Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 310 of 345
Found at i:104959477 original size:41 final size:42
Alignment explanation
Indices: 104959432--104959511 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
104959422 GATGCAGGGA
* *
104959432 CACACGATCT-ATCAACATGCCTGTGTG-CAAGCCGTGTGTCT
1 CACACGATCTGATC-ACATGCCCGTATGACAAGCCGTGTGTCT
* *
104959473 CACACGGTCTGATCACATGCCCGTATGACATGCCGTGTG
1 CACACGATCTGATCACATGCCCGTATGACAAGCCGTGTG
104959512 GACTCAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 20 0.61
42 13 0.39
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (42 bp):
CACACGATCTGATCACATGCCCGTATGACAAGCCGTGTGTCT
Found at i:104960308 original size:6 final size:6
Alignment explanation
Indices: 104960299--104960330 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
104960289 ACAAATCCAA
*
104960299 AACAGT AACAGT AACAGT AACAGT AGCAGT AA
1 AACAGT AACAGT AACAGT AACAGT AACAGT AA
104960331 GGCGACACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:104960707 original size:15 final size:15
Alignment explanation
Indices: 104960687--104960748 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
104960677 AAACCCTATT
*
104960687 TTTCCTTTCTTTTTC
1 TTTCCTTTCTATTTC
104960702 TTTCCTTTCTATTTC
1 TTTCCTTTCTATTTC
* * *
104960717 GTTTTCATTCTCTGTTC
1 -TTTCCTTTCTAT-TTC
*
104960734 TTTCTTTTTCTATTT
1 TTTC-CTTTCTATTT
104960749 TGTTTCTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
15 14 0.39
16 14 0.39
17 8 0.22
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTCCTTTCTATTTC
Found at i:104960788 original size:8 final size:8
Alignment explanation
Indices: 104960775--104960813 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
104960765 TTTAACTATT
104960775 TTATTATA
1 TTATTATA
104960783 TTATTATA
1 TTATTATA
* *
104960791 ATAATATA
1 TTATTATA
104960799 TTATTATA
1 TTATTATA
104960807 TATATTA
1 T-TATTA
104960814 AATATCTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 21 0.81
9 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTATTATA
Found at i:104966065 original size:33 final size:33
Alignment explanation
Indices: 104966027--104966093 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
104966017 TTTCAGAGAT
104966027 AGACTGATTTATTGAACTAATATTGTCCATTTA
1 AGACTGATTTATTGAACTAATATTGTCCATTTA
104966060 AGACTGATTTATTGAACTAATATTGTCCATTTA
1 AGACTGATTTATTGAACTAATATTGTCCATTTA
104966093 A
1 A
104966094 TTAATTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (33 bp):
AGACTGATTTATTGAACTAATATTGTCCATTTA
Found at i:104966527 original size:21 final size:21
Alignment explanation
Indices: 104966494--104966537 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
104966484 TTCTTATTTA
*
104966494 TTTTCCTCTCTTCTCATTTTC
1 TTTTCCTCCCTTCTCATTTTC
* *
104966515 TTTTTCTCCCTTCTCCTTTTC
1 TTTTCCTCCCTTCTCATTTTC
104966536 TT
1 TT
104966538 CAAAATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTCCTCCCTTCTCATTTTC
Found at i:104977214 original size:13 final size:13
Alignment explanation
Indices: 104977195--104977228 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
104977185 CCTCTTTGTC
104977195 TTTATTTTATTT-
1 TTTATTTTATTTG
104977207 TATTATTTTATTTG
1 T-TTATTTTATTTG
104977221 TTTATTTT
1 TTTATTTT
104977229 TTATTCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 18 0.90
14 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTATTTTATTTG
Found at i:104977226 original size:21 final size:21
Alignment explanation
Indices: 104977200--104977246 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
104977190 TTGTCTTTAT
*
104977200 TTTATTTTATTATT-TTATTTG
1 TTTATTTT-TTATTCTTAATTG
104977221 TTTATTTTTTATTCTTAATTG
1 TTTATTTTTTATTCTTAATTG
104977242 TTTAT
1 TTTAT
104977247 CATTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTATTTTTTATTCTTAATTG
Found at i:104977252 original size:21 final size:20
Alignment explanation
Indices: 104977209--104977256 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
104977199 TTTTATTTTA
* **
104977209 TTATTTTATTTGTTTATTTT
1 TTATTTTAATTGTTTATCAT
104977229 TTATTCTTAATTGTTTATCAT
1 TTATT-TTAATTGTTTATCAT
104977250 TTATTTT
1 TTATTTT
104977257 TATTTCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (20 bp):
TTATTTTAATTGTTTATCAT
Found at i:104977319 original size:22 final size:22
Alignment explanation
Indices: 104977294--104977347 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
104977284 TTATCTACTT
104977294 GTTTTCTTTTGCTTTGATTTTA
1 GTTTTCTTTTGCTTTGATTTTA
104977316 GTTTTCTTTTGCTTTGATTTTA
1 GTTTTCTTTTGCTTTGATTTTA
104977338 GTTTTCTTTT
1 GTTTTCTTTT
104977348 CAATTCTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.07, C:0.09, G:0.13, T:0.70
Consensus pattern (22 bp):
GTTTTCTTTTGCTTTGATTTTA
Found at i:104979005 original size:6 final size:6
Alignment explanation
Indices: 104978994--104979023 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
104978984 AGTTTATTTG
104978994 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
104979024 CGTTTTAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:104979063 original size:25 final size:26
Alignment explanation
Indices: 104979008--104979074 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 26
104978998 ATTTTTATTT
*
104979008 TTATTTTTATTTTTATCGTTTTAGAC
1 TTATTTTCATTTTTATCGTTTTAGAC
104979034 TTA-TTTCATTTTTATC-TTTT-GAAC
1 TTATTTTCATTTTTATCGTTTTAG-AC
*
104979058 TATATTTTTATTTTTAT
1 T-TATTTTCATTTTTAT
104979075 AGTTGTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
23 1 0.03
24 7 0.19
25 14 0.39
26 14 0.39
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.67
Consensus pattern (26 bp):
TTATTTTCATTTTTATCGTTTTAGAC
Found at i:104979292 original size:21 final size:21
Alignment explanation
Indices: 104979248--104979300 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
104979238 TCCCTCTCTT
104979248 ATGATATTATGTTTATACTATG
1 ATGATA-TATGTTTATACTATG
* *
104979270 ATTATATATGTTTGTAC-ATTG
1 ATGATATATGTTTATACTA-TG
104979291 ATGATA-ATGT
1 ATGATATATGT
104979301 ATGATTGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.19
21 17 0.63
22 5 0.19
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (21 bp):
ATGATATATGTTTATACTATG
Found at i:104982210 original size:20 final size:21
Alignment explanation
Indices: 104982176--104982214 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
104982166 TGAGTCTTCA
*
104982176 AAAATAAATAGAAATAAAAGT
1 AAAATAAATAAAAATAAAAGT
104982197 AAAAT-AATAAAAATAAAA
1 AAAATAAATAAAAATAAAA
104982215 CGAGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (21 bp):
AAAATAAATAAAAATAAAAGT
Found at i:104989296 original size:22 final size:24
Alignment explanation
Indices: 104989258--104989301 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
104989248 AGTATTTTAA
*
104989258 TTTTTAAATCAACATT-CAAAATT
1 TTTTTAAATCAAAATTCCAAAATT
104989281 TTTTTAAAT-AAAATTCCAAAA
1 TTTTTAAATCAAAATTCCAAAA
104989302 CATAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTTTAAATCAAAATTCCAAAATT
Found at i:104991581 original size:9 final size:9
Alignment explanation
Indices: 104991558--104991599 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
104991548 TGTTACAAGA
*
104991558 ATGATGATG
1 ATGATGAGG
*
104991567 ACGATGAGG
1 ATGATGAGG
104991576 ATGATGAGG
1 ATGATGAGG
*
104991585 ACGATGAGG
1 ATGATGAGG
104991594 ATGATG
1 ATGATG
104991600 TTTCTTTGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.33, C:0.05, G:0.40, T:0.21
Consensus pattern (9 bp):
ATGATGAGG
Found at i:104991581 original size:18 final size:18
Alignment explanation
Indices: 104991558--104991599 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
104991548 TGTTACAAGA
*
104991558 ATGATGATGACGATGAGG
1 ATGATGAGGACGATGAGG
104991576 ATGATGAGGACGATGAGG
1 ATGATGAGGACGATGAGG
104991594 ATGATG
1 ATGATG
104991600 TTTCTTTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.40, T:0.21
Consensus pattern (18 bp):
ATGATGAGGACGATGAGG
Found at i:104991818 original size:22 final size:22
Alignment explanation
Indices: 104991800--104991841 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
104991790 GTTTTTTTGT
**
104991800 GCTGTTTTGTTGCTATTTTGGA
1 GCTGTTTTGGAGCTATTTTGGA
104991822 GCTGTTTTGGAGCTATTTTG
1 GCTGTTTTGGAGCTATTTTG
104991842 ATGCTATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.10, G:0.29, T:0.52
