Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 80 of 187
Found at i:23696986 original size:17 final size:18
Alignment explanation
Indices: 23696952--23696986 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23696942 CTGTTATGGC
23696952 ATTCCCATATGCTTTCTA
1 ATTCCCATATGCTTTCTA
*
23696970 ATTCCTATATG-TTTCTA
1 ATTCCCATATGCTTTCTA
23696987 TATTTGAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.49
Consensus pattern (18 bp):
ATTCCCATATGCTTTCTA
Found at i:23739721 original size:5 final size:5
Alignment explanation
Indices: 23739707--23739738 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
23739697 TAACCCCGCC
23739707 AAAT- AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAA
23739739 GGGGTCACGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:23749988 original size:42 final size:42
Alignment explanation
Indices: 23749929--23750017 Score: 178
Period size: 42 Copynumber: 2.1 Consensus size: 42
23749919 ACAGTCTTCA
23749929 CCAAGACAGCTGGAAGGCATAGAGTCAAGACAAAAAGGAAAG
1 CCAAGACAGCTGGAAGGCATAGAGTCAAGACAAAAAGGAAAG
23749971 CCAAGACAGCTGGAAGGCATAGAGTCAAGACAAAAAGGAAAG
1 CCAAGACAGCTGGAAGGCATAGAGTCAAGACAAAAAGGAAAG
23750013 CCAAG
1 CCAAG
23750018 CCAGGAATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.47, C:0.18, G:0.28, T:0.07
Consensus pattern (42 bp):
CCAAGACAGCTGGAAGGCATAGAGTCAAGACAAAAAGGAAAG
Found at i:23749999 original size:24 final size:24
Alignment explanation
Indices: 23749930--23750002 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 24
23749920 CAGTCTTCAC
23749930 CAAGACAGCTGGAAGGCATAGAGT
1 CAAGACAGCTGGAAGGCATAGAGT
** *
23749954 CAAGACA---AAAAGG-A-A-AGC
1 CAAGACAGCTGGAAGGCATAGAGT
23749972 CAAGACAGCTGGAAGGCATAGAGT
1 CAAGACAGCTGGAAGGCATAGAGT
23749996 CAAGACA
1 CAAGACA
23750003 AAAAGGAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
18 9 0.24
19 1 0.03
20 1 0.03
21 8 0.22
22 1 0.03
23 1 0.03
24 16 0.43
ACGTcount: A:0.45, C:0.18, G:0.29, T:0.08
Consensus pattern (24 bp):
CAAGACAGCTGGAAGGCATAGAGT
Found at i:23833055 original size:25 final size:25
Alignment explanation
Indices: 23833021--23833069 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
23833011 TAACATAGAG
23833021 GAAGAAGCTTCCGGTCATGGAGTTC
1 GAAGAAGCTTCCGGTCATGGAGTTC
23833046 GAAGAAGCTTCCGGTCATGGAGTT
1 GAAGAAGCTTCCGGTCATGGAGTT
23833070 TTTACATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (25 bp):
GAAGAAGCTTCCGGTCATGGAGTTC
Found at i:23833332 original size:151 final size:151
Alignment explanation
Indices: 23833052--23833359 Score: 512
Period size: 151 Copynumber: 2.0 Consensus size: 151
23833042 GTTCGAAGAA
23833052 GCTTCCGGTCATGGAGTTTTTACATGCATGATCAAGAAACGAACCAAACAAATCTAAACCGAGGA
1 GCTTCCGGTCATGGAGTTTTTACATGCATGATCAAGAAACGAACCAAACAAATCTAAACCGAGGA
* * *
23833117 AAAGCTAATGTGTCAAATTTGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAAGTAGGTTTG
66 AAACCTAATGTGTCAAATTTGTCGGCTGCTTCATTTTTACAACAATATTTGTCGAAGTAAGTTTG
23833182 TAGTATATAATATATATGTTT
131 TAGTATATAATATATATGTTT
* * *
23833203 GCTTCCGGTCATGGAGTTTTTGCATGCATGATC-AGCAAACGAACCAAACAGATCTAAACCGGGG
1 GCTTCCGGTCATGGAGTTTTTACATGCATGATCAAG-AAACGAACCAAACAAATCTAAACCGAGG
*
23833267 AAAACCTAATGTGTCAGATTTGTCGGCTGCTTCATTTTTACAACAATATTTGTCG-AGATAAGTT
65 AAAACCTAATGTGTCAAATTTGTCGGCTGCTTCATTTTTACAACAATATTTGTCGAAG-TAAGTT
23833331 TGTAGTATATAATATATATGTTT
129 TGTAGTATATAATATATATGTTT
*
23833354 GTTTCC
1 GCTTCC
23833360 TTATGATTAT
Statistics
Matches: 147, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
150 4 0.03
151 143 0.97
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (151 bp):
GCTTCCGGTCATGGAGTTTTTACATGCATGATCAAGAAACGAACCAAACAAATCTAAACCGAGGA
AAACCTAATGTGTCAAATTTGTCGGCTGCTTCATTTTTACAACAATATTTGTCGAAGTAAGTTTG
TAGTATATAATATATATGTTT
Found at i:23835253 original size:623 final size:623
Alignment explanation
Indices: 23834053--23835822 Score: 3024
Period size: 623 Copynumber: 2.8 Consensus size: 623
23834043 NNNNNNNNNN
* * *
23834053 TTAAGTACAAATCGAAAATGAATATTTGGCCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATG
1 TTAACTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATG
* *
23834118 GATGTAACAGATTTATACTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAG
66 AATGTAACAGATTTATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAG
* *
23834183 GTGCAAAAATAGATTTCTATTAGCTAAAGGGGTCAACTTATAATGGATTATCAAACTAATGGACT
131 GTGCAAAAATAGATTTCTATTAGGTAAAGGGGTCAATTTATAATGGATTATCAAACTAATGGACT
* *
23834248 TAAATGGTAAATGCACCAAATGAACTTAGGGTGGACGGTTTTGGGTGATTAAATGCATGAAATTT
196 TAAATGGTAAATGCACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTT
* *
23834313 GATTTATTAAGGGAAAATTTGTAAATTTGTAATTGAATGGAAATTAAAACAAACTAAAAGACAAA
261 GATTT-TTAAGGGAAAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAA
23834378 AATGTTATCATCTCCTCTAATTTGCTATTTTGCAAATCGAATAACAGAGAGGAAGAAGGTTCCGG
325 AATGTTATCATCTCCTCTAATTTGCTATTTTGCAAATCGAATAACAGAGAGGAAGAAGGTTCCGG
* * **
23834443 TCATGGAGTTTTTACATGCATGATCAAGAAATGAACCAAACAAATCTAAACCGAGGAAAAGCTAA
390 TCATGGAGTTTTTACATGCATGATCAAGAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTAA
23834508 TGTGTCAGATTTGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTATGTAGTATAT
455 TGTGTCAGATTTGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTATGTAGTATAT
* *
23834573 AATATATATGTGTGTTTCCTTATGACTATGTATATCAATTGTTAGTTCAATTATAATTAATGTGA
520 AATATATATGTGTGTTTCCTTACGACTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGA
*
23834638 AAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAA
585 AAATTTCATTGTTTGCCTGTAAATTATTAAATGTTGGAA
* * * * * *
23834677 TTAAGTGCTAATGGAAAATGAATATTTCGTCGTGGCAAATCTTGTGGCTTCACGATTTTGAAATG
1 TTAACTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATG
*
23834742 AATGTAACAGATTTATATTATGTGTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAG
66 AATGTAACAGATTTATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAG
* * * *
23834807 GTGCAAAAGTAGATTTCTATCAGGTAAACGGGTCAATTTATTATGGATTATCAAACTAATGGACT
131 GTGCAAAAATAGATTTCTATTAGGTAAAGGGGTCAATTTATAATGGATTATCAAACTAATGGACT
* *
23834872 TAAATGGTAAATGCACCAAATGAACTTAAAGTGGATGGTTTTCGGTGATTAAATGCATGAAATTT
196 TAAATGGTAAATGCACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTT
23834937 GATTTTTAAGGGAAAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAA
261 GATTTTTAAGGGAAAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAA
* *
23835002 ATGTTATCATCTCCTCTAATTTGTTATTTTGCAAACCGAATAACAGAGAGGAAGAAGGTTCCGGT
326 ATGTTATCATCTCCTCTAATTTGCTATTTTGCAAATCGAATAACAGAGAGGAAGAAGGTTCCGGT
*
23835067 CATGGAGTTTTTACATGCATGATCAAGAAACGAACCAACCGGATCTAAACCCAGGAAAAGCTAAT
391 CATGGAGTTTTTACATGCATGATCAAGAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTAAT
* * *
23835132 GTGTCAGATTTGTCGGCTGCTTCATTTTTAAAACTATATTTGTCGTGGAAAGTATGTAGTATATA
456 GTGTCAGATTTGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTATGTAGTATATA
* * *
23835197 ATATATATGTTTGTTTCCTTACGATTATGTATATCAATTGTTTGTTAAATTATAATTAATGTGAA
521 ATATATATGTGTGTTTCCTTACGACTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAA
*
23835262 ATTTTCATTGTTTGCCTGTAAATTATTAAATGTTGGAA
586 AATTTCATTGTTTGCCTGTAAATTATTAAATGTTGGAA
*
23835300 TTAACTACAAATGGAAAATGAATATTTGGTAGTGGCAAATCTTGTGGTTTCACAATTTTGAAATG
1 TTAACTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATG
*
23835365 AATGTAACAGATTTATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAACTTGAAAAAG
66 AATGTAACAGATTTATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAG
* *
23835430 GTGCAAAAATAGATTTCTATTAGGTAAAGGGGCCAATTTATAATGGATTGTCAAACTAATGGACT
131 GTGCAAAAATAGATTTCTATTAGGTAAAGGGGTCAATTTATAATGGATTATCAAACTAATGGACT
*
23835495 AAAATGGTAAATGCACCAAATGAACTTAGAGTGGATGCG-TTTGGGTGATTAAATGCATGAAATT
196 TAAATGGTAAATGCACCAAATGAACTTAGAGTGGATG-GTTTTGGGTGATTAAATGCATGAAATT
* *
23835559 TGATTTTTTAAGGGAAAAATTGTAAATTTGTAATGAAATGGAAATTAAAACAAACTAAAAGAAAA
260 TGA-TTTTTAAGGGAAAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAA
23835624 AAATGTTATCATCTCCTCTAATTTGCTATTTTGCAAATCGAATAACAGAGAGGAAGAAGGTTCCG
324 AAATGTTATCATCTCCTCTAATTTGCTATTTTGCAAATCGAATAACAGAGAGGAAGAAGGTTCCG
23835689 GTCATGGAGTTTTTACATGCATGATCAAGAAACGAACCAACCGGATCTAAACCGAGGAAAAGCT-
389 GTCATGGAGTTTTTACATGCATGATCAAGAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTA
* * *
23835753 ATCGTGTCAGATTAGTCGGCAGCTTCATTTTTACAACTATATTTGTCGAGGTAAGT-TTTAGTAT
454 AT-GTGTCAGATTTGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTATGTAGTAT
23835817 ATAATA
518 ATAATA
23835823 GTGTCAGATT
Statistics
Matches: 1075, Mismatches: 68, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
623 596 0.55
624 479 0.45
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.33
Consensus pattern (623 bp):
TTAACTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATG
AATGTAACAGATTTATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAG
GTGCAAAAATAGATTTCTATTAGGTAAAGGGGTCAATTTATAATGGATTATCAAACTAATGGACT
TAAATGGTAAATGCACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTT
GATTTTTAAGGGAAAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAA
ATGTTATCATCTCCTCTAATTTGCTATTTTGCAAATCGAATAACAGAGAGGAAGAAGGTTCCGGT
CATGGAGTTTTTACATGCATGATCAAGAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTAAT
GTGTCAGATTTGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTATGTAGTATATA
ATATATATGTGTGTTTCCTTACGACTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAA
AATTTCATTGTTTGCCTGTAAATTATTAAATGTTGGAA
Found at i:23835864 original size:68 final size:68
Alignment explanation
Indices: 23835756--23835891 Score: 211
Period size: 68 Copynumber: 2.0 Consensus size: 68
23835746 AAAAGCTATC
*
23835756 GTGTCAGATTAGTCGGCAGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTT-TAGTATATA
1 GTGTCAGATTAATCGGCAGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATA
23835820 ATA
66 ATA
* * * *
23835823 GTGTCAGATTAATCAGGCTGCTTGATTTTTACCAGTATATTTGTCGAGGTAAGTTTGTAGTATAT
1 GTGTCAGATTAATC-GGCAGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATAT
23835888 AATA
65 AATA
23835892 TATATGTTTG
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 13 0.21
68 37 0.60
69 12 0.19
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (68 bp):
GTGTCAGATTAATCGGCAGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATA
ATA
Found at i:23839198 original size:68 final size:68
Alignment explanation
Indices: 23839085--23839224 Score: 255
Period size: 68 Copynumber: 2.1 Consensus size: 68
23839075 GAGGAAAAGC
23839085 TAAT-GTGTCAGATTAGTCGGCAGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
1 TAATAGTGTCAGATTAGTCGGCAGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
23839149 ATA
66 ATA
* *
23839152 TAATAGTGTCAGATTTGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
1 TAATAGTGTCAGATTAGTCGGCAGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
23839217 ATA
66 ATA
23839220 TAATA
1 TAATA
23839225 TATATGTTTG
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
67 4 0.06
68 66 0.94
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.41
Consensus pattern (68 bp):
TAATAGTGTCAGATTAGTCGGCAGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
ATA
Found at i:23840343 original size:623 final size:623
Alignment explanation
Indices: 23839152--23840470 Score: 2316
Period size: 623 Copynumber: 2.1 Consensus size: 623
23839142 TTGTAGTATA
*
23839152 TAATAGTGTCAGATTTGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
1 TAAT-GTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
*
23839217 ATATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTGTTTGTTAAATTATAATTAAT
65 ATATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAAT
*
23839282 GTGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGTATTAAGTACAAATGGAAAATGAA
130 GTGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAA
23839347 TATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTATG
195 TATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTATG
*
23839412 TGTACAAATAATTAATTAAGTAAAAATCACTAAATAGAAAAAGGTGCAAAAATAGATTTCTATTA
260 TGTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTA
*
23839477 GGTAAATGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAATG
325 GGTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAATG
* * * *
23839542 AACTTAAAATGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAACTGT
390 AACTTAAAGTGGATGGGTTTCGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGT
* *
23839607 AAATTTGTAATGAAATGGAAATTAAAACAAACTACAAGAAAAAATGTTATCATCTCCTCTAATTT
455 AAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGAAAAAATGTTATCATCTCCTCTAATTT
23839672 GCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTACATGCATGA
520 GCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTACATGCATGA
23839737 TCAACAAACGAACCAACCGGATCTAAAACC-AGGAAAAGC
585 TCAACAAACGAACCAACCGGATCT-AAACCGAGGAAAAGC
* * *
23839776 TAATGTGTCAGATTAGTCGGCTGCTTCATTTTTAAAACTATATTTGTCGAGGTAAGTATGCAGTA
1 TAATGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
*
23839841 TATAATATATATGTTTGTTTCCTTACGATTATGTATATCAATTGTTAGTTAAATTATAATTAATG
66 TATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATG
23839906 TGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAAT
131 TGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAAT
* *
23839971 ATTTGGTCGTGCCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATCTATATTATGT
196 ATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTATGT
* * *
23840036 GTACAGATAATTAATTAAGTAAAAATCACTAACTTGAAAAAGGCGCAAAAATAGATTTCTATTAG
