Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 172 of 226
Found at i:52884810 original size:22 final size:21
Alignment explanation
Indices: 52884780--52884837 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
52884770 ATACAATCGT
*
52884780 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
*
52884801 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTTAG
52884824 AGATTTGATTTGTA
1 AGATTTGATTTGTA
52884838 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.44
23 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:52884820 original size:23 final size:22
Alignment explanation
Indices: 52884790--52884834 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
52884780 AGATTTGATA
52884790 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAG-AGATATGATTT
*
52884813 TGTAATCTTAGAGATTTGATTT
1 TGTAATCTTAGAGATATGATTT
52884835 GTAGATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGATATGATTT
Found at i:52888690 original size:43 final size:43
Alignment explanation
Indices: 52888636--52888839 Score: 329
Period size: 43 Copynumber: 4.7 Consensus size: 43
52888626 CTAATGAGTG
* *
52888636 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAAACCAAGACCT
1 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGACCT
*
52888679 TTAGCGACGC-TTTTCCTACAAACGCCGCTAAAGACCAGGACCT
1 TTAGCGGCGCTTTTTCC-ACAAACGCCGCTAAAGACCAGGACCT
52888722 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGACCT
1 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGACCT
*
52888765 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCAGGACCT
1 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGACCT
* * *
52888808 TTAGCAGTGCTTTTACCACAAACGCCGCTAAA
1 TTAGCGGCGCTTTTTCCACAAACGCCGCTAAA
52888840 AACATGACTT
Statistics
Matches: 151, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
42 6 0.04
43 139 0.92
44 6 0.04
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (43 bp):
TTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGACCT
Found at i:52889061 original size:18 final size:18
Alignment explanation
Indices: 52889038--52889097 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
52889028 TTAAAACAAG
52889038 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
52889056 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
52889073 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
52889091 TTACATT
1 TTACATT
52889098 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:52894789 original size:13 final size:13
Alignment explanation
Indices: 52894771--52894795 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52894761 TGTCAATCTA
52894771 TTACATTAATTTG
1 TTACATTAATTTG
52894784 TTACATTAATTT
1 TTACATTAATTT
52894796 ATTTATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
TTACATTAATTTG
Found at i:52895292 original size:21 final size:21
Alignment explanation
Indices: 52895258--52895321 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
52895248 TCTCAAATCT
* *
52895258 TTAAACCCTAAATCACTAACTC
1 TTAACCCCT-AATCACTAACCC
*
52895280 TTAACCCCTAATCTCTAACCC
1 TTAACCCCTAATCACTAACCC
*
52895301 CTAACCCCTAA-CTACTAACCC
1 TTAACCCCTAATC-ACTAACCC
52895322 ATAAATCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 1 0.03
21 27 0.75
22 8 0.22
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (21 bp):
TTAACCCCTAATCACTAACCC
Found at i:52895413 original size:7 final size:7
Alignment explanation
Indices: 52895403--52895432 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
52895393 TAACGCAAAT
52895403 CCCTAAC
1 CCCTAAC
52895410 CCCTAAC
1 CCCTAAC
52895417 CCCTAAC
1 CCCTAAC
52895424 CCCTAAC
1 CCCTAAC
52895431 CC
1 CC
52895433 TTACACCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.60, G:0.00, T:0.13
Consensus pattern (7 bp):
CCCTAAC
Found at i:52896102 original size:41 final size:41
Alignment explanation
Indices: 52896038--52896322 Score: 408
Period size: 41 Copynumber: 7.0 Consensus size: 41
52896028 TCAAAAACGG
* *
52896038 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * * **
52896079 GCATTAGCGGCACTTCTTCAAAAACACCGCTAAAGGTCTAA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * * *
52896120 GCATTAGCGGAGCTTCTTCAAAAACGCCACTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
52896161 GCATTAGTGGCGCTTCTTTAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
52896202 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
52896243 GCATTAGCGGCGCATCTTCAAAAACGCCACTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * *
52896284 ACGTTAGCGGCGCTTCTTCAAAAACTCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
52896323 CAAAAACTCA
Statistics
Matches: 217, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 217 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:52896417 original size:39 final size:39
Alignment explanation
Indices: 52896363--52896491 Score: 152
Period size: 40 Copynumber: 3.3 Consensus size: 39
52896353 TAGGCTTGTT
* * *
52896363 GCGGCGCTTTTCAAAAAACACCGCTAATGCTT-ATTTTTT
1 GCGGCG-TTTTCAAAAAGCGCCGCTAATGCTTGATTTTTA
**
52896402 GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGACCTTTA
1 GCGGCGTTTT-CAAAAAGCGCCGCTAATGCTTGATTTTTA
* *
52896442 GCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTGGTTTTTA
1 GCGGCGTTTTCA-AAAAGCGCCGCTAATGCTTGATTTTTA
*
52896482 GTGGCGTTTT
1 GCGGCGTTTT
52896492 TTGTCCAAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
38 4 0.05
39 26 0.34
40 47 0.61
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (39 bp):
GCGGCGTTTTCAAAAAGCGCCGCTAATGCTTGATTTTTA
Found at i:52897243 original size:20 final size:20
Alignment explanation
Indices: 52897206--52897248 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
52897196 AAAATAAACA
* **
52897206 TATAATTATTTATTTAATAT
1 TATAATTATTCAAATAATAT
52897226 TATAATTATTCAAATAATAT
1 TATAATTATTCAAATAATAT
52897246 TAT
1 TAT
52897249 TGAAATAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TATAATTATTCAAATAATAT
Found at i:52897514 original size:17 final size:18
Alignment explanation
Indices: 52897476--52897514 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
52897466 TTACAATATG
**
52897476 TATTGGAACACTTATAGT
1 TATTGGAACACTTATAAA
52897494 TATTGGAACAC-TATAAA
1 TATTGGAACACTTATAAA
52897511 TATT
1 TATT
52897515 TGAAAACGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (18 bp):
TATTGGAACACTTATAAA
Found at i:52897601 original size:171 final size:170
Alignment explanation
Indices: 52897316--52897763 Score: 729
Period size: 171 Copynumber: 2.6 Consensus size: 170
52897306 ACCCATTCAT
52897316 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTT-CAGTGATTCATTCATTTCCCTAAACA
* * *
52897381 AAGGTCTGAAATCTAAACTT-AGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGA
65 AAGGTCCGAAATCCAAACTTCA-AACTAAAAATAAATTGTACTTGCAAGACTCCATATCGTATGA
* * *
52897445 TGAAAATAATATTACGAGAGGTTACAATATGTATTGGAACAC
129 CGAAAATAATATTAAGAGAGGTTACAATAAGTATTGGAACAC
* *
52897487 TTATAGTTATTGGAACACTATAAATATTTGAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTC-AGTGATTCATTCATTTCCCTAAACA
52897552 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTACTTGCAAGACTCCATATCGTATGAC
65 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTACTTGCAAGACTCCATATCGTATGAC
*
52897617 GCAAATAATATTAAGAGAGGTTACAATAAGTATTGGAACAC
130 GAAAATAATATTAAGAGAGGTTACAATAAGTATTGGAACAC
* * *
52897658 TTATAGTTATTGGAACATTATAAATATTTGAAAATGTTCAGTAATTCATTTATTTCCCTAAACGA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTCAGTGATTCATTCATTTCCCTAAAC-A
*
52897723 AA-GTCCGAAATCCAAACTTCAAATTAAAAATAAATTGTACT
65 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTACT
52897764 CCATACCGTA
Statistics
Matches: 259, Mismatches: 15, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
170 60 0.23
171 198 0.76
172 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (170 bp):
TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTCAGTGATTCATTCATTTCCCTAAACAA
AGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTACTTGCAAGACTCCATATCGTATGACG
AAAATAATATTAAGAGAGGTTACAATAAGTATTGGAACAC
Found at i:52897685 original size:17 final size:18
Alignment explanation
Indices: 52897642--52897685 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
52897632 AGAGGTTACA
*
52897642 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
52897660 ATAGTTATTGGAACA-TT
1 ATAAATATTGGAACACTT
52897677 ATAAATATT
1 ATAAATATT
52897686 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:52900959 original size:98 final size:98
Alignment explanation
Indices: 52900788--52900984 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
52900778 GTGCAATAAA
* *
52900788 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGACATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
52900853 CCTCTAAAATCTCAAACTCGGAATATTTCATTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCATTT
*
52900886 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
52900951 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCATTT
52900984 A
1 A
52900985 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCATTT
Found at i:52902450 original size:22 final size:21
Alignment explanation
Indices: 52902415--52902512 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
52902405 AAAGGGTATC
* *
52902415 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
52902436 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
52902459 TACATATCATATCTC--AGAT
1 TACAAATCATATCTCTAAGAT
*
52902478 TGCATATATCATA--TCTAAGAT
1 TACA-A-ATCATATCTCTAAGAT
* *
52902499 TGCATATCATATCT
1 TACAAATCATATCT
52902513 AGGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
19 15 0.24
21 20 0.32
22 17 0.27
23 11 0.17
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:52902458 original size:23 final size:22
Alignment explanation
Indices: 52902415--52902472 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
52902405 AAAGGGTATC
* *
52902415 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
52902436 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
52902459 TACATATCATATCT
1 TACAAATCATATCT
52902473 CAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:52902483 original size:19 final size:19
Alignment explanation
Indices: 52902451--52902544 Score: 134
Period size: 19 Copynumber: 4.8 Consensus size: 19
52902441 AATCATATCT
*
52902451 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
52902470 TCTCAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
52902491 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
52902510 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
52902529 CCTAAGATTGCATATC
1 TCTAAGATTGCATATC
52902545 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 49 0.73
21 18 0.27