Consensus pattern (22 bp):
GCTGTTTTGGAGCTATTTTGGA
Found at i:104991831 original size:11 final size:11
Alignment explanation
Indices: 104991811--104991841 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
104991801 CTGTTTTGTT
104991811 GCTATTTTGGA
1 GCTATTTTGGA
*
104991822 GCTGTTTTGGA
1 GCTATTTTGGA
104991833 GCTATTTTG
1 GCTATTTTG
104991842 ATGCTATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.29, T:0.48
Consensus pattern (11 bp):
GCTATTTTGGA
Found at i:104991853 original size:22 final size:22
Alignment explanation
Indices: 104991811--104991853 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
104991801 CTGTTTTGTT
* *
104991811 GCTATTTTGGAGCTGTTTTGGA
1 GCTATTTTGGAGCTATCTTGGA
104991833 GCTATTTT-GATGCTATCTTGG
1 GCTATTTTGGA-GCTATCTTGG
104991854 TGTTGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.14, C:0.12, G:0.28, T:0.47
Consensus pattern (22 bp):
GCTATTTTGGAGCTATCTTGGA
Found at i:104992486 original size:26 final size:25
Alignment explanation
Indices: 104992457--104992516 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
104992447 TTAAAAGTTT
104992457 ATAAAAATAGGGATAAATATATAAAA
1 ATAAAAATAGGGA-AAATATATAAAA
* * *
104992483 ATAAAATATATGTAAAATATCTAAAA
1 ATAAAA-ATAGGGAAAATATATAAAA
104992509 ATATAAAA
1 ATA-AAAA
104992517 AAAATTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.27
Consensus pattern (25 bp):
ATAAAAATAGGGAAAATATATAAAA
Found at i:104994650 original size:29 final size:30
Alignment explanation
Indices: 104994618--104994675 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
104994608 TTTTATCATA
* *
104994618 AATTATATTTACAA-TAGATTTAAAAAAAT
1 AATTACATATACAAGTAGATTTAAAAAAAT
*
104994647 AATTACGTATACAAGTAGATTTAAAAAAA
1 AATTACATATACAAGTAGATTTAAAAAAA
104994676 ATAAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (30 bp):
AATTACATATACAAGTAGATTTAAAAAAAT
Found at i:104995078 original size:22 final size:22
Alignment explanation
Indices: 104995053--104995094 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
104995043 TAAGATAATT
104995053 TTAAAAAACAAAT-AATAAAATC
1 TTAAAAAA-AAATGAATAAAATC
*
104995075 TTAAATAAAAATGAATAAAA
1 TTAAAAAAAAATGAATAAAA
104995095 GCATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TTAAAAAAAAATGAATAAAATC
Found at i:104995101 original size:22 final size:21
Alignment explanation
Indices: 104995062--104995104 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
104995052 TTTAAAAAAC
* *
104995062 AAATAATAAAATCTTAAATAA
1 AAATAATAAAAGCATAAATAA
104995083 AAATGAATAAAAGCATAAATAA
1 AAAT-AATAAAAGCATAAATAA
104995105 GTAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
AAATAATAAAAGCATAAATAA
Found at i:104998489 original size:12 final size:12
Alignment explanation
Indices: 104998472--104998499 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
104998462 TCTTATTGTT
104998472 AAAAAAATCGAA
1 AAAAAAATCGAA
104998484 AAAAAAATCGAA
1 AAAAAAATCGAA
104998496 AAAA
1 AAAA
104998500 TATATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAAAATCGAA
Found at i:104999036 original size:15 final size:15
Alignment explanation
Indices: 104999016--104999047 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
104999006 CAATGCATGA
104999016 TTATTTATGGATTAT
1 TTATTTATGGATTAT
104999031 TTATTTATGGATTAT
1 TTATTTATGGATTAT
104999046 TT
1 TT
104999048 TGAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (15 bp):
TTATTTATGGATTAT
Found at i:105010312 original size:24 final size:24
Alignment explanation
Indices: 105010280--105010327 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
105010270 TACTTAGTAG
105010280 TATGTTGAGTAGTATTACGTTCCC
1 TATGTTGAGTAGTATTACGTTCCC
*
105010304 TATGTTGAGTCGTATTACGTTCCC
1 TATGTTGAGTAGTATTACGTTCCC
105010328 ACAATCTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (24 bp):
TATGTTGAGTAGTATTACGTTCCC
Found at i:105010708 original size:15 final size:14
Alignment explanation
Indices: 105010656--105010715 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 14
105010646 TCAATAGGTG
105010656 TATCTTTTCATAAGA
1 TATCTTTT-ATAAGA
*
105010671 TA-CTTTTTATATGGA
1 TATC-TTTTATA-AGA
105010686 TGTATCTTTTAATAAGA
1 --TATCTTTT-ATAAGA
105010703 TATCTTTTATAAG
1 TATCTTTTATAAG
105010716 GTTGTAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
14 9 0.24
15 16 0.43
17 8 0.22
18 4 0.11
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (14 bp):
TATCTTTTATAAGA
Found at i:105010733 original size:32 final size:32
Alignment explanation
Indices: 105010654--105010721 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
105010644 ATTCAATAGG
* *
105010654 TGTATCTTTTCATAAGATACTTTTTATATGGA
1 TGTATCTTTTAATAAGATACTTTTTATAAGGA
*
105010686 TGTATCTTTTAATAAGATA-TCTTTTATAAGGT
1 TGTATCTTTTAATAAGATACT-TTTTATAAGGA
105010718 TGTA
1 TGTA
105010722 ATGTTTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.50
Consensus pattern (32 bp):
TGTATCTTTTAATAAGATACTTTTTATAAGGA
Found at i:105014666 original size:22 final size:24
Alignment explanation
Indices: 105014638--105014682 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
105014628 TATATATTTC
*
105014638 AAATTTA-A-GCATCAAAATAAAA
1 AAATTTATAGGCACCAAAATAAAA
105014660 AAATTTATAGGCACCAAAATAAA
1 AAATTTATAGGCACCAAAATAAA
105014683 TATAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.60, C:0.11, G:0.07, T:0.22
Consensus pattern (24 bp):
AAATTTATAGGCACCAAAATAAAA
Found at i:105021492 original size:14 final size:13
Alignment explanation
Indices: 105021467--105021491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105021457 GTTTATTTAT
105021467 TTCAATTTTTTTC
1 TTCAATTTTTTTC
105021480 TTCAATTTTTTT
1 TTCAATTTTTTT
105021492 TATCTAACTT
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:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCAATTTTTTTC
Found at i:105025886 original size:13 final size:13
Alignment explanation
Indices: 105025868--105025892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105025858 TGAATCTAAA
105025868 AAGAAGCTGCCAC
1 AAGAAGCTGCCAC
105025881 AAGAAGCTGCCA
1 AAGAAGCTGCCA
105025893 GAAAAGAAGA
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:0.40, C:0.28, G:0.24, T:0.08
Consensus pattern (13 bp):
AAGAAGCTGCCAC
Found at i:105036230 original size:17 final size:14
Alignment explanation
Indices: 105036194--105036228 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
105036184 TATTCTATGA
105036194 TATTATTCTTGTGT
1 TATTATTCTTGTGT
105036208 TATTATTCTTGTGT
1 TATTATTCTTGTGT
105036222 TATTATT
1 TATTATT
105036229 ATCTATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.66
Consensus pattern (14 bp):
TATTATTCTTGTGT
Found at i:105039703 original size:21 final size:20
Alignment explanation
Indices: 105039677--105039715 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
105039667 TGTGAATTGA
105039677 ATTAAATTGAGTATAAAATGG
1 ATTAAATTGA-TATAAAATGG
*
105039698 ATTAAATTGATATTAAAT
1 ATTAAATTGATATAAAAT
105039716 TCATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
ATTAAATTGATATAAAATGG
Found at i:105040390 original size:24 final size:23
Alignment explanation
Indices: 105040342--105040393 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
105040332 AGCCCGGATA
*
105040342 AGCTTCCCAATAGGCTCTTTATG
1 AGCTTCCCAATAGGCTCTATATG
*
105040365 AGCTTCCCGAA-ATGGCTCTATGTG
1 AGCTTCCC-AATA-GGCTCTATATG
105040389 AGCTT
1 AGCTT
105040394 AAGAGAGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (23 bp):
AGCTTCCCAATAGGCTCTATATG
Found at i:105041725 original size:26 final size:26
Alignment explanation
Indices: 105041696--105041748 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
105041686 TGCATAAATT
* *
105041696 GGGCATTGAGGGTCTATTCAACGGAC
1 GGGCATCGAGGGTCCATTCAACGGAC
*
105041722 GGGCATCGAGGGTCCATTCAAGGGAC
1 GGGCATCGAGGGTCCATTCAACGGAC
105041748 G
1 G
105041749 ATATGATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.38, T:0.19
Consensus pattern (26 bp):
GGGCATCGAGGGTCCATTCAACGGAC
Found at i:105043938 original size:17 final size:17
Alignment explanation
Indices: 105043916--105043960 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
105043906 TGTGATGAAG
105043916 AAGCAATTCTTGTTGTT
1 AAGCAATTCTTGTTGTT
105043933 AAGCAATTCTTGTTGTT
1 AAGCAATTCTTGTTGTT
105043950 AAGCAATTCTT