261 GTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAG
* * * * *
23840101 GTAAAGGGGCCAATTTATAATGGATTGTCAAACTAATGGACTTAAATGGTAACTGCACCGAATGA
326 GTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAATGA
* *
23840166 ACTTAGAGTGGATGGGTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTA
391 ACTTAAAGTGGATGGGTTTCGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTA
23840231 AATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGAAAAAATGTTATCATCTCCTCTAATTTG
456 AATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGAAAAAATGTTATCATCTCCTCTAATTTG
* * * *
23840296 CTATTTTGCAAACTGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTATTACATGCATAAC
521 CTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTACATGCATGAT
*
23840361 CAAGAAACGAACCAACCGGATCTAAACCGAGGAAAAGC
586 CAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGC
*
23840399 TAATGTGTCAGCTTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
1 TAATGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
23840464 TATAATA
66 TATAATA
23840471 GTGTCAGATT
Statistics
Matches: 660, Mismatches: 34, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
622 5 0.01
623 651 0.99
624 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (623 bp):
TAATGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
TATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATG
TGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAAT
ATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTATGT
GTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAG
GTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAATGA
ACTTAAAGTGGATGGGTTTCGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTA
AATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGAAAAAATGTTATCATCTCCTCTAATTTG
CTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTACATGCATGAT
CAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGC
Found at i:23840512 original size:68 final size:68
Alignment explanation
Indices: 23840399--23840538 Score: 264
Period size: 68 Copynumber: 2.1 Consensus size: 68
23840389 GAGGAAAAGC
*
23840399 TAAT-GTGTCAGCTTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
1 TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
23840463 ATA
66 ATA
23840466 TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
1 TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
23840531 ATA
66 ATA
23840534 TAATA
1 TAATA
23840539 TATATGTTTG
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 4 0.06
68 67 0.94
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.41
Consensus pattern (68 bp):
TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
ATA
Found at i:23841831 original size:68 final size:68
Alignment explanation
Indices: 23841715--23841854 Score: 264
Period size: 68 Copynumber: 2.1 Consensus size: 68
23841705 GAGGAAAAGC
*
23841715 TAAT-GTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
1 TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATATGTCGAGGTAAGTTTGTAGT
23841779 ATA
66 ATA
23841782 TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATATGTCGAGGTAAGTTTGTAGT
1 TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATATGTCGAGGTAAGTTTGTAGT
23841847 ATA
66 ATA
23841850 TAATA
1 TAATA
23841855 TATATGTTTG
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 4 0.06
68 67 0.94
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (68 bp):
TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATATGTCGAGGTAAGTTTGTAGT
ATA
Found at i:23842417 original size:691 final size:691
Alignment explanation
Indices: 23841092--23842477 Score: 2517
Period size: 691 Copynumber: 2.0 Consensus size: 691
23841082 GAGGAAAAGC
*
23841092 TAAT-GTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
1 TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATATGTCGAGGTAAGTTTGTAGT
23841156 ATATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTTTTAGTTAAATTATAATTAAT
66 ATATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTTTTAGTTAAATTATAATTAAT
*
23841221 GTGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAA
131 GTGAAAATTTCAATGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAA
23841286 TATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACACATTTTTATTATG
196 TATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACACATTTTTATTATG
*
23841351 TGTACAGATCATTAATTAAGTAAAAATCACTAACCTGAAAAAGGTGTAAAAATAGATTTCTATTA
261 TGTACAGATCATTAATTAAGTAAAAATCACTAACCTGAAAAAGGTGCAAAAATAGATTTCTATTA
* *
23841416 GGTAAAGGGGCCAATTTATAATGGATTGTCAAACTAATGGACTTAAATGGTAAATGCACCAAATG
326 GGTAAAGGGGCCAATTTATAATGGATTATCAAACTAATAGACTTAAATGGTAAATGCACCAAATG
* *
23841481 AACTTAGAGTGGATGGGTTTGGGTGATTAACTGCATGAAATTTGATTTTTAAGGGAAAAATTGTA
391 AACTTAAAGTGGATGGGTTTGGGTGATTAACTGCATGAAATTTGATTTTTAAGGGAAAAATTATA
23841546 AATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGAAAAAAATGTTATCATCTCCTCTAATTT
456 AATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGAAAAAAATGTTATCATCTCCTCTAATTT
* *
23841611 GCTATTTTGCAAAACGAATAAGAGAGAGGAAGAAGCTTCCGGTCATGGAGTTATTACATGCATAT
521 GCTATTTTACAAAACGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTATTACATGCATAT
* *
23841676 TCAAGAAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTT
586 TCAAGAAACGAACCAAACAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCAGCTGCTT
23841741 CATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATA
651 CATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATA
23841782 TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATATGTCGAGGTAAGTTTGTAGT
1 TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATATGTCGAGGTAAGTTTGTAGT
23841847 ATATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTTTTAGTTAAATTATAATTAAT
66 ATATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTTTTAGTTAAATTATAATTAAT
23841912 GTGAAAATTTCAATGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAA
131 GTGAAAATTTCAATGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAA
* *
23841977 TATTTGGTCGTTGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTTTATTATG
196 TATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACACATTTTTATTATG
* *
23842042 TGTACAGATCATTAATTAAGTAAAAATCACTAACTTGAAAATGGTGCAAAAATAGATTTCTATTA
261 TGTACAGATCATTAATTAAGTAAAAATCACTAACCTGAAAAAGGTGCAAAAATAGATTTCTATTA
* * *
23842107 GGTAAAGGGGTCAATTTATTATGGGTTATCAAACTAATAGACTTAAATGGTAAATGCACCAAATG
326 GGTAAAGGGGCCAATTTATAATGGATTATCAAACTAATAGACTTAAATGGTAAATGCACCAAATG
*
23842172 AACTTAAAGTGGATGGTTTTGGGTGATTATA-TGCATGAAATTTGATTTTTAAGGGAAAAATTAT
391 AACTTAAAGTGGATGGGTTTGGGTGATTA-ACTGCATGAAATTTGATTTTTAAGGGAAAAATTAT
*
23842236 AAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATT
455 AAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGAAAAAAATGTTATCATCTCCTCTAATT
* * *
23842301 TGCTATTTTACAAACCGAATAACATAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTACATGCATG
520 TGCTATTTTACAAAACGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTATTACATGCAT-
*
23842366 A-TCAAGAAACGAACCAACCAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCAGCTGC
584 ATTCAAGAAACGAACCAAACAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCAGCTGC
23842430 TTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATA
649 TTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATA
23842473 TAATA
1 TAATA
23842478 TATATGTTTG
Statistics
Matches: 669, Mismatches: 24, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
690 4 0.01
691 663 0.99
692 2 0.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (691 bp):
TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATATGTCGAGGTAAGTTTGTAGT
ATATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTTTTAGTTAAATTATAATTAAT
GTGAAAATTTCAATGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAA
TATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACACATTTTTATTATG
TGTACAGATCATTAATTAAGTAAAAATCACTAACCTGAAAAAGGTGCAAAAATAGATTTCTATTA
GGTAAAGGGGCCAATTTATAATGGATTATCAAACTAATAGACTTAAATGGTAAATGCACCAAATG
AACTTAAAGTGGATGGGTTTGGGTGATTAACTGCATGAAATTTGATTTTTAAGGGAAAAATTATA
AATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGAAAAAAATGTTATCATCTCCTCTAATTT
GCTATTTTACAAAACGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTATTACATGCATAT
TCAAGAAACGAACCAAACAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCAGCTGCTT
CATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATA
Found at i:23843176 original size:661 final size:624
Alignment explanation
Indices: 23841782--23844812 Score: 4382
Period size: 624 Copynumber: 4.8 Consensus size: 624
23841772 TTGTAGTATA
*
23841782 TAATAGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATATGTCGAGGTAAGTTTGTAGT
1 TAAT-GTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGT
*
23841847 ATATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTTTTAGTTAAATTATAATTAAT
65 ATATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAAT
*
23841912 GTGAAAATTTCAATGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAA
130 GTGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAA
* * * *
23841977 TATTTGGTCGTTGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTTTATTATG
195 TATTTGGTCATGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTCTG
* * * * **
23842042 TGTACAGATCATTAATTAAGTAAAAATCACTAACTTGAAAATGGTGCAAAAATAGATTTCTATTA
260 TGTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTAATATTA
* * *
23842107 GGTAAAGGGGTCAATTTATTATGGGTTATCAAACTAATAGACTTAAATGGTAAATGCACCAAATG
325 GGTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAAAG
* * * * *
23842172 AACTTAAAGTGGATGGTTTTGGGTGATTATATGCATGAAATTTGA-TTTTTAAGGGAAAAATTAT
390 AACTTAAAGTAGATGGTTTTCGGTGATTAAATGCATGAAATTTGATTTTTTTAGGGAAAAATTGT
* *
23842236 AAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATT
455 AAATTTGTAATGAAATGGAAATTAAAACAAACGAAAAGACAAAAATGTTATCATCTCCTCTAATT
* * *
23842301 TGCTATTTTACAAACCGAATAACATAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTACATGCATG
520 TGCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTTCATGCATG
* *
23842366 ATCAAGAAACGAACCAACCAGATCTAAACCGAGGAAAAGC
585 ATCAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGC
*
23842406 TAATGTGTCAGATTAGTCAGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
1 TAATGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
23842471 TATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATG
66 TATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATG
23842536 TGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAAT
131 TGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAAT
* * * * *
23842601 ATTTGGTCGTGGCAATTCTTGTGGTTTCTCAATTTTGAAATGAATGTAACAGATTTATATTATGA
196 ATTTGGTCATGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTCTGT
* ** **
23842666 GTACAAATAATTAATTACGTAAAAATCACTAAATTGAAAAAGGCCCAAAAAATAGATTTCTATTA
261 GTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGC-AAAAATAGATTAATATTA
* *
23842731 GGTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAATTGCACCAAATG
325 GGTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAAAG
* * * * *
23842796 AACTTAGAGTGGATGGTTTCCGGTGATTAAATGCATGAAATTTGATTTTTTAATGGAAAANNNNN
390 AACTTAAAGTAGATGGTTTTCGGTGATTAAATGCATGAAATTTGATTTTTTTAGGGAAAA-----
**********************************
23842861 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
450 -------------------------------ATTGTAAATTTGTAATGAAATGGAAATTAAAACA
****************************** *
23842926 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTAATTTGCTATTTTGCAAACCGAATAACAAAGAG
484 AACGAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTATTTTGCAAACCGAATAACAGAGAG
*
23842991 GAAGAAGCTTTCGGTCATGGAGTTTTTTCATGCATGATCAACAAACGAACCAACCGGATCTAAAC
549 GAAGAAGCTTCCGGTCATGGAGTTTTTTCATGCATGATCAACAAACGAACCAACCGGATCTAAAC
23843056 CGAGGAAAAGC
614 CGAGGAAAAGC
23843067 TAATGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
1 TAATGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
* *
23843132 TATAATATATATCTTTGTTTCCTTATGATTATGTATATCAATTGTTAATTAAATTATAATTAATG
66 TATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATG
*
23843197 TGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAACTGAAT
131 TGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAAT
*
23843262 ATTTGGTCATGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATGTTCTGT
196 ATTTGGTCATGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTCTGT
*
23843327 GTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATATATTAATATTAG
261 GTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTAATATTAG
23843392 GTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAAAGA
326 GTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAAAGA
23843457 ACTTAAAGTAGATGGTTTTCGGTGATTAAATGCATGAAATTTGATTTTTTTAGGGAAAAATTGTA
391 ACTTAAAGTAGATGGTTTTCGGTGATTAAATGCATGAAATTTGATTTTTTTAGGGAAAAATTGTA
*
23843522 AATTTGTAATTAAATGGAAATTAAAACAAACGAAAAGACAAAAATGTTATCATCTCCTCTAATTT
456 AATTTGTAATGAAATGGAAATTAAAACAAACGAAAAGACAAAAATGTTATCATCTCCTCTAATTT
* * *
23843587 GCTATTTTGCAAACCGAATGACAGAGAGGAAGAAACTTCCGGTCATGGAGTTTTTTCTTGCATGA
521 GCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTTCATGCATGA
*
23843652 TCAACAAAGGAACCAACCGGATCTAAACCGAGGAAAAGC
586 TCAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGC
*
23843691 TAATGTGTCAGATTAGTCGGGTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
1 TAATGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
*
