Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 195 of 206
Found at i:58996528 original size:17 final size:17
Alignment explanation
Indices: 58996494--58996528 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58996484 AAGTTTGTCT
* *
58996494 AACATAAATGGTAGAGC
1 AACATAAATGGCACAGC
58996511 AACATAAATGGCACAGC
1 AACATAAATGGCACAGC
58996528 A
1 A
58996529 CATGGCTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.17, G:0.20, T:0.14
Consensus pattern (17 bp):
AACATAAATGGCACAGC
Found at i:58997082 original size:2 final size:2
Alignment explanation
Indices: 58997075--58997116 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
58997065 TTAGTACTCA
58997075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58997117 TGCAAAGGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58998336 original size:2 final size:2
Alignment explanation
Indices: 58998331--58998370 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
58998321 ATTTCTCGCC
58998331 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
58998371 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:59005949 original size:22 final size:23
Alignment explanation
Indices: 59005905--59005950 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
59005895 TGACATCCAC
59005905 TTTTTTTTTATGACTGTCCCTGCA
1 TTTTTTTTTATGACTGT-CCTGCA
59005929 TTTTTTTGTTATGA-TGT-CTGCA
1 TTTTTTT-TTATGACTGTCCTGCA
59005951 GTATGATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.24
24 10 0.48
25 6 0.29
ACGTcount: A:0.13, C:0.15, G:0.15, T:0.57
Consensus pattern (23 bp):
TTTTTTTTTATGACTGTCCTGCA
Found at i:59008894 original size:2 final size:2
Alignment explanation
Indices: 59008887--59008917 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59008877 AATAATCTTT
59008887 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
59008918 TGTATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:59019201 original size:6 final size:6
Alignment explanation
Indices: 59019192--59019218 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
59019182 ATTTATATTT
59019192 ATTATA ATTATA ATTATA ATTATA ATT
1 ATTATA ATTATA ATTATA ATTATA ATT
59019219 TTTTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTATA
Found at i:59026094 original size:3 final size:3
Alignment explanation
Indices: 59026086--59026120 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
59026076 AGATAAAGAC
59026086 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
59026121 AATGTGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:59027833 original size:13 final size:13
Alignment explanation
Indices: 59027787--59027841 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
59027777 AATTTCTTAA
59027787 AAAATATCTTTAT
1 AAAATATCTTTAT
59027800 AAACAATATC--TACT
1 -AA-AATATCTTTA-T
*
59027814 TAAATATCTTTAT
1 AAAATATCTTTAT
59027827 AAAATATCTTTAT
1 AAAATATCTTTAT
59027840 AA
1 AA
59027842 GAAAAGGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 6 0.17
13 18 0.51
14 5 0.14
15 6 0.17
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATATCTTTAT
Found at i:59041043 original size:6 final size:6
Alignment explanation
Indices: 59041032--59041063 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
59041022 CTACTACACT
59041032 TAAATA TAAATA TAAATA TAAATA TAAATA TA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TA
59041064 TGTACAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TAAATA
Found at i:59041962 original size:77 final size:76
Alignment explanation
Indices: 59041856--59042005 Score: 239
Period size: 77 Copynumber: 2.0 Consensus size: 76
59041846 ACTTACATTA
* *
59041856 TATATTGAGAATGTAATCCATAAATATATGAGTTGACTTTATGATCTTTTGTATCATTATATTAA
1 TATATTGAGAACGCAATCCATAAATATATGAGTTGACTTTATGATCTTTTGTATCATTATATTAA
59041921 GGATAATTTAT
66 GGATAATTTAT
* *
59041932 TATATTGAGATACGCAATCTATGAAA-ATATGAGTTGATTTTATGATCTTTTGTATCATTATATT
1 TATATTGAGA-ACGCAATCCAT-AAATATATGAGTTGACTTTATGATCTTTTGTATCATTATATT
59041996 AAGGATAATT
64 AAGGATAATT
59042006 GATTTGATAA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
76 10 0.15
77 55 0.81
78 3 0.04
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (76 bp):
TATATTGAGAACGCAATCCATAAATATATGAGTTGACTTTATGATCTTTTGTATCATTATATTAA
GGATAATTTAT
Found at i:59042788 original size:20 final size:19
Alignment explanation
Indices: 59042765--59042833 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 19
59042755 AATACAAAAT
59042765 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTT-AAA
*
59042785 AATTTAAAATAATTTTTAAA
1 AATTCAAAATAA-TTTTAAA
*
59042805 AA-ACAAAAT-ATTTATAAA
1 AATTCAAAATAATTT-TAAA
59042823 AATTCTAAAAT
1 AATTC-AAAAT
59042834 TTATATTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 3 0.07
18 7 0.17
19 6 0.15
20 21 0.51
21 4 0.10
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:59042812 original size:19 final size:20
Alignment explanation
Indices: 59042769--59042849 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
59042759 CAAAATAATT
* *
59042769 CAAAATAATTTTCAAAAATT
1 CAAAATAATTTTTAAAAATA
*
59042789 TAAAATAATTTTTAAAAA-A
1 CAAAATAATTTTTAAAAATA
* *
59042808 CAAAAT-ATTTATAAAAATT
1 CAAAATAATTTTTAAAAATA
59042827 CTAAAATTTATATTTTTAAAAAT
1 C-AAAA--TA-ATTTTTAAAAAT
59042850 TATAAAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
18 10 0.21
19 6 0.12
20 20 0.42
22 1 0.02
24 11 0.23
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
CAAAATAATTTTTAAAAATA
Found at i:59045412 original size:18 final size:19
Alignment explanation
Indices: 59045374--59045427 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
59045364 AATACAAAAT
59045374 AATTCAAAATCATTT-TAAA
1 AATTCAAAAT-ATTTATAAA
59045393 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
*
59045412 AATTCCAAA-ATTTATA
1 AATTCAAAATATTTATA
59045428 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 11 0.33
19 22 0.67
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:59047360 original size:3 final size:3
Alignment explanation
Indices: 59047352--59047382 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
59047342 ACTGTTTCTA
*
59047352 TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
59047383 CTACATACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:59048246 original size:3 final size:3
Alignment explanation
Indices: 59048238--59048317 Score: 108
Period size: 3 Copynumber: 26.3 Consensus size: 3
59048228 TAGTCCCTTT
* * *
59048238 TTA TTA TTA TTA TT- TAA CTAA TTA GTTA TTA TTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA
59048284 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
59048318 CATTTACTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
2 1 0.01
3 63 0.90
4 6 0.09
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:59060850 original size:3 final size:3
Alignment explanation
Indices: 59060842--59060882 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
59060832 TCATTCTCAA
59060842 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
59060883 AATTCTGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:59061076 original size:43 final size:43
Alignment explanation
Indices: 59061027--59061310 Score: 195
Period size: 43 Copynumber: 6.6 Consensus size: 43
59061017 GAATATTAGA
59061027 GATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAC
1 GATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAC
* * ** ** * * *
59061070 TATCCTATCTCCCTGA-AGTTACAGTGGAGTGGATTAAAATAAAG
1 GATCCTATCTCCCTGAGA-TTACAGCGGAGCAGA-TCGAAGACAC
* * * * *
59061114 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC-ACA-TCA-
1 GATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGA-AGACAC
* * * * * * *
59061155 GGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTC
1 GATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---C
* *
59061200 AGATCTTATCTCCCTGAGATTACAGCGGAGCATATCGAAGACAC
1 -GATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAC
* * *
59061244 TATTCTATCTCCCTGAGATTGCAGCGGAGCAGATCGAAGACAC
1 GATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAC
*
59061287 TATCCTATCTCCCTGA-AGTTACAG
1 GATCCTATCTCCCTGAGA-TTACAG
59061311 TAGAGTGGAT
Statistics
Matches: 190, Mismatches: 38, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
41 31 0.16
42 5 0.03
43 87 0.46
44 33 0.17
46 33 0.17
47 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (43 bp):
GATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAC
Found at i:59061130 original size:44 final size:41
Alignment explanation
Indices: 59061075--59061187 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 41
59061065 GACACTATCC
* *
59061075 TATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCT
1 TATCTCTCTGAAGTTACAGTGGAGTAGA-TAAAAT-AAGG-TCT
** * * *
59061119 TATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGGTCT
1 TATCTCTCTGAAGTTACAGTGGAGTAGATAAAATAAGGTCT
*
59061160 TATCTCTCTGAGGTTACAGTGGAGTAGA
1 TATCTCTCTGAAGTTACAGTGGAGTAGA
59061188 CCGAAGAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 28 0.47
42 3 0.05
43 4 0.07
44 24 0.41
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (41 bp):
TATCTCTCTGAAGTTACAGTGGAGTAGATAAAATAAGGTCT
Found at i:59061224 original size:46 final size:45
Alignment explanation
Indices: 59061026--59061501 Score: 189
Period size: 44 Copynumber: 10.9 Consensus size: 45