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:52902585 original size:47 final size:47
Alignment explanation
Indices: 52902516--52902611 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
52902506 CATATCTAGG
52902516 ATTGCATATCATACCTAAGATTGCATATCCTCAAAAATTATGTTTCC
1 ATTGCATATCATACCTAAGATTGCATATCCTCAAAAATTATGTTTCC
52902563 ATTGCATATCATACCTAAGATTGCATATCCTCAAAAATTATGTTTCC
1 ATTGCATATCATACCTAAGATTGCATATCCTCAAAAATTATGTTTCC
52902610 AT
1 AT
52902612 ATGTGAGCCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (47 bp):
ATTGCATATCATACCTAAGATTGCATATCCTCAAAAATTATGTTTCC
Found at i:52903057 original size:132 final size:132
Alignment explanation
Indices: 52902820--52903604 Score: 1293
Period size: 132 Copynumber: 5.9 Consensus size: 132
52902810 CTGCAACTGC
*
52902820 AGGGAGATAAGA-CTTAGAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGC
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGC
* * * *
52902884 TTCAATGTACTCCACTGTAACCACAGGGAGGAAAAATCCGCCATCTTCGATCTACTCCACTATTG
65 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
52902949 CTT
130 CTT
* ** * * * *
52902952 AGGGAGATAAAATCTGAAATCTGAAATCTATTCCACTATTCCCCAGGGAAGTAGAGTTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * *
52903017 TAAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
52903082 TT
131 TT
* * *
52903084 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACGGTTGTCCAGGGAAGTAGAATTACTGACT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
52903149 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCGCCATCTTCAATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
52903214 TT
131 TT
*
52903216 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
*
52903281 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
52903346 TT
131 TT
***
52903348 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTTAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
52903413 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
52903478 TT
131 TT
* *
52903480 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAAGGAAGTAGAATAACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
52903545 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATATGCTCCACT
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
52903605 GTCAATGCAG
Statistics
Matches: 609, Mismatches: 43, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 606 1.00
133 3 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:52903109 original size:44 final size:44
Alignment explanation
Indices: 52903058--52903516 Score: 159
Period size: 44 Copynumber: 10.4 Consensus size: 44
52903048 AAAATCCGCC
* *
52903058 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
* ***
52903102 ATCTTCAATCTATTCCACGGTTG-TCCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCT-CAGGGAGA-TAAG-A-T-CTGAA
* * * * * **
52903146 A-CTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAAT-TCGCC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCT-GAA
* *
52903190 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
* **
52903234 ATCTTCAATCTATTCCACTGTTG-TCCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCT-CAGGGAGA-TAAG-A-T-CTGAA
* * * * * * **
52903278 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCTGCC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCTGAA
* * *
52903322 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
* ** * *
52903366 ATCTTCAATCTATTCCACTGTTGTTTAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGA-TAAG-A-T-CTGAA
* * * * * * * **
52903410 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCTGAA
* * *
52903454 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
*
52903498 ATCTTCAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
52903517 GTTGCCCAAG
Statistics
Matches: 294, Mismatches: 79, Indels: 84
0.64 0.17 0.18
Matches are distributed among these distances:
41 1 0.00
42 9 0.03
43 58 0.20
44 161 0.55
45 53 0.18
46 12 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
Found at i:52906180 original size:27 final size:27
Alignment explanation
Indices: 52906142--52906195 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
52906132 AACCCTGTTG
52906142 GTTAGCAATCAATTTTCTGTATGTATT
1 GTTAGCAATCAATTTTCTGTATGTATT
52906169 GTTAGCAATCAATTTTCTGTATGTATT
1 GTTAGCAATCAATTTTCTGTATGTATT
52906196 CACGCTGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (27 bp):
GTTAGCAATCAATTTTCTGTATGTATT
Found at i:52909017 original size:98 final size:98
Alignment explanation
Indices: 52908846--52909042 Score: 376
Period size: 98 Copynumber: 2.0 Consensus size: 98
52908836 GTGCAATAAA
*
52908846 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
52908911 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
52908944 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
52909009 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
52909042 A
1 A
52909043 TTATTTTTAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:52909957 original size:25 final size:25
Alignment explanation
Indices: 52909897--52909957 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
52909887 ATATATAGCT
52909897 AAAA-TAATAATAATTACATATGAA
1 AAAATTAATAATAATTACATATGAA
*
52909921 AATATTAATAATAATTACAT-T-AA
1 AAAATTAATAATAATTACATATGAA
52909944 CAAAATTAACTAAT
1 -AAAATTAA-TAAT
52909958 TTTAAGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.06
24 11 0.34
25 19 0.59
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAATTAATAATAATTACATATGAA
Found at i:52910508 original size:22 final size:21
Alignment explanation
Indices: 52910473--52910570 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
52910463 AAAGGGTATC
* *
52910473 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
52910494 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
52910517 TACATATCATATCTC--AGAT
1 TACAAATCATATCTCTAAGAT
*
52910536 TGCATATATCATA--TCTAAGAT
1 TACA-A-ATCATATCTCTAAGAT
* *
52910557 TGCATATCATATCT
1 TACAAATCATATCT
52910571 AGGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
19 15 0.24
21 20 0.32
22 17 0.27
23 11 0.17
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:52910516 original size:23 final size:22
Alignment explanation
Indices: 52910473--52910530 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
52910463 AAAGGGTATC
* *
52910473 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
52910494 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
52910517 TACATATCATATCT
1 TACAAATCATATCT
52910531 CAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:52910541 original size:19 final size:19
Alignment explanation
Indices: 52910509--52910602 Score: 134
Period size: 19 Copynumber: 4.8 Consensus size: 19
52910499 AATCATATCT
*
52910509 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
52910528 TCTCAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
52910549 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
52910568 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
52910587 TCTAAAATTGCATATC
1 TCTAAGATTGCATATC
52910603 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 49 0.73
21 18 0.27
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:52915750 original size:44 final size:44
Alignment explanation
Indices: 52915617--52916367 Score: 320
Period size: 44 Copynumber: 16.7 Consensus size: 44
52915607 CTTCAGTTTG
* *
52915617 CTCCACTGCAACTTCAGGGAGATAAGGCTTGCTATGGTAGATTTAATCTGA
1 CTCCACTGCAACTTCAGGGAGATAA-G-AT--T-T-GTAGCTTTAATCT-A
* * * ** * * *
52915668 C-CTACTGTAACTTCAGAGG-TATAAGATTCATCGTTTTAATCCA
1 CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTTAATCTA
* * * * * *
52915711 TTCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
* * * * *
52915755 CTCCACTGTAACTTCAGGGAGATAAGGTTTGATATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTA
* * * *
52915800 CTCCACTGTAGCTTCAGGGAGATAAGACTTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
* * * * * *
52915844 CCCCACTGCAAATTCAGGGGGATAAGATTTGTATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
** * * * * *
52915888 CTCCACTGCAACTTCAAAGAGATAAGACTTGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
* * * * *
52915932 CTCCACTGCAAGTTCAGGGAGATAAGGTTTG-A--TATGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
* ** ** * * * *
52915973 CTCTACTAAAACTTCAAAGATATAAGATCTGTAATTTATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGAT-A-A---G--ATTTGTAGCTTTAATCTA
* * * * *
52916024 TTCCACTGCAACTTTAGGGACATAAGATTTGCTATCTTTAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTA
* * * *
52916069 CTCCTCTGCAACTTCAGGGAGATAAGACTTT-TAACTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTTGTAGCTTTAATCTA
** * *
52916113 C-CCTACTAAAACTTCAGGG-GAATAAGATTGGT-GACTTTAACCTA
1 CTCC-ACTGCAACTTCAGGGAG-ATAAGATTTGTAG-CTTTAATCTA
* * * * * *
52916157 CTCCACTACAACTTCAGGGAGGTAAGGTCTGTAATTTAGCCTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAA-G-AT-T--TGTAGCTTTAATCTA
* * * * * * *
52916206 TTCCACTGCAACTTCAGGGAAATGAGATTTGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTA
* * * **
52916251 CTCCACTGCATCTTCAGGGAGATCAA-ACTTGTAACTGCAATCTA
1 CTCCACTGCAACTTCAGGGAGAT-AAGATTTGTAGCTTTAATCTA
* * * * * *
52916295 CCCCACTGTAACTTCACGGG-G-CAAGATTAGTGGCTTTAATCTG
1 CTCCACTGCAACTTCA-GGGAGATAAGATTTGTAGCTTTAATCTA
* * * *
52916338 TTTCACTGTAACTTTAGGGAGATAAGATTT
1 CTCCACTGCAACTTCAGGGAGATAAGATTT
52916368 ACCATAATGA
Statistics
Matches: 515, Mismatches: 151, Indels: 75
0.70 0.20 0.10
Matches are distributed among these distances:
41 21 0.04
42 6 0.01
43 34 0.07
44 254 0.49
45 110 0.21
46 9 0.02
47 2 0.00
48 5 0.01
49 31 0.06
50 19 0.04
51 24 0.05
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTA
Found at i:52916310 original size:182 final size:182
Alignment explanation
Indices: 52915831--52916315 Score: 534
Period size: 182 Copynumber: 2.7 Consensus size: 182
52915821 ATAAGACTTG
* ** * **
52915831 TAGCTTTAATCTGCCCCACTGCAAATTCAGGGGGATAAGATTTG-TATCTTCAGTCTACTCCACT
1 TAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCACT
** * * * * *
52915895 GCAACTTCAAAGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAAGTTCA-GGGAGATAAGG
66 GCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCCACTGAAACTTCAGGGGAGATAAGA
* * * * *
52915959 TTTGATATGATCTGCTCTACTAAAACTTCAAAGATATAAGATCTGTAATTTA
131 TTTGATATAACCTACTCCACTAAAACTTCAAAGAGATAAGATCTGTAATTTA
* * * *
52916011 TAG-CTTCAATCTGTTCCACTGCAACTTTAGGGACATAAGATTTGCTATCTTTAGTCTACTCCTC
1 TAGCCTT-AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCAC
* * *
52916075 TGCAACTTCAGGGAGATAAGACTTTTAACTTCAATCTGCCCTACTAAAACTTCAGGGGA-ATAAG
65 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCCACTGAAACTTCAGGGGAGATAAG
* * ** * *
52916139 ATTGGTGACTTTAACCTACTCCACTACAACTTCAGGGAGGTAAGGTCTGTAA-TT-