23843756 TATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATGAATG
66 TATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATG
* *
23843821 TGAAATTTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAACTGAAT
131 TGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAAT
23843886 ATTTGGTCATGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTCTGT
196 ATTTGGTCATGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTCTGT
* * **
23843951 GTACAAATAATTAATTAAGTAAAAATCACTAAATAGAAAAAGGTGTAAAAATAGATTTCTATTAG
261 GTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTAATATTAG
*
23844016 GTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTCAATGCACCAAAAGA
326 GTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAAAGA
23844081 ACTTAAAGTAGATGGTTTTCGGTGATTAAATGCATGAAATTTGATTTTTTTAGGGAAAAATTGTA
391 ACTTAAAGTAGATGGTTTTCGGTGATTAAATGCATGAAATTTGATTTTTTTAGGGAAAAATTGTA
*
23844146 AATTTGTAATGAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTT
456 AATTTGTAATGAAATGGAAATTAAAACAAACGAAAAGACAAAAATGTTATCATCTCCTCTAATTT
* *
23844211 GCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGATCATGGAGTTTTGTCATGCATGA
521 GCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTTCATGCATGA
*
23844276 TCAACAAATGAACCAACCGGATCTAAACCGAGGAAAAGC
586 TCAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGC
* *
23844315 TAATGTGTCAGATTAGTCGGTTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTTGTA
1 TAATGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
* *
23844380 TATAATATAAATGTTT-TATTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTATT
66 TATAATATATATGTTTGT-TTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAAT
23844444 GTGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAA
130 GTGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAA
*
23844509 TATTTGGTCGTGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTCTG
195 TATTTGGTCATGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTCTG
*
23844574 TGTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATATATTAATATTA
260 TGTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTAATATTA
23844639 GGTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAAAG
325 GGTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAAAG
23844704 AACTTAAAGTAGATGG-TTTCGGTGATTAAATGCATGAAATTTGATTTTTTTA-GGAAAAATTGT
390 AACTTAAAGTAGATGGTTTTCGGTGATTAAATGCATGAAATTTGATTTTTTTAGGGAAAAATTGT
* *
23844767 AATTTTGTAAT-TAATGG-AATTAAAACAAACGAAAAGACAAAAATGT
455 AAATTTGTAATGAAATGGAAATTAAAACAAACGAAAAGACAAAAATGT
23844813 NNNNNNNNNN
Statistics
Matches: 2144, Mismatches: 224, Indels: 82
0.88 0.09 0.03
Matches are distributed among these distances:
620 28 0.01
621 5 0.00
622 21 0.01
623 323 0.15
624 1223 0.57
625 13 0.01
660 133 0.06
661 398 0.19
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.34
Consensus pattern (624 bp):
TAATGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTA
TATAATATATATGTTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATG
TGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAAT
ATTTGGTCATGGCAAATCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTTATATTCTGT
GTACAAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTAATATTAG
GTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAAAGA
ACTTAAAGTAGATGGTTTTCGGTGATTAAATGCATGAAATTTGATTTTTTTAGGGAAAAATTGTA
AATTTGTAATGAAATGGAAATTAAAACAAACGAAAAGACAAAAATGTTATCATCTCCTCTAATTT
GCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTTCATGCATGA
TCAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGC
Found at i:23847825 original size:624 final size:624
Alignment explanation
Indices: 23846638--23848291 Score: 3121
Period size: 624 Copynumber: 2.7 Consensus size: 624
23846628 NNNNNNNNNN
23846638 ATTTGTAATGAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTG
1 ATTTGTAATGAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTG
*
23846703 CTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGGAG-TTTTTCATGCATGAT
66 CTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTTCATGCATGAT
*
23846767 CAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTAATGTGTCATATTAGTCGGCTGCTTC
131 CAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTC
23846832 ATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATG
196 ATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATG
23846897 ATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAAT
261 ATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAAT
23846962 TATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTT
326 TATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTT
23847027 CACAATTTTGAAATGAATGTAACAGATTGATATTATGTGTACAAATAATTAATTAAGTAAAAATC
391 CACAATTTTGAAATGAATGTAACAGATTGATATTATGTGTACAAATAATTAATTAAGTAAAAATC
*
23847092 ACTAAATAGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAAAGGGGTCAATTTATTATGGATTA
456 ACTAAATAGAAAAAGGCGCAAAAATAGATTTCTATTAGGTAAAGGGGTCAATTTATTATGGATTA
*
23847157 TCAAACTAATGGACTTAAATGGTCAATGCACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATT
521 TCAAACTAATGGACTTAAATGGTAAATGCACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATT
23847222 AAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAA
586 AAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAA
23847261 ATTTGTAATGAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTG
1 ATTTGTAATGAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTG
23847326 CTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTTCATGCATGAT
66 CTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTTCATGCATGAT
* *
23847391 CAACAAACGAACCAACTGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGTTGCTTC
131 CAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTC
*
23847456 ATTTTTACAACTATATTTGTCGAGGTAAGTTTGTTGTATATAATATATATGTTTGTTTCCTTATG
196 ATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATG
* *
23847521 GTTATGTATATCAATTGTTAGTTAAATTATAATTATTGTGAAAATTTCATTGTTTGCTTGTAAAT
261 ATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAAT
23847586 TATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTT
326 TATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTT
* *
23847651 CACAATTTTGAAATGAATGTAACAGATTTATATTATGTGTACAAATAATTAATTACGTAAAAATC
391 CACAATTTTGAAATGAATGTAACAGATTGATATTATGTGTACAAATAATTAATTAAGTAAAAATC
*
23847716 ACTAAATTGAAAAAGGCGCAAAAATAGATTTCTATTAGGTAAAGGGGTCAATTTATTATGGATTA
456 ACTAAATAGAAAAAGGCGCAAAAATAGATTTCTATTAGGTAAAGGGGTCAATTTATTATGGATTA
23847781 TCAAACTAATGGACTTAAATGGTAAATGCACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATT
521 TCAAACTAATGGACTTAAATGGTAAATGCACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATT
*
23847846 AAATGCATGAAATTTGATTTTTTAATGGAAAAATTGTAA
586 AAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAA
*
23847885 ATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTG
1 ATTTGTAATGAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTG
* *
23847950 CTATTTCGCAAACCGAATAACAGAAAGGAAGAAGCTTCCGGTCATGGAGTTTTTTCATGCATGAT
66 CTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTTCATGCATGAT
23848015 CAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTC
131 CAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTC
*
23848080 ATTTTTACAACTATATTTGTCGAGCTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATG
196 ATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATG
* *
23848145 ATAATGTATATCAATTGTTAATTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAAT
261 ATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAAT
*
23848210 TATTAAATGTTGGAATTAAGTACAAATGGAAAAGGAATATTTGGTCGTGGCAAATCTTGTGGTTT
326 TATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTT
23848275 CACAATTTTGAAATGAA
391 CACAATTTTGAAATGAA
23848292 NNNNNNNNNN
Statistics
Matches: 1005, Mismatches: 25, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
623 113 0.11
624 892 0.89
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (624 bp):
ATTTGTAATGAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTG
CTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTTCATGCATGAT
CAACAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTC
ATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATG
ATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAAT
TATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTT
CACAATTTTGAAATGAATGTAACAGATTGATATTATGTGTACAAATAATTAATTAAGTAAAAATC
ACTAAATAGAAAAAGGCGCAAAAATAGATTTCTATTAGGTAAAGGGGTCAATTTATTATGGATTA
TCAAACTAATGGACTTAAATGGTAAATGCACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATT
AAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAA
Found at i:23849586 original size:624 final size:624
Alignment explanation
Indices: 23848392--23849655 Score: 2251
Period size: 624 Copynumber: 2.0 Consensus size: 624
23848382 NNNNNNNNNN
* * *
23848392 ATATTCTGTGTACAAATAATTAATTAAGTAAAAATCGCTAAATTGAAAAAGGTGCAAAAATATAT
1 ATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATATAT
* * *
23848457 TTCTATTAGGTAAAGGGGTCAATTTATTATGGACTATCAAACTAATGGACTTAAATGGTAAATGC
66 TTCTATTAGATAAAGGGGTCAATTTATAATGGACTATCAAACTAATAGACTTAAATGGTAAATGC
* *
23848522 ACCAAATGAACTTTGAGTGAATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAATGGA
131 ACCAAATGAACTTAGAGTGAATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
23848587 AAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTC
196 AAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTC
23848652 CTCTAATTTGCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGATCATGGAGTTTTTA
261 CTCTAATTTGCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGATCATGGAGTTTTTA
* *
23848717 CATGCATGATCAAGAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGT
326 CATGCATGATCAAGAAACGAACCAAACAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGT
*
23848782 CGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTG
391 CGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGCTTG
23848847 TTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTT
456 TTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTT
*
23848912 GCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGAAAAT
521 CCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGAAAAT
*
23848977 CTTGTAGTTTCACAATTTTGAAACGAATGTAACAGATTT
586 CTTGTAGTTTCACAATTTTGAAACGAAGGTAACAGATTT
*
23849016 ATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTATATTGAAAAAGGTGCAAAAATATAT
1 ATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATATAT
* *
23849081 TTCTATTAGATAAATGGGTCAATTTATAATGGATTATCAAACTAATAGACTTAAATGGTAAATGC
66 TTCTATTAGATAAAGGGGTCAATTTATAATGGACTATCAAACTAATAGACTTAAATGGTAAATGC
* **
23849146 ACCAAATGAACTTAGGGTGGTTGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
131 ACCAAATGAACTTAGAGTGAATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
23849211 AAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTC
196 AAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTC
* *
23849276 CTCTAATTTGCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTG
261 CTCTAATTTGCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGATCATGGAGTTTTTA
* *
23849341 CATGGATGATCAAGAAACGAACCAAACAGATCTAAACCGGGGAAAAGCTAATGTGTCAGAGTT-G
326 CATGCATGATCAAGAAACGAACCAAACAGATCTAAACCGAGGAAAAGCTAATGTGTCAGA-TTAG
23849405 TCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGCTT
390 TCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGCTT
23849470 GTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTT
455 GTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTT
* * *
23849535 TCCTTGTAAATTATTAAATGTTGGAATTAAGTGCAAATGGAAACTGAATATTTGGTCGTGGTAAA
520 TCCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGAAAA
* *
23849600 TCTTGTGGTTTCACAATTTTGAAATGAAGGTAACAGATTT
585 TCTTGTAGTTTCACAATTTTGAAACGAAGGTAACAGATTT
*
23849640 ATATTATTTGTACAGA
1 ATATTATGTGTACAGA
23849656 AATAAGAAGT
Statistics
Matches: 610, Mismatches: 29, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
624 608 1.00
625 2 0.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (624 bp):
ATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATATAT
TTCTATTAGATAAAGGGGTCAATTTATAATGGACTATCAAACTAATAGACTTAAATGGTAAATGC
ACCAAATGAACTTAGAGTGAATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
AAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTC
CTCTAATTTGCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGATCATGGAGTTTTTA
CATGCATGATCAAGAAACGAACCAAACAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGT
CGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGCTTG
TTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTT
CCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGAAAAT
CTTGTAGTTTCACAATTTTGAAACGAAGGTAACAGATTT
Found at i:23851615 original size:12 final size:12
Alignment explanation
Indices: 23851598--23851622 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23851588 ATCTAAAGCT
23851598 TTCACACAATAA
1 TTCACACAATAA
23851610 TTCACACAATAA
1 TTCACACAATAA
23851622 T
1 T
23851623 ACAATCAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (12 bp):
TTCACACAATAA
Found at i:23852597 original size:20 final size:21
Alignment explanation
Indices: 23852572--23852629 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
23852562 TATAGGATCA
23852572 CACTTTGGTGCCTCTG-TTTG
1 CACTTTGGTGCCTCTGATTTG
*
23852592 CACTTTAGTGCCTCTGTATTTG
1 CACTTTGGTGCCTCTG-ATTTG
**
23852614 CACTACGGTGCCTCTG
1 CACTTTGGTGCCTCTG