59061016 TGAATATTAG
* * *
59061026 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A--C
1 AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATTC
* * * * **
59061068 ACTATCCTATCTCCCTGA-AGTTACAGTGGAGTGGAT-TAA-AATAA
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATCGAAGAATTC
* ** *
59061112 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC--A-CA-TC
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATCGAAGAATTC
* * * *
59061154 AGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAA-TTC
* * * *
59061200 AGATCTTATCTCCCTGAGATTACAGCGGAGCATATCGAAGACACT-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGA-ATTC
* * * *
59061245 A-TTC-TATCTCCCTGAGATTGCAGCGGAGCAGATCGAAG-A--C
1 AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATTC
* * * * * **
59061285 ACTATCCTATCTCCCTGA-AGTTACAGTAGAGTGGAT-TAA-AATAA
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATCGAAGAATTC
* ** *
59061329 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC---GCA-TC
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATCGAAGAATTC
* * *
59061371 ATG-TCTTATCTCCCTGGGGTTACAGTGGAGTAGACCGAAGAATTTC
1 A-GATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAA-TTC
* * * * * **
59061417 AGATCTCATCTCCCTGAGGTTACAGTGGTA-CAGATTGAAG-CTAG
1 AGATCTTATCTCCCTGAGATTACAGTGG-AGTAGATCGAAGAATTC
* ** *
59061461 AGATCTTATCTTCCTGAGATTACAACGGAGCAGATCGAAGA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGA
59061502 TANNNNNNNN
Statistics
Matches: 329, Mismatches: 72, Indels: 63
0.71 0.16 0.14
Matches are distributed among these distances:
40 1 0.00
41 56 0.17
42 14 0.04
43 87 0.26
44 97 0.29
45 2 0.01
46 70 0.21
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (45 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATTC
Found at i:59061406 original size:217 final size:217
Alignment explanation
Indices: 59061031--59061501 Score: 750
Period size: 217 Copynumber: 2.2 Consensus size: 217
59061021 ATTAGAGATC
*
59061031 CTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTG
1 CTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTA
59061096 GAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGGTCTT
66 GAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGGTCTT
* *
59061161 ATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGC
131 ATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTCATCTCCCTGAGATTACAGC
59061226 GGAGCATATCGAAGACACTATT
196 GGAGCATATCGAAGACACTATT
*
59061248 CTATCTCCCTGAGATTGCAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTA
1 CTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTA
* *
59061313 GAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCATGTCTT
66 GAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGGTCTT
* * *
59061378 ATCTCCCTGGGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTCATCTCCCTGAGGTTACAGT
131 ATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTCATCTCCCTGAGATTACAGC
* * * *
59061443 GGTA-CAGATTGAAG-CTA-GAGAT
196 GG-AGCATATCGAAGAC-ACTA-TT
* *
59061465 CTTATCTTCCTGAGATTACAACGGAGCAGATCGAAGA
1 C-TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA
59061502 TANNNNNNNN
Statistics
Matches: 234, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
216 2 0.01
217 199 0.85
218 33 0.14
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (217 bp):
CTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTA
GAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGGTCTT
ATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTCATCTCCCTGAGATTACAGC
GGAGCATATCGAAGACACTATT
Found at i:59064533 original size:28 final size:28
Alignment explanation
Indices: 59064490--59064868 Score: 427
Period size: 28 Copynumber: 13.6 Consensus size: 28
59064480 NNNNNGGGTA
*
59064490 AGGGTTTTTAAGTAAATTAAGTTAGGTT
1 AGGGTTTTTAATTAAATTAAGTTAGGTT
* *
59064518 AGGGTTTTTAATTAAATTAGGTTAGGGTA
1 AGGGTTTTTAATTAAATTAAGTTA-GGTT
*
59064547 AGGGTTTTTAATTAAATTAAGTTAAGTT
1 AGGGTTTTTAATTAAATTAAGTTAGGTT
* *
59064575 AGGGTTTTTAATTAAATTAAATTATGTT
1 AGGGTTTTTAATTAAATTAAGTTAGGTT
*
59064603 AGGGTTTTTAATTAAATTAAATTAGGTT
1 AGGGTTTTTAATTAAATTAAGTTAGGTT
* *
59064631 AGGGTTTTTAATTAAATTAAATGAGGTT
1 AGGGTTTTTAATTAAATTAAGTTAGGTT
59064659 AGGGTTTTTAATT--A--AA-TTAGGTT
1 AGGGTTTTTAATTAAATTAAGTTAGGTT
* ***
59064682 AGGGTTTTTACTTAAAAGCCCA-TTAGGTT
1 AGGGTTTTTAATT-AAA-TTAAGTTAGGTT
* * *
59064711 AGAGTTTTTAATTAATTTAGGTTAGGTT
1 AGGGTTTTTAATTAAATTAAGTTAGGTT
*
59064739 AGGGTTTTTAATTAAATTAATTTAGGTT
1 AGGGTTTTTAATTAAATTAAGTTAGGTT
*
59064767 A-GGTTAGGGTTT--TT-AATTAAGTTAAGTT
1 AGGGTT----TTTAATTAAATTAAGTTAGGTT
* *
59064795 AGGGTTTTTAATTAAATTAGGTTAGGATA
1 AGGGTTTTTAATTAAATTAAGTTAGG-TT
59064824 AGGGTTTTTAATTAAATTAAGTTAGGTT
1 AGGGTTTTTAATTAAATTAAGTTAGGTT
*
59064852 AGGGTTTTTAATCAAAT
1 AGGGTTTTTAATTAAAT
59064869 AATGTCAAAA
Statistics
Matches: 302, Mismatches: 32, Indels: 34
0.82 0.09 0.09
Matches are distributed among these distances:
23 18 0.06
24 2 0.01
25 3 0.01
26 2 0.01
27 6 0.02
28 191 0.63
29 77 0.25
31 3 0.01
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.45
Consensus pattern (28 bp):
AGGGTTTTTAATTAAATTAAGTTAGGTT
Found at i:59064757 original size:33 final size:33
Alignment explanation
Indices: 59064720--59064797 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
59064710 TAGAGTTTTT
59064720 AATTAATTTAGGTTAGGTTAGGGTTTTTAATTA
1 AATTAATTTAGGTTAGGTTAGGGTTTTTAATTA
59064753 AATTAATTTAGGTTAGGTTAGGGTTTTTAATTA
1 AATTAATTTAGGTTAGGTTAGGGTTTTTAATTA
* *
59064786 AGTTAAGTTAGG
1 AATTAATTTAGG
59064798 GTTTTTAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (33 bp):
AATTAATTTAGGTTAGGTTAGGGTTTTTAATTA
Found at i:59064795 original size:23 final size:23
Alignment explanation
Indices: 59064755--59064820 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
59064745 TTTAATTAAA
*
59064755 TTAATTTAGGTTAGGTTAGGGTTT
1 TTAA-TTAAGTTAGGTTAGGGTTT
*
59064779 TTAATTAAGTTAAGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTT
*
59064802 TTAATTAAATTAGGTTAGG
1 TTAATTAAGTTAGGTTAGG
59064821 ATAAGGGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
23 34 0.89
24 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (23 bp):
TTAATTAAGTTAGGTTAGGGTTT
Found at i:59064831 original size:113 final size:111
Alignment explanation
Indices: 59064486--59064868 Score: 453
Period size: 113 Copynumber: 3.4 Consensus size: 111
59064476 NNNNNNNNNG
* *
59064486 GGTAAGGGTTTTTAAGTAAATTAAGTTAGGTTAGGGTTTTTAATT--A--AATTAGGTTAGGGTA
1 GGTAAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAATTAGGTTA-GGTT
*
59064547 AGGGTTTTTAATTAAATTAAGTTAAGTTAGGGTTTTTAATTAAATTAAATTA
65 AGGG--TTT--TT-AATTAAGTTAAGTTAGGGTTTTTAATTAAATTAGATTA
* * * *
59064599 TGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAA--A--TGAGGTTA
1 GGTAAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAATTAGGTTAGGTTA
* * *
59064660 GGGTTTTTAATTAAATTAGGTTAGGGTTTTTACTTAAA--AGCCCATTA
66 GGGTTTTTAATTAAGTTAAGTTAGGGTTTTTAATTAAATTAG---ATTA
* * * *
59064707 GGTTAGAGTTTTTAATTAATTTAGGTTAGGTTAGGGTTTTTAATTAAATTAATTTAGGTTAGGTT
1 GGTAAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAA-TTAGGTTAGGTT
*
59064772 AGGGTTTTTAATTAAGTTAAGTTAGGGTTTTTAATTAAATTAGGTTA
65 AGGGTTTTTAATTAAGTTAAGTTAGGGTTTTTAATTAAATTAGATTA
*
59064819 GGATAAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATCAAAT
1 GG-TAAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAAT
59064869 AATGTCAAAA
Statistics
Matches: 230, Mismatches: 25, Indels: 30
0.81 0.09 0.11
Matches are distributed among these distances:
105 1 0.00
107 27 0.12
108 53 0.23
110 3 0.01
111 1 0.00
112 12 0.05
113 127 0.55
115 4 0.02
117 2 0.01
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.45
Consensus pattern (111 bp):
GGTAAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAATTAGGTTAGGTTA
GGGTTTTTAATTAAGTTAAGTTAGGGTTTTTAATTAAATTAGATTA
Found at i:59064848 original size:136 final size:132
Alignment explanation
Indices: 59064504--59064868 Score: 384
Period size: 136 Copynumber: 2.6 Consensus size: 132
59064494 TTTTTAAGTA
*
59064504 AATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTAAGGGTTTTTAATTAAATTAAGT
1 AATTAAGTTAAGTTAGGGTTTTTAATTAAATTAGGTTA-GGTAAGGGTTTTTAATTAAATTAAGT
*
59064569 TAAGTTAGGGTTTTTAATTAAATTAAATTATGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGG
65 T-AG-TA-GGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGG
59064634 GTTTTT
127 GTTTTT
* *
59064640 AATTAAATTAAATGAGGTTAGGGTTTTTAATTAAATTAGG-T---T-AGGGTTTTTACTTAAAAG
1 AATTAAGTT--A--A-GTTAGGGTTTTTAATTAAATTAGGTTAGGTAAGGGTTTTTAATT--AA-
* * **
59064700 CCCATTAGGTTAG-A-GTTTTTAATTAATTTAGGTTAGGTTAGGGTTTTTAATTAAATTAATTTA
58 ---ATTAAGTTAGTAGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAA---A
59064763 GGTTAGGTTAGGGTTTTT
117 --TTAGGTTAGGGTTTTT
59064781 AATTAAGTTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGATAAGGGTTTTTAATTAAATTAAGT
1 AATTAAGTTAAGTTAGGGTTTTTAATTAAATTAGGTTAGG-TAAGGGTTTTTAATTAAATTAAGT
*
59064846 TAGGTTAGGGTTTTTAATCAAAT
65 TA-G-TA-GGTTTTTAATTAAAT
59064869 AATGTCAAAA
Statistics
Matches: 189, Mismatches: 13, Indels: 49
0.75 0.05 0.20
Matches are distributed among these distances:
135 12 0.06
136 82 0.43
137 5 0.03
138 2 0.01
139 3 0.02
140 5 0.03
141 68 0.36
142 12 0.06