1 AAGCAATTCTT
105043961 ACTATTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (17 bp):
AAGCAATTCTTGTTGTT
Found at i:105045166 original size:91 final size:91
Alignment explanation
Indices: 105044979--105045189 Score: 237
Period size: 91 Copynumber: 2.3 Consensus size: 91
105044969 GAGGTTCTTG
* * * * *
105044979 CGTGTTATCAATT-GAAAAGCTTTTATGAGCAATTTGGCGTGTTATCAGGAGAGAATATTTAGCC
1 CGTGTTATCAGTTAG-AAAGCTCTTATGAGAAATTTGGCATGTTACCAGGAGAGAATATTTAGCC
* **
105045043 TACGAGCTTTGTACTATGCACATCTGG
65 TACGAGCTTTGCACTATGCACATCTAA
* *
105045070 TGTGTTATCGGTTAGAAAGCTCTTATGAGAAATTTGGCATGTTACCGAGG-GAGAATATTTAGCC
1 CGTGTTATCAGTTAGAAAGCTCTTATGAGAAATTTGGCATGTTACC-AGGAGAGAATATTTAGCC
* * **
105045134 TATGGGCTTTGCACTATGTGCATCTAA
65 TACGAGCTTTGCACTATGCACATCTAA
* *
105045161 CGTGTTATCAGTTGGAATAACTCTTATGA
1 CGTGTTATCAGTTAGAA-AGCTCTTATGA
105045190 ACAAACTGGC
Statistics
Matches: 99, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
91 85 0.86
92 14 0.14
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (91 bp):
CGTGTTATCAGTTAGAAAGCTCTTATGAGAAATTTGGCATGTTACCAGGAGAGAATATTTAGCCT
ACGAGCTTTGCACTATGCACATCTAA
Found at i:105052141 original size:18 final size:17
Alignment explanation
Indices: 105052102--105052143 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
105052092 TAATTTTAAA
*
105052102 ATATATT-TACAAATTC
1 ATATATTATAAAAATTC
*
105052118 AAATATTATAAAAATTAC
1 ATATATTATAAAAATT-C
105052136 ATATATTA
1 ATATATTA
105052144 AACCCCATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 6 0.29
17 7 0.33
18 8 0.38
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATTATAAAAATTC
Found at i:105052592 original size:18 final size:17
Alignment explanation
Indices: 105052566--105052640 Score: 71
Period size: 18 Copynumber: 4.3 Consensus size: 17
105052556 AAAATTATAA
*
105052566 AAATAAAAATACCAAAAT
1 AAATAAAAAT-CAAAAAT
*
105052584 AAATCAAAATCAAAAAT
1 AAATAAAAATCAAAAAT
*
105052601 AAA-AAAAATAAAAAAGT
1 AAATAAAAATCAAAAA-T
* *
105052618 TAATAAAAATTCAAAAAA
1 AAATAAAAA-TCAAAAAT
105052636 AAATA
1 AAATA
105052641 GCATGGAGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
16 10 0.22
17 12 0.26
18 18 0.39
19 6 0.13
ACGTcount: A:0.75, C:0.07, G:0.01, T:0.17
Consensus pattern (17 bp):
AAATAAAAATCAAAAAT
Found at i:105055547 original size:43 final size:43
Alignment explanation
Indices: 105055499--105055666 Score: 137
Period size: 43 Copynumber: 4.0 Consensus size: 43
105055489 TATCGAGTTG
* *
105055499 TGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* * *
105055542 TGATTACGTGTAAGACCATGTCAGGGGCATTGGCATCGTA-TA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* * * * * * * *
105055584 TTGATT-CGTTTAAGACCCTGTTTGGGATAGTGGCACCG-ATATG
1 -TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TA
* * * *
105055627 TGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
105055667 GAGCTTATGT
Statistics
Matches: 98, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 36 0.37
43 61 0.62
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
Found at i:105055618 original size:42 final size:43
Alignment explanation
Indices: 105055499--105055645 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
105055489 TATCGAGTTG
* *
105055499 TGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTA
1 TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATTA
** *
105055542 TGATTACGTGTAAGACCATGTCAGGGGCATTGGCATCGTA-TA
1 TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATTA
* * * * * *
105055584 TTGATT-CGTTTAAGACCCTGTTTGGGATAGTGGCACCG-ATATG
1 -TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTAT-TA
* *
105055627 TGATAACATGTAAGACCAT
1 TGATTACGTGTAAGACCAT
105055646 ATCTGGGATA
Statistics
Matches: 82, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.01
42 30 0.37
43 51 0.62
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATTA
Found at i:105061411 original size:41 final size:41
Alignment explanation
Indices: 105061204--105061400 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
105061194 TTTATCGTTA
* * * * *
105061204 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
105061245 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
105061286 GTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
105061327 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
105061368 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
105061401 AAGAGCCGGT
Statistics
Matches: 145, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 140 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:105061423 original size:123 final size:124
Alignment explanation
Indices: 105061204--105061454 Score: 287
Period size: 123 Copynumber: 2.0 Consensus size: 124
105061194 TTTATCGTTA
* * *
105061204 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
1 GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
* * ** *
105061269 TAGCAGGCTTAATGCCGGTGACACATTTCAGGCTAT-AAGTCTAGCAGGCTTAATGCCG
66 TAGCAGGCTTAAAGCCGGTGACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
* * *
105061327 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T-TTCGGACTATAAG
1 GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGA-A-ATTATTCAGACTATAAG
*** * *
105061390 TCTAGCAGGC-TAAGAGCCGGTGTATTGA-ATCAGGTTTTAAAACCTAGCAGGCTAAATGCCG
64 TCTAGCAGGCTTAA-AGCCGGTG-ACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
105061451 GTGA
1 GTGA
105061455 ATCCGTTTAA
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
122 3 0.03
123 76 0.71
124 27 0.25
125 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (124 bp):
GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
TAGCAGGCTTAAAGCCGGTGACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
Found at i:105061669 original size:33 final size:33
Alignment explanation
Indices: 105061613--105061710 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
105061603 ATAGATATGT
*
105061613 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
105061645 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
105061678 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
105061711 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:105068611 original size:41 final size:41
Alignment explanation
Indices: 105068404--105068600 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
105068394 TTTATCGTTA
* * * * *
105068404 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
105068445 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
105068486 GTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
105068527 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
105068568 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
105068601 AAGAGCCGGT
Statistics
Matches: 145, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 140 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:105068875 original size:33 final size:33
Alignment explanation
Indices: 105068819--105068916 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
105068809 ATATGTATAT
*
105068819 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
105068851 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
105068884 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
105068917 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:105074161 original size:56 final size:56
Alignment explanation
Indices: 105074070--105074181 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
105074060 ATGAATTCCG
*
105074070 TGAACCACTTACTCATCATTTAGAAGAAGTTTTGCTTAGCCTCTCCCCTTTGGCTA
1 TGAACCACTTACTCATCATTTAGAAGAAGTCTTGCTTAGCCTCTCCCCTTTGGCTA
* *
105074126 TGAACCTCTTACTCATCATTTAGAAGAAGTCTTGCTTAGCCTGTCCCCTTTGGCTA
1 TGAACCACTTACTCATCATTTAGAAGAAGTCTTGCTTAGCCTCTCCCCTTTGGCTA
105074182 CTCGAAATAG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (56 bp):
TGAACCACTTACTCATCATTTAGAAGAAGTCTTGCTTAGCCTCTCCCCTTTGGCTA
Found at i:105076086 original size:40 final size:40
Alignment explanation
Indices: 105076002--105076095 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
105075992 CTTGTTATCA
* * *
105076002 CACACTTAGTGCCACATATAGCCGAAGCTATTCCAACTCT
1 CACACTAAGTGCCACATATAGCCGAAGCTATTCCAACACG
* * *
105076042 CACACTAAGTGCTATATATAGCCGAAGCTATCTCGAA-ACG
1 CACACTAAGTGCCACATATAGCCGAAGCTAT-TCCAACACG
105076082 CACACTAAGTGCCA