23852630 CTAGCATTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 15 0.47
22 17 0.53
ACGTcount: A:0.10, C:0.28, G:0.22, T:0.40
Consensus pattern (21 bp):
CACTTTGGTGCCTCTGATTTG
Found at i:23866195 original size:27 final size:27
Alignment explanation
Indices: 23866156--23866435 Score: 355
Period size: 27 Copynumber: 10.4 Consensus size: 27
23866146 AGAGGTCAAT
* **
23866156 AAATGACCGAAATACCTTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** *
23866183 AAATTACTAAAATACCTTCATAAGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
*
23866210 AAATAACTGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
*
23866237 GAATGACTGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
*
23866264 GAATGA-TCGAAATACCCCCATAGGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
*
23866291 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* ** **
23866318 GAATGACCAAAATACCCCCATAATGTA
1 AAATGACTGAAATACCCCCATAGGGTA
*
23866345 AAATGATTGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
*
23866372 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* *
23866399 GAATGACCGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
23866426 AAATGACTGA
1 AAATGACTGA
23866436 TACCCCTAGG
Statistics
Matches: 223, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 222 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACTGAAATACCCCCATAGGGTA
Found at i:23866292 original size:81 final size:81
Alignment explanation
Indices: 23866157--23866431 Score: 399
Period size: 81 Copynumber: 3.4 Consensus size: 81
23866147 GAGGTCAATA
** * * ** * * *
23866157 AATGACCGAAATACCTTCATAGGGTAAAATTA-CTAAAATACCTTCATAAGGTAAAATAACTGAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGATC-GAAATACCCCCATAGGGTAAAATGACCGAA
23866221 ATACCCCCATAGGGTAG
65 ATACCCCCATAGGGTAG
* *
23866238 AATGACTGAAATACCCCCATAGGGTAGAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAA
23866303 TACCCCCATAGGGTAG
66 TACCCCCATAGGGTAG
* ** *
23866319 AATGACCAAAATACCCCCATAATGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACCGAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAA
23866384 TACCCCCATAGGGTAG
66 TACCCCCATAGGGTAG
23866400 AATGACCGAAATACCCCCATAGGGTAAAATGA
1 AATGACCGAAATACCCCCATAGGGTAAAATGA
23866432 CTGATACCCC
Statistics
Matches: 173, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
81 172 0.99
82 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.19
Consensus pattern (81 bp):
AATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAA
TACCCCCATAGGGTAG
Found at i:23883118 original size:34 final size:34
Alignment explanation
Indices: 23883075--23883139 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
23883065 TATCCGGAGG
23883075 GACCATTCATTCTGAGAGAAGGGTACTGATTCCA
1 GACCATTCATTCTGAGAGAAGGGTACTGATTCCA
23883109 GACCATTCATTCTGAGAGAAGGGTACTGATT
1 GACCATTCATTCTGAGAGAAGGGTACTGATT
23883140 GAAGAAAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (34 bp):
GACCATTCATTCTGAGAGAAGGGTACTGATTCCA
Found at i:23887366 original size:26 final size:25
Alignment explanation
Indices: 23887323--23887371 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
23887313 CAGAATTTGT
23887323 TTGTTCTTGTAATACTTTATTCTTCA
1 TTGTTCTTGTAATACTTT-TTCTTCA
*
23887349 TTGTTCTTG-AGTATCTTTTTCTT
1 TTGTTCTTGTAATA-CTTTTTCTT
23887372 TTCAAGACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.61
Consensus pattern (25 bp):
TTGTTCTTGTAATACTTTTTCTTCA
Found at i:23888450 original size:44 final size:44
Alignment explanation
Indices: 23888316--23888543 Score: 282
Period size: 44 Copynumber: 5.2 Consensus size: 44
23888306 AATGGATCGA
* *
23888316 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGT
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGC
* ** *
23888360 AGATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTT--CAT-GTATTGGCATGAAGTAGATCGAAGATAGC
* *
23888405 AGATCTTGTCTTCATG-ATTCGGCATGAAGTAGATCAAAGGTAGC
1 AGATCTTGTCTTCATGTATT-GGCATGAAGTAGATCGAAGATAGC
* * *
23888449 AGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGC
* *
23888493 AGATCTTGTCTTCATGTATTGGCACGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGC
23888537 AGATCTT
1 AGATCTT
23888544 ATTTTCCCAC
Statistics
Matches: 156, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 3 0.02
43 3 0.02
44 109 0.70
45 32 0.21
46 3 0.02
47 5 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (44 bp):
AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGC
Found at i:23888522 original size:88 final size:89
Alignment explanation
Indices: 23888316--23888577 Score: 341
Period size: 89 Copynumber: 3.0 Consensus size: 89
23888306 AATGGATCGA
* * * *
23888316 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCACATACTG
*
23888381 GTGGCGAAGTAGATCGAAGAAAGC
66 GTCGCGAAGTAGATCGAAGAAAGC
* * *
23888405 AGATCTTGTCTTCATG-ATTCGGCATGAAGTAGATCAAAGGTAGCAGATCTTGTCTTCACGTATT
1 AGATCTTGTCTTCATGTATT-GGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCACATACT
*
23888469 GG-CGTGAAGTAGATCGAAGATAA-C
65 GGTCGCGAAGTAGATCGAAGA-AAGC
* * * * *
23888493 AGATCTTGTCTTCATGTATTGGCACGAAGTAGATCAAAGATAGCAGATCTTATTTTCCCACACTG
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCACATACTG
* *
23888558 GTGGTGAAGTAGATCGAAGA
66 GTCGCGAAGTAGATCGAAGA
23888578 TCGCATCAAG
Statistics
Matches: 151, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
88 74 0.49
89 77 0.51
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (89 bp):
AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCACATACTG
GTCGCGAAGTAGATCGAAGAAAGC
Found at i:23889246 original size:21 final size:20
Alignment explanation
Indices: 23889207--23889246 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
23889197 GGTTGATATA
*
23889207 TATTTTTTGTTTCTGTTATT
1 TATTTTTTATTTCTGTTATT
*
23889227 TATTTTCTTATTTCTTTTAT
1 TATTTT-TTATTTCTGTTAT
23889247 ACTGATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (20 bp):
TATTTTTTATTTCTGTTATT
Found at i:23890187 original size:2 final size:2
Alignment explanation
Indices: 23890180--23890212 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
23890170 CTTTTACATT
23890180 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23890213 CGTATACATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:23893005 original size:20 final size:19
Alignment explanation
Indices: 23892976--23893020 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
23892966 ATTAGAATGT
*
23892976 AAAAATTAAATTAAAAACA
1 AAAAATTAAAATAAAAACA
*
23892995 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAACA
23893015 AAAAAT
1 AAAAAT
23893021 AGCTAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATTAAAATAAAAACA
Found at i:23901214 original size:43 final size:43
Alignment explanation
Indices: 23901136--23901258 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 43
23901126 TTTCTGAAAA
* *
23901136 GTGTTTTTGTGTAAGACCACATCTGGGACGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCATCGACTT
*
23901179 GTGTTTTCGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGA-TCT
1 GTGTTTTCGTGTAAGACCAC-ATCTAGGAC-GTTGGCATCGACT-T
* * * * *
23901222 ATGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 GTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCAT
23901259 TGTACGAGCC
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 3 0.04
43 63 0.93
44 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCATCGACTT
Found at i:23903613 original size:29 final size:29
Alignment explanation
Indices: 23903563--23903622 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
23903553 TATGAATACG
*
23903563 AAATTTCATTAGGATATCTTAGGTTAATT
1 AAATTTCATTAGGATATCTTAGATTAATT
* * *
23903592 AAATTTCGTTAGGTTATTTTAGATTAATT
1 AAATTTCATTAGGATATCTTAGATTAATT
23903621 AA
1 AA
23903623 TTAAATTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (29 bp):
AAATTTCATTAGGATATCTTAGATTAATT
Found at i:23905211 original size:26 final size:26
Alignment explanation
Indices: 23905091--23905215 Score: 110
Period size: 27 Copynumber: 4.7 Consensus size: 26
23905081 GGTTATAACA
* *
23905091 GTCATTTTACCCTAT-GGGGGTATTTTG
1 GTCATTTTACCCT-TCGAGGG-ATTTCG
* * *
23905118 ATCATTTTATCTTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGG-ATTTCG
* *
23905145 GTCATTTTACCCTTCAAGAGTG-TTTTG
1 GTCATTTTACCCTTC--GAGGGATTTCG
*
23905172 GTCATTTTACCCTTCGAGGGATTTCA
1 GTCATTTTACCCTTCGAGGGATTTCG
*
23905198 GTAATTTTACCCTTCGAG
1 GTCATTTTACCCTTCGAG
23905216 AGTATTTTGG
Statistics
Matches: 80, Mismatches: 14, Indels: 9
0.78 0.14 0.09
Matches are distributed among these distances:
25 4 0.05
26 21 0.26
27 51 0.64
29 4 0.05
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTTCGAGGGATTTCG
Found at i:23905218 original size:53 final size:54
Alignment explanation
Indices: 23905110--23905228 Score: 168
Period size: 53 Copynumber: 2.2 Consensus size: 54
23905100 CCCTATGGGG
* * * * *
23905110 GTATTTTGATCATTTTATCTTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGA
1 GTATTTTGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTCAAGA
* *
23905164 GTGTTTTGGTCATTTTACCCTTCGAGGG-ATTTCAGTAATTTTACCCTTCGAGA
1 GTATTTTGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTCAAGA
23905217 GTATTTTGGTCA
1 GTATTTTGGTCA
23905229 ATTAACAACC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 33 0.58
54 24 0.42
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (54 bp):
GTATTTTGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTCAAGA
Found at i:23910489 original size:65 final size:63
Alignment explanation
Indices: 23910376--23910500 Score: 171
Period size: 65 Copynumber: 2.0 Consensus size: 63
23910366 GAGAATCATT
* * *
23910376 AGAAAAGTTGGTGTTATTTCAGCATTTTATGTTGTTTTTAAGTCTGTTTCGTTTTCTTGCATAA
1 AGAAAAGTTGGTGTTATTTCAGCATTTTATGTTGATTTTAAGTATGTTT-ATTTTCTTGCATAA
**
23910440 AGAATAAGTTGGTGTTATTTTGGCATTTTTATGTT-ATTTTAAGTATGTTTATTTTCTTGCA
1 AGAA-AAGTTGGTGTTATTTCAGCA-TTTTATGTTGATTTTAAGTATGTTTATTTTCTTGCA
23910501 AGTTATACAT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
64 14 0.26
65 31 0.57
66 9 0.17
ACGTcount: A:0.22, C:0.07, G:0.18, T:0.52
Consensus pattern (63 bp):
AGAAAAGTTGGTGTTATTTCAGCATTTTATGTTGATTTTAAGTATGTTTATTTTCTTGCATAA
Found at i:23917026 original size:123 final size:123
Alignment explanation
Indices: 23916876--23917247 Score: 636
Period size: 123 Copynumber: 3.0 Consensus size: 123
23916866 ATGAGGTGAA
23916876 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
1 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
*
23916941 AGTTGGATTCGAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
66 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
* *
23916999 AAGTGCAATTATGGAGGATTCTCTTGAATGTAAGAAATGCACACATAATGATGATGATGTTGTGA
1 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
23917064 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
66 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
* **
23917122 AAGTGCAATTATGGAGGATTTTGTTGAATGTAAGAAATATACACATAGTGATGATGATGATGTTG
1 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATA--G-TGATGATGATGTTG
* * *
23917187 TGAAGTTGGGTTCAAGTGACATTAAGGAAAAATTTTCTTCAAATAAGAGGAAGCGGGATTC
63 TGAAGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
23917248 TATGTGGGGA
Statistics
Matches: 235, Mismatches: 11, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
123 163 0.69
126 72 0.31
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.29
Consensus pattern (123 bp):
AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
Found at i:23927947 original size:27 final size:28
Alignment explanation
Indices: 23927889--23927973 Score: 93
Period size: 28 Copynumber: 3.1 Consensus size: 28
23927879 TCATGTTCGT
* *
23927889 CAGTTTATTTGGTGAGCTAGGGGTTCGC
1 CAGTTTATTTGGCGAGCTAGGGGTTCAC
* *
23927917 CAGTCTATTTGGCGAGTTA-GGGTTCAC
1 CAGTTTATTTGGCGAGCTAGGGGTTCAC
* *
23927944 CAGTTTGTTTGGCGAACT-GGTGGTTCAC
1 CAGTTTATTTGGCGAGCTAGG-GGTTCAC
23927972 CA
1 CA
23927974 TGTAAGTTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
27 22 0.47
28 25 0.53
ACGTcount: A:0.16, C:0.18, G:0.32, T:0.34
Consensus pattern (28 bp):
CAGTTTATTTGGCGAGCTAGGGGTTCAC
Found at i:23931148 original size:18 final size:18
Alignment explanation
Indices: 23931125--23931161 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23931115 TAGGTTTCCA
*
23931125 AAAATGAGAATAGAAATG
1 AAAATGAAAATAGAAATG
*
23931143 AAAATGAAAATGGAAATG
1 AAAATGAAAATAGAAATG
23931161 A
1 A
23931162 TCCATTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (18 bp):
AAAATGAAAATAGAAATG
Found at i:23947524 original size:20 final size:19
Alignment explanation
Indices: 23947480--23947524 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
23947470 AAGTCCCAAA
*
23947480 GCCATTCAATTTATACAAT
1 GCCATTCAATTAATACAAT
*
23947499 GCCATTCAACTTAATTCAAT
1 GCCATTCAA-TTAATACAAT
*
23947519 GTCATT
1 GCCATT
23947525 TAATCAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (19 bp):
GCCATTCAATTAATACAAT
Found at i:23955261 original size:15 final size:15
Alignment explanation
Indices: 23955241--23955274 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23955231 GGATCATATG
*
23955241 TACTAGCATGTTGCA
1 TACTAGCATGTTCCA
*
23955256 TACTAGCGTGTTCCA
1 TACTAGCATGTTCCA
23955271 TACT
1 TACT
23955275 TTGAAGAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (15 bp):
TACTAGCATGTTCCA
Found at i:23961415 original size:27 final size:29
Alignment explanation
Indices: 23961377--23961430 Score: 94
Period size: 27 Copynumber: 1.9 Consensus size: 29