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (132 bp):
AATTAAGTTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGTAAGGGTTTTTAATTAAATTAAGTT
AGTAGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
TT
Found at i:59068668 original size:11 final size:10
Alignment explanation
Indices: 59068652--59068678 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
59068642 TATGGTTTGT
59068652 AAAAAAATAA
1 AAAAAAATAA
59068662 AAAAAAATAA
1 AAAAAAATAA
59068672 AAAAAAA
1 AAAAAAA
59068679 GAAGTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:59069732 original size:24 final size:23
Alignment explanation
Indices: 59069707--59069751 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
59069697 TTGAGCGAGA
59069707 AAAGAACA-AAGAAAATGAAAATG
1 AAAGAA-AGAAGAAAATGAAAATG
59069730 AAAGAAATGAAGAAAATGAAAA
1 AAAGAAA-GAAGAAAATGAAAA
59069752 AGATGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 6 0.30
24 13 0.65
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (23 bp):
AAAGAAAGAAGAAAATGAAAATG
Found at i:59069811 original size:12 final size:12
Alignment explanation
Indices: 59069794--59069866 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
59069784 GTGAAAAGCG
59069794 AAAAGAGATTGA
1 AAAAGAGATTGA
*
59069806 AAAAGAAATTGA
1 AAAAGAGATTGA
59069818 AAAAGA-A--GA
1 AAAAGAGATTGA
*
59069827 AAAAGAAAGAGTGGA
1 AAAAG--AGA-TTGA
*
59069842 AAAAGAAATTGA
1 AAAAGAGATTGA
* *
59069854 AAGAGAGCTTGA
1 AAAAGAGATTGA
59069866 A
1 A
59069867 CAGAAATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 7 0.14
11 2 0.04
12 31 0.63
13 2 0.04
15 7 0.14
ACGTcount: A:0.62, C:0.01, G:0.25, T:0.12
Consensus pattern (12 bp):
AAAAGAGATTGA
Found at i:59074135 original size:14 final size:15
Alignment explanation
Indices: 59074118--59074151 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
59074108 AATAAATATC
59074118 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
59074132 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
59074147 TAAAA
1 TAAAA
59074152 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:59074378 original size:22 final size:22
Alignment explanation
Indices: 59074348--59074389 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59074338 ATTTGGAGAT
*
59074348 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
59074370 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
59074390 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:59074420 original size:22 final size:23
Alignment explanation
Indices: 59074390--59074460 Score: 94
Period size: 22 Copynumber: 3.2 Consensus size: 23
59074380 AATTTGAGAG
59074390 TTTGAGAGAA-TTTTGAAAGGAA
1 TTTGAGAGAATTTTTGAAAGGAA
* *
59074412 TTTGGGAGAATTTTTGAACGGAA
1 TTTGAGAGAATTTTTGAAAGGAA
59074435 -TTGAGAGAATTTTTG-AAGGAA
1 TTTGAGAGAATTTTTGAAAGGAA
*
59074456 ATTGA
1 TTTGA
59074461 TATTTAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.12
22 27 0.63
23 11 0.26
ACGTcount: A:0.37, C:0.01, G:0.28, T:0.34
Consensus pattern (23 bp):
TTTGAGAGAATTTTTGAAAGGAA
Found at i:59076440 original size:31 final size:30
Alignment explanation
Indices: 59076390--59076455 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
59076380 ACTGTTAACC
59076390 AGTGACTATTTTATCATTTTTTTATAAAGTT-
1 AGTGACTATTTTATCA-TTTTTTA-AAAGTTG
* * *
59076421 AGTGACTGTTTTGTTATTTTTTAAAAGTTG
1 AGTGACTATTTTATCATTTTTTAAAAGTTG
59076451 AGTGA
1 AGTGA
59076456 TTGAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 6 0.19
30 12 0.39
31 13 0.42
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.52
Consensus pattern (30 bp):
AGTGACTATTTTATCATTTTTTAAAAGTTG
Found at i:59089498 original size:20 final size:19
Alignment explanation
Indices: 59089471--59089531 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 19
59089461 AAAGGGTGAG
59089471 AAATAAAA-TTTTAGGGGGA
1 AAATAAAAGTTTT-GGGGGA
59089490 AAATAAAAAGTTTT-GGGG-
1 AAAT-AAAAGTTTTGGGGGA
*
59089508 -AATAAAAG-TTTGAGGGA
1 AAATAAAAGTTTTGGGGGA
*
59089525 AAGTAAA
1 AAATAAA
59089532 TAGGGGGAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
15 3 0.09
16 8 0.23
17 3 0.09
18 5 0.14
19 8 0.23
20 4 0.11
21 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (19 bp):
AAATAAAAGTTTTGGGGGA
Found at i:59093629 original size:17 final size:16
Alignment explanation
Indices: 59093609--59093642 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
59093599 CATTCTTCTA
59093609 ATTCTCTCAATTCATCC
1 ATTCTCTCAATTC-TCC
59093626 ATTCTCTCAATTCTCC
1 ATTCTCTCAATTCTCC
59093642 A
1 A
59093643 AAGTTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTCTCTCAATTCTCC
Found at i:59095648 original size:2 final size:2
Alignment explanation
Indices: 59095635--59095686 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
59095625 TAAAACATGC
*
59095635 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59095677 AT AT -T AT AT A
1 AT AT AT AT AT A
59095687 AGAAAACATT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59096160 original size:3 final size:3
Alignment explanation
Indices: 59096152--59096177 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59096142 NNNNNNNNNN
59096152 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
59096178 AATCATAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:59096257 original size:10 final size:11
Alignment explanation
Indices: 59096244--59096272 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
59096234 AAATTGAACT
59096244 AAAAAAAA-GA
1 AAAAAAAAGGA
59096254 AAAAAAAAGGA
1 AAAAAAAAGGA
59096265 AAAAAAAA
1 AAAAAAAA
59096273 CTAAATTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGGA
Found at i:59112060 original size:2 final size:2
Alignment explanation
Indices: 59112053--59112078 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59112043 TAACATAATC
59112053 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
59112079 ATAAGGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59115176 original size:26 final size:26
Alignment explanation
Indices: 59115147--59115198 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
59115137 TTCAATATTA
*
59115147 TTAAACATATATATAAA-TATTTATAT
1 TTAAACATATA-ATAAATTATTAATAT
*
59115173 TTAATCATATAATAAATTATTAATAT
1 TTAAACATATAATAAATTATTAATAT
59115199 AAATAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TTAAACATATAATAAATTATTAATAT
Found at i:59115199 original size:38 final size:39
Alignment explanation
Indices: 59115157--59115237 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 39
59115147 TTAAACATAT
*
59115157 ATATAAAT-ATTTATATTTAATCA-TATAATAAATTA-TTA
1 ATATAAATAATATA-ATTT-ATCATTATAATAAATTATTTA
* *
59115195 ATATAAATAATATAATTTATTATTTTAATAAATTATTTA
1 ATATAAATAATATAATTTATCATTATAATAAATTATTTA
59115234 ATAT
1 ATAT
59115238 TTCAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 3 0.08
38 23 0.62
39 11 0.30
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (39 bp):
ATATAAATAATATAATTTATCATTATAATAAATTATTTA
Found at i:59115207 original size:25 final size:25
Alignment explanation
Indices: 59115145--59115210 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
59115135 TTTTCAATAT
* *
59115145 TATTAAA-CATATATATAAATATTTA
1 TATTAAATAATATA-ATAAATATTAA
* *
59115170 TATTTAATCATATAATAAATTATTAA
1 TATTAAATAATATAATAAA-TATTAA
59115196 TA-TAAATAATATAAT
1 TATTAAATAATATAAT
59115211 TTATTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 22 0.63
26 13 0.37
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (25 bp):
TATTAAATAATATAATAAATATTAA
Found at i:59115264 original size:13 final size:14
Alignment explanation
Indices: 59115246--59115278 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
59115236 ATTTCAATTT
*
59115246 TATTTTAATAATAA
1 TATTTTAAAAATAA
59115260 T-TTTTAAAAATAA
1 TATTTTAAAAATAA
59115273 TATTTT
1 TATTTT
59115279 TCACATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTTAAAAATAA
Found at i:59115327 original size:15 final size:15
Alignment explanation
Indices: 59115307--59115363 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
59115297 ATTCAATATT
59115307 AATATTTTAATAATA
1 AATATTTTAATAATA
*
59115322 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
59115341 AATATATTAATAATA
1 AATATTTTAATAATA
*
59115356 AATGTTTT
1 AATATTTT
59115364 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:59116175 original size:30 final size:30
Alignment explanation
Indices: 59116139--59116210 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
59116129 TTTTTTAACG
* *
59116139 TTGGAAACTTTTAATTAGCATTAACACTAA
1 TTGGAAAGTTTTAATTAGCATTAACAATAA
*
59116169 TTGGAAAGGTTTAATTAGCATTAACAATAA
1 TTGGAAAGTTTTAATTAGCATTAACAATAA
59116199 TTGGAAAGTTTT
1 TTGGAAAGTTTT
59116211 TTTTTAACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (30 bp):
TTGGAAAGTTTTAATTAGCATTAACAATAA
Found at i:59121117 original size:31 final size:30
Alignment explanation
Indices: 59121075--59121139 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
59121065 TTATAGAATT
** *
59121075 GTCAATGAACTATTTGAAAGTTTTCATTTAA
1 GTCAATGAACTATTCAAAAGTTTT-ATTCAA
*
59121106 GTCACTGAACTATTCAAAAGTTTTATTCAA
1 GTCAATGAACTATTCAAAAGTTTTATTCAA
59121136 GTCA
1 GTCA
59121140 TTGGACTGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (30 bp):
GTCAATGAACTATTCAAAAGTTTTATTCAA
Found at i:59129409 original size:60 final size:60
Alignment explanation