130 ATT--TGA-TATAACCTACTCCACTAAAACTTCAAAGAGATAAGATCTGTAATTTA
* *
52916193 TAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTTGCTATCTTCAGTCTGCTCCACT
1 TAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCACT
* * * *
52916258 GCATCTTCAGGGAGATCAA-ACTTGTAACTGCAATCTACCCCACTGTAACTTCACGGGG
66 GCAACTTCAGGGAGAT-AAGACTTGTAACTTCAATCTGCCCCACTGAAACTTCA-GGGG
52916316 CAAGATTAGT
Statistics
Matches: 253, Mismatches: 43, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
179 2 0.01
180 34 0.13
181 69 0.27
182 102 0.40
183 14 0.06
184 32 0.13
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (182 bp):
TAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCACT
GCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCCACTGAAACTTCAGGGGAGATAAGA
TTTGATATAACCTACTCCACTAAAACTTCAAAGAGATAAGATCTGTAATTTA
Found at i:52924412 original size:17 final size:18
Alignment explanation
Indices: 52924369--52924412 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
52924359 AGAGGTTACA
*
52924369 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
52924387 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
52924404 ATAAATATT
1 ATAAATATT
52924413 TGAAAACGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:52924499 original size:171 final size:171
Alignment explanation
Indices: 52924214--52924831 Score: 1015
Period size: 171 Copynumber: 3.6 Consensus size: 171
52924204 ACCCATTCAT
* *
52924214 TTATAGTTATTGGAACACTATAAATATTTAAAAATGTTGC-AGTGATTCATTCATTTCCCTAAAC
1 TTATAGTTATTGGAACACTATAAATATTTAAAAACGTT-CTAGTGATTCATTCATTTCCCAAAAC
* * *
52924278 AAAGGTCTGAAATCTAAACTT-AGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTAAG
65 AAAGGTCCGAAATCCAAACTTCA-AACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATG
* *
52924342 ATGAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
129 ACGCAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
*
52924385 TTATAGTTATTGGAACACTATAAATATTTGAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
1 TTATAGTTATTGGAACACTATAAATATTTAAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
*
52924450 AAGGTCCGAAATCTAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAC
66 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAC
52924515 GCAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
131 GCAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
*
52924556 TTATAGTTATTGGAACACTATAAATATTTAAAAACGTTCTAGTGATCCATTCATTTCCCAAAACA
1 TTATAGTTATTGGAACACTATAAATATTTAAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
*
52924621 ATGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAC
66 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAC
*
52924686 GCAAATAATATTACGAGAGGTTACAATTAGTATTGGAACAC
131 GCAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
* * * * * ** *
52924727 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTCCAGTAATTCATTTATTTCCTTAAACG
1 TTATAGTTATTGGAACACTATAAATATTTAAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
*
52924792 AAGGTCCGAAATCCAAACTTCAAATTAAAAATAAATTGTA
66 AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTA
52924832 CTCCATGCCG
Statistics
Matches: 422, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
170 1 0.00
171 420 1.00
172 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (171 bp):
TTATAGTTATTGGAACACTATAAATATTTAAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
AAGGTCCGAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAC
GCAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
Found at i:52924583 original size:17 final size:18
Alignment explanation
Indices: 52924540--52924583 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
52924530 AGAGGTTACA
*
52924540 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
52924558 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
52924575 ATAAATATT
1 ATAAATATT
52924584 TAAAAACGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:52924754 original size:17 final size:18
Alignment explanation
Indices: 52924716--52924754 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
52924706 TTACAATTAG
**
52924716 TATTGGAACACTTATAGT
1 TATTGGAACACTTATAAA
52924734 TATTGGAACAC-TATAAA
1 TATTGGAACACTTATAAA
52924751 TATT
1 TATT
52924755 TGAAAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (18 bp):
TATTGGAACACTTATAAA
Found at i:52933695 original size:27 final size:28
Alignment explanation
Indices: 52933643--52933695 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
52933633 GGCTTGTCTC
* *
52933643 TAATTTGGTCACCCCAATTTTATTTTTT
1 TAATTTGGTCACCCAAAATTTATTTTTT
52933671 TAATTTGGTCACCCAAAATTT-TTTT
1 TAATTTGGTCACCCAAAATTTATTTT
52933696 ATCAAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.51
Consensus pattern (28 bp):
TAATTTGGTCACCCAAAATTTATTTTTT
Found at i:52933703 original size:28 final size:28
Alignment explanation
Indices: 52933644--52933709 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
52933634 GCTTGTCTCT
* * **
52933644 AATTTGGTCACCCCAATTTTATTTTTTT
1 AATTTGGTCACCCAAATTTTATTTATCA
52933672 AATTTGGTCACCCAAAATTTT-TTTATCA
1 AATTTGGTCACCC-AAATTTTATTTATCA
52933700 AATTT-GTCAC
1 AATTTGGTCAC
52933710 TCCACTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.15
28 22 0.67
29 6 0.18
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (28 bp):
AATTTGGTCACCCAAATTTTATTTATCA
Found at i:52934355 original size:22 final size:22
Alignment explanation
Indices: 52934330--52934406 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
52934320 CCAAAATATT
52934330 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
52934352 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
52934376 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
52934398 ATCTCCTAA
1 ATCTCCTAA
52934407 TTAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:52934384 original size:46 final size:46
Alignment explanation
Indices: 52934317--52934411 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
52934307 ACAAAGATAG
52934317 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
52934363 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
52934409 AAA
1 AAA
52934412 AGAAAATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:52938927 original size:22 final size:22
Alignment explanation
Indices: 52938902--52938978 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
52938892 CCAAAATATT
52938902 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
52938924 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
52938948 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
52938970 ATCTCCTAA
1 ATCTCCTAA
52938979 TTAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:52938942 original size:46 final size:46
Alignment explanation
Indices: 52938889--52938983 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
52938879 ACAAAGATAG
52938889 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
52938935 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
52938981 AAA
1 AAA
52938984 AGAAAATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:52941348 original size:40 final size:40
Alignment explanation
Indices: 52941265--52941407 Score: 173
Period size: 41 Copynumber: 3.5 Consensus size: 40
52941255 TACCCCTTGG
* * *
52941265 GGAATTTGCACTTAGCAACCCCTCTTTTATCAGAGTTTCGA
1 GGAATCTGCACTTAGCAACCCCT-TTTTATCAGTGATTCGA
*
52941306 GGAATTTGCACTTAGCAA-CCCTTTTTGATCAGTGATTCGA
1 GGAATCTGCACTTAGCAACCCCTTTTT-ATCAGTGATTCGA
*
52941346 GGAATCTGCACTTAACAACCCCTTTTTAATCAGTGATTCTG-
1 GGAATCTGCACTTAGCAACCCCTTTTT-ATCAGTGATTC-GA
* *
52941387 GGAATCTACACTTAGAAACCC
1 GGAATCTGCACTTAGCAACCC
52941408 TTACATTCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
39 4 0.04
40 31 0.34
41 55 0.60
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (40 bp):
GGAATCTGCACTTAGCAACCCCTTTTTATCAGTGATTCGA
Found at i:52943223 original size:18 final size:18
Alignment explanation
Indices: 52943185--52943224 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
52943175 TTACGTCCTT
*
52943185 TACAGATACAGATACAGA
1 TACAGATACAGATACAAA
*
52943203 TACAGATACAGATATAAA
1 TACAGATACAGATACAAA
52943221 TACA
1 TACA
52943225 AATATGCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.20
Consensus pattern (18 bp):
TACAGATACAGATACAAA
Found at i:52943228 original size:6 final size:6
Alignment explanation
Indices: 52943185--52943216 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
52943175 TTACGTCCTT
52943185 TACAGA TACAGA TACAGA TACAGA TACAGA TA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TA
52943217 TAAATACAAA
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:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
TACAGA
Found at i:52943613 original size:19 final size:18
Alignment explanation
Indices: 52943574--52943610 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
52943564 ATCACATAAA
52943574 CTTTAGGGTTAAATTAGC
1 CTTTAGGGTTAAATTAGC
*
52943592 CTTTAGGGTTTAATTAGC
1 CTTTAGGGTTAAATTAGC
52943610 C
1 C
52943611 CTTACCGACC
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:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (18 bp):
CTTTAGGGTTAAATTAGC
Found at i:52944920 original size:18 final size:18
Alignment explanation
Indices: 52944879--52944920 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
52944869 GAATAATAGT
52944879 GCACAAAGCACATTCTGGA
1 GCACAAAGCACATTCT-GA
*
52944898 GCACAAAGCGCATATCT-A
1 GCACAAAGCACAT-TCTGA
52944916 GCACA
1 GCACA
52944921 CGAAATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 12 0.57
20 3 0.14
ACGTcount: A:0.38, C:0.29, G:0.19, T:0.14
Consensus pattern (18 bp):
GCACAAAGCACATTCTGA
Found at i:52947175 original size:23 final size:24
Alignment explanation
Indices: 52947149--52947201 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 24
52947139 GTGCCGCATT
52947149 TTGGTAC-AGCATGGTGTGTAG-GG
1 TTGGTACGAG-ATGGTGTGTAGAGG
52947172 TTGG-ACGGAGATGGTGTGTAGAGG
1 TTGGTAC-GAGATGGTGTGTAGAGG
52947196 TTGGTA
1 TTGGTA
52947202 GGTAGGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 2 0.08
23 15 0.58
24 8 0.31
25 1 0.04
ACGTcount: A:0.19, C:0.06, G:0.45, T:0.30
Consensus pattern (24 bp):
TTGGTACGAGATGGTGTGTAGAGG
Found at i:52949414 original size:14 final size:15
Alignment explanation
Indices: 52949395--52949423 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
52949385 GCAAAACCTC
52949395 TTTATTTTT-TATTT
1 TTTATTTTTATATTT
52949409 TTTATTTTTATATTT
1 TTTATTTTTATATTT
52949424 CAATCCACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTATTTTTATATTT
Found at i:52966029 original size:66 final size:66
Alignment explanation
Indices: 52965943--52966123 Score: 213
Period size: 66 Copynumber: 2.7 Consensus size: 66
52965933 GAGAAAGATC
* * * * *