1 CACACTAAGTGCCA
105076096 AACATAATTG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (40 bp):
CACACTAAGTGCCACATATAGCCGAAGCTATTCCAACACG
Found at i:105079793 original size:17 final size:17
Alignment explanation
Indices: 105079771--105079805 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
105079761 AACCATGGAA
*
105079771 GATGGAATTTTATGAAG
1 GATGGAATTCTATGAAG
105079788 GATGGAATTCTATGAAG
1 GATGGAATTCTATGAAG
105079805 G
1 G
105079806 CACACTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.31
Consensus pattern (17 bp):
GATGGAATTCTATGAAG
Found at i:105097307 original size:26 final size:26
Alignment explanation
Indices: 105097278--105097385 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
105097268 TGATACAAAT
105097278 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105097304 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105097330 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105097356 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105097382 TGAT
1 TGAT
105097386 TGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105104351 original size:26 final size:26
Alignment explanation
Indices: 105104322--105104429 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
105104312 TGATACAAAT
105104322 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
105104348 TGAT-ATGGGTTAGGTAAACGTTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCCA
105104374 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105104400 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105104426 TGAT
1 TGAT
105104430 TGGAATTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 15 0.20
26 46 0.61
27 15 0.20
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105107458 original size:16 final size:16
Alignment explanation
Indices: 105107437--105107468 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
105107427 TATATAAGAA
105107437 AGGTTTTTATTGCTTT
1 AGGTTTTTATTGCTTT
105107453 AGGTTTTTATTGCTTT
1 AGGTTTTTATTGCTTT
105107469 TTTTTATAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.19, T:0.62
Consensus pattern (16 bp):
AGGTTTTTATTGCTTT
Found at i:105118309 original size:16 final size:15
Alignment explanation
Indices: 105118259--105118310 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
105118249 TTATATACTT
*
105118259 ATGAATTGAGTATGGT
1 ATGAATTGAGTAT-GC
* *
105118275 ATGAAATGATGTATTC
1 ATGAATTGA-GTATGC
105118291 ATGAATTGAGTACTGC
1 ATGAATTGAGTA-TGC
105118307 ATGA
1 ATGA
105118311 CTGATACCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 3 0.10
16 22 0.76
17 4 0.14
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (15 bp):
ATGAATTGAGTATGC
Found at i:105122166 original size:39 final size:39
Alignment explanation
Indices: 105122104--105122327 Score: 376
Period size: 39 Copynumber: 5.7 Consensus size: 39
105122094 TGTGTGAGAT
*
105122104 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
105122143 TTATGTCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
105122182 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
105122221 TTATATCCGGGCTAAGTCCCGAAGGTATTCCTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
105122260 TTATATCCAGGCTAAGTCCCGAAGGTATTCCTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
105122299 TTATATCCGGGCTAAGTTCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
105122328 TGTGTTGGAA
Statistics
Matches: 176, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 176 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:105130123 original size:29 final size:29
Alignment explanation
Indices: 105130077--105130138 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
105130067 ATCTGTTATG
105130077 ATATATATATGTGCATGATAATTGAGGAT
1 ATATATATATGTGCATGATAATTGAGGAT
* *
105130106 ATATATATGTGTGTATGATAATTGAGGAT
1 ATATATATATGTGCATGATAATTGAGGAT
105130135 -TATA
1 ATATA
105130139 ACCAGGCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (29 bp):
ATATATATATGTGCATGATAATTGAGGAT
Found at i:105130364 original size:39 final size:39
Alignment explanation
Indices: 105130172--105130356 Score: 307
Period size: 39 Copynumber: 4.7 Consensus size: 39
105130162 TGTGTAAGAT
105130172 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
105130211 TTATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
105130250 TTATGTCTGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
105130289 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
105130328 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
105130357 TGTGTTGGAA
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 137 1.00
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:105133119 original size:28 final size:26
Alignment explanation
Indices: 105133070--105133133 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 26
105133060 ATAAAATGAA
*
105133070 AACAATA-ATAATAATAATAAATATT
1 AACAATATATAATAATAAAAAATATT
*
105133095 AAGCAATATATAAGTAATAAAAAATTTT
1 AA-CAATATATAA-TAATAAAAAATATT
*
105133123 AAAAATATATA
1 AACAATATATA
105133134 TTATTTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.06
26 5 0.15
27 12 0.36
28 14 0.42
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (26 bp):
AACAATATATAATAATAAAAAATATT
Found at i:105133352 original size:10 final size:10
Alignment explanation
Indices: 105133280--105133398 Score: 52
Period size: 10 Copynumber: 11.7 Consensus size: 10
105133270 TAAATTTTTT
*
105133280 TATACTAATA
1 TATAATAATA
*
105133290 AATAATAAGTA
1 TATAATAA-TA
105133301 -ATGAACTAATA
1 TAT-AA-TAATA
*
105133312 TATAATAAAA
1 TATAATAATA
*
105133322 GA-AGATAATA
1 TATA-ATAATA
*
105133332 TAGGGAATAATA
1 TA--TAATAATA
105133344 TATAATAATA
1 TATAATAATA
* *
105133354 TATGAT-ATG
1 TATAATAATA
105133363 TGATAA-AATA
1 T-ATAATAATA
*
105133373 TA-AATAAAA
1 TATAATAATA
105133382 TATAATGAA-A
1 TATAAT-AATA
105133392 TATAATA
1 TATAATA
105133399 TGATAACTAT
Statistics
Matches: 84, Mismatches: 12, Indels: 27
0.68 0.10 0.22
Matches are distributed among these distances:
8 2 0.02
9 11 0.13
10 47 0.56
11 10 0.12
12 13 0.15
13 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (10 bp):
TATAATAATA
Found at i:105133577 original size:13 final size:13
Alignment explanation
Indices: 105133552--105133585 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
105133542 TAAAATATAT
105133552 AATGTAT-AATAA
1 AATGTATAAATAA
*
105133564 AATTTATAAATAA
1 AATGTATAAATAA
105133577 AATGTATAA
1 AATGTATAA
105133586 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:105133587 original size:12 final size:12
Alignment explanation
Indices: 105133552--105133588 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
105133542 TAAAATATAT
105133552 AATGTATAATAA
1 AATGTATAATAA
*
105133564 AATTTATAAATAA
1 AATGTAT-AATAA
105133577 AATGTATAATAA
1 AATGTATAATAA
105133589 TAAAAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:105133602 original size:17 final size:17
Alignment explanation
Indices: 105133575--105133609 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
105133565 ATTTATAAAT
105133575 AAAATGTATAAT-AATA
1 AAAATGTATAATGAATA
105133591 AAAATAGTATAATGAATA
1 AAAAT-GTATAATGAATA
105133609 A
1 A
105133610 TATTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 7 0.41
18 5 0.29
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (17 bp):
AAAATGTATAATGAATA
Found at i:105134251 original size:9 final size:9
Alignment explanation
Indices: 105134237--105134264 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
105134227 GTAGCATACC
105134237 CACGCGCCA
1 CACGCGCCA
105134246 CACGCGCCA
1 CACGCGCCA
105134255 CACGCGCCA
1 CACGCGCCA
105134264 C
1 C
105134265 CGTATGCGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.57, G:0.21, T:0.00
Consensus pattern (9 bp):
CACGCGCCA
Found at i:105134505 original size:20 final size:20
Alignment explanation
Indices: 105134482--105134527 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
105134472 ATCTGTAAAA
105134482 CTGTGTTCTTTTTATTGAAT
1 CTGTGTTCTTTTTATTGAAT
105134502 CTGTGTTCTTTTTATTGAAT
1 CTGTGTTCTTTTTATTGAAT
105134522 CTGTGT
1 CTGTGT
105134528 ATATATTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.13, C:0.11, G:0.17, T:0.59
Consensus pattern (20 bp):
CTGTGTTCTTTTTATTGAAT
Found at i:105135306 original size:44 final size:44