Indices: 59129278--59129434 Score: 172
Period size: 60 Copynumber: 2.6 Consensus size: 60
59129268 TTTGAGTTAT
* * * * *
59129278 TGTCTTTTGTTATTACCCTATGTGCTAGGTTTATTATGTGATTGCTTTTGATTTATTGCCATC
1 TGTCTTTTGTTACT--CC-ATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
* *
59129341 CG-CTTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTGTTGCAATA
1 TGTC-TTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
** * *
59129401 TGTCTTTTGTTACTCTTTGCGCTAGATTTATCAT
1 TGTCTTTTGTTACTCCATGTGCTAGGTTTATCAT
59129435 TATGTTTAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
60 66 0.82
61 3 0.04
62 1 0.01
63 10 0.12
ACGTcount: A:0.16, C:0.15, G:0.18, T:0.50
Consensus pattern (60 bp):
TGTCTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
Found at i:59132620 original size:161 final size:161
Alignment explanation
Indices: 59132436--59132754 Score: 602
Period size: 161 Copynumber: 2.0 Consensus size: 161
59132426 TGCAGCTGGT
* *
59132436 GGGCTGTGATGTCGAAAACAGTTGTAATGCACTGAAATTGGCTAATTAGTATCTATATTTGAATA
1 GGGCTGTGATGCCGAAAACAGTTGTAATGCACTGAAATTAGCTAATTAGTATCTATATTTGAATA
59132501 ATAGGATTTTTGATCTTTCACTTGATTGATATAATTGGCTTGTGCATAATAGTTACTCTAGCAAT
66 ATAGGATTTTTGATCTTTCACTTGATTGATATAATTGGCTTGTGCATAATAGTTACTCTAGCAAT
59132566 TAAATGTATCAGTATCCTATGAAACTTTGGC
131 TAAATGTATCAGTATCCTATGAAACTTTGGC
59132597 GGGCTGTGATGCCGAAAACAGTTGTAATGCACTGAAATTAGCTAATTAGTATCTATATTTGAATA
1 GGGCTGTGATGCCGAAAACAGTTGTAATGCACTGAAATTAGCTAATTAGTATCTATATTTGAATA
* *
59132662 ATAGGATTTTTGATTTTTCACTTGATTGATATAATTGGCTTGTGCGTAATAGTTACTCTAGCAAT
66 ATAGGATTTTTGATCTTTCACTTGATTGATATAATTGGCTTGTGCATAATAGTTACTCTAGCAAT
59132727 TAAATGTATCAGTATCCTATGAAACTTT
131 TAAATGTATCAGTATCCTATGAAACTTT
59132755 CCATACTTTA
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
161 154 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (161 bp):
GGGCTGTGATGCCGAAAACAGTTGTAATGCACTGAAATTAGCTAATTAGTATCTATATTTGAATA
ATAGGATTTTTGATCTTTCACTTGATTGATATAATTGGCTTGTGCATAATAGTTACTCTAGCAAT
TAAATGTATCAGTATCCTATGAAACTTTGGC
Found at i:59135829 original size:9 final size:9
Alignment explanation
Indices: 59135815--59135899 Score: 116
Period size: 9 Copynumber: 9.2 Consensus size: 9
59135805 TTTGGTTAAA
59135815 AATTACCCG
1 AATTACCCG
59135824 AATTACCCG
1 AATTACCCG
*
59135833 ACTTACCCG
1 AATTACCCG
*
59135842 AATTGCCCG
1 AATTACCCG
59135851 AATTACCCG
1 AATTACCCG
59135860 AATTACCCG
1 AATTACCCG
* *
59135869 AAAATGACCCA
1 --AATTACCCG
59135880 AATTACCCG
1 AATTACCCG
59135889 AATTACCCG
1 AATTACCCG
59135898 AA
1 AA
59135900 AATATTTAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
9 59 0.89
11 7 0.11
ACGTcount: A:0.35, C:0.33, G:0.12, T:0.20
Consensus pattern (9 bp):
AATTACCCG
Found at i:59135888 original size:29 final size:29
Alignment explanation
Indices: 59135813--59135902 Score: 130
Period size: 29 Copynumber: 3.2 Consensus size: 29
59135803 TTTTTGGTTA
* *
59135813 AAAATTACCCGAATTACCCGACTTACCCG
1 AAAATGACCCGAATTACCCGAATTACCCG
*
59135842 -AATTG-CCCGAATTACCCGAATTACCCG
1 AAAATGACCCGAATTACCCGAATTACCCG
*
59135869 AAAATGACCCAAATTACCCGAATTACCCG
1 AAAATGACCCGAATTACCCGAATTACCCG
59135898 AAAAT
1 AAAAT
59135903 ATTTAAGCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 21 0.39
28 7 0.13
29 26 0.48
ACGTcount: A:0.38, C:0.31, G:0.11, T:0.20
Consensus pattern (29 bp):
AAAATGACCCGAATTACCCGAATTACCCG
Found at i:59136617 original size:36 final size:37
Alignment explanation
Indices: 59136549--59136620 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
59136539 ACTTCAAGAC
*
59136549 AAAACATTACATAAATCTTTGAATCACTACATAATTA
1 AAAACATTACATAAATCTTTGAATAACTACATAATTA
* *
59136586 AAAATATTACATAAGTC-TTGAATTAAC-ACATAATT
1 AAAACATTACATAAATCTTTGAA-TAACTACATAATT
59136621 GAAATGTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 13 0.42
37 18 0.58
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (37 bp):
AAAACATTACATAAATCTTTGAATAACTACATAATTA
Found at i:59136676 original size:24 final size:24
Alignment explanation
Indices: 59136649--59136707 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
59136639 ATTCTCCATT
* *
59136649 TATATCCATTTCATCTTTCCAAAC
1 TATATCCATTTCATCTCTCCAAAA
59136673 TATATCCATTTCATCTCTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
59136697 TATCTCCATTT
1 TATATCCATTT
59136708 GCATTAAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (24 bp):
TATATCCATTTCATCTCTCCAAAA
Found at i:59140180 original size:16 final size:16
Alignment explanation
Indices: 59140159--59140192 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
59140149 TTTTTTTTCT
59140159 TACATTAATTACAATA
1 TACATTAATTACAATA
59140175 TACATTAATTACAATA
1 TACATTAATTACAATA
59140191 TA
1 TA
59140193 TTCAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (16 bp):
TACATTAATTACAATA
Found at i:59140201 original size:18 final size:16
Alignment explanation
Indices: 59140159--59140202 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
59140149 TTTTTTTTCT
*
59140159 TACATTAATTACAATA
1 TACAATAATTACAATA
*
59140175 TACATTAATTACAATA
1 TACAATAATTACAATA
59140191 TATTCAATAATT
1 TA--CAATAATT
59140203 TAAATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 18 0.72
18 7 0.28
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (16 bp):
TACAATAATTACAATA
Found at i:59141080 original size:16 final size:16
Alignment explanation
Indices: 59141059--59141098 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
59141049 GGTGTTGTGA
59141059 AAATTGGGCTAGATTT
1 AAATTGGGCTAGATTT
* *
59141075 AAATTGGGCTGGGTTT
1 AAATTGGGCTAGATTT
59141091 AAATTGGG
1 AAATTGGG
59141099 AGGAGTAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.33, T:0.35
Consensus pattern (16 bp):
AAATTGGGCTAGATTT
Found at i:59143344 original size:25 final size:25
Alignment explanation
Indices: 59143316--59143402 Score: 129
Period size: 25 Copynumber: 3.5 Consensus size: 25
59143306 AACCTTAGCA
*
59143316 TGCTCTCTGATTATTAGCACATCAG
1 TGCTCTCTGATTATTAGCACATTAG
*
59143341 TGCTTTCTGATTATTAGCACATTAG
1 TGCTCTCTGATTATTAGCACATTAG
* *
59143366 TGCTCTCTAATTATTAGCACGTTAG
1 TGCTCTCTGATTATTAGCACATTAG
*
59143391 TGCTCTCCGATT
1 TGCTCTCTGATT
59143403 TGCACATATG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (25 bp):
TGCTCTCTGATTATTAGCACATTAG
Found at i:59145889 original size:85 final size:85
Alignment explanation
Indices: 59145730--59145889 Score: 203
Period size: 85 Copynumber: 1.9 Consensus size: 85
59145720 GACACTACAC
* * * * * *
59145730 ATACTTGTGTTGTTGCAGGTGCGGCATAAGATTATCCAAAATTGGATTTTGACCTGATCTCTGAC
1 ATACTTGTGTTGTTGCAGGTACGGCACAAGATAATCCAAAATTGGATTATGACATGATCTCTAAC
*
59145795 ATTGGCTTACATATTTTGAA
66 ATTAGCTTACATATTTTGAA
* ** * *
59145815 ATACTTGTGTTGTTGCAGGTATGTTACAGGATAATCCAAATTTGGATTATGACATGATCTCTAAC
1 ATACTTGTGTTGTTGCAGGTACGGCACAAGATAATCCAAAATTGGATTATGACATGATCTCTAAC
*
59145880 ATTATCTTAC
66 ATTAGCTTAC
59145890 CTAAGGTGAA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
85 62 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (85 bp):
ATACTTGTGTTGTTGCAGGTACGGCACAAGATAATCCAAAATTGGATTATGACATGATCTCTAAC
ATTAGCTTACATATTTTGAA
Found at i:59147088 original size:21 final size:21
Alignment explanation
Indices: 59147064--59147115 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
59147054 AAAGTCATAT
59147064 GTATCGATACCCTGATATAAG
1 GTATCGATACCCTGATATAAG
*
59147085 GTATCGATACCGTGATATAAG
1 GTATCGATACCCTGATATAAG
59147106 GTATCGATAC
1 GTATCGATAC
59147116 TTCAGTCCGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (21 bp):
GTATCGATACCCTGATATAAG
Found at i:59151003 original size:70 final size:67
Alignment explanation
Indices: 59150917--59151105 Score: 258
Period size: 70 Copynumber: 2.8 Consensus size: 67
59150907 TCGAATTAAA
* *
59150917 AACTTTATT-CATTTTTTTCGTAAATTGTAAATATGTATATTATTGATGTAAAAATACAATACAA
1 AACTTTTTTACATTTTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATA-AA
*
59150981 TAC
65 AAC
* *
59150984 AAGTAATTTTTACATTTTTTTCGTAAATTGTAAATAAGTATATTATTGATATAAAAATACAATAA
1 AACT--TTTTTACATTTTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATAA
*
59151049 AAAT
64 AAAC
* *
59151053 AACTTTTTTTCA--TTTTTCGTAAATTATAAATAAGTATATTATTGATGTAAAAA
1 AACTTTTTTACATTTTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAA
59151106 ATAAACAAAC
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
65 39 0.36
67 10 0.09
69 10 0.09
70 50 0.46
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.44
Consensus pattern (67 bp):
AACTTTTTTACATTTTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATAAAA
AC
Found at i:59160283 original size:14 final size:14
Alignment explanation
Indices: 59160264--59160294 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
59160254 GGATGCAAAA
59160264 ATAATATAGAATTT
1 ATAATATAGAATTT
*
59160278 ATAATATAGTATTT
1 ATAATATAGAATTT
59160292 ATA
1 ATA
59160295 TATCTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (14 bp):
ATAATATAGAATTT
Found at i:59163204 original size:25 final size:22
Alignment explanation
Indices: 59163153--59163204 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
59163143 TATATGTAAG
59163153 AGAAAT-AAATAAAAGAATAAA
1 AGAAATAAAATAAAAGAATAAA
*
59163174 A-TAATAATAATAATAAGAGATAAA
1 AGAAATAA-AATAA-AAGA-ATAAA
59163198 AGAAATA
1 AGAAATA
59163205 GTAGGTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 3 0.12