52965943 AAATATCG-GATCTTCTCAAGCTCTTAAACGAGATATCATGTCTTCTCAATCCCAAGCTCTTGAA
1 AAATATCGAG-TCTTCCCAAGCTCTTAAACGAGATATCAAGTCTTCTCAATCCAAAGATCCTGAA
52966007 C-
65 CT
* * *
52966008 ACAATATCGAGTCTTCCCAAGCTCCTAAACGATATATCAAGTCTTCTTAATCCAAAGATCCTGAA
1 A-AATATCGAGTCTTCCCAAGCTCTTAAACGAGATATCAAGTCTTCTCAATCCAAAGATCCTGAA
52966073 CT
65 CT
* * * * *
52966075 AAATATCAAGTCTTCCAAAACTCTTGAACGAGATATCAAGCCTTCTCAA
1 AAATATCGAGTCTTCCCAAGCTCTTAAACGAGATATCAAGTCTTCTCAA
52966124 GTTCCTGAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
65 1 0.01
66 94 0.97
67 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (66 bp):
AAATATCGAGTCTTCCCAAGCTCTTAAACGAGATATCAAGTCTTCTCAATCCAAAGATCCTGAAC
T
Found at i:52966964 original size:25 final size:25
Alignment explanation
Indices: 52966934--52966999 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
52966924 ATTATTATTT
52966934 TATATTTACGAGTCAAATATAGTAG
1 TATATTTACGAGTCAAATATAGTAG
52966959 TATATTTACGAGTCAAATATAGTAG
1 TATATTTACGAGTCAAATATAGTAG
*
52966984 TATATTTACAAGTCAA
1 TATATTTACGAGTCAA
52967000 GTGGTTTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (25 bp):
TATATTTACGAGTCAAATATAGTAG
Found at i:52971049 original size:21 final size:22
Alignment explanation
Indices: 52971023--52971064 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
52971013 GATACTGCTG
52971023 TCACATCGCATCCTCA-AGCTC
1 TCACATCGCATCCTCAGAGCTC
* *
52971044 TCACATGGCCTCCTCAGAGCT
1 TCACATCGCATCCTCAGAGCT
52971065 ATGATTACGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.21, C:0.40, G:0.14, T:0.24
Consensus pattern (22 bp):
TCACATCGCATCCTCAGAGCTC
Found at i:52978723 original size:58 final size:58
Alignment explanation
Indices: 52978652--52978773 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 58
52978642 GTATTCTGAT
* * *
52978652 AAAACGTTCATCTCTTTTGGAAACCCAAGTTTTACCAACTTCTAGCAGATATAAACAG
1 AAAACATTCATCTCTTTTGGAAACCCAAGTTTTACCAACTTCTAGCAGAAATAAACAA
* *
52978710 AAAACATTCATCTCTTTTGGAAACCCAAGTTTTACCTACTTCTAGCAGAAATAAATAA
1 AAAACATTCATCTCTTTTGGAAACCCAAGTTTTACCAACTTCTAGCAGAAATAAACAA
52978768 AAAACA
1 AAAACA
52978774 GTATAAAATC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (58 bp):
AAAACATTCATCTCTTTTGGAAACCCAAGTTTTACCAACTTCTAGCAGAAATAAACAA
Found at i:52981318 original size:6 final size:6
Alignment explanation
Indices: 52981309--52981344 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
52981299 ACTTGGGACC
52981309 TCCGAG TCCGAG TCCGAG TCC--G TCCGAG TCCGAG TC
1 TCCGAG TCCGAG TCCGAG TCCGAG TCCGAG TCCGAG TC
52981345 GTGTTAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
6 24 0.86
ACGTcount: A:0.14, C:0.36, G:0.31, T:0.19
Consensus pattern (6 bp):
TCCGAG
Found at i:52981335 original size:16 final size:16
Alignment explanation
Indices: 52981314--52981344 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
52981304 GGACCTCCGA
52981314 GTCCGAGTCCGAGTCC
1 GTCCGAGTCCGAGTCC
52981330 GTCCGAGTCCGAGTC
1 GTCCGAGTCCGAGTC
52981345 GTGTTAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.35, G:0.32, T:0.19
Consensus pattern (16 bp):
GTCCGAGTCCGAGTCC
Found at i:52981986 original size:8 final size:8
Alignment explanation
Indices: 52981973--52981997 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
52981963 TTTTAAATGA
52981973 TATTTTAT
1 TATTTTAT
52981981 TATTTTAT
1 TATTTTAT
52981989 TATTTTAT
1 TATTTTAT
52981997 T
1 T
52981998 TAGTGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:53002335 original size:25 final size:26
Alignment explanation
Indices: 53002289--53002348 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
53002279 TAAACATATG
53002289 AATTATAAAACATGAAAATATA-AAT
1 AATTATAAAACATGAAAATATATAAT
* **
53002314 AATTATAAAATATGAATGTATATAAT
1 AATTATAAAACATGAAAATATATAAT
53002340 -ATATATAAA
1 AAT-TATAAA
53002349 CTATATACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AATTATAAAACATGAAAATATATAAT
Found at i:53002533 original size:13 final size:14
Alignment explanation
Indices: 53002492--53002533 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
53002482 TAATTAACAG
53002492 AAATAAAC-AATAA
1 AAATAAACTAATAA
*
53002505 AAATAAAATAATAA
1 AAATAAACTAATAA
53002519 AAATAAACTAA-AA
1 AAATAAACTAATAA
53002532 AA
1 AA
53002534 CAAATGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (14 bp):
AAATAAACTAATAA
Found at i:53005072 original size:18 final size:18
Alignment explanation
Indices: 53005049--53005093 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
53005039 CAAATCCAAT
*
53005049 TCTCTCAATTCTTTCTAG
1 TCTCTCAATTCTTTCAAG
*
53005067 TCTCTCTAA-TCTTTCAAT
1 TCTCTC-AATTCTTTCAAG
53005085 TCTCTCAAT
1 TCTCTCAAT
53005094 ATTTTAGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.20, C:0.29, G:0.02, T:0.49
Consensus pattern (18 bp):
TCTCTCAATTCTTTCAAG
Found at i:53005760 original size:3 final size:3
Alignment explanation
Indices: 53005752--53005791 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
53005742 CTTGGCAATT
*
53005752 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
53005792 CTACTTATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:53009722 original size:9 final size:9
Alignment explanation
Indices: 53009689--53010239 Score: 613
Period size: 9 Copynumber: 61.7 Consensus size: 9
53009679 TTAAAACGCC
53009689 AGTTATGT-
1 AGTTATGTA
53009697 A-TTATGT-
1 AGTTATGTA
53009704 A-TTATGTA
1 AGTTATGTA
53009712 AG-TATTGTA
1 AGTTA-TGTA
53009721 AGTTATGTA
1 AGTTATGTA
53009730 AGTTATGTA
1 AGTTATGTA
*
53009739 AGTTATTTA
1 AGTTATGTA
*
53009748 ATTTATGTA
1 AGTTATGTA
53009757 AGTTATGTA
1 AGTTATGTA
*
53009766 AGTTATGCA
1 AGTTATGTA
53009775 AGTTATGTA
1 AGTTATGTA
*
53009784 AGTTA-CTA
1 AGTTATGTA
*
53009792 CATTTATGTA
1 -AGTTATGTA
53009802 AGTTATGTA
1 AGTTATGTA
* *
53009811 AGATATTTA
1 AGTTATGTA
*
53009820 ATTTATGTA
1 AGTTATGTA
53009829 AGTTATGTA
1 AGTTATGTA
53009838 AGTTATGTA
1 AGTTATGTA
53009847 AGTTACT-TA
1 AGTTA-TGTA
*
53009856 ATTTATGTA
1 AGTTATGTA
53009865 AGTTATGTA
1 AGTTATGTA
* *
53009874 AGATATTTA
1 AGTTATGTA
*
53009883 ATTTATGTA
1 AGTTATGTA
53009892 AGTTATGTA
1 AGTTATGTA
*
53009901 AGTTATTTA
1 AGTTATGTA
*
53009910 ATTTATGTA
1 AGTTATGTA
53009919 AGTTATGTA
1 AGTTATGTA
53009928 AGTTATGTA
1 AGTTATGTA
53009937 AGTTACT-TA
1 AGTTA-TGTA
*
53009946 ATTTATGTA
1 AGTTATGTA
53009955 AGTTATGTA
1 AGTTATGTA
* *
53009964 AGATATTTA
1 AGTTATGTA
*
53009973 ATTTATGTA
1 AGTTATGTA
53009982 AGTTATGTA
1 AGTTATGTA
*
53009991 AGTTATTTA
1 AGTTATGTA
*
53010000 ATTTATGTA
1 AGTTATGTA
53010009 AGTTATGTA
1 AGTTATGTA
53010018 AGTTATGTA
1 AGTTATGTA
53010027 AGTTACT-TA
1 AGTTA-TGTA
*
53010036 ATTTATGTA
1 AGTTATGTA
53010045 AGTTATGTA
1 AGTTATGTA
* *
53010054 AGATATTTA
1 AGTTATGTA
*
53010063 ATTTATGTA
1 AGTTATGTA
53010072 AGTTATGTA
1 AGTTATGTA
*
53010081 AGTTATTTA
1 AGTTATGTA
*
53010090 ATTTATGTA
1 AGTTATGTA
53010099 AGTTATGTA
1 AGTTATGTA
53010108 AGTTATGTA
1 AGTTATGTA
53010117 AGTTACT-TA
1 AGTTA-TGTA
*
53010126 ATTTATGTA
1 AGTTATGTA
53010135 AGTTATGTA
1 AGTTATGTA
* *
53010144 AGATATTTA
1 AGTTATGTA
* *
53010153 ATTTTTGTA
1 AGTTATGTA
53010162 AGTTATGTA
1 AGTTATGTA
53010171 AGTTACT-TA
1 AGTTA-TGTA
*
53010180 ATTTATGTA
1 AGTTATGTA
*
53010189 AGTTATGCA
1 AGTTATGTA
*
53010198 AGTTATTTA
1 AGTTATGTA
* *
53010207 ATTTTTGTA
1 AGTTATGTA
*
53010216 AGTTATATA
1 AGTTATGTA
53010225 A-TTAATGTA
1 AGTT-ATGTA
53010234 AGTTAT
1 AGTTAT
53010240 TTAATTTGTG
Statistics
Matches: 451, Mismatches: 74, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
7 13 0.03
8 13 0.03
9 414 0.92
10 11 0.02
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (9 bp):
AGTTATGTA
Found at i:53009811 original size:90 final size:90
Alignment explanation
Indices: 53009705--53010246 Score: 842
Period size: 90 Copynumber: 6.0 Consensus size: 90
53009695 GTATTATGTA
* * * * *
53009705 TTATGTAAG-TATTGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA-TGTAAG
1 TTATGTAAGTTA-TGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACT-TAAT
* * *
53009768 TTATGCAAGTTATGTAAGTTA-CTACAT
64 TTATGTAAGTTATGTAAGATATTTA-AT
*
53009795 TTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
1 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
53009860 ATGTAAGTTATGTAAGATATTTAAT
66 ATGTAAGTTATGTAAGATATTTAAT
53009885 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
1 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
53009950 ATGTAAGTTATGTAAGATATTTAAT
66 ATGTAAGTTATGTAAGATATTTAAT
53009975 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
1 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
53010040 ATGTAAGTTATGTAAGATATTTAAT
66 ATGTAAGTTATGTAAGATATTTAAT
53010065 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
1 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
53010130 ATGTAAGTTATGTAAGATATTTAAT
66 ATGTAAGTTATGTAAGATATTTAAT
* * * * ** *
53010155 TTTTGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGCAAGTTATTTAA-TTTTTGTAAGT
1 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACT-TAATT
* *
53010219 TATATAA-TTAATGTAAGTTATTTAAT
65 TATGTAAGTT-ATGTAAGATATTTAAT
53010245 TT
1 TT
53010247 GTGAACCCTA
Statistics
Matches: 428, Mismatches: 19, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
89 5 0.01
90 418 0.98
91 5 0.01
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (90 bp):
TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
ATGTAAGTTATGTAAGATATTTAAT
Found at i:53014280 original size:14 final size:15
Alignment explanation
Indices: 53014249--53014283 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
53014239 TCTGACCCCA
*
53014249 AAATCCCTAAACCTT
1 AAATCCCTAAACCCT
53014264 AAATCCC-AAACCCT
1 AAATCCCTAAACCCT
53014278 AAATCC
1 AAATCC
53014284 ATACAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATCCCTAAACCCT
Found at i:53015081 original size:21 final size:20
Alignment explanation
Indices: 53015057--53015141 Score: 53
Period size: 21 Copynumber: 4.0 Consensus size: 20
53015047 ACTAGTTAAT
53015057 CTAAACTGTAAACCATAAACC
1 CTAAACT-TAAACCATAAACC
* * *
53015078 CTAAAATCATAAACCCTTAACAC
1 CT-AAA-CTTAAACCATAAAC-C
* * *
53015101 ATAACCTTAAACCTTAAACC
1 CTAAACTTAAACCATAAACC
* *
53015121 CCAACCTTTAAACCATAAACC
1 CTAAAC-TTAAACCATAAACC
53015142 ATAGACCAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
20 5 0.10
21 26 0.53
22 15 0.31
23 3 0.06
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (20 bp):
CTAAACTTAAACCATAAACC
Found at i:53015082 original size:14 final size:14
Alignment explanation
Indices: 53015065--53015144 Score: 56
Period size: 14 Copynumber: 5.6 Consensus size: 14
53015055 ATCTAAACTG
53015065 TAAACCATAAACCC
1 TAAACCATAAACCC
*
53015079 TAAAATCATAAACCC
1 T-AAACCATAAACCC
* *
53015094 TTAACACAT-AACCT
1 TAAAC-CATAAACCC
*
53015108 TAAACCTTAAACCC
1 TAAACCATAAACCC