Alignment explanation
Indices: 105135258--105135720 Score: 633
Period size: 44 Copynumber: 10.5 Consensus size: 44
105135248 ACTCAGGAAT
* * *
105135258 GCCAAATCTATTATCCTCGATCTGCTCTCTGACAATACAGAAAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * ** *
105135302 GCCAAATCTGCTATTTTTTATCTGCTCTCTGACAATATAGAGAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
105135346 GCCAAATCAGCTATCTTCAATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAC
*
105135390 GCCAGATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
105135434 GCCAAATCTGTCATCTTCGATCTGCTCTCT-ATCAATATAGAGAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCTGA-CAATACAGAGAC
* * * *
105135478 ACCAAATCTGTCATCTTCGATCTTCTCTCT-ATCAATACAAAGAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCTGA-CAATACAGAGAC
105135522 GCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
105135566 GCCAAATCTGTTCTCTTTGATCTACTCTCTGACAATATAGAGAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
105135610 ACCAAATCTGCTATCTTTGATCTGCTCTCTGACAGTACAGAGAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAC
*
105135654 GCCAAATCTGTTCTCTTCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
105135698 ACCAAATCTATTATCTTCGATCT
1 GCCAAATCTGTTATCTTCGATCT
105135721 ACATTGTCTC
Statistics
Matches: 371, Mismatches: 46, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
43 1 0.00
44 369 0.99
45 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (44 bp):
GCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGAC
Found at i:105145366 original size:12 final size:12
Alignment explanation
Indices: 105145349--105145373 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
105145339 TATGTGTGTT
105145349 TGAAAATTTTTA
1 TGAAAATTTTTA
105145361 TGAAAATTTTTA
1 TGAAAATTTTTA
105145373 T
1 T
105145374 TTGTTGTATT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:105146408 original size:13 final size:13
Alignment explanation
Indices: 105146390--105146414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105146380 GAAACAAGAT
105146390 AACAAACATATGC
1 AACAAACATATGC
105146403 AACAAACATATG
1 AACAAACATATG
105146415 TAAAAAGATC
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:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (13 bp):
AACAAACATATGC
Found at i:105146679 original size:257 final size:258
Alignment explanation
Indices: 105146222--105146735 Score: 985
Period size: 257 Copynumber: 2.0 Consensus size: 258
105146212 ACACATTTCC
105146222 CTATGGCCATGTGGAGATGAAAATCTCACGAAGACATAGGTACAGTATCCCGGAAGCAGTCCACT
1 CTATGGCCATGTGGAGATGAAAATCTCACGAAGACATAGGTACAGTATCCCGGAAGCAGTCCACT
*
105146287 AGCTCATACGGAGGTGAAAACCTCACGAAAGCGTAGCTTCTCACTCCCACTTAGGGGTGCGACCA
66 AGCTCATACAGAGGTGAAAACCTCACGAAAGCGTAGCTTCTCACTCCCACTTAGGGGTGCGACCA
105146352 CAACGGTCATGCGAATGCAATGTGTGTGGAAACAAGATAACAAACATATGCAACAAACATATGTA
131 CAACGGTCATGCGAATGCAATGTGTGTGGAAACAAGATAACAAACATATGCAACAAACATATGTA
105146417 AAAAGATCAATATATGTAAAATTTTCCAAACTTCCGACATTAAGACAGAAAATAATCAATTTT
196 AAAAGATCAATATATGTAAAATTTTCCAAACTTCCGACATTAAGACAGAAAATAATCAATTTT
*
105146480 CTATGGCCATGTGGAGATGCAAATCTCACGAAGACATAGGTACAGTATCCCGGAAGCAGTCCACT
1 CTATGGCCATGTGGAGATGAAAATCTCACGAAGACATAGGTACAGTATCCCGGAAGCAGTCCACT
105146545 AGCTCATACAGAGGTG-AAACCTCACGAAAGCGTAGCTTCTCACTCCCACTTAGGGGTGCGACCA
66 AGCTCATACAGAGGTGAAAACCTCACGAAAGCGTAGCTTCTCACTCCCACTTAGGGGTGCGACCA
* *
105146609 CAACGGTCATGCGAATGCAATGTGTGTGGAAACAATATAACAAACATATGCAGCAAACATATGTA
131 CAACGGTCATGCGAATGCAATGTGTGTGGAAACAAGATAACAAACATATGCAACAAACATATGTA
105146674 AAAAGATCAATATATGTAAAATTTTCCAAACTTCCGACATTAAGACAGAAAATAATCAATTT
196 AAAAGATCAATATATGTAAAATTTTCCAAACTTCCGACATTAAGACAGAAAATAATCAATTT
105146736 CTTGGCTTGA
Statistics
Matches: 252, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
257 173 0.69
258 79 0.31
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (258 bp):
CTATGGCCATGTGGAGATGAAAATCTCACGAAGACATAGGTACAGTATCCCGGAAGCAGTCCACT
AGCTCATACAGAGGTGAAAACCTCACGAAAGCGTAGCTTCTCACTCCCACTTAGGGGTGCGACCA
CAACGGTCATGCGAATGCAATGTGTGTGGAAACAAGATAACAAACATATGCAACAAACATATGTA
AAAAGATCAATATATGTAAAATTTTCCAAACTTCCGACATTAAGACAGAAAATAATCAATTTT
Found at i:105147442 original size:13 final size:13
Alignment explanation
Indices: 105147417--105147450 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
105147407 TAAAATATAT
105147417 AATGTAT-AATAA
1 AATGTATAAATAA
*
105147429 AATTTATAAATAA
1 AATGTATAAATAA
105147442 AATGTATAA
1 AATGTATAA
105147451 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:105147452 original size:12 final size:12
Alignment explanation
Indices: 105147417--105147453 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
105147407 TAAAATATAT
105147417 AATGTATAATAA
1 AATGTATAATAA
*
105147429 AATTTATAAATAA
1 AATGTAT-AATAA
105147442 AATGTATAATAA
1 AATGTATAATAA
105147454 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:105147462 original size:25 final size:24
Alignment explanation
Indices: 105147409--105147476 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
105147399 ATATGTAGTA
*
105147409 AAAT-ATATAATGTATAATAAAAT
1 AAATAATAAAATGTATAATAAAAT
**
105147432 TTATAAATAAAATGTATAATAATAA-
1 AAAT-AATAAAATGTATAATAA-AAT
* *
105147457 AAATAATATAATGAATAATA
1 AAATAATAAAATGTATAATA
105147477 TTTAAATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 2 0.06
24 14 0.40
25 17 0.49
26 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATAATAAAATGTATAATAAAAT
Found at i:105147473 original size:12 final size:12
Alignment explanation
Indices: 105147413--105147477 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
105147403 GTAGTAAAAT
105147413 ATATAATGTATA
1 ATATAATGTATA
* *
105147425 ATAAAATTTATAA
1 ATATAATGTAT-A
*
105147438 ATAAAATGTATA
1 ATATAATGTATA
**
105147450 ATAATAA-AAATA
1 AT-ATAATGTATA
*
105147462 ATATAATGAATA
1 ATATAATGTATA
105147474 ATAT
1 ATAT
105147478 TTAAATAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
11 4 0.09
12 25 0.58
13 14 0.33
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
ATATAATGTATA
Found at i:105153500 original size:17 final size:17
Alignment explanation
Indices: 105153478--105153511 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
105153468 AGACCCTCTG
105153478 TATTTTAATAGATAAAA
1 TATTTTAATAGATAAAA
105153495 TATTTTAATAGATAAAA
1 TATTTTAATAGATAAAA
105153512 CCAAACCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
TATTTTAATAGATAAAA
Found at i:105153970 original size:45 final size:45
Alignment explanation
Indices: 105153879--105153972 Score: 107
Period size: 45 Copynumber: 2.1 Consensus size: 45
105153869 GACACATAGT
* * * * *
105153879 AAAAACACCGCGGATGGAATTTTCCTATGGTTCTGGATACACAAC
1 AAAAACACCGCAGATGGAATCTGCCAATGGCTCTGGATACACAAC
* * * *
105153924 AAAAACACCGTAGATGGAATCTGCCAATGGCTGTGGGTACATAAC
1 AAAAACACCGCAGATGGAATCTGCCAATGGCTCTGGATACACAAC
105153969 AAAA
1 AAAA
105153973 TAATGCGGAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (45 bp):
AAAAACACCGCAGATGGAATCTGCCAATGGCTCTGGATACACAAC
Found at i:105158051 original size:41 final size:41
Alignment explanation
Indices: 105157989--105158070 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
105157979 GTCTAAGTAG
105157989 TGAAGTTTGATTCTTTTTCTTTTTGTTATGATCATGAATCT
1 TGAAGTTTGATTCTTTTTCTTTTTGTTATGATCATGAATCT
* *
105158030 TGAATTTTGATTCTTTTTCTTTTTGTTATGATTATGAATCT
1 TGAAGTTTGATTCTTTTTCTTTTTGTTATGATCATGAATCT
105158071 ATCTTCTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.09, G:0.13, T:0.59
Consensus pattern (41 bp):
TGAAGTTTGATTCTTTTTCTTTTTGTTATGATCATGAATCT
Found at i:105163324 original size:23 final size:23
Alignment explanation
Indices: 105163269--105163316 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
105163259 AGAAAGAAAG
105163269 AAAAATTAAAAAAAAATGGTTTA
1 AAAAATTAAAAAAAAATGGTTTA
105163292 AAAAATTAAAAAAAAATGGTTTA
1 AAAAATTAAAAAAAAATGGTTTA
105163315 AA
1 AA
105163317 TCAATAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (23 bp):
AAAAATTAAAAAAAAATGGTTTA
Found at i:105166080 original size:20 final size:23
Alignment explanation
Indices: 105166047--105166104 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
105166037 GAATGCCAAG
* * *
105166047 TGTGTGATAAAAATA-AAATACA
1 TGTGTAATAAATATATACATACA
105166069 TGTGTAATAAATATTATACATACA
1 TGTGTAATAAATA-TATACATACA
*
105166093 TTTGTAATAAAT