21 2 0.08
22 5 0.21
23 4 0.17
24 6 0.25
25 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (22 bp):
AGAAATAAAATAAAAGAATAAA
Found at i:59164366 original size:75 final size:75
Alignment explanation
Indices: 59164199--59164377 Score: 220
Period size: 75 Copynumber: 2.4 Consensus size: 75
59164189 TGGGCACACA
* *
59164199 ATCGTCGGTTAATCCGACTAGCGCTCGGCGCAAACACTGTTGGTTCATCCAACTAGAGCTGGGCT
1 ATCGTCGGTAAATCCGACTAGCGCTGGGCGCAAACACTGTTGGTTCATCCAACTAGAGCTGGGCT
*
59164264 CACAATTATT
66 CACAATTAAT
* * * * * *
59164274 ATCGTCGGTATACCCGACTAGCACTGGGTGC-AACTAGTGTTGGTTTATCCAACTAGAGCTGGGC
1 ATCGTCGGTAAATCCGACTAGCGCTGGGCGCAAAC-ACTGTTGGTTCATCCAACTAGAGCTGGGC
59164338 TCAC-ATTCAAT
65 TCACAATT-AAT
*
59164349 A-CTGTTGGTAAATCCGACTAGCGCTGGGC
1 ATC-GTCGGTAAATCCGACTAGCGCTGGGC
59164378 ACAATCTCCT
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
74 7 0.08
75 80 0.92
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (75 bp):
ATCGTCGGTAAATCCGACTAGCGCTGGGCGCAAACACTGTTGGTTCATCCAACTAGAGCTGGGCT
CACAATTAAT
Found at i:59165544 original size:18 final size:18
Alignment explanation
Indices: 59165521--59165556 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
59165511 ATTCTTTTAC
59165521 GATAAAGTTGCCATGACT
1 GATAAAGTTGCCATGACT
*
59165539 GATAAAGTTGCTATGACT
1 GATAAAGTTGCCATGACT
59165557 TTAATGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (18 bp):
GATAAAGTTGCCATGACT
Found at i:59174693 original size:28 final size:30
Alignment explanation
Indices: 59174648--59174705 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
59174638 TAATTTGATC
*
59174648 AAATCAAAATTTCATGTAT-GAATTGCACA
1 AAATCAAAATTTCATGTATACAATTGCACA
*
59174677 AAATCAAAGTTT-ATGTATACAATTGCACA
1 AAATCAAAATTTCATGTATACAATTGCACA
59174706 TTAAACCGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATACAATTGCACA
Found at i:59184115 original size:20 final size:20
Alignment explanation
Indices: 59184090--59184129 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
59184080 ATGTGACGGT
59184090 TAAAAGCAAAGTGAGTGGAA
1 TAAAAGCAAAGTGAGTGGAA
**
59184110 TAAAAGCATTGTGAGTGGAA
1 TAAAAGCAAAGTGAGTGGAA
59184130 GAGTGAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.20
Consensus pattern (20 bp):
TAAAAGCAAAGTGAGTGGAA
Found at i:59186481 original size:32 final size:32
Alignment explanation
Indices: 59186437--59186503 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
59186427 TTAAGGTGCT
* *
59186437 TTGATCAGCGGTGAGACTAAAAACAACGACGG
1 TTGATCAACGGTGAGACTAAAAACAACGACAG
59186469 TTGATCAACGGTGAGACTAAAAACAACGACAG
1 TTGATCAACGGTGAGACTAAAAACAACGACAG
59186501 TTG
1 TTG
59186504 TGAAATTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (32 bp):
TTGATCAACGGTGAGACTAAAAACAACGACAG
Found at i:59188306 original size:10 final size:10
Alignment explanation
Indices: 59188291--59188324 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
59188281 TATTAATTTT
59188291 AAAAAAATTA
1 AAAAAAATTA
*
59188301 AAAAAAATCA
1 AAAAAAATTA
*
59188311 CAAAAAATTA
1 AAAAAAATTA
59188321 AAAA
1 AAAA
59188325 GATTGGAGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:59196541 original size:3 final size:3
Alignment explanation
Indices: 59196527--59196560 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
59196517 CAAATGAGTA
* *
59196527 AAT AAT AGT AAT AAT AAT AAT GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
59196561 CAAAATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:59197994 original size:44 final size:44
Alignment explanation
Indices: 59197944--59198144 Score: 171
Period size: 44 Copynumber: 4.7 Consensus size: 44
59197934 ACTGGATGCG
* * *
59197944 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
* * *
59197988 ATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TG-GTTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTT-TT-A
* * ** * ***
59198032 GTCTGCTCCACTACTGCTT-AGGGAGATAAGA-CT-T-GATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
* * * *
59198072 ATTTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
*
59198116 ATCCGCTCCACTGCAACTTCAGGGAGATA
1 ATCTGCTCCACTGCAACTTCAGGGAGATA
59198145 GGACTGGTTT
Statistics
Matches: 116, Mismatches: 33, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
40 12 0.10
41 11 0.09
42 6 0.05
43 17 0.15
44 70 0.60
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
Found at i:59198079 original size:128 final size:128
Alignment explanation
Indices: 59197932--59198190 Score: 446
Period size: 128 Copynumber: 2.0 Consensus size: 128
59197922 CGGGGAGACG
* *
59197932 AGACTGGATGCGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCTGCTCC
1 AGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCC
* * *
59197997 ACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATA
66 ACTGCAACTTCAGGGAGATAGGACTGGTTTCTTCTGTCTACTCCACTACTGCTTAGGAAGATA
* * *
59198060 AGACTTGATGCGATTTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCC
1 AGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCC
59198125 ACTGCAACTTCAGGGAGATAGGACTGGTTTCTTCTGTCTACTCCACTACTGCTTAGGAAGATA
66 ACTGCAACTTCAGGGAGATAGGACTGGTTTCTTCTGTCTACTCCACTACTGCTTAGGAAGATA
59198188 AGA
1 AGA
59198191 TCTACAATCT
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 123 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (128 bp):
AGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCC
ACTGCAACTTCAGGGAGATAGGACTGGTTTCTTCTGTCTACTCCACTACTGCTTAGGAAGATA
Found at i:59198169 original size:44 final size:43
Alignment explanation
Indices: 59197945--59198171 Score: 140
Period size: 44 Copynumber: 5.3 Consensus size: 43
59197935 CTGGATGCGA
* * * * **
59197945 TCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTT-TTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTG-GTTTCTTTG
* *
59197989 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTTTCTT-TG
* ** * * * **
59198033 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGATGCGAT-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTTTCTTTG
* * * * **
59198074 T-TGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTT-TTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTG-GTTTCTTTG
* *
59198117 TCCGCTCCACTGCAACTTCAGGGAGATAGGACTGGTTTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTTTCTT-TG
*
59198161 TCTACTCCACT
1 TCTGCTCCACT
59198172 ACTGCTTAGG
Statistics
Matches: 134, Mismatches: 40, Indels: 18
0.70 0.21 0.09
Matches are distributed among these distances:
40 11 0.08
41 12 0.09
42 9 0.07
43 27 0.20
44 75 0.56
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTTTCTTTG
Found at i:59198202 original size:44 final size:43
Alignment explanation
Indices: 59198154--59198277 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 43
59198144 AGGACTGGTT
* *
59198154 TCTTCTGTCTACTCCACTACTGCTTAGGAAGATAAGATCTACAA
1 TCTTCTATCTACTCCACTACTGCTTAGGGAGATAAGAT-TACAA
* * * * * ****
59198198 TCTTCAACCTACTCCACTACTACTCAGGGAGATAGGATTGGTT
1 TCTTCTATCTACTCCACTACTGCTTAGGGAGATAAGATTACAA
* *
59198241 TCTTCTATCTGCTCCACTATTGCTTAGGGAGATAAGA
1 TCTTCTATCTACTCCACTACTGCTTAGGGAGATAAGA
59198278 CTTAATGCGA
Statistics
Matches: 62, Mismatches: 18, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
43 31 0.50
44 31 0.50
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (43 bp):
TCTTCTATCTACTCCACTACTGCTTAGGGAGATAAGATTACAA
Found at i:59198241 original size:128 final size:127
Alignment explanation
Indices: 59197958--59198231 Score: 336
Period size: 128 Copynumber: 2.1 Consensus size: 127
59197948 GCTCTACTGC
* * *
59197958 AACTTTAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTG
1 AACTTCAGAGAGATAAGA-CTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGACTG
* * ** * ** * * *
59198023 GTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATTTGCTCTACTGT
65 GTTTCTTCTGTCTACTCCACTACTGCTTAGGAAGATAAGACTCAATGCAACCTACTCCACTCT
59198086 AACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGACTG
1 AACTTCAGAGAGATAAGA-CTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGACTG
*
59198151 GTTTCTTCTGTCTACTCCACTACTGCTTAGGAAGATAAGATCTACAATCTTCAACCTACTCCACT
65 GTTTCTTCTGTCTACTCCACTACTGCTTAGGAAGATAAGA-CT-CAA--TGCAACCTACTCCACT
59198216 ACT
126 -CT
*
59198219 -AC-TCAGGGAGATA
1 AACTTCAGAGAGATA
59198232 GGATTGGTTT
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
128 100 0.79
129 2 0.02
130 1 0.01
131 10 0.08
132 12 0.10
133 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (127 bp):
AACTTCAGAGAGATAAGACTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGACTGG
TTTCTTCTGTCTACTCCACTACTGCTTAGGAAGATAAGACTCAATGCAACCTACTCCACTCT
Found at i:59198772 original size:24 final size:24
Alignment explanation
Indices: 59198740--59198797 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
59198730 CGGTTTGACC
59198740 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
* *
59198764 CCACTGTAATCTTCAACGTTCAGT
1 CCACTGTAATCTTCAAAGTTCAAT
*
59198788 CCACTATAAT
1 CCACTGTAAT
59198798 TTTGGGACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:59199768 original size:15 final size:14
Alignment explanation
Indices: 59199738--59199780 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
59199728 TTGGCCTCTC
59199738 ATTTTTCTTTACTTTT
1 ATTTTTCTTT--TTTT
*
59199754 CTTTTTCCTTTTTTT
1 ATTTTT-CTTTTTTT
59199769 ATTTTTCTTTTT
1 ATTTTTCTTTTT