* * *
53015122 -CAACCTTTAAACCA
1 TAAACC-ATAAACCC
53015136 TAAACCATA
1 TAAACCATA
53015145 GACCAAATAT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
13 6 0.12
14 24 0.48
15 20 0.40
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:53015758 original size:189 final size:188
Alignment explanation
Indices: 53015401--53015852 Score: 430
Period size: 189 Copynumber: 2.4 Consensus size: 188
53015391 CGGCGTTCCC
* * ** * *
53015401 CCATAAGCGCCACTAAGTCTAATATACCTCATGAAAAAACTCTGCGTTTTGG-TGAGCATTTTTT
1 CCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAG-ATATTTT
** * * * *** **
53015465 GCGGCGCTTTTTGCCAAGCGCCGCTAATACTATGATTTAGCGGCGTTTTTTGATATGCGCCACTA
65 GCGGCGCTTCCTGCAAAACACCGCTAATACTATGATTTAGCGGCGTTTTCCCATAAACGCCACTA
* * ** *
53015530 ATAACTGTATACATCAAGACAAAAACGTTGCGTTTTGGTTACCAAA-TGTTGCGGCG-TGTA
130 ATAAC--TATACACCAAGACAAAAACGGTGCACTTTGGTTACCAAAGT-TTGCGACGTTGTA
* ** *
53015590 CCCTTTGCGCCACTAATTCTAGTATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTG
1 CCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTG
* * *
53015655 CGGCGCTTCCCT-CAAAACACCGCTAATATTATGCTTTAGCGGCGTTTTCCCTTAAACGCCACTA
66 CGGCGCTT-CCTGCAAAACACCGCTAATACTATGATTTAGCGGCGTTTTCCCATAAACGCCACTA
* ** * * * *
53015719 ACTGTAAC-ATACACCAAGACCAAAACGGTGCACTTTGGTTAGGATAGTTTGTGACGTTTTT
130 A---TAACTATACACCAAGACAAAAACGGTGCACTTTGGTTACCAAAGTTTGCGACGTTGTA
* * * *
53015780 CCATAAGCGCCA-TAAATTCTAACATACCTCTAGACCAAACTCTGCGTTTTGGTTAACATATGTT
1 CCATAAGCGCCACT-AATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTT
53015844 GCGGCGCTT
65 GCGGCGCTT
53015853 TTGGTAAGCG
Statistics
Matches: 212, Mismatches: 43, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
189 138 0.65
190 70 0.33
192 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (188 bp):
CCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTG
CGGCGCTTCCTGCAAAACACCGCTAATACTATGATTTAGCGGCGTTTTCCCATAAACGCCACTAA
TAACTATACACCAAGACAAAAACGGTGCACTTTGGTTACCAAAGTTTGCGACGTTGTA
Found at i:53016031 original size:112 final size:112
Alignment explanation
Indices: 53015773--53016054 Score: 327
Period size: 112 Copynumber: 2.5 Consensus size: 112
53015763 TAGTTTGTGA
* * * ** *
53015773 CGTTTTTCCATAAGCGCCA-TAAATTCTAACATACCTCTAGACCAAACTCTGCGTTTTGGTTAAC
1 CGTTTTTCCATAAGCGCCACT-AATTCTAACATACATCAAGACAAAACAATGCGTTTTCGTTAAC
* *
53015837 ATATGTTGCGGCGCTTTTGGTAAGCGCCGCTAATACTTCCTTTAGCGG
65 ATATGTTGCGGCGCTTTCGGCAAGCGCCGCTAATACTTCCTTTAGCGG
* * * * * * * * *
53015885 CGGGTTTT-CGTAAGCGCCACTAATGCTAATATACAGCGAGATAAAACGATGCGTTTTCGTTAAG
1 C-GTTTTTCCATAAGCGCCACTAATTCTAACATACATCAAGACAAAACAATGCGTTTTCGTTAAC
*
53015949 AT-TTTTGCGGCGCTTTCGGCAATGCGCCGCTAATACTTCCTTTAGCGG
65 ATATGTTGCGGCGCTTTCGGCAA-GCGCCGCTAATACTTCCTTTAGCGG
* *
53015997 CGTTTTTCCATAAACGCCACTAATTCTAGCATACATCAAGACCAAAACAATGCGTTTT
1 CGTTTTTCCATAAGCGCCACTAATTCTAACATACATCAAGA-CAAAACAATGCGTTTT
53016055 GATCTTCAGA
Statistics
Matches: 139, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
111 22 0.16
112 97 0.70
113 20 0.14
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (112 bp):
CGTTTTTCCATAAGCGCCACTAATTCTAACATACATCAAGACAAAACAATGCGTTTTCGTTAACA
TATGTTGCGGCGCTTTCGGCAAGCGCCGCTAATACTTCCTTTAGCGG
Found at i:53018403 original size:40 final size:40
Alignment explanation
Indices: 53018359--53018434 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
53018349 ACAAAAAATC
*
53018359 GAGCATTAGCGGCGATTTAGCC-AAAGCGCCGCTAAAGGTA
1 GAGCATCAGCGGCGATTT-GCCGAAAGCGCCGCTAAAGGTA
* *
53018399 GAGCATCAGCGGCGATTTTCCGGAAGCGCCGCTAAA
1 GAGCATCAGCGGCGATTTGCCGAAAGCGCCGCTAAA
53018435 AATAGGAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.28, C:0.25, G:0.30, T:0.17
Consensus pattern (40 bp):
GAGCATCAGCGGCGATTTGCCGAAAGCGCCGCTAAAGGTA
Found at i:53018578 original size:41 final size:41
Alignment explanation
Indices: 53018514--53018792 Score: 244
Period size: 41 Copynumber: 6.8 Consensus size: 41
53018504 TTTTTTAAAC
*
53018514 CTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
* * * *
53018555 CTTTAGCGGCGTTTTTCTATAAGCGCCGCTATTGCTCGGGT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
* * * *
53018596 ATTTAGCGGCGTTGTTATCCT-AGCGCCGCTAATTCTCTGG-C
1 CTTTAGCGGCGTTTTTAT-CTAAGCGCCGCTAATGCTC-GGAT
* * * *
53018637 CTTTGGCGGCGTTTTTATGTAAGCGCCGGTAATGGTCGGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
* * * * *
53018678 CTTTAGCGGCGTTTTTAACTGAGCGCCACTAATTCTCTTG-T
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GGAT
* * * ** *
53018719 CTTCAGCGGCGTTTGTAGCTAAGCGCCGCTAATGCAT-TTAC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TCGGAT
* *
53018760 CTTTAGCGGCGTTTTT-GCAAAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTATC-TAAGCGCCGCTAAT
53018793 AGTAACAAAA
Statistics
Matches: 190, Mismatches: 40, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
40 6 0.03
41 179 0.94
42 5 0.03
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.34
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
Found at i:53018744 original size:123 final size:123
Alignment explanation
Indices: 53018513--53018775 Score: 302
Period size: 123 Copynumber: 2.1 Consensus size: 123
53018503 ATTTTTTAAA
*
53018513 CCTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTTTCTATAAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTTTCAATAAG
* *
53018578 CGCCGCTATTGCTCGGGTATTTAGCGGCGTTGTTATCCTAGCGCCGCTAATTCTCTGG
66 CGCCACTATTGCTCGGGTATTCAGCGGCGTTGTTATCCTAGCGCCGCTAATTCTCTGG
* * * * * *
53018636 CCTTTGGCGGCGTTTTTATGTAAGCGCCGGTAATGGTCGGATCTTTAGCGGCGTTTTT-AACTGA
1 CCTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTTTCAA-TAA
** * * * **
53018700 GCGCCACTAATT-CTCTTGTCTTCAGCGGCGTT-TGTA-GCTAAGCGCCGCTAATGCAT-TTA
65 GCGCCACT-ATTGCTCGGGTATTCAGCGGCGTTGT-TATCCT-AGCGCCGCTAATTC-TCTGG
53018759 CCTTTAGCGGCGTTTTT
1 CCTTTAGCGGCGTTTTT
53018776 GCAAAAGCGC
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
122 4 0.03
123 110 0.93
124 4 0.03
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (123 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTTTCAATAAG
CGCCACTATTGCTCGGGTATTCAGCGGCGTTGTTATCCTAGCGCCGCTAATTCTCTGG
Found at i:53019307 original size:15 final size:15
Alignment explanation
Indices: 53019286--53019323 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
53019276 TTTAAGGTTA
53019286 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
53019301 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
53019316 ATTTAGGG
1 ATTTAGGG
53019324 TTTCAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:53019326 original size:14 final size:14
Alignment explanation
Indices: 53019259--53019326 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
53019249 TACGGGGTAT
*
53019259 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
53019273 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
53019285 A-ATTTAGGGGTTAG
1 AGATTTA-GGGTTTG
*
53019299 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
53019314 AGATTTAGGGTTT
1 AGATTTAGGGTTT
53019327 CAATTATCGG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:53020299 original size:13 final size:13
Alignment explanation
Indices: 53020281--53020305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53020271 GTTAGAGATT
53020281 TAGGGGTTAGGAG
1 TAGGGGTTAGGAG
53020294 TAGGGGTTAGGA
1 TAGGGGTTAGGA
53020306 ATTTAGGGTC
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:0.24, C:0.00, G:0.52, T:0.24
Consensus pattern (13 bp):
TAGGGGTTAGGAG
Found at i:53020302 original size:28 final size:29
Alignment explanation
Indices: 53020259--53020343 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 29
53020249 ATATAAGGTT
* *
53020259 TAGGGGTTAAGGGTTAGAGATTTAGGGGT-
1 TAGGAGTTAGGGGTTAG-GATTTAGGGGTC
53020288 TAGGAG-TAGGGGTTAGGAATTTA-GGGTC
1 TAGGAGTTAGGGGTTAGG-ATTTAGGGGTC
*
53020316 TAGGAGATTTAGGGGTTAGGAGTTAGGG
1 TAGGAG--TTAGGGGTTAGGATTTAGGG
53020344 ATTTAGGGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
27 5 0.11
28 20 0.43
29 5 0.11
30 4 0.09
31 13 0.28
ACGTcount: A:0.25, C:0.01, G:0.45, T:0.29
Consensus pattern (29 bp):
TAGGAGTTAGGGGTTAGGATTTAGGGGTC
Found at i:53020327 original size:16 final size:14
Alignment explanation
Indices: 53020268--53020336 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 14
53020258 TTAGGGGTTA
53020268 AGGGTTA-GAGATTT
1 AGGGTTAGGA-ATTT
*
53020282 AGGGGTTAGG-A-GT
1 A-GGGTTAGGAATTT
53020295 AGGGGTTAGGAATTT
1 A-GGGTTAGGAATTT
53020310 AGGGTCTAGGAGATTT
1 AGGGT-TAGGA-ATTT
53020326 AGGGGTTAGGA
1 A-GGGTTAGGA
53020337 GTTAGGGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
13 11 0.24
14 7 0.15
15 13 0.28
16 11 0.24
17 4 0.09
ACGTcount: A:0.26, C:0.01, G:0.43, T:0.29
Consensus pattern (14 bp):
AGGGTTAGGAATTT
Found at i:53020356 original size:15 final size:15
Alignment explanation
Indices: 53020237--53020359 Score: 78
Period size: 14 Copynumber: 8.5 Consensus size: 15
53020227 TATATGATTA
53020237 TTAGGGTTT-GGGAT
1 TTAGGGTTTAGGGAT
* * *
53020251 ATAAGGTTTAGGGGT
1 TTAGGGTTTAGGGAT
* *
53020266 TAAGGG-TTAGAGAT
1 TTAGGGTTTAGGGAT
*
53020280 TTAGGGGTTA-GGA-
1 TTAGGGTTTAGGGAT
* * *
53020293 GTAGGGGTTAGGAAT
1 TTAGGGTTTAGGGAT
*
53020308 TTAGGGTCTAGGAGAT
1 TTAGGGTTTAGG-GAT
* *
53020324 TTAGGGGTTA-GGAG
1 TTAGGGTTTAGGGAT
53020338 TTAGGGATTTAGGG-T
1 TTAGGG-TTTAGGGAT
53020353 TTAGGGT
1 TTAGGGT
53020360 GTCAGTTAAT
Statistics
Matches: 81, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
13 9 0.11
14 31 0.38
15 29 0.36
16 12 0.15
ACGTcount: A:0.24, C:0.01, G:0.42, T:0.33
Consensus pattern (15 bp):
TTAGGGTTTAGGGAT
Found at i:53023245 original size:22 final size:22
Alignment explanation
Indices: 53023199--53023277 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
53023189 TTACATTACT
*
53023199 TACATTACTTACTAAAATAT-A-G
1 TACATTACTTA--AATATATAACG
53023221 TACATTACTTAAATATATAACG
1 TACATTACTTAAATATATAACG
* *
53023243 TACA--A---AAATTTATAACT
1 TACATTACTTAAATATATAACG
53023260 TACATTACTTAAATATAT
1 TACATTACTTAAATATAT
53023278 TACATTACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
17 14 0.30
19 1 0.02
20 7 0.15
21 1 0.02
22 23 0.50
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.38
Consensus pattern (22 bp):
TACATTACTTAAATATATAACG
Found at i:53023282 original size:18 final size:18
Alignment explanation
Indices: 53023202--53023290 Score: 74
Period size: 18 Copynumber: 4.8 Consensus size: 18
53023192 CATTACTTAC
*
53023202 ATTAC-TTACTAAAATAT
1 ATTACATTACTTAAATAT
*
53023219 AGTACATTACTTAAATAT
1 ATTACATTACTTAAATAT
* * **
53023237 ATAAC-GTACAAAAATTTAT
1 ATTACATTACTTAAA--TAT
53023256 AACTTACATTACTTAAATAT
1 -A-TTACATTACTTAAATAT
53023276 ATTACATTACTTAAA
1 ATTACATTACTTAAA
53023291 CTTTATATAT
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
17 10 0.18
18 28 0.51