23961367 TATTTAAAAG
23961377 TTTATTGCATCCACCA-AAAA-AATATTA
1 TTTATTGCATCCACCACAAAAGAATATTA
23961404 TTTATTGCATCCACCACAAAAGAATAT
1 TTTATTGCATCCACCACAAAAGAATAT
23961431 ATTCCATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 16 0.64
28 4 0.16
29 5 0.20
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (29 bp):
TTTATTGCATCCACCACAAAAGAATATTA
Found at i:23975798 original size:20 final size:20
Alignment explanation
Indices: 23975773--23975810 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23975763 GTAGAAATTA
23975773 TTATTCCTAGAAAATAAAAT
1 TTATTCCTAGAAAATAAAAT
*
23975793 TTATTCTTAGAAAATAAA
1 TTATTCCTAGAAAATAAA
23975811 TTCTCACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
TTATTCCTAGAAAATAAAAT
Found at i:23978179 original size:16 final size:16
Alignment explanation
Indices: 23978133--23978184 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
23978123 TGGTACACTA
* *
23978133 TAATAGAATAGAGTTG
1 TAATGGAATAGAGCTG
23978149 TAATTGG-ATAGAGCTG
1 TAA-TGGAATAGAGCTG
*
23978165 TAATGGAATAAAGCTG
1 TAATGGAATAGAGCTG
23978181 TAAT
1 TAAT
23978185 TAGGAATTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 3 0.10
16 26 0.84
17 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:23978441 original size:58 final size:58
Alignment explanation
Indices: 23978362--23978487 Score: 177
Period size: 58 Copynumber: 2.2 Consensus size: 58
23978352 TTTTAATAAG
*
23978362 ATTATTACTAACAATAATTTAATAAAAATAATATATAATTTAACC-ATATT-TTAACATA
1 ATTATTATTAACAATAATTTAAT-AAAATAATATATAATTTAACCAAT-TTCTTAACATA
**
23978420 ATTATTATTAA-ATATAATTTAATAAAATAATATATAATTTAATTAATTTCTTAACATA
1 ATTATTATTAACA-ATAATTTAATAAAATAATATATAATTTAACCAATTTCTTAACATA
23978478 ATTATTATTA
1 ATTATTATTA
23978488 TATGAATTAG
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
57 22 0.35
58 40 0.65
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAACAATAATTTAATAAAATAATATATAATTTAACCAATTTCTTAACATA
Found at i:23978560 original size:13 final size:13
Alignment explanation
Indices: 23978542--23978567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23978532 ATAATCTACT
23978542 TTATTATTTTTAA
1 TTATTATTTTTAA
23978555 TTATTATTTTTAA
1 TTATTATTTTTAA
23978568 ACTGCAATAC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTATTTTTAA
Found at i:23984624 original size:14 final size:14
Alignment explanation
Indices: 23984605--23984634 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23984595 ATCACCCAAA
23984605 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
*
23984619 AAAGAAAAGAAAAG
1 AAAGAAAAAAAAAG
23984633 AA
1 AA
23984635 TGTGTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:23985324 original size:28 final size:27
Alignment explanation
Indices: 23985263--23985324 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
23985253 ATAACATAAA
* *
23985263 TTAAAGATATCGAAAATAAAAATAGTT
1 TTAAATATATCAAAAATAAAAATAGTT
* *
23985290 TAAAAATATATCAAAAGATTAAAATAGTT
1 T-TAAATATATCAAAA-ATAAAAATAGTT
23985319 TTAAAT
1 TTAAAT
23985325 GAAACATATC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.04
28 15 0.54
29 12 0.43
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.32
Consensus pattern (27 bp):
TTAAATATATCAAAAATAAAAATAGTT
Found at i:23987771 original size:20 final size:20
Alignment explanation
Indices: 23987746--23987783 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
23987736 AAAGCCTTGT
23987746 TAGGGTTTGTCAAAGGGAGA
1 TAGGGTTTGTCAAAGGGAGA
23987766 TAGGGTTTGTCAAAGGGA
1 TAGGGTTTGTCAAAGGGA
23987784 TATAAAACCA
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:0.29, C:0.05, G:0.39, T:0.26
Consensus pattern (20 bp):
TAGGGTTTGTCAAAGGGAGA
Found at i:23994152 original size:22 final size:21
Alignment explanation
Indices: 23994098--23994159 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
23994088 TATACTATTT
*
23994098 TTTAAAAATTTTAAATATATA
1 TTTAATAATTTTAAATATATA
* * *
23994119 TTTATATTATTTTTAATTTAATA
1 TTTA-ATAATTTTAAATAT-ATA
23994142 TTTAATAA-TTT-AATATAT
1 TTTAATAATTTTAAATATAT
23994160 TATTATTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 2 0.06
20 4 0.12
21 7 0.21
22 13 0.39
23 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAATAATTTTAAATATATA
Found at i:23995112 original size:72 final size:72
Alignment explanation
Indices: 23995010--23995154 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
23995000 TTTCCATTTT
23995010 CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
1 CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
23995075 TTTCTAA
66 TTTCTAA
23995082 CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
1 CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
23995147 TTTCTAA
66 TTTCTAA
23995154 C
1 C
23995155 TCAACACTAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (72 bp):
CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
TTTCTAA
Found at i:23995373 original size:20 final size:20
Alignment explanation
Indices: 23995340--23995398 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
23995330 GATTTTTCAA
23995340 TATTTG-TTAAAAATTTTGG
1 TATTTGATTAAAAATTTTGG
* *
23995359 TATTTGATTACAAATTTTGA
1 TATTTGATTAAAAATTTTGG
*
23995379 TA-TTCATTAAAAATTTTGG
1 TATTTGATTAAAAATTTTGG
23995398 T
1 T
23995399 CTCATGTTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 21 0.62
20 13 0.38
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (20 bp):
TATTTGATTAAAAATTTTGG
Found at i:23996095 original size:18 final size:19
Alignment explanation
Indices: 23996065--23996122 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 19
23996055 TATAAAAACA
* *
23996065 TAAAAAAAT-ATTATAAAT
1 TAAAAGAATCATTAAAAAT
23996083 TAAAAG-ATCATTAAAAAT
1 TAAAAGAATCATTAAAAAT
* * *
23996101 TATAAGAATTATTAGAAAT
1 TAAAAGAATCATTAAAAAT
23996120 TAA
1 TAA
23996123 TTAAAAACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 2 0.06
18 18 0.56
19 12 0.38
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAAAGAATCATTAAAAAT
Found at i:23996488 original size:15 final size:16
Alignment explanation
Indices: 23996465--23996497 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23996455 TATATTTTTT
23996465 ATAAAA-TTTTATAAA
1 ATAAAATTTTTATAAA
*
23996480 ATAATATTTTTATAAA
1 ATAAAATTTTTATAAA
23996496 AT
1 AT
23996498 TTTATGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAAATTTTTATAAA
Found at i:23996496 original size:26 final size:28
Alignment explanation
Indices: 23996449--23996502 Score: 94
Period size: 26 Copynumber: 2.0 Consensus size: 28
23996439 GAAAATGAAA
23996449 AAAATATATATTTTTTATAAAATTTTAT
1 AAAATATATATTTTTTATAAAATTTTAT
23996477 AAAATA-ATA-TTTTTATAAAATTTTAT
1 AAAATATATATTTTTTATAAAATTTTAT
23996503 GGTTTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 17 0.65
27 3 0.12
28 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
AAAATATATATTTTTTATAAAATTTTAT
Found at i:23996661 original size:20 final size:20
Alignment explanation
Indices: 23996638--23996676 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23996628 AGTTTAATGA
*
23996638 TTTTTTATAATTTTTATAAG
1 TTTTTCATAATTTTTATAAG
**
23996658 TTTTTCATGTTTTTTATAA
1 TTTTTCATAATTTTTATAA
23996677 TTCCAAAATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTTCATAATTTTTATAAG
Found at i:23999283 original size:27 final size:27
Alignment explanation
Indices: 23999245--23999298 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
23999235 AAACGACTTG
23999245 CTATATTTTGAAAGATGTGCCAACTAA
1 CTATATTTTGAAAGATGTGCCAACTAA
*
23999272 CTATATTTTGAAGGATGTGCCAACTAA
1 CTATATTTTGAAAGATGTGCCAACTAA
23999299 GGCAGCATCG
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:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (27 bp):
CTATATTTTGAAAGATGTGCCAACTAA
Found at i:24001736 original size:7 final size:7
Alignment explanation
Indices: 24001726--24001758 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
24001716 GTAAAATTTA
24001726 AATATTC
1 AATATTC
24001733 AATATTC
1 AATATTC
24001740 AATATTC
1 AATATTC
24001747 AATATTC
1 AATATTC
24001754 AATAT
1 AATAT
24001759 GATATTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:24005116 original size:16 final size:16
Alignment explanation
Indices: 24005095--24005126 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24005085 ATTTTGTTGC
*
24005095 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
24005111 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
24005127 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:24005415 original size:51 final size:51
Alignment explanation
Indices: 24005357--24005544 Score: 231
Period size: 51 Copynumber: 3.7 Consensus size: 51
24005347 GTTCACATAT
* *
24005357 TAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACGTAG
* * * *
24005408 TAGCCTGCACATAGTACTACAAACGTGATCGA--AGCTATCCGGTACGCATAG
1 TAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACGTAG
* * *
24005459 TAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACGTAG
*
24005509 TAGCTTGCACATAGTACTACACACGTGACCATCACT
1 TAGCCTGCACATAGTACTACACACGTGACCATCACT
24005545 TTCACTTTCA
Statistics
Matches: 115, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
49 4 0.03
50 41 0.36
51 67 0.58
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (51 bp):
TAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACGTAG
Found at i:24005535 original size:101 final size:102
Alignment explanation
Indices: 24005352--24005536 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
24005342 TACCGGTTCA
* *
24005352 CATATTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
24005417 CATAGTACTACAAACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACAAACGTGATCGAAGCTATCCGGTACG
* * *
24005454 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCTTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
*
24005517 ACATAGTACTACACACGTGA
65 ACATAGTACTACAAACGTGA
24005537 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 38 0.50
102 34 0.45
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACAAACGTGATCGAAGCTATCCGGTACG
Found at i:24005560 original size:101 final size:102
Alignment explanation
Indices: 24005344--24005536 Score: 282
Period size: 102 Copynumber: 1.9 Consensus size: 102
24005334 ATTAACGATA
* *
24005344 CCGGTTCACATATTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGT
*
24005409 AGCCTGCACATAGTACTACAAACGTGATCGAAGCTAT
66 AGCCTGCACATAGTACTACAAACGTGATCCAAGCTAT
* * * *
24005446 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAG
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAG
* *
24005509 TAGCTTGCACATAGTACTACACACGTGA
65 TAGCCTGCACATAGTACTACAAACGTGA
24005537 CCATCACTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 38 0.46
102 40 0.49
103 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGT
AGCCTGCACATAGTACTACAAACGTGATCCAAGCTAT
Found at i:24013803 original size:27 final size:27
Alignment explanation
Indices: 24013731--24013958 Score: 119
Period size: 27 Copynumber: 8.4 Consensus size: 27
24013721 ACCTTAAAAT
* * *
24013731 AGGTAAAATGACCAAAAAAACCCCCATA
1 AGGTAAAATGACC-ATAATACCCCTATA
* * * * *
24013759 GGGTAAAATGACTATAATGCCCTTGTA
1 AGGTAAAATGACCATAATACCCCTATA
*
24013786 AGGTAAAATGACCGTAATACCCCTATA
1 AGGTAAAATGACCATAATACCCCTATA
* * * *
24013813 GGGTAAAATGA-TAGAAAAACTCCC-A-A
1 AGGTAAAATGACCA-TAATAC-CCCTATA
* * *
24013839 AGGGTAAAATAACCGTAATGCCCCTATA
1 A-GGTAAAATGACCATAATACCCCTATA
* **
24013867 GGGTAAAATGACTGTAATA-CCCTCAT-
1 AGGTAAAATGACCATAATACCCCT-ATA
* *
24013893 AGGTTTAAATGACTGA-AATACCCCTATA
1 AGG-TAAAATGAC-CATAATACCCCTATA
* * * *
24013921 AGCTAAAATGACCGTAATGCCCCTAGA
1 AGGTAAAATGACCATAATACCCCTATA
24013948 AGGT-AAATGAC
1 AGGTAAAATGAC
24013959 TATTTCGCCC
Statistics
Matches: 147, Mismatches: 41, Indels: 26
0.69 0.19 0.12
Matches are distributed among these distances:
26 17 0.12
27 109 0.74
28 21 0.14
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (27 bp):
AGGTAAAATGACCATAATACCCCTATA
Found at i:24013817 original size:54 final size:53
Alignment explanation
Indices: 24013731--24013932 Score: 158
Period size: 54 Copynumber: 3.7 Consensus size: 53
24013721 ACCTTAAAAT
* * * *
24013731 AGGTAAAATGACCAAAAAAACCCCCATAGGGTAAAATGACTATAATGCCCTTGTA
1 AGGTAAAATGACC-GAAATACCCCTATAGGGTAAAATGACTATAATACCC-TGTA
* * * **
24013786 AGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGA-TAGAAAAACTCC-CAA
1 AGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACTA-TAATAC-CCTGTA
* * * * *
24013839 AGGGTAAAATAACCGTAATGCCCCTATAGGGTAAAATGACTGTAATACCCT-CA
1 A-GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACTATAATACCCTGTA
* * * *
24013892 TAGGTTTAAATGACTGAAATACCCCTATAAGCTAAAATGAC
1 -AGG-TAAAATGACCGAAATACCCCTATAGGGTAAAATGAC
24013933 CGTAATGCCC
Statistics
Matches: 118, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
53 9 0.08
54 93 0.79
55 16 0.14
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (53 bp):
AGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACTATAATACCCTGTA
Found at i:24013858 original size:81 final size:82
Alignment explanation
Indices: 24013732--24013958 Score: 212
Period size: 81 Copynumber: 2.8 Consensus size: 82
24013722 CCTTAAAATA
* * * * *
24013732 GGTAAAATGACCAAAAAAACCCCCATAGGGTAAAATGACTATAATGCCCTTGTAAGGTAAAATGA
1 GGTAAAATGACCAAAAAAACCCCCAAAGGGTAAAATAACCATAATGCCCCTATAAGGTAAAATGA
24013797 CCGTAATACCCCTATAG
66 CCGTAATACCCCTATAG
* * * * *
24013814 GGTAAAATGA-TAGAAAAACTCCCAAAGGGTAAAATAACCGTAATGCCCCTATAGGGTAAAATGA