59199781 CTTTTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 5 0.21
17 4 0.17
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTCTTTTTTT
Found at i:59199774 original size:21 final size:20
Alignment explanation
Indices: 59199740--59199787 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
59199730 GGCCTCTCAT
59199740 TTTTCTTTACTTTTCTTTTTCC
1 TTTT-TTTACTTTTCTTTTT-C
*
59199762 TTTTTTTATTTTTCTTTTTC
1 TTTTTTTACTTTTCTTTTTC
59199782 TTTTTT
1 TTTTTT
59199788 ATGAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTTACTTTTCTTTTTC
Found at i:59203667 original size:16 final size:16
Alignment explanation
Indices: 59203646--59203676 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
59203636 ATGTTCGAAT
59203646 AGATATATATATATAA
1 AGATATATATATATAA
59203662 AGATATATATATATA
1 AGATATATATATATA
59203677 TGTATCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
AGATATATATATATAA
Found at i:59204275 original size:41 final size:41
Alignment explanation
Indices: 59204212--59204397 Score: 309
Period size: 41 Copynumber: 4.5 Consensus size: 41
59204202 GACTATACGT
* *
59204212 CTAGCAGACTAAGTGCCGGTGATCTAAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
**
59204253 CTAGCAGGCTAAGTGCTAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
59204294 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
59204335 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
59204376 CTAGCAGGCTAAGTGCCAGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
59204398 ATCTATTAAA
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 136 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:59205719 original size:12 final size:12
Alignment explanation
Indices: 59205678--59205711 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
59205668 TCTAGTTGTT
*
59205678 CTTGCATCTGGG
1 CTTGCATTTGGG
59205690 CTTGCATTTGGG
1 CTTGCATTTGGG
59205702 CTTGCATTTG
1 CTTGCATTTG
59205712 TTCTTGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.21, G:0.29, T:0.41
Consensus pattern (12 bp):
CTTGCATTTGGG
Found at i:59207642 original size:33 final size:33
Alignment explanation
Indices: 59207600--59207666 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
59207590 CCTCGACACG
59207600 CCCAAAATTGGTACCTAGTTGATTAATTAATGT
1 CCCAAAATTGGTACCTAGTTGATTAATTAATGT
59207633 CCCAAAATTGGTACCTAGTTGATTAATTAATGT
1 CCCAAAATTGGTACCTAGTTGATTAATTAATGT
59207666 C
1 C
59207667 TTAGTGTCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (33 bp):
CCCAAAATTGGTACCTAGTTGATTAATTAATGT
Found at i:59208463 original size:21 final size:22
Alignment explanation
Indices: 59208439--59208481 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
59208429 GTACATGTAT
59208439 ATGT-GTATATATATTATAAAA
1 ATGTAGTATATATATTATAAAA
59208460 ATGTAAGTATATATATTATAAA
1 ATGT-AGTATATATATTATAAA
59208482 GTATATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
23 16 0.80
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (22 bp):
ATGTAGTATATATATTATAAAA
Found at i:59208595 original size:3 final size:3
Alignment explanation
Indices: 59208575--59208617 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
59208565 CAAATGAGTA
* * *
59208575 AAT AAT AGT AAT AGT AAT AAT AAT AAT AAT GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
59208618 CAAAATTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:59211545 original size:124 final size:124
Alignment explanation
Indices: 59211303--59211630 Score: 403
Period size: 128 Copynumber: 2.6 Consensus size: 124
59211293 TAATTTTTTT
* * *
59211303 TTTAA-AAAAAAAA-TACAAGTTAGTATAATGGT-ACATTTGCAATTTGACCCCTCCAAAAATTT
1 TTTAATAAAAAAAATTATAAGTTAGTATAATGGTAAAATTT-CAGTTTGA-CCCTCCAAAAATTT
* *
59211365 ATCATTCATCTTTGGCCCTCTTAAAGCAATTTGCTTTGCCACTAATTTGCTTTGTAGCCTC
64 ATGATTCATCTTTAGCCCTCTTAAAGCAATTTGCTTTGCCACTAATTTGCTTTGTAGCCTC
** *
59211426 TTTAATAAAAAAAATTATAAGTTAGTATAATAATAAAATTTCAGTTTGACCCTTCAAAAAATTTA
1 TTTAATAAAAAAAATTATAAGTTAGTATAATGGTAAAATTTCAGTTTGACCC-TCCAAAAATTTA
* *
59211491 TGATTCATCTTTAGCCC-CTTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTC
65 TGATTCATCTTTAGCCCTCTTAAAGCAATTTGCTTTGCCACTAATTTGCTTTGTAGCCTC
***** *
59211550 TTTAATTTTTTTTTTAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGATCCCTCCAAAAA
1 TTTAA----TAAAAAAAATTATAAGTTAGTATAATGGTAAAATTTCAGTTTGA-CCCTCCAAAAA
*
59211615 TTTATGATTAATCTTT
61 TTTATGATTCATCTTT
59211631 TATGTTCTAA
Statistics
Matches: 176, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
123 5 0.03
124 56 0.32
125 49 0.28
126 5 0.03
128 58 0.33
129 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (124 bp):
TTTAATAAAAAAAATTATAAGTTAGTATAATGGTAAAATTTCAGTTTGACCCTCCAAAAATTTAT
GATTCATCTTTAGCCCTCTTAAAGCAATTTGCTTTGCCACTAATTTGCTTTGTAGCCTC
Found at i:59211648 original size:128 final size:127
Alignment explanation
Indices: 59211169--59211632 Score: 393
Period size: 128 Copynumber: 3.6 Consensus size: 127
59211159 TCCTTCAAAA
* * * * *
59211169 TTTTAAAATTATAAGTTAGTATAATGGTAAATTTAT-ATTTTAATCCTTCCAAATATTTATGATT
1 TTTTTAAATTATAAGTTAGTATAATGGTAAATTT-TCAGTTTGA-CCCTCCAAAAATTTATGATT
* * * * * ** ** * *
59211233 TATCTTTGACCCCTTTAAGCAATTTTCTGACTTCACCTTTGATTTACTTTGTAGCCCCTTTAATT
64 CATCTTTTAGCTCTTAAAGCAA--TT-TG-CTTTGCCACTGATTTGCTTTGTAGCCTCTTTAATT
59211298 TTT
125 TTT
* * * * *
59211301 TTTTTAAAAAAAAAATACAAGTTAGTATAATGGTACATTTGCAATTTGACCCCTCCAAAAATTTA
1 TTTTT------AAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGA-CCCTCCAAAAATTTA
* * *
59211366 TCATTCATC-TTTGGCCCTCTTAAAGCAATTTGCTTTGCCACTAATTTGCTTTGTAGCCTCTTTA
59 TGATTCATCTTTTAG--CTCTTAAAGCAATTTGCTTTGCCACTGATTTGCTTTGTAGCCTCTTTA
59211430 A----T
122 ATTTTT
***** ** * *
59211432 AAAAAAAATTATAAGTTAGTATAATAATAAAATTTCAGTTTGACCCTTCAAAAAATTTATGATTC
1 TTTTTAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGACCC-TCCAAAAATTTATGATTC
* *
59211497 ATC-TTTAGCCCCTTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTTAATTTTT
65 ATCTTTTAG-CTCTTAAAGCAATTTGCTTTGCCACTGATTTGCTTTGTAGCCTCTTTAATTTTT
*
59211560 TTTTTAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGATCCCTCCAAAAATTTATGATTA
1 TTTTTAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGA-CCCTCCAAAAATTTATGATTC
59211625 ATCTTTTA
65 ATCTTTTA
59211633 TGTTCTAAAA
Statistics
Matches: 263, Mismatches: 53, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
124 50 0.19
125 53 0.20
128 55 0.21
129 7 0.03
131 1 0.00
132 4 0.02
135 26 0.10
136 2 0.01
137 4 0.02
138 51 0.19
139 10 0.04
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (127 bp):
TTTTTAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGACCCTCCAAAAATTTATGATTCA
TCTTTTAGCTCTTAAAGCAATTTGCTTTGCCACTGATTTGCTTTGTAGCCTCTTTAATTTTT
Found at i:59216165 original size:13 final size:13
Alignment explanation
Indices: 59216115--59216166 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
59216105 AAAGATAAAT
59216115 ACAAATGTAAGAA
1 ACAAATGTAAGAA
* *
59216128 A-GAACGTAAGAA
1 ACAAATGTAAGAA
*
59216140 AGAAAT-TACAGAA
1 ACAAATGTA-AGAA
59216153 ACAAATGTAAGAA
1 ACAAATGTAAGAA
59216166 A
1 A
59216167 GAATGGCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 12 0.39
13 17 0.55
14 2 0.06
ACGTcount: A:0.62, C:0.08, G:0.17, T:0.13
Consensus pattern (13 bp):
ACAAATGTAAGAA
Found at i:59216975 original size:20 final size:20
Alignment explanation
Indices: 59216950--59216987 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
59216940 ACTATTGGGA
59216950 ATATCAGAGAAAGAAAAAAT
1 ATATCAGAGAAAGAAAAAAT
59216970 ATATCAGAGAAAGAAAAA
1 ATATCAGAGAAAGAAAAA
59216988 TAAAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.05, G:0.16, T:0.13
Consensus pattern (20 bp):
ATATCAGAGAAAGAAAAAAT
Found at i:59218859 original size:22 final size:22
Alignment explanation
Indices: 59218834--59218882 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
59218824 ATTATAATTT
59218834 TATATATATTTACGACTTGAAG
1 TATATATATTTACGACTTGAAG
59218856 TATATATATTTACGACTTGAAG
1 TATATATATTTACGACTTGAAG
59218878 TATAT
1 TATAT
59218883 TTGATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (22 bp):
TATATATATTTACGACTTGAAG
Found at i:59218912 original size:19 final size:17
Alignment explanation
Indices: 59218880--59218916 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
59218870 ACTTGAAGTA
59218880 TATTTGATATAAAAAAT
1 TATTTGATATAAAAAAT
59218897 TATTATGATAATAAAAAAT
1 TATT-TGAT-ATAAAAAAT
59218916 T
1 T
59218917 TAAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 4 0.22
19 10 0.56
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TATTTGATATAAAAAAT
Found at i:59222072 original size:36 final size:36
Alignment explanation
Indices: 59222017--59222095 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
59222007 CTGGTTTTGG
* **
59222017 CCACATCTTTTTTGGTTTATTTTAGGTTGACATGAT
1 CCACATCTTTTTTGGTTTATTTTAGATCAACATGAT
* *
59222053 CCACTTCTTTTTTGTTTTATTTTAGATCAACATGAT
1 CCACATCTTTTTTGGTTTATTTTAGATCAACATGAT
59222089 CCACATC
1 CCACATC
59222096 ATTATGCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (36 bp):
CCACATCTTTTTTGGTTTATTTTAGATCAACATGAT
Found at i:59233447 original size:16 final size:17
Alignment explanation
Indices: 59233411--59233444 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
59233401 TTTATTGAAG
59233411 TTGT-TATGTATTTGAT
1 TTGTGTATGTATTTGAT
*
59233427 TTGTGTATGTGTTTGAT
1 TTGTGTATGTATTTGAT