19 4 0.07
20 4 0.07
21 3 0.05
22 6 0.11
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTACATTACTTAAATAT
Found at i:53023443 original size:121 final size:121
Alignment explanation
Indices: 53023317--53023540 Score: 369
Period size: 121 Copynumber: 1.9 Consensus size: 121
53023307 AAAATTTAGC
* ***
53023317 TATATGGTATGGATATATAACCTATATTCCAATTTTATT-GTCAATAAATTTTATAATTTTGCCA
1 TATATGGTATGGATATATAACCTATATTCCAATTTTATTAG-AAATAAATTTTATAATTTTAAAA
*
53023381 ATAATTGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCA
65 ATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCA
* *
53023438 TATATGGTATGGATATATAACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAA
1 TATATGGTATGGATATATAACCTATATTCCAATTTTATTAGAAATAAATTTTATAATTTTAAAAA
53023503 TAAATGTAAATGTTATTTTTAAATATTAAAACCTATAT
66 TAAATGTAAATGTTATTTTTAAATATTAAAACCTATAT
53023541 GTTATTTTTA
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
121 94 0.99
122 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (121 bp):
TATATGGTATGGATATATAACCTATATTCCAATTTTATTAGAAATAAATTTTATAATTTTAAAAA
TAAATGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCA
Found at i:53023542 original size:27 final size:27
Alignment explanation
Indices: 53023512--53023567 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
53023502 ATAAATGTAA
53023512 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
53023539 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
53023566 AT
1 AT
53023568 TTTTAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
ATGTTATTTTTAAATATTAAAACCTAT
Found at i:53023552 original size:148 final size:148
Alignment explanation
Indices: 53023391--53024186 Score: 1118
Period size: 148 Copynumber: 5.2 Consensus size: 148
53023381 ATAATTGTAA
53023391 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
1 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
53023456 AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
66 AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
53023521 TTAAATATTAAAACCTAT
131 TTAAATATTAAAACCTAT
53023539 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
1 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
53023604 AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
66 AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
53023669 TTAAATATTAAAACCTAT
131 TTAAATATTAAAACCTAT
*
53023687 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCACCCCATATATGGTATGGATATAT
1 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
* *
53023752 ATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
66 AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
53023817 TTAAATATTAAAACCTAT
131 TTAAATATTAAAACCTAT
* * ** * **
53023835 ATGCTATTTTTAAATATTAAAACCTATATGTTATTTTTAA-ATATTAAAACC-TATAT--TTTTA
1 ATGTTATTTTTAAATATTAAAACC--TA---TATTTTTAATATA-TCAGCCCATATATGGTATGG
* *
53023896 ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCA-ATTTTATTAGAAATGAATTT
60 ATATAT-A-ACC-TATAT--T-T-CA-AT-T-T--T--A-TT-AGA----------AATGAATTT
53023960 TATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTAT
99 TATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTAT
53024010 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA-CCCTATATATGGTATGGATATA
1 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCC-ATATATGGTATGGATATA
* *
53024074 TATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATT
65 TAACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATT
53024139 TTTAAATATTAAAACCTAT
130 TTTAAATATTAAAACCTAT
*
53024158 ATGCTATTTTTAAATATTAAAACCTATAT
1 ATGTTATTTTTAAATATTAAAACCTATAT
53024187 GTTATTTTTA
Statistics
Matches: 587, Mismatches: 23, Indels: 76
0.86 0.03 0.11
Matches are distributed among these distances:
148 403 0.69
150 10 0.02
151 1 0.00
152 10 0.02
153 17 0.03
155 1 0.00
156 1 0.00
157 2 0.00
158 5 0.01
159 2 0.00
160 1 0.00
161 1 0.00
162 1 0.00
163 1 0.00
164 2 0.00
165 5 0.01
166 2 0.00
167 1 0.00
168 1 0.00
169 2 0.00
170 15 0.03
171 10 0.02
172 1 0.00
173 10 0.02
175 82 0.14
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (148 bp):
ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
TTAAATATTAAAACCTAT
Found at i:53023577 original size:121 final size:120
Alignment explanation
Indices: 53023331--53023577 Score: 272
Period size: 121 Copynumber: 2.0 Consensus size: 120
53023321 TGGTATGGAT
* * * *** *
53023331 ATATAACCTATATTCCAATTTTATTGTCAATAAATTTTATAATTTTGCCAATAATTGTAAATGTT
1 ATATAACCTATATTTCAATTTTATTG-AAATGAATTTTATAATTTTAAAAATAAATGTAAATGTT
* ** **
53023396 ATTTTTAAATATTAAAACC--TA---TATTTTT-AATATATCAGCCCATATATGGTATGGA
65 ATTTTTAAATATTAAAACCTATATGTTATTTTTAAATAT-TAAAACC-TATAT--T-TTTA
53023451 TATATAACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGT
1 -ATATAACCTATATTTCAATTTTATT-GAAATGAATTTTATAATTTTAAAAATAAATGTAAATGT
53023516 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTA
64 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTA
53023573 ATATA
1 ATATA
53023578 TCAGCCCATA
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
121 80 0.75
122 3 0.03
123 3 0.03
125 5 0.05
126 11 0.10
127 5 0.05
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (120 bp):
ATATAACCTATATTTCAATTTTATTGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTA
TTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTA
Found at i:53023690 original size:27 final size:27
Alignment explanation
Indices: 53023660--53023715 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
53023650 ATAAATGTAA
53023660 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
53023687 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
53023714 AT
1 AT
53023716 TTTTAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
ATGTTATTTTTAAATATTAAAACCTAT
Found at i:53023845 original size:175 final size:175
Alignment explanation
Indices: 53023664--53024038 Score: 741
Period size: 175 Copynumber: 2.1 Consensus size: 175
53023654 ATGTAAATGT
53023664 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
1 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
53023729 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
66 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
53023794 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
131 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
53023839 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
1 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
53023904 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
66 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
*
53023969 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGT
131 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
53024014 TATTTTTAAATATTAAAACCTATAT
1 TATTTTTAAATATTAAAACCTATAT
53024039 TTTTAATATA
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 199 1.00
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (175 bp):
TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
Found at i:53023846 original size:27 final size:27
Alignment explanation
Indices: 53023812--53023890 Score: 149
Period size: 27 Copynumber: 2.9 Consensus size: 27
53023802 ATGTAAATGT
53023812 TATTTTTAAATATTAAAACCTATATGC
1 TATTTTTAAATATTAAAACCTATATGC
*
53023839 TATTTTTAAATATTAAAACCTATATGT
1 TATTTTTAAATATTAAAACCTATATGC
53023866 TATTTTTAAATATTAAAACCTATAT
1 TATTTTTAAATATTAAAACCTATAT
53023891 TTTTAATATA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.47
Consensus pattern (27 bp):
TATTTTTAAATATTAAAACCTATATGC
Found at i:53024013 original size:27 final size:27
Alignment explanation
Indices: 53023983--53024038 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
53023973 ATAAATGTAA
53023983 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
53024010 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
53024037 AT
1 AT
53024039 TTTTAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
ATGTTATTTTTAAATATTAAAACCTAT
Found at i:53024013 original size:323 final size:323
Alignment explanation
Indices: 53023516--53024265 Score: 1450
Period size: 323 Copynumber: 2.3 Consensus size: 323
53023506 ATGTAAATGT
53023516 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
1 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
* * *
53023581 GCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTT
66 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
53023646 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACC
131 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACC
53023711 TATATTTTTAATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGA
196 TATATTTTTAATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGA
53023776 AATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
261 AATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
53023839 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
1 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
53023904 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
66 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
53023969 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACC
131 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACC
*
53024034 TATATTTTTAATATATCACCCTATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGA
196 TATATTTTTAATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGA
53024099 AATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
261 AATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
53024162 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTT-A-ATATCA
1 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
53024225 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTT
66 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTT
53024266 TAATAACTTA
Statistics
Matches: 423, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
321 47 0.11
322 1 0.00
323 375 0.89
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (323 bp):
TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACC
TATATTTTTAATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGA
AATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
Found at i:53024077 original size:175 final size:174
Alignment explanation
Indices: 53023721--53024250 Score: 590
Period size: 175 Copynumber: 3.0 Consensus size: 174
53023711 TATATTTTTA
53023721 ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTT
1 ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTT
*
53023786 ATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGCTATTTTTAAATA
66 ATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATA
* * *
53023851 TTAAAACCTATATGTTATTTTTAAATATTAAAACCTATAT-T--T-T-TA-
131 TTAAAACC--TA---TATTTTTAAATA-T-CACCCTATATATGGTATGGAT