1 GGTAAAATGACCAAAAAAACCCCCAAAGGGTAAAATAACCATAATGCCCCTATAAGGTAAAATGA
*
24013878 CTGTAATA-CCCTCATAG
66 CCGTAATACCCCT-ATAG
* * ** * * * * * *
24013895 GTTTAAATGA-CTGAAATACCCCTATAA-GCTAAAATGACCGTAATGCCCCTAGAAGGT-AAATG
1 GGTAAAATGACCAAAAAAACCCCCA-AAGGGTAAAATAACCATAATGCCCCTATAAGGTAAAATG
24013957 AC
65 AC
24013959 TATTTCGCCC
Statistics
Matches: 121, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
80 11 0.09
81 98 0.81
82 12 0.10
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (82 bp):
GGTAAAATGACCAAAAAAACCCCCAAAGGGTAAAATAACCATAATGCCCCTATAAGGTAAAATGA
CCGTAATACCCCTATAG
Found at i:24014012 original size:24 final size:24
Alignment explanation
Indices: 24013975--24014047 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
24013965 GCCCTTCGAG
*
24013975 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAATGATTGATTTGTCTGTGA
* *
24013999 TGTAAAAGACTGATTTGTCTGTGA
1 TGTAAATGATTGATTTGTCTGTGA
*
24014023 TTTAAATGATTGATTTGTCTGTGA
1 TGTAAATGATTGATTTGTCTGTGA
24014047 T
1 T
24014048 TGGTATGACT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (24 bp):
TGTAAATGATTGATTTGTCTGTGA
Found at i:24014350 original size:107 final size:108
Alignment explanation
Indices: 24014159--24014382 Score: 342
Period size: 107 Copynumber: 2.1 Consensus size: 108
24014149 ATCACTGTTT
* * * *
24014159 CTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTGTTGTGATACTGTTGCTGGCAGTTTTG
1 CTGGTGGCTTGGCCACATATACTATTACGGGCACCTTTGTTATGATACTGTTACTGGCAGCTTTG
* *
24014224 CTGCGATGCTACTGATGGCTTT-TGCCGATCATAATACCGTTA
66 CTACGATGCTACTGATGGCTTTGTGCCGATCATAATACCATTA
** *
24014266 CTGGTGGCTTGGCCACATATACTATTACGGGCAGTTTTGTTATGATACTTTTACTGGCAGCTTTG
1 CTGGTGGCTTGGCCACATATACTATTACGGGCACCTTTGTTATGATACTGTTACTGGCAGCTTTG
*
24014331 CTACGATGCTATTGATGGCTTTGTGCCGATCATAATACCATTA
66 CTACGATGCTACTGATGGCTTTGTGCCGATCATAATACCATTA
*
24014374 CTGATGGCT
1 CTGGTGGCT
24014383 GTGTGCCGAT
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
107 78 0.74
108 27 0.26
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (108 bp):
CTGGTGGCTTGGCCACATATACTATTACGGGCACCTTTGTTATGATACTGTTACTGGCAGCTTTG
CTACGATGCTACTGATGGCTTTGTGCCGATCATAATACCATTA
Found at i:24014429 original size:32 final size:31
Alignment explanation
Indices: 24014337--24014446 Score: 123
Period size: 32 Copynumber: 3.5 Consensus size: 31
24014327 TTTGCTACGA
*
24014337 TGCTATTGATGGCTTTGTGCCGATCATAATAC
1 TGCTACTGATGGCTTTGTGCCGATCAT-ATAC
*** *
24014369 CATTACTGATGGCTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATAT-AC
*
24014401 TGCTACTGATGGCTTTGTGCCAATCATATTAC
1 TGCTACTGATGGCTTTGTGCCGATCATA-TAC
*
24014433 TG-TACTTATGGCTT
1 TGCTACTGATGGCTT
24014447 GTAGCCATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
31 13 0.20
32 51 0.78
33 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (31 bp):
TGCTACTGATGGCTTTGTGCCGATCATATAC
Found at i:24014670 original size:8 final size:8
Alignment explanation
Indices: 24014640--24014669 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
24014630 TTGGGATGGC
24014640 TTGCATGA
1 TTGCATGA
24014648 TTGCATGA
1 TTGCATGA
*
24014656 TTGCATTA
1 TTGCATGA
24014664 TTGCAT
1 TTGCAT
24014670 TTCTATTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.43
Consensus pattern (8 bp):
TTGCATGA
Found at i:24014753 original size:46 final size:46
Alignment explanation
Indices: 24014670--24014757 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
24014660 ATTATTGCAT
* * *
24014670 TTCTATTACTGATTCTGTCATTGTATTGAGCTTAGGCCCACATGTA
1 TTCTATTACTGATTCTGTCACTGTAATGAGCTAAGGCCCACATGTA
* *
24014716 TTCTATTTCTGATTCTGAT-ACTGTAATGGGCTAAGGCCCACA
1 TTCTATTACTGATTCTG-TCACTGTAATGAGCTAAGGCCCACA
24014758 CTACACTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
46 35 0.97
47 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (46 bp):
TTCTATTACTGATTCTGTCACTGTAATGAGCTAAGGCCCACATGTA
Found at i:24017706 original size:54 final size:54
Alignment explanation
Indices: 24017592--24017791 Score: 211
Period size: 54 Copynumber: 3.7 Consensus size: 54
24017582 ACCCCAAAAT
* * * * * **
24017592 AGGTATAATGACTGAAAAACCCCTATAGGGTAAAATGACCGCAATGCCCCTGTA
1 AGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGATCGCAATACCCCCATA
* * * * * *
24017646 ATGTAAAATGTCCGTAATACCCCTGTAGGGTAAAATGATCGAAAAACCCCCATA
1 AGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGATCGCAATACCCCCATA
* * *
24017700 AGGTAAAATGACTGTAATACCTCTATAGGGTAAAATAATCGCAATACCCTCATA
1 AGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGATCGCAATACCCCCATA
* * * * *
24017754 GGGTTAAATGACTGAAATACCCCTGTAAGGTAAAATGA
1 AGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGA
24017792 CCGTAATGCC
Statistics
Matches: 117, Mismatches: 29, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (54 bp):
AGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGATCGCAATACCCCCATA
Found at i:24017733 original size:81 final size:81
Alignment explanation
Indices: 24017593--24017805 Score: 225
Period size: 81 Copynumber: 2.6 Consensus size: 81
24017583 CCCCAAAATA
* * * * * * *
24017593 GGTATAATGACTGAAAAACCCCTATAGGGTAAAATGACCGCAATGCCCCTGTAATGTAAAAT-GT
1 GGTAAAATGACTGAAAAACCCCTATAAGGTAAAATGACCGTAATACCCCTATAAGGTAAAATAAT
* *
24017657 CCGTAATACCC-CTGTAG
66 -CGCAATACCCTC-ATAG
* * * *
24017674 GGTAAAATGA-TCGAAAAACCCCCATAAGGTAAAATGACTGTAATACCTCTATAGGGTAAAATAA
1 GGTAAAATGACT-GAAAAACCCCTATAAGGTAAAATGACCGTAATACCCCTATAAGGTAAAATAA
24017738 TCGCAATACCCTCATAG
65 TCGCAATACCCTCATAG
* * * *
24017755 GGTTAAATGACTGAAATACCCCTGTAAGGTAAAATGACCGTAATGCCCCTA
1 GGTAAAATGACTGAAAAACCCCTATAAGGTAAAATGACCGTAATACCCCTA
24017806 GAGTGTCAAT
Statistics
Matches: 108, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
80 1 0.01
81 104 0.96
82 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (81 bp):
GGTAAAATGACTGAAAAACCCCTATAAGGTAAAATGACCGTAATACCCCTATAAGGTAAAATAAT
CGCAATACCCTCATAG
Found at i:24017803 original size:27 final size:27
Alignment explanation
Indices: 24017610--24017805 Score: 169
Period size: 27 Copynumber: 7.3 Consensus size: 27
24017600 TGACTGAAAA
*
24017610 ACCCCTATAGGGTAAAATGACCGCAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * ** *
24017637 GCCCCTGTAATGTAAAATGTCCGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * * *
24017664 ACCCCTGTAGGGTAAAATGATCGAAAA
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * *
24017691 ACCCCCATAAGGTAAAATGACTGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * * *
24017718 ACCTCTATAGGGTAAAATAATCGCAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * *
24017745 A-CCCTCATAGGGTTAAATGACTGAAAT
1 ACCCCT-ATAGGGTAAAATGACCGTAAT
* *
24017772 ACCCCTGTAAGGTAAAATGACCGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
*
24017799 GCCCCTA
1 ACCCCTA
24017806 GAGTGTCAAT
Statistics
Matches: 127, Mismatches: 40, Indels: 4
0.74 0.23 0.02
Matches are distributed among these distances:
26 3 0.02
27 120 0.94
28 4 0.03
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (27 bp):
ACCCCTATAGGGTAAAATGACCGTAAT
Found at i:24017882 original size:24 final size:24
Alignment explanation
Indices: 24017835--24017883 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
24017825 GCTTATCGAG
* *
24017835 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAAAGATTGATTTGTACGTGA
*
24017859 TGTAAAAGATTGATTTGTATGTGA
1 TGTAAAAGATTGATTTGTACGTGA
24017883 T
1 T
24017884 TGGTATAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.43
Consensus pattern (24 bp):
TGTAAAAGATTGATTTGTACGTGA
Found at i:24017896 original size:24 final size:24
Alignment explanation
Indices: 24017869--24017945 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
24017859 TGTAAAAGAT
*
24017869 TGATTTGTATGTGATTGGTATAAC
1 TGATTTGTATGTGATTGGTATGAC
* * *
24017893 TGATTTGTCTATAATTGGTATGAC
1 TGATTTGTATGTGATTGGTATGAC
*
24017917 TGATTTGTATGTGATTTGTATGAC
1 TGATTTGTATGTGATTGGTATGAC
24017941 TGATT
1 TGATT
24017946 CTGAGCAAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.48
Consensus pattern (24 bp):
TGATTTGTATGTGATTGGTATGAC
Found at i:24017933 original size:11 final size:11
Alignment explanation
Indices: 24017869--24017938 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
24017859 TGTAAAAGAT
24017869 TGATTTGTATG
1 TGATTTGTATG
* *
24017880 TGATTGGTATAAC
1 TGATTTGTAT--G
* *
24017893 TGATTTGTCTA
1 TGATTTGTATG
* *
24017904 TAATTGGTATG
1 TGATTTGTATG
24017915 ACTGATTTGTATG
1 --TGATTTGTATG
24017928 TGATTTGTATG
1 TGATTTGTATG
24017939 ACTGATTCTG
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 27 0.61
13 17 0.39
ACGTcount: A:0.23, C:0.04, G:0.24, T:0.49
Consensus pattern (11 bp):
TGATTTGTATG
Found at i:24018046 original size:27 final size:27
Alignment explanation
Indices: 24018014--24018070 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
24018004 GGAAGTACTG
*
24018014 TACTGGTGGCTCT-GCCACA-ATTACTAT
1 TACTGGAGGCT-TGGCCACATA-TACTAT
24018041 TACTGGAGGCTTGGCCACATATACTAT
1 TACTGGAGGCTTGGCCACATATACTAT
24018068 TAC
1 TAC
24018071 GGGCACCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 1 0.04
27 25 0.93
28 1 0.04
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (27 bp):
TACTGGAGGCTTGGCCACATATACTAT
Found at i:24018287 original size:140 final size:140
Alignment explanation
Indices: 24018040--24018314 Score: 383
Period size: 140 Copynumber: 2.0 Consensus size: 140
24018030 ACAATTACTA
24018040 TTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTGCGTTGATACTGTTGCTAGCAGCT
1 TTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTGCGTTGATACTGTTGCTAGCAGCT
* * * * * *
24018105 TTGCTGCGATGCTACTGATGGCGTTGTGCTAGTCATATTACCGTTACTAATAGCTT-TGTGCCGA
66 TTACTACAATGCTACTGATGGCGTTGTGCCAGTCATAATACCGTTACTAAT-GCTTGTGTGCCAA
24018169 TCATATTACCG
130 TCATATTACCG
* * * *
24018180 TTACTGGTGGCTTGGCCACATATACTATTACGGGCAGCTTTG-TTGTGATACTGTTGCTGGCAGC
1 TTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTGCGT-TGATACTGTTGCTAGCAGC
* * * * *
24018244 TTTACTACAATGCTTCTGATGGCTTTGTGCCGGTCATAATACCGTTACTGATGGTTGTGTGCCAA
65 TTTACTACAATGCTACTGATGGCGTTGTGCCAGTCATAATACCGTTACTAATGCTTGTGTGCCAA
24018309 TCATAT
130 TCATAT
24018315 CACTGCTATT
Statistics
Matches: 118, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
139 4 0.03
140 114 0.97
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (140 bp):
TTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTGCGTTGATACTGTTGCTAGCAGCT
TTACTACAATGCTACTGATGGCGTTGTGCCAGTCATAATACCGTTACTAATGCTTGTGTGCCAAT
CATATTACCG
Found at i:24018313 original size:32 final size:33
Alignment explanation
Indices: 24018259--24018345 Score: 99
Period size: 32 Copynumber: 2.7 Consensus size: 33
24018249 TACAATGCTT
** *
24018259 CTGATGGCTTTGTGCCGGTCATAAT-ACCGTTA
1 CTGATGGCTTTGTGCCAATCATAATCACCGCTA
*
24018291 CTGATGG-TTGTGTGCCAATCAT-ATCACTGCTA
1 CTGATGGCTT-TGTGCCAATCATAATCACCGCTA
*
24018323 TTGATGGCTTTGTGCCAATCATA
1 CTGATGGCTTTGTGCCAATCATA
24018346 TTACTGTACT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
31 4 0.09
32 40 0.87
33 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (33 bp):
CTGATGGCTTTGTGCCAATCATAATCACCGCTA
Found at i:24018346 original size:32 final size:30
Alignment explanation
Indices: 24018260--24018363 Score: 95
Period size: 32 Copynumber: 3.3 Consensus size: 30
24018250 ACAATGCTTC
** * *
24018260 TGATGGCTTTGTGCCGGTCATAATACCGTTAC
1 TGATGGCTTTGTGCCAATCAT-ATACTG-TAT
24018292 TGATGG-TTGTGTGCCAATCATATCACTGCTAT
1 TGATGGCTT-TGTGCCAATCATAT-ACTG-TAT
24018324 TGATGGCTTTGTGCCAATCATATTACTGTACT
1 TGATGGCTTTGTGCCAATCATA-TACTGTA-T
24018356 T-ATGGCTT
1 TGATGGCTT
24018364 GTAACCATTC
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
31 13 0.21
32 46 0.74
33 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (30 bp):
TGATGGCTTTGTGCCAATCATATACTGTAT
Found at i:24024847 original size:9 final size:9
Alignment explanation
Indices: 24024830--24024863 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
24024820 TAAAAACACA
24024830 TTTTTTTTC
1 TTTTTTTTC
*
24024839 TTTTCTTTC
1 TTTTTTTTC
24024848 TTTTTTTTTC
1 -TTTTTTTTC
24024858 TTTTTT
1 TTTTTT
24024864 GGGTAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:24024857 original size:10 final size:10
Alignment explanation
Indices: 24024830--24024863 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
24024820 TAAAAACACA
24024830 TTTTTTTTC-
1 TTTTTTTTCT
*
24024839 TTTTCTTTCT
1 TTTTTTTTCT
24024849 TTTTTTTTCT
1 TTTTTTTTCT
24024859 TTTTT
1 TTTTT
24024864 GGGTAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:24029474 original size:32 final size:32
Alignment explanation
Indices: 24029438--24029499 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
24029428 ATATATTATG
24029438 ATTTT-TT-AATTCATATAATAATTTTATTAAGA
1 ATTTTATTAAATT-ATAT-ATAATTTTATTAAGA
*
24029470 ATTTTATTAAATTATATATTATTTTATTAA
1 ATTTTATTAAATTATATATAATTTTATTAA
24029500 ATTATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 17 0.63
33 6 0.22
34 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (32 bp):
ATTTTATTAAATTATATATAATTTTATTAAGA
Found at i:24029585 original size:58 final size:56
Alignment explanation
Indices: 24029452--24029586 Score: 173
Period size: 58 Copynumber: 2.3 Consensus size: 56
24029442 TTTAATTCAT
* *
24029452 ATAATAATTTTATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAA-TTTATTAA-AATATGATTAAATTATATATTATTTTATTAAATTATATTTA
* *
24029510 ATAATAA-TTATGCTAAAATATGATTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTTAT--TAAAATATGATTAAATTATATATTA-TTTTATTAAATTATATTTA
24029568 ATAATAATCTTATTAAAAT