59233444 T
1 T
59233445 GTGGATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.62
Consensus pattern (17 bp):
TTGTGTATGTATTTGAT
Found at i:59234268 original size:35 final size:35
Alignment explanation
Indices: 59234229--59234358 Score: 172
Period size: 35 Copynumber: 3.7 Consensus size: 35
59234219 TTTTCAGTAA
*
59234229 GCATGCTTTACATGCAAATAAGAATCAGTGTAATG
1 GCATGCTTAACATGCAAATAAGAATCAGTGTAATG
* * *
59234264 GCATGCTTAACATGTAGATCAA-AATCAATGTAATG
1 GCATGCTTAACATGCAAAT-AAGAATCAGTGTAATG
* *
59234299 GCATGCTTAACATGCGAATCAGAATCAGTGTAATG
1 GCATGCTTAACATGCAAATAAGAATCAGTGTAATG
* *
59234334 GCATGCTTGACATGCAAATCAGAAT
1 GCATGCTTAACATGCAAATAAGAAT
59234359 ATCGACAGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
34 1 0.01
35 79 0.96
36 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (35 bp):
GCATGCTTAACATGCAAATAAGAATCAGTGTAATG
Found at i:59236024 original size:27 final size:27
Alignment explanation
Indices: 59235993--59236046 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
59235983 TTTTACAAGA
*
59235993 TTACAAACTCATTTATATTATTTACTG
1 TTACAAACTCATTTAGATTATTTACTG
59236020 TTACAAACTCATTTAGATTATTTACTG
1 TTACAAACTCATTTAGATTATTTACTG
59236047 AAGTAAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (27 bp):
TTACAAACTCATTTAGATTATTTACTG
Found at i:59236307 original size:179 final size:179
Alignment explanation
Indices: 59236007--59236364 Score: 671
Period size: 179 Copynumber: 2.0 Consensus size: 179
59235997 AAACTCATTT
*
59236007 ATATTATTTACTGTTACAAACTCATTTAGATTATTTACTGAAGTAAGTTATCTTTCTGGCAATGT
1 ATATTATTTACTGTTACAAACTCATTTAGATTATTTACTGAAGTAAGTTATCTTTCTCGCAATGT
* *
59236072 AAACGTTCTTATAATGCCACTTATCATCAATTTGAACTTAAACAATCAATGAACTAATATTTGTT
66 AAACGTTCTTATAATGCCACTTATCATCAATTTGAACTTAAACAACCAATGAACTAATATTTGCT
59236137 TGTCACAATTTTGCTATGCATGCAAAACATGAAAGAGAAAAACACAAAA
131 TGTCACAATTTTGCTATGCATGCAAAACATGAAAGAGAAAAACACAAAA
59236186 ATATTATTTACTGTTACAAACTCATTTAGATTATTTACTGAAGTAAGTTATCTTTCTCGCAATGT
1 ATATTATTTACTGTTACAAACTCATTTAGATTATTTACTGAAGTAAGTTATCTTTCTCGCAATGT
* *
59236251 AAACGTTCTTATAGTGTCACTTATCATCAATTTGAACTTAAACAACCAATGAACTAATATTTGCT
66 AAACGTTCTTATAATGCCACTTATCATCAATTTGAACTTAAACAACCAATGAACTAATATTTGCT
59236316 TGTCACAATTTTGCTATGCATGCAAAACATGAAAGAGAAAAACACAAAA
131 TGTCACAATTTTGCTATGCATGCAAAACATGAAAGAGAAAAACACAAAA
59236365 GACATAATAG
Statistics
Matches: 174, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
179 174 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (179 bp):
ATATTATTTACTGTTACAAACTCATTTAGATTATTTACTGAAGTAAGTTATCTTTCTCGCAATGT
AAACGTTCTTATAATGCCACTTATCATCAATTTGAACTTAAACAACCAATGAACTAATATTTGCT
TGTCACAATTTTGCTATGCATGCAAAACATGAAAGAGAAAAACACAAAA
Found at i:59238538 original size:3 final size:3
Alignment explanation
Indices: 59238532--59238558 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
59238522 ATTTATAATA
59238532 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
59238559 CATGAAATTG
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:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:59242372 original size:31 final size:31
Alignment explanation
Indices: 59242337--59242398 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
59242327 TCCATAAGCG
59242337 GGATTAAGATTTTGCCACGTGTTTTAAAATT
1 GGATTAAGATTTTGCCACGTGTTTTAAAATT
59242368 GGATTAAGATTTTGCCACGTGTTTTAAAATT
1 GGATTAAGATTTTGCCACGTGTTTTAAAATT
59242399 TTTAAATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (31 bp):
GGATTAAGATTTTGCCACGTGTTTTAAAATT
Found at i:59246315 original size:26 final size:24
Alignment explanation
Indices: 59246272--59246325 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 24
59246262 CCATGATCGA
59246272 TATTTCCTTGTAATTTGTCTTAAT
1 TATTTCCTTGTAATTTGTCTTAAT
*
59246296 TATTTCCATTGTAAATTTGTGTTAAT
1 TATTTCC-TTGT-AATTTGTCTTAAT
59246322 TATT
1 TATT
59246326 GTTAATTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 7 0.26
25 4 0.15
26 16 0.59
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.57
Consensus pattern (24 bp):
TATTTCCTTGTAATTTGTCTTAAT
Found at i:59246548 original size:31 final size:31
Alignment explanation
Indices: 59246505--59246583 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
59246495 TTAATATACT
59246505 ATTTGGTACCTAATTTTAGCTTGAATGTTCA
1 ATTTGGTACCTAATTTTAGCTTGAATGTTCA
* * * *
59246536 ATTTCGTACCTAAATTTGGCTTTAATGTTCA
1 ATTTGGTACCTAATTTTAGCTTGAATGTTCA
* *
59246567 CTTTGGTACTTAATTTT
1 ATTTGGTACCTAATTTT
59246584 TTTTCAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTTGGTACCTAATTTTAGCTTGAATGTTCA
Found at i:59246794 original size:18 final size:17
Alignment explanation
Indices: 59246748--59246794 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
59246738 CAACAGACAC
59246748 ATTTTATAATTTTATAAT
1 ATTTT-TAATTTTATAAT
*
59246766 ATTTTTTATTTTAATAAT
1 ATTTTTAATTTT-ATAAT
59246784 -TTATTTAATTT
1 ATT-TTTAATTT
59246795 GAACCAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTTAATTTTATAAT
Found at i:59247013 original size:43 final size:43
Alignment explanation
Indices: 59246952--59247036 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
59246942 AGATGGCAAA
*
59246952 TGCAGCAGCCACATTCTTCTGGCCGCCGGTGAAGGGACTTCAG
1 TGCAGCAGCCACATTCTTCTGGCCGCCGATGAAGGGACTTCAG
59246995 TGCAGCAGCCACATTCTTCTGGCCGCCGATGAAGGGACTTCA
1 TGCAGCAGCCACATTCTTCTGGCCGCCGATGAAGGGACTTCA
59247037 CCCTGACCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.21
Consensus pattern (43 bp):
TGCAGCAGCCACATTCTTCTGGCCGCCGATGAAGGGACTTCAG
Found at i:59253588 original size:5 final size:5
Alignment explanation
Indices: 59253578--59253637 Score: 120
Period size: 5 Copynumber: 12.0 Consensus size: 5
59253568 AAATCACTAT
59253578 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
59253628 TAATA TAATA
1 TAATA TAATA
59253638 AACTGCAACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:59255941 original size:25 final size:25
Alignment explanation
Indices: 59255862--59255952 Score: 94
Period size: 25 Copynumber: 3.6 Consensus size: 25
59255852 ACATTTGCCG
***
59255862 TCAATTCATCCTTTTGCATTTTATGG
1 TCAATTCATCC-TTTGCATTTTACCA
** *
59255888 TCAATTTGTCCTTTGCA-TATACCA
1 TCAATTCATCCTTTGCATTTTACCA
*
59255912 TCAATTCATCCTTTGCATTTTACCT
1 TCAATTCATCCTTTGCATTTTACCA
*
59255937 TCAATTCATCATTTGC
1 TCAATTCATCCTTTGC
59255953 CACAGAACGA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
24 18 0.34
25 26 0.49
26 9 0.17
ACGTcount: A:0.22, C:0.24, G:0.08, T:0.46
Consensus pattern (25 bp):
TCAATTCATCCTTTGCATTTTACCA
Found at i:59258218 original size:6 final size:6
Alignment explanation
Indices: 59258202--59258231 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
59258192 TAAGTTTCCA
*
59258202 AAAATG GAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG
59258232 GAAACTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:59258219 original size:12 final size:12
Alignment explanation
Indices: 59258202--59258235 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
59258192 TAAGTTTCCA
59258202 AAAATGGAAATG
1 AAAATGGAAATG
*
59258214 AAAATGAAAATG
1 AAAATGGAAATG
59258226 AAAATGGAAA
1 AAAATGGAAA
59258236 CTTGCAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:59258410 original size:25 final size:25
Alignment explanation
Indices: 59258376--59258449 Score: 96
Period size: 25 Copynumber: 2.9 Consensus size: 25
59258366 ACGAATTTTC
59258376 TCAAAATTTTAC-AGGAGTAAAATCA
1 TCAAAATTTTACAAGG-GTAAAATCA
**
59258401 TCAAAATTTTATCAAGGGTAAAATTG
1 TCAAAATTTTA-CAAGGGTAAAATCA
*
59258427 TCAAAATTTTACTAGGGTAAAAT
1 TCAAAATTTTACAAGGGTAAAAT
59258450 AAAGATGAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 22 0.50
26 19 0.43
27 3 0.07
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACAAGGGTAAAATCA
Found at i:59261527 original size:25 final size:25
Alignment explanation
Indices: 59261477--59261571 Score: 88
Period size: 24 Copynumber: 3.9 Consensus size: 25
59261467 CCCTCTCTCA
* **
59261477 AGCCATATAACAGGAAGCTCCGAAG
1 AGCCATATAACGGGAAGCTCATAAG
*
59261502 AGCCAT-TAACGGGAAGCTTATCAAG
1 AGCCATATAACGGGAAGCTCAT-AAG
**
59261527 A-CTGTATAACGGGAAGCTCATAAG
1 AGCCATATAACGGGAAGCTCATAAG
* *
59261551 AGCCATA-ATCGAGAAGCTCAT
1 AGCCATATAACGGGAAGCTCAT
59261572 GCGAGCCAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
24 29 0.52
25 27 0.48
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (25 bp):
AGCCATATAACGGGAAGCTCATAAG
Found at i:59262160 original size:21 final size:21
Alignment explanation
Indices: 59262136--59262176 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59262126 AGTAAATTTA
*
59262136 GCTCAATTTAATACAATTCAT
1 GCTCAATTCAATACAATTCAT
*
59262157 GCTCAATTCAATCCAATTCA
1 GCTCAATTCAATACAATTCA
59262177 CATCTTAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (21 bp):
GCTCAATTCAATACAATTCAT
Found at i:59270014 original size:23 final size:23
Alignment explanation
Indices: 59269983--59270033 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
59269973 ACCTACTTTC
* * *
59269983 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
59270006 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
59270029 TTACA
1 TTACA
59270034 CAATTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:59271535 original size:105 final size:101
Alignment explanation
Indices: 59271357--59271556 Score: 283