53023896 ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTT
1 ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTT
53023961 ATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATA
66 ATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATA
53024026 TTAAAACCTATATTTTTAATATATCACCCTATATATGGTATGGAT
131 TTAAAACCTATATTTTTAA-ATATCACCCTATATATGGTATGGAT
** * ** * * ** *
53024071 ATATATC-CTACATTTCAATTTTATTAGAAATGA-AT--T---TTAT-AATTTTAAAAATAAATG
1 ATATATCACCCCATAT--ATGGTA-TGGATAT-ATATCCTACATT-TCAATTTT-ATTAGAAATG
* * ** * *
53024128 TAAATGTTAT--TTTTAAATATTAAAACCTATATGCTATTTTTAAATATTAAAACCTATATGTTA
60 --AATTTTATAATTTTAAA-AAT-AAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTA
*
53024191 TTTTTAAATATTAAAACCTATATTTTT-AATATCACCCCATATATGGTATGGAT
121 TTTTTAAATATTAAAACCTATATTTTTAAATATCACCCTATATATGGTATGGAT
53024244 ATATATC
1 ATATATC
53024251 CTACATTTCA
Statistics
Matches: 317, Mismatches: 21, Indels: 36
0.85 0.06 0.10
Matches are distributed among these distances:
169 8 0.03
170 11 0.03
171 3 0.01
172 9 0.03
173 49 0.15
174 9 0.03
175 216 0.68
176 4 0.01
177 7 0.02
178 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (174 bp):
ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTT
ATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATA
TTAAAACCTATATTTTTAAATATCACCCTATATATGGTATGGAT
Found at i:53024169 original size:27 final size:27
Alignment explanation
Indices: 53024135--53024213 Score: 149
Period size: 27 Copynumber: 2.9 Consensus size: 27
53024125 ATGTAAATGT
53024135 TATTTTTAAATATTAAAACCTATATGC
1 TATTTTTAAATATTAAAACCTATATGC
*
53024162 TATTTTTAAATATTAAAACCTATATGT
1 TATTTTTAAATATTAAAACCTATATGC
53024189 TATTTTTAAATATTAAAACCTATAT
1 TATTTTTAAATATTAAAACCTATAT
53024214 TTTTAATATC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.47
Consensus pattern (27 bp):
TATTTTTAAATATTAAAACCTATATGC
Found at i:53024291 original size:16 final size:16
Alignment explanation
Indices: 53024270--53024312 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
53024260 AATTTTTAAT
*
53024270 AACTTACATAATATAC
1 AACTTACATAATACAC
53024286 AACTTACATAATACAC
1 AACTTACATAATACAC
*
53024302 AACTTATATAA
1 AACTTACATAA
53024313 CTTAAATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:53024433 original size:25 final size:25
Alignment explanation
Indices: 53024361--53024670 Score: 275
Period size: 25 Copynumber: 12.4 Consensus size: 25
53024351 CATTATACAC
* **
53024361 AACTTACATAATACATTACTTACTT
1 AACTTACATAATACATAACTTAAAT
* *
53024386 AACATACATAGCCTACATAACTTAAAT
1 AACTTACATA--ATACATAACTTAAAT
* **
53024413 AATTTACATGTTACATAACTTAAAT
1 AACTTACATAATACATAACTTAAAT
***
53024438 AACTTACATAATACATAACTTTGGT
1 AACTTACATAATACATAACTTAAAT
* * * * *
53024463 AACTAACATTATACACATCTTACAT
1 AACTTACATAATACATAACTTAAAT
* **
53024488 AATTTACATGTTACATAACTTAAAT
1 AACTTACATAATACATAACTTAAAT
**
53024513 AACTTACATAATACATAACTTTGAT
1 AACTTACATAATACATAACTTAAAT
* * *
53024538 AACTTACATAATACACATCTTACAT
1 AACTTACATAATACATAACTTAAAT
* ** *
53024563 AATTTACA-ACCACTTAACTTAAAT
1 AACTTACATAATACATAACTTAAAT
53024587 AACTTACATAATACATAACTTAAAT
1 AACTTACATAATACATAACTTAAAT
**
53024612 AACTTACATAATACATAACTTTGAT
1 AACTTACATAATACATAACTTAAAT
* * * *
53024637 AACTAACATTATACACAACTTACAT
1 AACTTACATAATACATAACTTAAAT
53024662 AA--TACATAA
1 AACTTACATAA
53024671 CTTACTTAAC
Statistics
Matches: 224, Mismatches: 58, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
23 5 0.02
24 17 0.08
25 184 0.82
27 18 0.08
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.34
Consensus pattern (25 bp):
AACTTACATAATACATAACTTAAAT
Found at i:53024501 original size:75 final size:75
Alignment explanation
Indices: 53024399--53024803 Score: 424
Period size: 75 Copynumber: 5.5 Consensus size: 75
53024389 ATACATAGCC
* * *
53024399 TACATAACTTAAATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGGTA
1 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
53024464 ACTAACATTA
66 ACTAACATTA
*
53024474 TACACATCTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
1 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
* *
53024539 ACTTACATAA
66 ACTAACATTA
* *** * **
53024549 TACACATCTTACATAATTTACA-ACCACTTAACTTAAATAACTTACATAATACATAACTTAAATA
1 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
* *
53024613 ACTTACATAA
66 ACTAACATTA
* ** * * * ***
53024623 TACATAACTTTGATAACTAACA--TT--AT-AC----ACAACTTACATAATACATAACTTACTTA
1 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
53024679 AC-ATACA-TA
66 ACTA-ACATTA
53024688 GCCTACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTG
1 ---TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTG
*
53024753 CTAACTAACATTA
63 ATAACTAACATTA
*
53024766 TACACAACTTACATAA--TACATTACTTACATAACTTAAA
1 TACACAACTTACATAATTTACA-T-GTTACATAACTTAAA
53024804 GCATAATAAT
Statistics
Matches: 277, Mismatches: 36, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
65 1 0.00
66 30 0.11
68 17 0.06
70 4 0.01
71 1 0.00
72 2 0.01
73 6 0.02
74 63 0.23
75 121 0.44
77 29 0.10
78 3 0.01
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (75 bp):
TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
ACTAACATTA
Found at i:53024516 original size:50 final size:50
Alignment explanation
Indices: 53024399--53024860 Score: 259
Period size: 50 Copynumber: 9.2 Consensus size: 50
53024389 ATACATAGCC
* *
53024399 TACATAACTTAAATAATTTACATGT-TACATAACTTAAATAACTTACATAA
1 TACATAACTTAAATAACTTACAT-TATACACAACTTAAATAACTTACATAA
*** * * * * **
53024449 TACATAACTTTGGTAACTAACATTATACACATCTTACATAATTTACATGT
1 TACATAACTTAAATAACTTACATTATACACAACTTAAATAACTTACATAA
* * **
53024499 TACATAACTTAAATAACTTACATAATACATAACTTTGATAACTTACATAA
1 TACATAACTTAAATAACTTACATTATACACAACTTAAATAACTTACATAA
* * * * *
53024549 TACACATCTTACATAATTTACA--A-CCACTTAACTTAAATAACTTACATAA
1 TACATAACTTAAATAACTTACATTATACAC--AACTTAAATAACTTACATAA
* * ** *
53024598 TACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACAT--
1 TACATAACTTAAATAACTTACATTATACACAACTTAAATAACTTACATAA
* * * ** * *
53024646 T--AT-AC----ACAACTTACATAATACATAACTTACTTAACATACATAGCC
1 TACATAACTTAAATAACTTACATTATACACAACTTAAATAACTTACATA--A
* * * *
53024691 TACACAACTTACATAATTTACATGT-TACATAACTTAAATAACTTACATAA
1 TACATAACTTAAATAACTTACAT-TATACACAACTTAAATAACTTACATAA
*** * * *
53024741 TACATAACTTTGCTAACTAACATTATACACAACTTACATAATACATTACTTACA
1 TACATAACTTAAATAACTTACATTATACACAACTTAAAT-A-AC-TTACATA-A
* * * * * *
53024795 TAACTTAAAGCATAATAATAACTTACATAATACACAACTTACATAGCTTACACAA
1 T-ACAT-AA-C-TTA-AATAACTTACATTATACACAACTTAAATAACTTACATAA
53024850 TACATAACTTA
1 TACATAACTTA
53024861 CCCGTGCAAT
Statistics
Matches: 309, Mismatches: 75, Indels: 55
0.70 0.17 0.13
Matches are distributed among these distances:
41 30 0.10
45 3 0.01
46 2 0.01
47 3 0.01
48 4 0.01
49 38 0.12
50 137 0.44
51 4 0.01
52 35 0.11
53 8 0.03
54 5 0.02
55 5 0.02
56 7 0.02
57 2 0.01
58 2 0.01
59 24 0.08
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.33
Consensus pattern (50 bp):
TACATAACTTAAATAACTTACATTATACACAACTTAAATAACTTACATAA
Found at i:53024589 original size:9 final size:9
Alignment explanation
Indices: 53024356--53024861 Score: 239
Period size: 9 Copynumber: 60.3 Consensus size: 9
53024346 ACTAACATTA
*
53024356 TACACAACT
1 TACATAACT
53024365 TACATAA--
1 TACATAACT
*
53024372 TACATTACT
1 TACATAACT
* *
53024381 TACTTAACA
1 TACATAACT
* *
53024390 TACATAGCC
1 TACATAACT
53024399 TACATAACT
1 TACATAACT
* *
53024408 TAAATAATT
1 TACATAACT
*
53024417 TACAT--GT
1 TACATAACT
53024424 TACATAACT
1 TACATAACT
*
53024433 TAAATAACT
1 TACATAACT
53024442 TACATAA--
1 TACATAACT
53024449 TACATAACT
1 TACATAACT
***
53024458 TTGGTAACT
1 TACATAACT
* *
53024467 AACATTA--
1 TACATAACT
* *
53024474 TACACATCT
1 TACATAACT
*
53024483 TACATAATT
1 TACATAACT
*
53024492 TACAT--GT
1 TACATAACT
53024499 TACATAACT
1 TACATAACT
*
53024508 TAAATAACT
1 TACATAACT
53024517 TACATAA--
1 TACATAACT
53024524 TACATAACT
1 TACATAACT
**
53024533 TTGATAACT
1 TACATAACT
53024542 TACATAA--
1 TACATAACT
* *
53024549 TACACATCT
1 TACATAACT
*
53024558 TACATAATT
1 TACATAACT
53024567 TAC--AAC-
1 TACATAACT
* *
53024573 CACTTAACT
1 TACATAACT
*
53024582 TAAATAACT
1 TACATAACT
53024591 TACATAA--
1 TACATAACT
53024598 TACATAACT
1 TACATAACT
*
53024607 TAAATAACT
1 TACATAACT
53024616 TACATAA--
1 TACATAACT
53024623 TACATAACT
1 TACATAACT
**
53024632 TTGATAACT
1 TACATAACT
* *
53024641 AACATTA--
1 TACATAACT
*
53024648 TACACAACT
1 TACATAACT
53024657 TACATAA--
1 TACATAACT
53024664 TACATAACT
1 TACATAACT
* *
53024673 TACTTAACA
1 TACATAACT
* *
53024682 TACATAGCC
1 TACATAACT
*
53024691 TACACAACT
1 TACATAACT
*
53024700 TACATAATT
1 TACATAACT
*
53024709 TACAT--GT
1 TACATAACT
53024716 TACATAACT
1 TACATAACT
*
53024725 TAAATAACT
1 TACATAACT
53024734 TACATAA--
1 TACATAACT
53024741 TACATAACTT
1 TACATAAC-T
*
53024751 TGC-TAACT
1 TACATAACT
* *
53024759 AACATTA--
1 TACATAACT
*
53024766 TACACAACT
1 TACATAACT
53024775 TACATAA--
1 TACATAACT
*
53024782 TACATTACT
1 TACATAACT
53024791 TACATAACT
1 TACATAACT
53024800 TAAAGCATAA--
1 T--A-CATAACT
53024810 TA-ATAACT
1 TACATAACT
53024818 TACATAA--
1 TACATAACT
*
53024825 TACACAACT
1 TACATAACT
*
53024834 TACATAGCT
1 TACATAACT
*
53024843 TACACAA--
1 TACATAACT
53024850 TACATAACT
1 TACATAACT
53024859 TAC
1 TAC
53024862 CCGTGCAATT
Statistics
Matches: 359, Mismatches: 93, Indels: 90
0.66 0.17 0.17
Matches are distributed among these distances:
6 6 0.02
7 102 0.28
8 8 0.02
9 234 0.65
10 3 0.01
11 1 0.00
12 5 0.01
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:53024621 original size:99 final size:99
Alignment explanation
Indices: 53024481--53024664 Score: 305
Period size: 99 Copynumber: 1.9 Consensus size: 99
53024471 TTATACACAT
* * ** *
53024481 CTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATAACTTACA
1 CTTAAATAACTTACATAATACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACA
*
53024546 TAATACACATCTTACATAATTTACAACCACTTAA
66 TAATACACAACTTACATAATTTACAACCACTTAA
53024580 CTTAAATAACTTACATAATACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACA
1 CTTAAATAACTTACATAATACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACA
*
53024645 TTATACACAACTTACATAAT
66 TAATACACAACTTACATAAT
53024665 ACATAACTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 78 1.00
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (99 bp):
CTTAAATAACTTACATAATACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACA
TAATACACAACTTACATAATTTACAACCACTTAA
Found at i:53024685 original size:25 final size:25
Alignment explanation
Indices: 53024648--53024781 Score: 117
Period size: 25 Copynumber: 5.3 Consensus size: 25
53024638 ACTAACATTA
*
53024648 TACACAACTTACATAATACATAACT
1 TACATAACTTACATAATACATAACT
* * * *
53024673 TACTTAACATACATAGCCTACACAACT