1 TGTGTAATAAAT
105166105 GTATGTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 11 0.37
23 2 0.07
24 17 0.57
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.36
Consensus pattern (23 bp):
TGTGTAATAAATATATACATACA
Found at i:105167316 original size:51 final size:54
Alignment explanation
Indices: 105167239--105167357 Score: 147
Period size: 51 Copynumber: 2.3 Consensus size: 54
105167229 AAGTGTCGCT
*
105167239 TTACTGTTACTATTTCAGATTCGTTCTGAAGAGGTA-T-T-TCGTACC-TTACCG
1 TTACTGTTACTATTCCAGATTCGTTCTGAAGAGGTACTCTGT-GTACCGTTACCG
* * * * *
105167290 TTACTGTTACTGTTCCGGATTTGTTCTGATGAGGTACTCTGTGTACCGTTACTG
1 TTACTGTTACTATTCCAGATTCGTTCTGAAGAGGTACTCTGTGTACCGTTACCG
105167344 TTACTGTTACTATT
1 TTACTGTTACTATT
105167358 ACCGTTATGG
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
51 31 0.54
52 1 0.02
53 6 0.11
54 19 0.33
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.44
Consensus pattern (54 bp):
TTACTGTTACTATTCCAGATTCGTTCTGAAGAGGTACTCTGTGTACCGTTACCG
Found at i:105175903 original size:46 final size:46
Alignment explanation
Indices: 105175845--105175961 Score: 189
Period size: 46 Copynumber: 2.5 Consensus size: 46
105175835 GATAAGTACC
* * *
105175845 TATACCATGGCCCGAAGCCAAATCAAGGTAACTTATCCGAAATACT
1 TATATCATGGCCCGAAGCCAAATCAAGATAACTTATCCAAAATACT
* *
105175891 TATCTTATGGCCCGAAGCCAAATCAAGATAACTTATCCAAAATACT
1 TATATCATGGCCCGAAGCCAAATCAAGATAACTTATCCAAAATACT
105175937 TATATCATGGCCCGAAGCCAAATCA
1 TATATCATGGCCCGAAGCCAAATCA
105175962 GTTTATCTCG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.23
Consensus pattern (46 bp):
TATATCATGGCCCGAAGCCAAATCAAGATAACTTATCCAAAATACT
Found at i:105187481 original size:56 final size:56
Alignment explanation
Indices: 105187357--105187473 Score: 234
Period size: 56 Copynumber: 2.1 Consensus size: 56
105187347 CAAGTAAACC
105187357 AATTTAAGCGAAAGCATCCCAAGGAGAAAACATTGTTAATCACCAAATGACAATCA
1 AATTTAAGCGAAAGCATCCCAAGGAGAAAACATTGTTAATCACCAAATGACAATCA
105187413 AATTTAAGCGAAAGCATCCCAAGGAGAAAACATTGTTAATCACCAAATGACAATCA
1 AATTTAAGCGAAAGCATCCCAAGGAGAAAACATTGTTAATCACCAAATGACAATCA
105187469 AATTT
1 AATTT
105187474 TTACGAAAAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.21
Consensus pattern (56 bp):
AATTTAAGCGAAAGCATCCCAAGGAGAAAACATTGTTAATCACCAAATGACAATCA
Found at i:105191261 original size:10 final size:10
Alignment explanation
Indices: 105191246--105191272 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
105191236 ATTAATAAAG
105191246 TAATATATCA
1 TAATATATCA
105191256 TAATATATCA
1 TAATATATCA
105191266 TAATATA
1 TAATATA
105191273 CTTCCAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATATATCA
Found at i:105192596 original size:10 final size:10
Alignment explanation
Indices: 105192568--105192597 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
105192558 TACGTGTTTA
105192568 AATAGAAATG
1 AATAGAAATG
105192578 AAT-GAAATG
1 AATAGAAATG
105192587 AATAGAAATG
1 AATAGAAATG
105192597 A
1 A
105192598 GAAACATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (10 bp):
AATAGAAATG
Found at i:105192696 original size:18 final size:18
Alignment explanation
Indices: 105192673--105192709 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
105192663 TAGGTTTCTA
*
105192673 AAAATAGAAATGGAAATG
1 AAAATAAAAATGGAAATG
105192691 AAAATAAAAATGGAAATG
1 AAAATAAAAATGGAAATG
105192709 A
1 A
105192710 TCCATTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (18 bp):
AAAATAAAAATGGAAATG
Found at i:105192921 original size:26 final size:26
Alignment explanation
Indices: 105192859--105192928 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
105192849 TTTCTTAAAT
* *
105192859 TTTTACTAGGAGCAAAATTGTCAAAA
1 TTTTACTAGGGGTAAAATTGTCAAAA
*
105192885 TTTTATTAGGGGTAAAATTGTCAAAA
1 TTTTACTAGGGGTAAAATTGTCAAAA
105192911 TTTTACTAGGGGTAAAAT
1 TTTTACTAGGGGTAAAAT
105192929 AGGGATGAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.36
Consensus pattern (26 bp):
TTTTACTAGGGGTAAAATTGTCAAAA
Found at i:105194225 original size:101 final size:101
Alignment explanation
Indices: 105194050--105194252 Score: 370
Period size: 101 Copynumber: 2.0 Consensus size: 101
105194040 ATTACAATTG
*
105194050 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACATA
1 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACACA
105194115 AACTGGGGCACGGTCAATTCTCTAGGAGATGCTTGC
66 AACTGGGGCACGGTCAATTCTCTAGGAGATGCTTGC
* *
105194151 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTTTCAGTCTAGGTGCACACG
1 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACACA
*
105194216 CACTGGGGCACGGTCAATTCTCTAGGAGATGCTTGC
66 AACTGGGGCACGGTCAATTCTCTAGGAGATGCTTGC
105194252 A
1 A
105194253 TCACCTCATC
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (101 bp):
ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACACA
AACTGGGGCACGGTCAATTCTCTAGGAGATGCTTGC
Found at i:105205214 original size:56 final size:57
Alignment explanation
Indices: 105205161--105205276 Score: 139
Period size: 57 Copynumber: 2.0 Consensus size: 57
105205151 TTCAAATATT
105205161 AAAAATTAGAAAA-AATATAAATATCGTAAAAAAATTATA-AAACATGT-AGAAATATAA
1 AAAAATTAGAAAATAATATAAA-ATCGT-AAAAAATTATACAAA-ATGTAAGAAATATAA
* ** *
105205218 AAAAATTATAAAATTTTATAAAGTCGTAAAAAATTATACAAAATGTAAAGAAATATAA
1 AAAAATTAGAAAATAATATAAAATCGTAAAAAATTATACAAAATGT-AAGAAATATAA
105205276 A
1 A
105205277 TTTTGTGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
56 15 0.29
57 19 0.37
58 17 0.33
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (57 bp):
AAAAATTAGAAAATAATATAAAATCGTAAAAAATTATACAAAATGTAAGAAATATAA
Found at i:105212314 original size:13 final size:13
Alignment explanation
Indices: 105212296--105212320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105212286 TGCCAAAATT
105212296 TTTCTCTGCTTTC
1 TTTCTCTGCTTTC
105212309 TTTCTCTGCTTT
1 TTTCTCTGCTTT
105212321 TTGGTTTTGC
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:0.00, C:0.28, G:0.08, T:0.64
Consensus pattern (13 bp):
TTTCTCTGCTTTC
Found at i:105216699 original size:21 final size:20
Alignment explanation
Indices: 105216675--105216757 Score: 52
Period size: 18 Copynumber: 4.1 Consensus size: 20
105216665 TGATTGATAT
105216675 TGAAATGGCCAAGATGAGAAA
1 TGAAATGG-CAAGATGAGAAA
105216696 TGAATAT-G--AGATGAGAAATA
1 TGAA-ATGGCAAGATGAG-AA-A
*
105216716 TTGAATTGGCAAAGATGAGAAA
1 -TGAAATGGC-AAGATGAGAAA
105216738 TGAATAT-G--AGATGAGAAA
1 TGAA-ATGGCAAGATGAGAAA
105216756 TG
1 TG
105216758 TGATATGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 21
0.69 0.03 0.28
Matches are distributed among these distances:
18 19 0.37
19 2 0.04
20 2 0.04
21 15 0.29
22 4 0.08
23 2 0.04
24 7 0.14
ACGTcount: A:0.47, C:0.04, G:0.28, T:0.22
Consensus pattern (20 bp):
TGAAATGGCAAGATGAGAAA
Found at i:105216709 original size:18 final size:18
Alignment explanation
Indices: 105216686--105216779 Score: 82
Period size: 18 Copynumber: 4.8 Consensus size: 18
105216676 GAAATGGCCA
105216686 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
105216704 AGATGAGAAATATTGAAT-TGG
1 AGATGAG-AA-A-TGAATAT-G
105216725 CAAAGATGAGAAATGAATATG
1 ---AGATGAGAAATGAATATG
*
105216746 AGATGAGAAATGTGATATG
1 AGATGAGAAATG-AATATG
*
105216765 AAATGATGAAATGAA
1 AGATGA-GAAATGAA
105216780 ATGTGAAACT
Statistics
Matches: 63, Mismatches: 3, Indels: 19
0.74 0.04 0.22
Matches are distributed among these distances:
18 19 0.30
19 13 0.21
20 8 0.13
21 12 0.19
22 2 0.03
23 2 0.03
24 7 0.11
ACGTcount: A:0.49, C:0.01, G:0.27, T:0.23
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:105216731 original size:42 final size:42
Alignment explanation
Indices: 105216671--105216756 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
105216661 TATATGATTG
*
105216671 ATATTGAAATGGCCAAGATGAGAAATGAATATGAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAA
*
105216713 ATATTGAATTGGCAAAGATGAGAAATGAATATGAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAA
105216755 AT
1 AT
105216757 GTGATATGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.48, C:0.03, G:0.26, T:0.23
Consensus pattern (42 bp):
ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAA
Found at i:105216780 original size:13 final size:12
Alignment explanation
Indices: 105216752--105216787 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