Period size: 105 Copynumber: 1.9 Consensus size: 101
59271347 AATTGACGGA
* * *
59271357 TAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGCTGGGCTATGAAATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATATAAATGTAAGACCATAGCTGGGCTATGAAATTCTAA
59271422 TGACAAGACCATAACTGGGTTATGGCACTATGAACG
66 TGACAAGACCATAACTGGGTTATGGCACTATGAACG
* * **
59271458 TAAGACCCTGGTTGGACCATGGCAGTATATATACATGTATAAGACCATAGCTGGGCTATGGCATT
1 TAAGACCATGGTTGGACCATGGCA--ATATATAAATG--TAAGACCATAGCTGGGCTATGAAATT
* *
59271523 CTGATGATAAGACCATAACTGGGTTATGGCACTA
62 CTAATGACAAGACCATAACTGGGTTATGGCACTA
59271557 CAAATGTAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 23 0.27
103 8 0.09
105 55 0.64
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATATAAATGTAAGACCATAGCTGGGCTATGAAATTCTAA
TGACAAGACCATAACTGGGTTATGGCACTATGAACG
Found at i:59271584 original size:105 final size:105
Alignment explanation
Indices: 59271392--59271586 Score: 257
Period size: 105 Copynumber: 1.9 Consensus size: 105
59271382 TGTTTAAATG
* **
59271392 TAAGACCATAGCTGGGCTATGAAATTTTAATGACAAGACCATAACTGGGTTATGGCACTATGAAC
1 TAAGACCATAGCTGGGCTATGAAATTCTAATGACAAGACCATAACTGGGTTATGGCACTACAAAC
* * **
59271457 GTAAGACCCTGGTTGGACCATGGCAGTATATATACATGTA
66 GTAAAACCATGGAAGGACCATGGCAGTATATATACATGTA
** * * *
59271497 TAAGACCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCACTACAAAT
1 TAAGACCATAGCTGGGCTATGAAATTCTAATGACAAGACCATAACTGGGTTATGGCACTACAAAC
*
59271562 GTAAAACCATGGCAAGG-TCATGGCA
66 GTAAAACCATGG-AAGGACCATGGCA
59271587 ATACATGTGT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
105 74 0.97
106 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (105 bp):
TAAGACCATAGCTGGGCTATGAAATTCTAATGACAAGACCATAACTGGGTTATGGCACTACAAAC
GTAAAACCATGGAAGGACCATGGCAGTATATATACATGTA
Found at i:59274349 original size:13 final size:13
Alignment explanation
Indices: 59274331--59274356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59274321 TATTATTAAT
59274331 ATTATTTTGTGTG
1 ATTATTTTGTGTG
59274344 ATTATTTTGTGTG
1 ATTATTTTGTGTG
59274357 CATTTGATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (13 bp):
ATTATTTTGTGTG
Found at i:59276150 original size:41 final size:41
Alignment explanation
Indices: 59276093--59276297 Score: 159
Period size: 41 Copynumber: 5.0 Consensus size: 41
59276083 GTGGTTAAAT
*
59276093 GTAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAA
1 GTAATACAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAA
*
59276134 GTAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTG-A
1 GTAATACAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAA
* * ** * * *
59276174 -TACATTTCGGACTAAATGTCTAGCAGGCTAAATGCCAGT-ATA
1 GTA-A-TACAGACTTTACGTCTAGCAGGCTTAATGCCGGTGA-A
* * * * * *
59276216 CTGAAT-CAGGCTTTAAGCCTAGCAGGCTAAATGCCGGTGTA
1 GT-AATACAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAA
* * * *
59276257 CTGAAT-CAGGCTTTAAGTCTAGCAGGCTAAATGCCGGTGAA
1 GT-AATACAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAA
59276298 TCTGTTTTTA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 130 0.94
42 2 0.01
43 2 0.01
44 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
GTAATACAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAA
Found at i:59277748 original size:27 final size:27
Alignment explanation
Indices: 59277718--59277938 Score: 237
Period size: 27 Copynumber: 8.2 Consensus size: 27
59277708 CCCTAAAATA
* * *
59277718 GGTATAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * *
59277745 GGTAAAATGATCATAATACCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * *
59277772 GGTAAAATAACCGTAATGCCTCTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
59277799 GGTAAAATGA-CGATAATACCCCTATAA
1 GGTAAAATGACCG-TAATGCCCCTATAG
* * *
59277826 GGTAAAATGACCATAATACCCCCATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * * *
59277853 GATAGAATGACCATAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
59277880 GGTAAAACGATCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
*
59277907 GGTAAAATGACCGTAATGCCCCTAAAG
1 GGTAAAATGACCGTAATGCCCCTATAG
59277934 GGTAA
1 GGTAA
59277939 GTGACTATTT
Statistics
Matches: 160, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.01
27 157 0.98
28 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTATAG
Found at i:59277870 original size:81 final size:81
Alignment explanation
Indices: 59277718--59277928 Score: 280
Period size: 81 Copynumber: 2.6 Consensus size: 81
59277708 CCCTAAAATA
* * * * *
59277718 GGTATAATGATCGTAATGCCCCTGTAGGGTAAAATGATCATAATACCCCTATAGGGTAAAATAAC
1 GGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACCATAATACCCCCATAGGATAAAATAAC
* *
59277783 CGTAATGCCTCTGTAG
66 CATAATGCCCCTGTAG
* * * *
59277799 GGTAAAATGA-CGATAATACCCCTATAAGGTAAAATGACCATAATACCCCCATAGGATAGAATGA
1 GGTAAAATGATCG-TAATGCCCCTATAGGGTAAAATGACCATAATACCCCCATAGGATAAAATAA
59277863 CCATAATGCCCCTGTAG
65 CCATAATGCCCCTGTAG
* * *
59277880 GGTAAAACGATCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCC
1 GGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACCATAATACCCC
59277929 TAAAGGGTAA
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 2 0.02
81 108 0.96
82 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (81 bp):
GGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACCATAATACCCCCATAGGATAAAATAAC
CATAATGCCCCTGTAG
Found at i:59277990 original size:24 final size:24
Alignment explanation
Indices: 59277960--59278022 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
59277950 GCCCCTCGAG
*
59277960 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAATGACTGATTTGTCCGTGA
* *
59277984 TGTAAATGACTGGTTTGTCTGTGA
1 TGTAAATGACTGATTTGTCCGTGA
* **
59278008 TTTGTATGACTGATT
1 TGTAAATGACTGATT
59278023 CTAAGCATGG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.44
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCCGTGA
Found at i:59278233 original size:32 final size:32
Alignment explanation
Indices: 59278192--59278364 Score: 206
Period size: 32 Copynumber: 5.4 Consensus size: 32
59278182 TTGTTGCGAT
*
59278192 GTTACTGATGGCTTTGTGCCGATCATATTACC
1 GTTACTGATGGCTTTGTGCCAATCATATTACC
*
59278224 GTTACTGATGACTTTGTGCCAATCATATTACC
1 GTTACTGATGGCTTTGTGCCAATCATATTACC
* *
59278256 GTTACTGATGGTTTTGTGCCGATCATATTACC
1 GTTACTGATGGCTTTGTGCCAATCATATTACC
* *
59278288 GTTACTGATGG-TTGTGTGCCAATCATATCACT
1 GTTACTGATGGCTT-TGTGCCAATCATATTACC
** *** *
59278320 ACTACTGATGGCTTTACCCCAATCATATTACT
1 GTTACTGATGGCTTTGTGCCAATCATATTACC
*
59278352 G-TACTTATGGCTT
1 GTTACTGATGGCTT
59278365 GTAGCCATTC
Statistics
Matches: 123, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
31 13 0.11
32 108 0.88
33 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.38
Consensus pattern (32 bp):
GTTACTGATGGCTTTGTGCCAATCATATTACC
Found at i:59278381 original size:22 final size:22
Alignment explanation
Indices: 59278356--59278407 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
59278346 ATTACTGTAC
*
59278356 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTTATAGCCATTCTGT
* **
59278378 TTATAGCTTATAGTTATTCTGT
1 TTATGGCTTATAGCCATTCTGT
*
59278400 TTACGGCT
1 TTATGGCT
59278408 CTTAACCATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.48
Consensus pattern (22 bp):
TTATGGCTTATAGCCATTCTGT
Found at i:59279890 original size:2 final size:2
Alignment explanation
Indices: 59279883--59279914 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
59279873 CTACTGCCTG
59279883 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59279915 GAAATAGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59280953 original size:25 final size:25
Alignment explanation
Indices: 59280925--59280974 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
59280915 TTGTAGCGTA
59280925 AGATAAAAAGTAAGTTAAATACACT
1 AGATAAAAAGTAAGTTAAATACACT
59280950 AGATAAAAAGTAAGTTAAATACACT
1 AGATAAAAAGTAAGTTAAATACACT
59280975 GCACTTAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (25 bp):
AGATAAAAAGTAAGTTAAATACACT
Found at i:59282451 original size:16 final size:17
Alignment explanation
Indices: 59282430--59282461 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
59282420 TGGATTGGAT
59282430 CCCTTTCAGC-TTTTTC
1 CCCTTTCAGCATTTTTC
59282446 CCCTTTCAGCATTTTT
1 CCCTTTCAGCATTTTT
59282462 GCCGATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.34, G:0.06, T:0.50
Consensus pattern (17 bp):
CCCTTTCAGCATTTTTC
Found at i:59283617 original size:21 final size:21
Alignment explanation
Indices: 59283575--59283617 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
59283565 ACAACAATGG
* *
59283575 CAATGAGATTAATTATTGTAA
1 CAATGAGATTAATTACTATAA
59283596 CAATGAGATTAGA-TACTATAA
1 CAATGAGATTA-ATTACTATAA
59283617 C
1 C
59283618 GTAAGACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (21 bp):
CAATGAGATTAATTACTATAA
Found at i:59285466 original size:39 final size:39
Alignment explanation
Indices: 59285423--59285502 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
59285413 GGGGTTTTAA
59285423 TTAGAAAGAGATTTCGATTAATCAACCTAGAGTCAGTTG
1 TTAGAAAGAGATTTCGATTAATCAACCTAGAGTCAGTTG
59285462 TTAGAAAGAGATTTCGATTAATCAACCTAGAGTCAGTTG
1 TTAGAAAGAGATTTCGATTAATCAACCTAGAGTCAGTTG
59285501 TT
1 TT
59285503 CTTACTCTCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (39 bp):
TTAGAAAGAGATTTCGATTAATCAACCTAGAGTCAGTTG
Done.