAATGGCTATAAA
ATAAATGAATCCGATAAGTGCATACATAGCAAATTTAAAAATGGAAAAGGTCTTATAATTTGCTT
ATATGTAGATGACATGAGAATTTTTGGCACGAATTTCGAACAAATAGAAAACACAAAGAAATTCT
TGTCAAACAACTTTGCTATGAAGGATATGG
Found at i:29511821 original size:16 final size:15
Alignment explanation
Indices: 29511794--29511827 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
29511784 ATAACTAGTA
*
29511794 TATAATTATATTTAT
1 TATAATTATATTAAT
29511809 TATAATATATATTAAT
1 TATAAT-TATATTAAT
29511825 TAT
1 TAT
29511828 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:29514274 original size:19 final size:19
Alignment explanation
Indices: 29514250--29514288 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
29514240 GTTCGTATGG
29514250 TTAAACTTTAAAGTTTATA
1 TTAAACTTTAAAGTTTATA
29514269 TTAAACTTTAAAGTTTATA
1 TTAAACTTTAAAGTTTATA
29514288 T
1 T
29514289 ATATGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAAACTTTAAAGTTTATA
Found at i:29514620 original size:42 final size:43
Alignment explanation
Indices: 29514550--29514677 Score: 172
Period size: 42 Copynumber: 3.0 Consensus size: 43
29514540 TGAGTTTTCG
* * * *
29514550 TTCAACCCTTACGGGTTT-TCGTTCAGCTCTTTTGAGCTTCTGT
1 TTCAACCCTTATGGGTTTCT-TTTTAGCTCTTATGAGCTTCTGT
* *
29514593 TT-AACCCTTATGGGTTTCTTTTTAGCTCTTACGAGCTT-TAT
1 TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
29514634 TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
1 TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
29514677 T
1 T
29514678 CAGCCTTCGG
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.05
42 64 0.86
43 6 0.08
ACGTcount: A:0.14, C:0.22, G:0.16, T:0.48
Consensus pattern (43 bp):
TTCAACCCTTATGGGTTTCTTTTTAGCTCTTATGAGCTTCTGT
Found at i:29514674 original size:21 final size:21
Alignment explanation
Indices: 29514574--29514674 Score: 78
Period size: 21 Copynumber: 4.8 Consensus size: 21
29514564 GTTTTCGTTC
* *
29514574 AGCTCTTTTGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTTTTT
* * * *
29514595 AACCCTTATGGGTTTCTTTTT
1 AGCTCTTATGAGCTTCTTTTT
* *
29514616 AGCTCTTACGAGCTT-TATTTC
1 AGCTCTTATGAGCTTCT-TTTT
* * * *
29514637 AACCCTTATGGGTTTCTTTTT
1 AGCTCTTATGAGCTTCTTTTT
29514658 AGCTCTTATGAGCTTCT
1 AGCTCTTATGAGCTTCT
29514675 GTTCAGCCTT
Statistics
Matches: 56, Mismatches: 22, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
20 1 0.02
21 54 0.96
22 1 0.02
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.49
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTTTTT
Found at i:29516248 original size:25 final size:22
Alignment explanation
Indices: 29516200--29516248 Score: 53
Period size: 25 Copynumber: 2.1 Consensus size: 22
29516190 CATACTTCCA
**
29516200 GAACATAAAAAATTAGAATTTT
1 GAACATAAAAAATTAGAAAATT
29516222 GAACATAATAAAAGCTTAGAAAATT
1 GAACATAA-AAAA--TTAGAAAATT
29516247 GA
1 GA
29516249 GTAATAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 4 0.18
25 10 0.45
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (22 bp):
GAACATAAAAAATTAGAAAATT
Found at i:29521780 original size:43 final size:43
Alignment explanation
Indices: 29521691--29521816 Score: 141
Period size: 43 Copynumber: 2.9 Consensus size: 43
29521681 AGCTCGTACA
* *
29521691 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATACTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATACTG
*
29521734 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACATACT-G
* * * *
29521777 ATGCCGACATCCCAAACGTGGTCTTACACGAAAACACATA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATA
29521817 TCGGAGTCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
42 5 0.07
43 62 0.87
44 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATACTG
Found at i:29524003 original size:21 final size:21
Alignment explanation
Indices: 29523979--29524023 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
29523969 AGATAGGGAG
29523979 TGACACTTACAATTTCATTAT
1 TGACACTTACAATTTCATTAT
*
29524000 TGACACTTACAATTTTATTAT
1 TGACACTTACAATTTCATTAT
29524021 TGA
1 TGA
29524024 TAAAGGTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (21 bp):
TGACACTTACAATTTCATTAT
Done.