1 ATAATAAT-TTATTAAAAT
24029587 TTAATAACAA
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
56 4 0.06
57 19 0.28
58 41 0.60
60 4 0.06
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (56 bp):
ATAATAATTTATTAAAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:24029877 original size:19 final size:19
Alignment explanation
Indices: 24029848--24029888 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
24029838 AAGTCCTTTT
24029848 AAAATATAAAAATTAT-TA
1 AAAATATAAAAATTATATA
24029866 AAAATCATAAAAATTATATA
1 AAAAT-ATAAAAATTATATA
24029886 AAA
1 AAA
24029889 GTTTACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 11 0.52
20 5 0.24
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATATAAAAATTATATA
Found at i:24030319 original size:6 final size:6
Alignment explanation
Indices: 24030308--24030339 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
24030298 AAAGAGCGAA
24030308 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
24030340 TCTTTCTTCA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:24040187 original size:25 final size:25
Alignment explanation
Indices: 24040155--24040206 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
24040145 TTTTTCTACC
24040155 TTTTTGTTTGCTTTGCCATGTCCGT
1 TTTTTGTTTGCTTTGCCATGTCCGT
24040180 TTTTTGTTTGCTTTGCCATGTCCGT
1 TTTTTGTTTGCTTTGCCATGTCCGT
24040205 TT
1 TT
24040207 ATGTTGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.04, C:0.19, G:0.19, T:0.58
Consensus pattern (25 bp):
TTTTTGTTTGCTTTGCCATGTCCGT
Found at i:24042513 original size:16 final size:16
Alignment explanation
Indices: 24042489--24042526 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
24042479 TTTGGTTCGC
* *
24042489 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
24042505 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
24042521 TGTAAT
1 TGTAAT
24042527 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:24042571 original size:45 final size:44
Alignment explanation
Indices: 24042505--24042595 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
24042495 GGATTAGAGG
*
24042505 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
24042550 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
24042594 TG
1 TG
24042596 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:24042610 original size:39 final size:43
Alignment explanation
Indices: 24042505--24042611 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 43
24042495 GGATTAGAGG
24042505 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
24042550 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
24042590 TG-AATGGAATAGAGGTGTAATA
1 TGTAATGGAATAGAGGTGTAATA
24042612 ACATAATGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
39 19 0.34
40 2 0.04
43 1 0.02
44 11 0.20
45 23 0.41
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.33
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:24042788 original size:14 final size:15
Alignment explanation
Indices: 24042749--24042790 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24042739 TTTAAACATG
*
24042749 ATTATTATTAAATAT
1 ATTATAATTAAATAT
24042764 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
24042778 A-TATAATTTAATA
1 ATTATAATTAAATA
24042791 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:24048577 original size:16 final size:17
Alignment explanation
Indices: 24048541--24048577 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
24048531 GTTATATTTA
*
24048541 ATTTTTGATATGTTTTT
1 ATTTTTGATATGTTTTC
24048558 ATTTTTGATATG-TTTC
1 ATTTTTGATATGTTTTC
24048574 ATTT
1 ATTT
24048578 AAAACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.68
Consensus pattern (17 bp):
ATTTTTGATATGTTTTC
Found at i:24048952 original size:113 final size:114
Alignment explanation
Indices: 24048732--24049177 Score: 420
Period size: 113 Copynumber: 3.9 Consensus size: 114
24048722 CGTTTTTAAA
* * * ****
24048732 AAAACGCCGTAAAAGAACATCATTAGTGGCGT-TTATTTGTAAGCGCCGCAAAATACCTTAA-CT
1 AAAACGCCGCAAAAGAACATTATTAGCGGCGTATTA-CAAAAAGCGCCGCAAAATACCTTAATC-
* * *
24048795 AAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTCGTGGCGTTTACGAT
64 AAAACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCGTTTACGAT
* *
24048846 AAAACGACGCAAAAGAACATTATTAGCGGCGTATTACAAAAAGCGCCGC-AAATATCTTAATCAA
1 AAAACGCCGCAAAAGAACATTATTAGCGGCGTATTACAAAAAGCGCCGCAAAATACCTTAATCAA
* ** *** *
24048910 AACGCACCGTTTGGTCTTGAGGTAGATTAGTGTTAGTGGCGTTTTTAAA
66 AACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCGTTTACGAT
* * * * **** *
24048959 AAAACGCCGTAAAAGAACATCATTAGTGCCGT-TTATTTTTAAGCGCCGCAAAATACCTTAACCA
1 AAAACGCCGCAAAAGAACATTATTAGCGGCGTATTA-CAAAAAGCGCCGCAAAATACCTTAATCA
* * * * *
24049023 AAACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
65 AAACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCGTTTACGAT
* * * * ** *
24049073 AAAACGCCGCTAAAGAACAGTATTAGCGGCGTATTACAAAAAGTGCCAC-AAATATCGGTACT-A
1 AAAACGCCGCAAAAGAACATTATTAGCGGCGTATTACAAAAAGCGCCGCAAAATA-CCTTAATCA
* *
24049136 AAACGCACCGTTTGGTGTTGAGG-AGGATTAGTATTAGTGGCG
65 AAACGCACCGTTTGGTTTTGAGGTA-GATTAGAATTAGTGGCG
24049178 CTTATTAAAA
Statistics
Matches: 260, Mismatches: 65, Indels: 15
0.76 0.19 0.04
Matches are distributed among these distances:
112 4 0.02
113 126 0.48
114 124 0.48
115 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (114 bp):
AAAACGCCGCAAAAGAACATTATTAGCGGCGTATTACAAAAAGCGCCGCAAAATACCTTAATCAA
AACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCGTTTACGAT
Found at i:24049077 original size:114 final size:114
Alignment explanation
Indices: 24048732--24049104 Score: 439
Period size: 114 Copynumber: 3.3 Consensus size: 114
24048722 CGTTTTTAAA
* *
24048732 AAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACTAA
1 AAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCAA
* *
24048797 AACGCAGCGTTTGGTTTTGAGGTATATTAGAATTCGTGGCGTTTACGAT
66 AACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
* * * * ** * * *
24048846 AAAACGACGCAAAAGAACATTATTAGCGGCGTATTA-CAAAAAGCGCCGC-AAATATCTTAATCA
1 AAAACGCCGTAAAAGAACATCATTAGTGGCGT-TTATTTATAAGCGCCGCAAAATACCTTAACCA
* * * ** *** *
24048909 AAACGCACCGTTTGGTCTTGAGGTAGATTAGTGTTAGTGGCGTTTTTAAA
65 AAACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
* *
24048959 AAAACGCCGTAAAAGAACATCATTAGTGCCGTTTATTTTTAAGCGCCGCAAAATACCTTAACCAA
1 AAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCAA
* * *
24049024 AACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
66 AACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
*
24049073 AAAACGCCGCT-AAAGAACAGT-ATTAGCGGCGT
1 AAAACGCCG-TAAAAGAACA-TCATTAGTGGCGT
24049105 ATTACAAAAA
Statistics
Matches: 208, Mismatches: 46, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
112 3 0.01
113 87 0.42
114 113 0.54
115 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (114 bp):
AAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCAA
AACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
Found at i:24049111 original size:227 final size:227
Alignment explanation
Indices: 24048716--24049191 Score: 749
Period size: 227 Copynumber: 2.1 Consensus size: 227
24048706 CCCGAACAAC
*
24048716 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGCCGTTTATTTGTAAGCGCCGC
* * * * * *
24048781 AAAATACCTTAACTAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTCGTGGCGTTTACGAT
66 AAAATACCTTAACCAAAACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
* * *
24048846 AAAACGACGCAAAAGAACATTATTAGCGGCGTATTACAAAAAGCGCCGCAAATATC-TTAATCAA
131 AAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTAAT-AA
*
24048910 AACGCACCGTTTGGTCTTGAGGTA-GATTAGTGT
195 AACGCACCGTTTGGTCTTGAGG-AGGATTAGTAT
*
24048943 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGCCGTTTATTTTTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGCCGTTTATTTGTAAGCGCCGC
24049008 AAAATACCTTAACCAAAACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
66 AAAATACCTTAACCAAAACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
* * * *
24049073 AAAACGCCGCTAAAGAACAGTATTAGCGGCGTATTACAAAAAGTGCCACAAATATCGGTACTAAA
131 AAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTAATAAA
*
24049138 ACGCACCGTTTGGTGTTGAGGAGGATTAGTAT
196 ACGCACCGTTTGGTCTTGAGGAGGATTAGTAT
*
24049170 TAGTGGCGCTTATTAAAAAAAC
1 TAGTGGCG-TTTTTAAAAAAAC
24049192 ACCGCCAAAT
Statistics
Matches: 228, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
226 1 0.00
227 212 0.93
228 15 0.07
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (227 bp):
TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGCCGTTTATTTGTAAGCGCCGC
AAAATACCTTAACCAAAACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
AAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTAATAAA
ACGCACCGTTTGGTCTTGAGGAGGATTAGTAT
Found at i:24052251 original size:27 final size:27
Alignment explanation
Indices: 24052199--24052252 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
24052189 TTATTGGTTC
* * *
24052199 AGGGTTTTCGGTGTGTTCTCTGTTTTT
1 AGGGTTTTCGGTGTCTTCACTCTTTTT
24052226 AGGGTTTTCGGTGTCTTCGAC-CTTTTT
1 AGGGTTTTCGGTGTCTTC-ACTCTTTTT
24052253 GTTCATCCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.06, C:0.15, G:0.28, T:0.52
Consensus pattern (27 bp):
AGGGTTTTCGGTGTCTTCACTCTTTTT
Found at i:24052679 original size:44 final size:44
Alignment explanation
Indices: 24052593--24052681 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
24052583 GATTTTGGTC
* * *
24052593 GAATGGTTTAGGGTGTTAGGAACTTTGTTCATTACTGTTTTTTT
1 GAATGGTTTAGGGTGTTAGGAACTGTGTTAACTACTGTTTTTTT
*
24052637 GAATGGTTTAGGGTGTTAGGAACTGTGTTTAACTATTGTTTTTTT
1 GAATGGTTTAGGGTGTTAGGAACTGTG-TTAACTACTGTTTTTTT
24052682 TCTCCAGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 26 0.65
45 14 0.35
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.49
Consensus pattern (44 bp):
GAATGGTTTAGGGTGTTAGGAACTGTGTTAACTACTGTTTTTTT
Found at i:24053000 original size:219 final size:218
Alignment explanation
Indices: 24052617--24053017 Score: 603
Period size: 219 Copynumber: 1.8 Consensus size: 218
24052607 GTTAGGAACT
* *
24052617 TTGTTCATTACTGTTTTTTTGAATGGTTTAGGGTGTTAGGAACTGTGTTTAACTATTGTTTTTTT
1 TTGTTCATTACTGTTTTTTTG-ATGGTTTAAGGTGTTAGGAACTGTGTTTAACTATTGTTTTTCT
* * * *
24052682 TCTCCAGTTTTTGGTCAATCCATTTCATTGCTTTCATTTCATTTTTCTTCATCGTTCTTAAGGTA
65 TCTCCAGATTTTGGTCAACCCATTTCATTGCTTTCATTTCATTTTTCGTCATCGTTCTGAAGGTA
* * * *
24052747 CAGAACACATGCTTTGTTACTGTTGATTTGTTGAACTCGTTTTGTACTGTTTGACATGGTTATTT
130 CAAAACACATGCTTTGTTACTGTTGATGTGTTGAACTCATTTGGTACTGTTTGACATGGTTATTT
24052812 TCAGTCAATTTGGTACTGTTTCTA
195 TCAGTCAATTTGGTACTGTTTCTA
**
24052836 TTGTTCATTACTGTTTTTGTCTG-TGGTTTAATTTGTTAGGAACTGAT-TTTAACT-TGTGTTTT
1 TTGTTCATTACTGTTTTT-T-TGATGGTTTAAGGTGTTAGGAACTG-TGTTTAACTAT-TGTTTT
24052898 TCTTCTCCAGATTTTGGTCAACCCATTTCATTGCTTTCATTTCAGTTTTT-GTCATCGTTCTGAA
62 TCTTCTCCAGATTTTGGTCAACCCATTTCATTGCTTTCATTTCA-TTTTTCGTCATCGTTCTGAA
*
24052962 GGTACAAAACACATGCTTTGTTACTGTTTATGTGTTGAACTCATTTGGTACTGTTT
126 GGTACAAAACACATGCTTTGTTACTGTTGATGTGTTGAACTCATTTGGTACTGTTT
24053018 TCAAAGTATG
Statistics
Matches: 164, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
218 1 0.01
219 154 0.94
220 7 0.04
221 2 0.01
ACGTcount: A:0.18, C:0.15, G:0.17, T:0.50
Consensus pattern (218 bp):
TTGTTCATTACTGTTTTTTTGATGGTTTAAGGTGTTAGGAACTGTGTTTAACTATTGTTTTTCTT
CTCCAGATTTTGGTCAACCCATTTCATTGCTTTCATTTCATTTTTCGTCATCGTTCTGAAGGTAC
AAAACACATGCTTTGTTACTGTTGATGTGTTGAACTCATTTGGTACTGTTTGACATGGTTATTTT
CAGTCAATTTGGTACTGTTTCTA
Found at i:24053915 original size:17 final size:17
Alignment explanation
Indices: 24053893--24053942 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
24053883 TTAATATCTA
24053893 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
24053910 TATAAGTTTTCTAAA--
1 TATAAGTTTTCTAAATT
24053925 -A-AAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
24053940 TAT
1 TAT
24053943 TTGTATTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 12 0.41
14 1 0.03
16 1 0.03
17 15 0.52
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:24053931 original size:13 final size:13
Alignment explanation
Indices: 24053913--24053937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24053903 CTAAATTTAT
24053913 AAGTTTTCTAAAA
1 AAGTTTTCTAAAA
24053926 AAGTTTTCTAAA
1 AAGTTTTCTAAA
24053938 TTTATTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGTTTTCTAAAA
Found at i:24053958 original size:16 final size:15
Alignment explanation
Indices: 24053934--24053972 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
24053924 AAAAGTTTTC
*
24053934 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
24053949 TAAGATTTATTAGTAT
1 TAA-ATTTATTAGTAT
24053965 TAAATTTA
1 TAAATTTA
24053973 CTTCATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:24055231 original size:21 final size:21
Alignment explanation
Indices: 24055207--24055256 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
24055197 CTACAACTTA
*
24055207 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* *
24055228 AAGCAGAAGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
24055249 AAGCAGAG
1 AAGCAGAG
24055257 CAGGCCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.44, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:24055754 original size:43 final size:42
Alignment explanation
Indices: 24055663--24055909 Score: 404
Period size: 42 Copynumber: 5.8 Consensus size: 42
24055653 TAAGAATAAA
* *