105216742 TATGAGATGA
*
105216752 GAAATGTGATAT
1 GAAATGTGAAAT
105216764 GAAATGATGAAAT
1 GAAATG-TGAAAT
105216777 GAAATGTGAAA
1 GAAATGTGAAA
105216788 CTTGAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (12 bp):
GAAATGTGAAAT
Found at i:105220215 original size:26 final size:29
Alignment explanation
Indices: 105220174--105220236 Score: 96
Period size: 26 Copynumber: 2.3 Consensus size: 29
105220164 CATATTGAAC
*
105220174 GAATTTTCTCGAAATTTTACCAGCGGTAA
1 GAATTTTCTCGAAATTTTACCAACGGTAA
105220203 -AATTTT-T-GAAATTTTACCAACGGTAA
1 GAATTTTCTCGAAATTTTACCAACGGTAA
105220229 GAATTTTC
1 GAATTTTC
105220237 AAAACTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 18 0.58
27 7 0.23
28 6 0.19
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (29 bp):
GAATTTTCTCGAAATTTTACCAACGGTAA
Found at i:105220245 original size:27 final size:26
Alignment explanation
Indices: 105220189--105220246 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
105220179 TTCTCGAAAT
* ** *
105220189 TTTACCAGCGGTAAAATTTTTGAAAT
1 TTTACCAACGGTAAAATTTTCAAAAC
105220215 TTTACCAACGGTAAGAATTTTCAAAAC
1 TTTACCAACGGTAA-AATTTTCAAAAC
105220242 TTTAC
1 TTTAC
105220247 TGTGTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (26 bp):
TTTACCAACGGTAAAATTTTCAAAAC
Found at i:105223212 original size:37 final size:37
Alignment explanation
Indices: 105223171--105223244 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
105223161 TAATTATGTG
*
105223171 TAAGTTTGGTTAAAAATTGAGTAGAAATAAAGTATGA
1 TAAGTTTGGCTAAAAATTGAGTAGAAATAAAGTATGA
105223208 TAAGTTTGGCTAAAAATTGAGTAGAAATAAAGTATGA
1 TAAGTTTGGCTAAAAATTGAGTAGAAATAAAGTATGA
105223245 ATTAAGATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.46, C:0.01, G:0.22, T:0.31
Consensus pattern (37 bp):
TAAGTTTGGCTAAAAATTGAGTAGAAATAAAGTATGA
Found at i:105224510 original size:45 final size:45
Alignment explanation
Indices: 105224438--105224536 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
105224428 ACTGTTATTG
* * *
105224438 TTACTATTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTA
1 TTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAATACTA
* * *
105224483 TTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAATACTG
1 TTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAATACTA
105224528 TTACTGTTA
1 TTACTGTTA
105224537 TTGTTACTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (45 bp):
TTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAATACTA
Found at i:105224769 original size:18 final size:18
Alignment explanation
Indices: 105224726--105224993 Score: 150
Period size: 18 Copynumber: 14.4 Consensus size: 18
105224716 CTGATTATTT
105224726 CTGAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
105224744 -TCGAATAATTGACTGTTA
1 CT-GAATAATTGACTGTTA
* * *
105224762 CTGGATAATAGATTGTTA
1 CTGAATAATTGACTGTTA
* * *
105224780 CTGAATAACTGAATATTA
1 CTGAATAATTGACTGTTA
* *
105224798 CTGAATAAATGA-TCATTA
1 CTGAATAATTGACT-GTTA
* * *
105224816 CTGAATAACTGATTGTCA
1 CTGAATAATTGACTGTTA
*
105224834 CTGAATAAATGACTGTTA
1 CTGAATAATTGACTGTTA
* * * *
105224852 CTAAATAACTTTATTGCTA
1 CTGAATAA-TTGACTGTTA
*
105224871 CTGAAT-ATCTGA-TTTTA
1 CTGAATAAT-TGACTGTTA
*
105224888 CTAAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
*
105224906 CTGGATAACCGATCAATTGA-TCGATA
1 CT-G---A---AT-AATTGACT-GTTA
* ** *
105224932 CTGAATAACTGGTTATTA
1 CTGAATAATTGACTGTTA
* *
105224950 TTGAATAATTGATTGTTA
1 CTGAATAATTGACTGTTA
*
105224968 CTGAATAACTGACTGTTA
1 CTGAATAATTGACTGTTA
105224986 CTGAATAA
1 CTGAATAA
105224994 ATAATTGTTC
Statistics
Matches: 193, Mismatches: 39, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
17 14 0.07
18 146 0.76
19 16 0.08
22 2 0.01
25 4 0.02
26 11 0.06
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
CTGAATAATTGACTGTTA
Found at i:105224991 original size:36 final size:36
Alignment explanation
Indices: 105224711--105225006 Score: 204
Period size: 36 Copynumber: 8.0 Consensus size: 36
105224701 AAAGGTATAA
* * *
105224711 AATAACTGATTATTTCTGAATAATTGACTGTTA-TCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACT-G
* * * *
105224747 AATAATTGACTGTTACTGGATAATAGATTGTTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * * **
105224783 AATAACTGAATATTACTGAATAAATGATCATTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * * *
105224819 AATAACTGATTGTCACTGAATAAATGACTGTTACTA
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
105224855 AATAACTTTATTGCTACTGAAT-ATCTGATT-TTACTA
1 AATAAC-TGATTGTTACTGAATAAT-TGATTGTTACTG
* * * *
105224891 AATAATTGACTGTTACTGGATAACCGATCAATTGATCGATACTG
1 AATAACTGATTGTTACT-G---A---AT-AATTGATTGTTACTG
* * *
105224935 AATAACTGGTTATTATTGAATAATTGATTGTTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
105224971 AATAACTGACTGTTACTGAATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
105225006 A
1 A
105225007 TTGTTAATGA
Statistics
Matches: 200, Mismatches: 47, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
35 12 0.06
36 142 0.71
37 19 0.09
39 1 0.00
40 1 0.00
42 2 0.01
43 5 0.03
44 18 0.09
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (36 bp):
AATAACTGATTGTTACTGAATAATTGATTGTTACTG
Found at i:105225759 original size:10 final size:10
Alignment explanation
Indices: 105225744--105225772 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
105225734 ATTGCGTGTT
105225744 TGAATAGAAA
1 TGAATAGAAA
105225754 TGAATAG-AA
1 TGAATAGAAA
105225763 TGAATAGAAA
1 TGAATAGAAA
105225773 AAGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:105226073 original size:26 final size:26
Alignment explanation
Indices: 105226027--105226089 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
105226017 ACAAATTTTC
105226027 TCAAAATTTTATCCGAGGTAAAAACG
1 TCAAAATTTTATCCGAGGTAAAAACG
* * **
105226053 TTAAAATTTTAT-CGGGAGTAAAATTG
1 TCAAAATTTTATCCGAG-GTAAAAACG
105226079 TCAAAATTTTA
1 TCAAAATTTTA
105226090 CTAGGGTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 3 0.10
26 28 0.90
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTATCCGAGGTAAAAACG
Found at i:105226284 original size:35 final size:35
Alignment explanation
Indices: 105226238--105226309 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
105226228 ACTCGATGGG
105226238 AGAGATGCCCAAAACCTCTCATATAACATGAAGGT
1 AGAGATGCCCAAAACCTCTCATATAACATGAAGGT
105226273 AGAGATGCCCAAAACCTCTCATATAACATGAAGGT
1 AGAGATGCCCAAAACCTCTCATATAACATGAAGGT
105226308 AG
1 AG
105226310 CAATAACCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (35 bp):
AGAGATGCCCAAAACCTCTCATATAACATGAAGGT
Found at i:105234779 original size:14 final size:15
Alignment explanation
Indices: 105234760--105234788 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
105234750 TTGAGTCTCT
105234760 TTATTTTATT-TTTA
1 TTATTTTATTATTTA
105234774 TTATTTTATTATTTA
1 TTATTTTATTATTTA
105234789 CTTTCAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTATTATTTA
Found at i:105239953 original size:2 final size:2
Alignment explanation
Indices: 105239946--105239987 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
105239936 GTGGCTTCGC
105239946 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
105239988 TATATATTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:105242430 original size:10 final size:10
Alignment explanation
Indices: 105242403--105242461 Score: 84
Period size: 10 Copynumber: 5.9 Consensus size: 10
105242393 TTAAATTCTA
105242403 AAAGATAAAT
1 AAAGATAAAT
105242413 ACAA-ATAAAT
1 A-AAGATAAAT
*
105242423 AAAGATAATT
1 AAAGATAAAT
105242433 AAAGATAAAT
1 AAAGATAAAT
*
105242443 AAGGATAAAT
1 AAAGATAAAT
105242453 AAAGATAAA
1 AAAGATAAA
105242462 AGCTAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:105242512 original size:14 final size:13
Alignment explanation
Indices: 105242476--105242513 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
105242466 AAAATTAAAT
105242476 CTAAATAATTATC
1 CTAAATAATTATC
*
105242489 CTTAATAATTATC
1 CTAAATAATTATC
105242502 CTAATATAATTA
1 CTAA-ATAATTA
105242514 GAATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:105242817 original size:22 final size:22
Alignment explanation
Indices: 105242789--105242832 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
105242779 TGAAGAAGAA
105242789 AAACAAGTTGAACTTTAATTGC
1 AAACAAGTTGAACTTTAATTGC
105242811 AAACAAGTTGAACTTTAATTGC