24055663 CGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* *
24055705 CGCCGCTAAAGAACATGGTCTTTAGAGGCTTTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGC-GTTTTTTTCTAAG
* *
24055748 CACCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
*
24055790 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCG-TTTTTTTCTAAG
*
24055833 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
24055875 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
24055910 GTTTGTAAAC
Statistics
Matches: 189, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 111 0.59
43 78 0.41
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:24055774 original size:85 final size:85
Alignment explanation
Indices: 24055665--24055909 Score: 429
Period size: 85 Copynumber: 2.9 Consensus size: 85
24055655 AGAATAAACG
*
24055665 CCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
1 CCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
*
24055730 AGGCTTTTTTTTTCTAAGCA
66 AGGCGTTTTTTTTCTAAGCA
24055750 CCGCTAAAGAACATTG-TCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
1 CCGCTAAAGAACA-TGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
*
24055814 GAGGCGTTTTTTTTCTAAGCG
65 GAGGCGTTTTTTTTCTAAGCA
*
24055835 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
1 CCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
*
24055900 CGGCGTTTTT
66 AGGCGTTTTT
24055910 GTTTGTAAAC
Statistics
Matches: 154, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
84 2 0.01
85 150 0.97
86 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (85 bp):
CCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
AGGCGTTTTTTTTCTAAGCA
Found at i:24056470 original size:9 final size:9
Alignment explanation
Indices: 24056453--24056486 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
24056443 TAAAAACACA
24056453 TTTTTTTTC
1 TTTTTTTTC
*
24056462 TTTTCTTTC
1 TTTTTTTTC
24056471 TTTTTTTTTC
1 -TTTTTTTTC
24056481 TTTTTT
1 TTTTTT
24056487 GGGTAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:24056480 original size:10 final size:10
Alignment explanation
Indices: 24056453--24056486 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
24056443 TAAAAACACA
24056453 TTTTTTTTC-
1 TTTTTTTTCT
*
24056462 TTTTCTTTCT
1 TTTTTTTTCT
24056472 TTTTTTTTCT
1 TTTTTTTTCT
24056482 TTTTT
1 TTTTT
24056487 GGGTAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:24057563 original size:4 final size:4
Alignment explanation
Indices: 24057549--24057597 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
24057539 TATAGGTATC
* * *
24057549 TAAA AAAA TAAA TAAA TACA TAAA TAAA TAAA TACA TAAA TAAA -AAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
24057596 TA
1 TA
24057598 TAAGTAAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 3 0.08
4 35 0.92
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:24057575 original size:16 final size:16
Alignment explanation
Indices: 24057554--24057597 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
24057544 GTATCTAAAA
24057554 AAATAAATAAATACAT
1 AAATAAATAAATACAT
24057570 AAATAAATAAATACAT
1 AAATAAATAAATACAT
24057586 AAATAAA-AAATA
1 AAATAAATAAATA
24057598 TAAGTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 5 0.18
16 23 0.82
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAATAAATACAT
Found at i:24057605 original size:13 final size:13
Alignment explanation
Indices: 24057549--24057618 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 13
24057539 TATAGGTATC
24057549 TAAAAAA-ATAAA
1 TAAAAAATATAAA
* *
24057561 T-AAATACATAAA
1 TAAAAAATATAAA
24057573 TAAATAAATACATAAA
1 TAAA-AAAT--ATAAA
*
24057589 TAAAAAATATAAG
1 TAAAAAATATAAA
* *
24057602 TAAAAGATATTAA
1 TAAAAAATATAAA
24057615 TAAA
1 TAAA
24057619 TTATGAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
11 4 0.09
12 7 0.15
13 20 0.43
14 2 0.04
15 4 0.09
16 9 0.20
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (13 bp):
TAAAAAATATAAA
Found at i:24057718 original size:22 final size:21
Alignment explanation
Indices: 24057683--24057723 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24057673 TGAATAGTGT
* *
24057683 ATGTATATATATATTATAAAAA
1 ATGTATAAACATA-TATAAAAA
24057705 ATGTATAAACATATATAAA
1 ATGTATAAACATATATAAA
24057724 TTATAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (21 bp):
ATGTATAAACATATATAAAAA
Found at i:24057719 original size:28 final size:26
Alignment explanation
Indices: 24057687--24057756 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 26
24057677 TAGTGTATGT
24057687 ATATATATATTATAAAAAATGTATAAAC
1 ATATATATATTATAAAAAATG-A-AAAC
* * *
24057715 ATATATAAATTATAACATATGAAAAC
1 ATATATATATTATAAAAAATGAAAAC
* *
24057741 GTATAAATATTATAAA
1 ATATATATATTATAAA
24057757 TATAAATGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
26 16 0.46
27 1 0.03
28 18 0.51
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (26 bp):
ATATATATATTATAAAAAATGAAAAC
Found at i:24062207 original size:12 final size:11
Alignment explanation
Indices: 24062183--24062250 Score: 54
Period size: 10 Copynumber: 6.4 Consensus size: 11
24062173 TATGATTTTT
*
24062183 TAATTCATATAA
1 TAATT-ATATTA
24062195 TAATTATATTAA
1 TAATTATATT-A
*
24062207 TAATTTTATTA
1 TAATTATATTA
24062218 -AATTATA-TA
1 TAATTATATTA
* *
24062227 TTATTTTATTA
1 TAATTATATTA
24062238 -AATTATATT-
1 TAATTATATTA
24062247 TAAT
1 TAAT
24062251 AATAATTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
9 2 0.04
10 21 0.47
11 7 0.16
12 15 0.33
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (11 bp):
TAATTATATTA
Found at i:24062323 original size:58 final size:57
Alignment explanation
Indices: 24062191--24062325 Score: 182
Period size: 58 Copynumber: 2.3 Consensus size: 57
24062181 TTTAATTCAT
* **
24062191 ATAATAATTATATTAATAATTTTATTAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
* * *
24062249 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATATTA-TTTTATTAAATTATATTTA
24062307 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
24062326 TTAATAACAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
57 18 0.26
58 49 0.72
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:24062504 original size:46 final size:44
Alignment explanation
Indices: 24062418--24062511 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 44
24062408 ATTACAACAT
24062418 CATTCCATTCAACCAAACATAAGAATACTATTACAGTTTTATTC
1 CATTCCATTCAACCAAACATAAGAATACTATTACAGTTTTATTC
*
24062462 CATTTCATTCAACC-AA-ATAATTGAATTACTGATTACAGTTTTATTC
1 CATTCCATTCAACCAAACATAA--GAA-TACT-ATTACAGTTTTATTC
24062508 CATT
1 CATT
24062512 ACAACTCTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
42 4 0.09
43 2 0.04
44 16 0.36
45 4 0.09
46 19 0.42
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.38
Consensus pattern (44 bp):
CATTCCATTCAACCAAACATAAGAATACTATTACAGTTTTATTC
Found at i:24062522 original size:16 final size:16
Alignment explanation
Indices: 24062503--24062544 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
24062493 ATTACAGTTT
*
24062503 TATTCCATTACAACTC
1 TATTCAATTACAACTC
24062519 TATTCAATTACAACTC
1 TATTCAATTACAACTC
*
24062535 TATTCTATTA
1 TATTCAATTA
24062545 TAGTAAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTCAATTACAACTC
Found at i:24073160 original size:2 final size:2
Alignment explanation
Indices: 24073153--24073184 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24073143 AGAATCAACA
24073153 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
24073185 TTGTGGTGAG
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:24075916 original size:26 final size:26
Alignment explanation
Indices: 24075873--24075948 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
24075863 TCTCATCCCT
* * *
24075873 ATTTTATCCCTAGCAAAATTTTGACG
1 ATTTTACCCCTGGTAAAATTTTGACG
* * *
24075899 ATTTTACCCCTGTTAAAAATTTGATG
1 ATTTTACCCCTGGTAAAATTTTGACG
**
24075925 ATTTTGGCCCTGGTAAAATTTTGA
1 ATTTTACCCCTGGTAAAATTTTGA
24075949 GAAAATAAGT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTGGTAAAATTTTGACG
Found at i:24103273 original size:19 final size:19
Alignment explanation
Indices: 24103238--24103280 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
24103228 AAGGAAATAT
*
24103238 TTTTATTTATTTGAAGAGG
1 TTTTATTTATTTCAAGAGG
*
24103257 TTTTATTT-TTTACAAGAGT
1 TTTTATTTATTT-CAAGAGG
24103276 TTTTA
1 TTTTA
24103281 CTCATCCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (19 bp):
TTTTATTTATTTCAAGAGG
Found at i:24112224 original size:41 final size:41
Alignment explanation
Indices: 24112129--24112316 Score: 114
Period size: 41 Copynumber: 4.5 Consensus size: 41
24112119 GAATGTAAGG
* * * * *
24112129 GGTTGCTAAGTGCAGATTCC-TCGAATCATTGATCA-AAAAGG
1 GGTTGCTAAGTGCTGATTCCAT-GTATCATTGATTATAAGA-T
*
24112170 GGTTGCTATGTGCTGATTCCATGTATCATTGATTATAAGAT
1 GGTTGCTAAGTGCTGATTCCATGTATCATTGATTATAAGAT
* * * * * * *
24112211 GGTTTCTAAGTGCTAATTTCACCGTATCCTTGATTGTGAA-AG
1 GGTTGCTAAGTGCTGATTCCA-TGTATCATTGATTAT-AAGAT
* * * *
24112253 GGTTTGCTATGTACTGATTCCCCT-TATCATTGATTATAAGGT
1 GG-TTGCTAAGTGCTGATT-CCATGTATCATTGATTATAAGAT
* * *
24112295 GGTTGGTAACTGTTGATTCCAT
1 GGTTGCTAAGTGCTGATTCCAT
24112317 CGGGATTCTT
Statistics
Matches: 109, Mismatches: 31, Indels: 15
0.70 0.20 0.10
Matches are distributed among these distances:
40 3 0.03
41 59 0.54
42 32 0.29
43 14 0.13
44 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCATGTATCATTGATTATAAGAT
Found at i:24112286 original size:42 final size:41
Alignment explanation
Indices: 24112125--24112291 Score: 122
Period size: 41 Copynumber: 4.0 Consensus size: 41
24112115 CTTTGAATGT
* * * * ** * *
24112125 AAGGGGTTGCTAAGTGCAGATTCCTCGAATCATTGATCAAA
1 AAGGGTTTGCTATGTGCTGATTCCCCTTATCATTGATTATA
* *
24112166 AAGGGGTTGCTATGTGCTGATT-CCATGTATCATTGATTATA
1 AAGGGTTTGCTATGTGCTGATTCCCCT-TATCATTGATTATA
* * * * * * *
24112207 AGATGGTTT-CTAAGTGCTAATTTCACCGTATCCTTGATTGTGA
1 A-AGGGTTTGCTATGTGCTGA-TTCCCCTTATCATTGATTAT-A
*
24112250 AAGGGTTTGCTATGTACTGATTCCCCTTATCATTGATTATA
1 AAGGGTTTGCTATGTGCTGATTCCCCTTATCATTGATTATA
24112291 A
1 A
24112292 GGTGGTTGGT
Statistics
Matches: 95, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
40 1 0.01
41 43 0.45
42 40 0.42
43 11 0.12
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.37
Consensus pattern (41 bp):
AAGGGTTTGCTATGTGCTGATTCCCCTTATCATTGATTATA
Found at i:24117960 original size:107 final size:108
Alignment explanation
Indices: 24117849--24118072 Score: 378
Period size: 107 Copynumber: 2.1 Consensus size: 108
24117839 TAAATTCATA
* * **
24117849 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAATTTGACACTATGAATTCCA
1 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGAATTGGAATTTGACACCACAAATTCCA
*
24117914 AATG-TAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
66 AATGCAAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
24117956 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGAATTGGAATTTGACACCACAAATTCCA
1 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGAATTGGAATTTGACACCACAAATTCCA
*
24118021 AATGCAAAAAAAAAAAAATCAAAATTTAAATTTGAGAATGATT
66 AATGCAAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
*
24118064 TCCTTTTGA
1 TTCTTTTGA
24118073 AAAAAAAAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
107 65 0.60
108 44 0.40
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (108 bp):
TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGAATTGGAATTTGACACCACAAATTCCA
AATGCAAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
Found at i:24121996 original size:27 final size:27
Alignment explanation
Indices: 24121929--24121997 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
24121919 TATTTCTAAG
24121929 ACTG-TATTTGAATGGGCTAAGGCCCAA
1 ACTGATATTTG-ATGGGCTAAGGCCCAA
*
24121956 ACTGAT-TCTGTGATGGGCTAAGGCCC-T
1 ACTGATAT-T-TGATGGGCTAAGGCCCAA
24121983 ACTGCATATTTGATG
1 ACTG-ATATTTGATG
24121998 CTGATACTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
27 14 0.39
28 19 0.53
29 3 0.08
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (27 bp):
ACTGATATTTGATGGGCTAAGGCCCAA
Found at i:24122150 original size:41 final size:41
Alignment explanation
Indices: 24121956--24122142 Score: 286
Period size: 41 Copynumber: 4.6 Consensus size: 41
24121946 TAAGGCCCAA
*
24121956 ACTGATTCTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
* *
24121997 GCTGATACTGTGATGGGTTAAGGCCCTACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
* * *
24122038 ACTGATCCTGTGATAGGCTAAAGCCCTACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
* *
24122079 ACTGATACTGTGATGGGCTAAGGACCAACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
*
24122120 ACTG-TACTGAGATGGGCTAAGGC
1 ACTGATACTGTGATGGGCTAAGGC
24122143 TCAAACTGTT
Statistics
Matches: 131, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 17 0.13
41 114 0.87
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
Found at i:24127385 original size:51 final size:51
Alignment explanation
Indices: 24127326--24127422 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
24127316 TACTTTCAAG
24127326 ATTTTATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAACAT
1 ATTTTATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAACAT
*
24127377 ATTTTATTTTGAAATTTCCTTATTAATTAGGTCATTTGATTACTTG
1 ATTTTATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTG
24127423 GACAAGTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (51 bp):
ATTTTATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAACAT
Done.