1 AAACAAGTTGAACTTTAATTGC
105242833 TTGAAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (22 bp):
AAACAAGTTGAACTTTAATTGC
Found at i:105244069 original size:14 final size:14
Alignment explanation
Indices: 105244050--105244087 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
105244040 TCTTTATACA
105244050 TTTAAAACATTTGT
1 TTTAAAACATTTGT
105244064 TTTAAAACATTTGT
1 TTTAAAACATTTGT
*
105244078 TTTGAAACAT
1 TTTAAAACAT
105244088 CCCTCGTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (14 bp):
TTTAAAACATTTGT
Found at i:105244618 original size:27 final size:26
Alignment explanation
Indices: 105244558--105244619 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
105244548 GAAAGGCTCT
105244558 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
105244584 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
105244612 ATTTTATT
1 ATTTTATT
105244620 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:105244634 original size:10 final size:10
Alignment explanation
Indices: 105244615--105244646 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
105244605 TTTTAGGATT
105244615 TTAT-TTTAA
1 TTATCTTTAA
105244624 TTATCTTTAA
1 TTATCTTTAA
105244634 TTATCTTTAA
1 TTATCTTTAA
105244644 TTA
1 TTA
105244647 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:105250972 original size:3 final size:3
Alignment explanation
Indices: 105250964--105251018 Score: 89
Period size: 3 Copynumber: 19.3 Consensus size: 3
105250954 ATTTTAAATT
105250964 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
105251010 TT- TTA TTA T
1 TTA TTA TTA T
105251019 ATTTAATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.12
3 43 0.88
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:105250997 original size:31 final size:32
Alignment explanation
Indices: 105250960--105251036 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 32
105250950 TTTAATTTTA
105250960 AATTTTATTATTATTATTATTATTATTAT-TTT
1 AATTTTATTATTATTATTATT-TTATTATATTT
105250992 -ATTTTATTATTATTATTATTTTATTATATTT
1 AATTTTATTATTATTATTATTTTATTATATTT
*
105251023 AATTTT-TAATTATT
1 AATTTTATTATTATT
105251037 TTAATAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
30 7 0.17
31 30 0.71
32 5 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (32 bp):
AATTTTATTATTATTATTATTTTATTATATTT
Found at i:105250999 original size:22 final size:22
Alignment explanation
Indices: 105250967--105251039 Score: 92
Period size: 22 Copynumber: 3.1 Consensus size: 22
105250957 TTAAATTTTA
105250967 TTATTATTATTATTATTATTATT
1 TTATT-TTATTATTATTATTATT
105250990 TTATTTTATTATTATTATTATT
1 TTATTTTATTATTATTATTATT
* *
105251012 TTATTATATTTAATTTTTAATTATT
1 TTATTTTA-TT-ATTATT-ATTATT
105251037 TTA
1 TTA
105251040 ATAAAATTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 24 0.53
23 7 0.16
24 5 0.11
25 9 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTATTTTATTATTATTATTATT
Found at i:105251018 original size:25 final size:25
Alignment explanation
Indices: 105250961--105251039 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
105250951 TTAATTTTAA
105250961 ATTTTATTA--TTATTATTATTATT
1 ATTTTATTATTTTATTATTATTATT
105250984 ATTATT-TTATTTTATTATTATTATT
1 ATT-TTATTATTTTATTATTATTATT
*
105251009 ATTTTATTATATTTAATT-TT-TAATT
1 ATTTTATTAT-TTT-ATTATTATTATT
105251034 ATTTTA
1 ATTTTA
105251040 ATAAAATTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
23 6 0.12
24 4 0.08
25 31 0.63
26 5 0.10
27 3 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
ATTTTATTATTTTATTATTATTATT
Found at i:105251034 original size:17 final size:15
Alignment explanation
Indices: 105250954--105251041 Score: 72
Period size: 17 Copynumber: 5.5 Consensus size: 15
105250944 CCAATCTTTA
*
105250954 ATTTTAAATTTTATT
1 ATTTTAATTTTTATT
*
105250969 ATTATTATTATTATTATT
1 ATT-TTA--ATTTTTATT
105250987 ATTTT-A-TTTTATT
1 ATTTTAATTTTTATT
*
105251000 ATTATTATTATTTTATT
1 ATT-TTAAT-TTTTATT
105251017 ATATTTAATTTTTAATT
1 AT-TTTAATTTTT-ATT
105251034 ATTTTAAT
1 ATTTTAAT
105251042 AAAATTCTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
13 9 0.15
14 3 0.05
15 3 0.05
16 13 0.22
17 20 0.34
18 11 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTAATTTTTATT
Found at i:105251194 original size:22 final size:22
Alignment explanation
Indices: 105251169--105251213 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
105251159 GCCCTAGACT
105251169 AACCCTACACCTGCAGCCAAAC
1 AACCCTACACCTGCAGCCAAAC
*
105251191 AACCCTGCACCTGCAGCCAAAC
1 AACCCTACACCTGCAGCCAAAC
105251213 A
1 A
105251214 CCACTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.44, G:0.11, T:0.09
Consensus pattern (22 bp):
AACCCTACACCTGCAGCCAAAC
Found at i:105253695 original size:118 final size:118
Alignment explanation
Indices: 105253486--105253721 Score: 346
Period size: 118 Copynumber: 2.0 Consensus size: 118
105253476 TGTTTTCCAT
* *
105253486 GGTTATGAGTACAGCTTAAATCATGACTGACTAAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCATGACTGACTAAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
** *
105253551 CTACTTCGCGTCAAAAGATTGTGTGACGTGATAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGATTCCGTGACGTGATAAGTAAAACTCCGCTAACCGA
** * *
105253604 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCATGACTGACTAAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
* * * **
105253669 CTACTTTGCGTCAAAAGGTTCCGTGACGTGTTGGGTAAAACTCCGCTAACCGA
66 CTACTTCGCGTCAAAAGATTCCGTGACGTGATAAGTAAAACTCCGCTAACCGA
105253722 AAATAAAAAA
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCATGACTGACTAAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGATTCCGTGACGTGATAAGTAAAACTCCGCTAACCGA
Found at i:105253858 original size:11 final size:10
Alignment explanation
Indices: 105253842--105253877 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
105253832 ATAATTTTTT
*
105253842 AAAAAAATTC
1 AAAAAAAATC
105253852 AAAAAAAATC
1 AAAAAAAATC
105253862 AAAAAAAATC
1 AAAAAAAATC
105253872 AAAAAA
1 AAAAAA
105253878 GGAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:105254518 original size:27 final size:26
Alignment explanation
Indices: 105254458--105254519 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
105254448 GGAAGACTCT
105254458 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
105254484 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
105254512 ATTTTATT
1 ATTTTATT
105254520 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:105256205 original size:31 final size:31
Alignment explanation
Indices: 105256159--105256240 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
105256149 TCGGTAAAAA
*
105256159 TGGGCTCACACGCCCATGTGATCTGCCCGTG
1 TGGGCCCACACGCCCATGTGATCTGCCCGTG
* * *
105256190 TGGGCCCATATGCCCATGTGATCTGCTCGTG
1 TGGGCCCACACGCCCATGTGATCTGCCCGTG
105256221 TGGGCCCACACGCCCATGTG
1 TGGGCCCACACGCCCATGTG
105256241 GCCCACTCAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.13, C:0.34, G:0.29, T:0.23
Consensus pattern (31 bp):
TGGGCCCACACGCCCATGTGATCTGCCCGTG
Found at i:105258219 original size:31 final size:31
Alignment explanation
Indices: 105258181--105258269 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 31
105258171 AGGTATGATA
*
105258181 GTGAATATGGATAATTACAGGGTATGAACAT
1 GTGAATATGGATGATTACAGGGTATGAACAT
* * * *
105258212 GTGAATATGAATGATTACCGAGTATAAACAT
1 GTGAATATGGATGATTACAGGGTATGAACAT
*
105258243 ATGAATATGGATGATTACAGGGTATGA
1 GTGAATATGGATGATTACAGGGTATGA
105258270 TAATGCAAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (31 bp):
GTGAATATGGATGATTACAGGGTATGAACAT
Found at i:105261065 original size:57 final size:58
Alignment explanation
Indices: 105260996--105261113 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 58
105260986 TATTTCCAGG
* *
105260996 TCATTTTCATTTTAGAGAA-AGCCACATTCATTTCCAGATGATTCC-ATTTCTCCATTT
1 TCATTTTCATTTTAGAGAAGA-CCACAATCATTTCCAAATGATTCCTATTTCTCCATTT
* * * *
105261053 TCATTTTTATTTTAGAGAAGATCATAATCATTTCCAAATGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTTAGAGAAGACCACAATCATTTCCAAATGATTCCTATTTCTCCATTT
105261111 TCA
1 TCA
105261114 CTATGTCTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
57 37 0.70
58 16 0.30
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (58 bp):
TCATTTTCATTTTAGAGAAGACCACAATCATTTCCAAATGATTCCTATTTCTCCATTT
Done.