1 TACATAACTTACATA--ATACATAACT
* **
53024700 TACATAATTTACATGTTACATAACT
1 TACATAACTTACATAATACATAACT
*
53024725 TAAATAACTTACATAATACATAACTT
1 TACATAACTTACATAATACATAAC-T
* * * *
53024751 TGC-TAACTAACATTATACACAACT
1 TACATAACTTACATAATACATAACT
53024775 TACATAA
1 TACATAA
53024782 TACATTACTT
Statistics
Matches: 84, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
24 3 0.04
25 60 0.71
26 2 0.02
27 19 0.23
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAATACATAACT
Found at i:53024721 original size:174 final size:173
Alignment explanation
Indices: 53024359--53024722 Score: 439
Period size: 174 Copynumber: 2.1 Consensus size: 173
53024349 AACATTATAC
* * ** * * *
53024359 ACAACTTACATAATACA-TTACTTACTTAACATACATAGCCTACATAACTTAAATAATTTACATG
1 ACAACTTACATAATACACAT-CTTACATAATTTACA-A-CC-ACTTAACTTAAATAACTTACATA
* * *
53024423 TTACATAACTTAAATAACTTACATAATACATAACTTTGGTAACTAACATTATACACATCTTACAT
62 ATACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACACAACTTACAT
* * * *
53024488 AATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTG
127 AA-TTACATCTTACATAACATAAATAACCTACACAATACATAACTTTG
*
53024536 ATAACTTACATAATACACATCTTACATAATTTACAACCACTTAACTTAAATAACTTACATAATAC
1 ACAACTTACATAATACACATCTTACATAATTTACAACCACTTAACTTAAATAACTTACATAATAC
53024601 ATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACACAACTTACATAA-T
66 ATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACACAACTTACATAATT
* * *
53024665 ACATAACTTACTTAACATACATAGCCTACACAACTTACATAA-TTT-
131 ACAT--CTTACATAACATAAATAACCTACACAA--TACATAACTTTG
**
53024710 ACATGTTACATAA
1 ACAACTTACATAA
53024723 CTTAAATAAC
Statistics
Matches: 161, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
172 5 0.03
174 114 0.71
175 5 0.03
176 8 0.05
177 28 0.17
178 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (173 bp):
ACAACTTACATAATACACATCTTACATAATTTACAACCACTTAACTTAAATAACTTACATAATAC
ATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACACAACTTACATAATT
ACATCTTACATAACATAAATAACCTACACAATACATAACTTTG
Found at i:53024741 original size:118 final size:118
Alignment explanation
Indices: 53024538--53024859 Score: 389
Period size: 118 Copynumber: 2.8 Consensus size: 118
53024528 TAACTTTGAT
* * ** **
53024538 AACTTACATAATACACATCTTACATAATTTACA-A-CC-ACTTAACTTAAATAACTTACATAATA
1 AACTTACATAATACATAACTTACATAACATACATAGCCTACACAACTTAAATAACTTACATAATA
53024600 CATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACAC
66 CATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACAC
* * * **
53024653 AACTTACATAATACATAACTTACTTAACATACATAGCCTACACAACTTACATAATTTACATGTTA
1 AACTTACATAATACATAACTTACATAACATACATAGCCTACACAACTTAAATAACTTACATAATA
*
53024718 CATAACTTAAATAACTTACATAATACATAACTTTGCTAACTAACATTATACAC
66 CATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACAC
* * *
53024771 AACTTACATAATACATTACTTACATAACTTA-A-AG----CATAA--T-AATAACTTACATAATA
1 AACTTACATAATACATAACTTACATAACATACATAGCCTACACAACTTAAATAACTTACATAATA
* * * *
53024827 CACAACTTACATAGCTTACACAATACATAACTT
66 CATAACTTAAATAACTTACATAATACATAACTT
53024860 ACCCGTGCAA
Statistics
Matches: 180, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
109 41 0.23
110 1 0.01
112 4 0.02
115 28 0.16
116 3 0.02
117 3 0.02
118 100 0.56
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (118 bp):
AACTTACATAATACATAACTTACATAACATACATAGCCTACACAACTTAAATAACTTACATAATA
CATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACAC
Found at i:53024856 original size:292 final size:287
Alignment explanation
Indices: 53024326--53024861 Score: 803
Period size: 292 Copynumber: 1.8 Consensus size: 287
53024316 AAATAGAAAC
*
53024326 ACATAATAATAACTTTGATAACTAACATTATACACAACTTACATAATACATTACTTACTTAACAT
1 ACATAATAATAACTTTGATAACTAACATTATACACAACTTACATAATACATAACTTACTTAACAT
*
53024391 ACATAGCCTACATAACTTAAATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAA
66 ACATAGCCTACACAACTTAAATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAA
* * *
53024456 CTTTGGTAACTAACATTATACACATCTTACATAATTTACATGTTACATAACTTAAATAACTTACA
131 CTTTGCTAACTAACATTATACACAACTTACATAA-TTACATCTTACATAACTTAAATAAC-TACA
** * * *
53024521 TAATACATAACTTTGATAACTTACATAATACACATCTTACATAATTTACAACCACTTAACTTAAA
194 TAATACATAAC-TACACAACTTACATAATACACA-CATACATAACTTACAACCACTTAACTTAAA
53024586 TAACTTACATAATACATAACTTAAATAACTT
257 TAACTTACATAATACATAACTTAAATAACTT
53024617 ACATAATACATAACTTTGATAACTAACATTATACACAACTTACATAATACATAACTTACTTAACA
1 ACATAATA-ATAACTTTGATAACTAACATTATACACAACTTACATAATACATAACTTACTTAACA
*
53024682 TACATAGCCTACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATA
65 TACATAGCCTACACAACTTAAATAATTTACATGTTACATAACTTAAATAACTTACATAATACATA
53024747 ACTTTGCTAACTAACATTATACACAACTTACATAA-TACATTACTTACATAACTTAAAGCATAA-
130 ACTTTGCTAACTAACATTATACACAACTTACATAATTACA-T-CTTACATAACTT-AA--ATAAC
*
53024810 TA-ATAACTTACATAA-TACACAACTTACATAGCTTACACA-ATACATAACTTAC
190 TACATAA--TACATAACTACACAACTTACATA--ATACACACATACATAACTTAC
53024862 CCGTGCAATT
Statistics
Matches: 223, Mismatches: 12, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
290 4 0.02
291 9 0.04
292 189 0.85
293 4 0.02
294 13 0.06
295 4 0.02
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.33
Consensus pattern (287 bp):
ACATAATAATAACTTTGATAACTAACATTATACACAACTTACATAATACATAACTTACTTAACAT
ACATAGCCTACACAACTTAAATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAA
CTTTGCTAACTAACATTATACACAACTTACATAATTACATCTTACATAACTTAAATAACTACATA
ATACATAACTACACAACTTACATAATACACACATACATAACTTACAACCACTTAACTTAAATAAC
TTACATAATACATAACTTAAATAACTT
Found at i:53030350 original size:66 final size:66
Alignment explanation
Indices: 53030244--53030413 Score: 225
Period size: 66 Copynumber: 2.6 Consensus size: 66
53030234 AGCAAATTAC
* * *
53030244 ACAACTTAAAGCAGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAG
*
53030308 CT
65 CA
*
53030310 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAACAAAAGTATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGC
53030375 A
66 A
* * * * * *
53030376 ACAGCTTAGAGCAGATGCGGCGGCAAGAGAAGCAGAGG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
53030414 CGGCAGCGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 86 0.95
67 5 0.05
ACGTcount: A:0.41, C:0.18, G:0.27, T:0.14
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGC
A
Found at i:53030409 original size:21 final size:21
Alignment explanation
Indices: 53030385--53030428 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
53030375 AACAGCTTAG
* *
53030385 AGCAGATGCGGCGGCAAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
*
53030406 AGCAGAGGCGGCAGCGAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
53030427 AG
1 AG
53030429 TACAGGCTAC
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:0.34, C:0.18, G:0.45, T:0.02
Consensus pattern (21 bp):
AGCAGAGGCGGCAGCAAGAGA
Found at i:53030435 original size:21 final size:21
Alignment explanation
Indices: 53030404--53030496 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
53030394 GGCGGCAAGA
* *
53030404 GAAGCAGAGGCGGCAGCGAGA
1 GAAGCAGAGGCTGCAGCGAGG
* * *
53030425 GAAGTACAGGCTACAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
* **
53030446 GAAGCAAAGGCTAAAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
*
53030467 GAAGTAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
53030488 GAAGCAGAG
1 GAAGCAGAG
53030497 CAGCGTCAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.05
Consensus pattern (21 bp):
GAAGCAGAGGCTGCAGCGAGG
Found at i:53030703 original size:43 final size:42
Alignment explanation
Indices: 53030610--53030840 Score: 171
Period size: 43 Copynumber: 5.4 Consensus size: 42
53030600 ATTTTTGGTC
* * *
53030610 AAAGCGCCGCTAAAGATTAGGGTCTTTTGCGGCGTTTGTGGAA-
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGT--AAT
* *
53030653 AAGGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
* * * **
53030695 GAAAGCGCCGCTAAAGACCCCTGATCTTTAGCGGCGCTTATCCCAA-
1 -AAAGCGCCGCTAAAGA-TCATGGTCTTTAGCGGCG-TT-T-GTAAT
* * * * *
53030741 AAA-TGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTCTACT
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
* * ** * **
53030782 AAAGCGCCGCTAAAGGTCTTATTCTTCAGCGGCGTTTGTGCT
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
53030824 AGAAGCGCCGCTAAAGA
1 A-AAGCGCCGCTAAAGA
53030841 CCAACACCTT
Statistics
Matches: 148, Mismatches: 31, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
40 2 0.01
41 6 0.04
42 30 0.20
43 76 0.51
44 26 0.18
45 5 0.03
46 1 0.01
47 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
Found at i:53033716 original size:124 final size:124
Alignment explanation
Indices: 53033381--53033756 Score: 628
Period size: 123 Copynumber: 3.0 Consensus size: 124
53033371 TTAGGGGTTT
* ** * *
53033381 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAATATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTC-TTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
53033446 AGGATGCTATTTGAGAAGAATTTGTGAAACCGCGCCCTCGTGGACGCGCTTTTGCTACAG
65 AGGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
53033506 TAGGTCATGGAAGAAATAATTT-TTTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGTA
1 TAGGTCATGGAAGAAATAATTTCTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
*
53033570 GGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTACTACAG
66 GGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
53033629 TCGGTCATGGAAGAAATAATTTCTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
1 TAGGTCATGGAAGAAATAATTTCTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
53033694 GGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGT-AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
53033754 TAG
1 TAG
53033757 CATGTTTGGG
Statistics
Matches: 234, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
123 113 0.48
124 64 0.27
125 57 0.24
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (124 bp):
TAGGTCATGGAAGAAATAATTTCTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
GGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:53036946 original size:17 final size:17
Alignment explanation
Indices: 53036879--53036946 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
53036869 TATGTGAATG
*
53036879 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
53036895 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
53036914 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
53036933 TAAAATTATTAATT
1 TAAAATTATTAATT
53036947 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:53036971 original size:117 final size:115
Alignment explanation
Indices: 53036764--53037008 Score: 402
Period size: 115 Copynumber: 2.1 Consensus size: 115
53036754 TAAGTTTGTG
*
53036764 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAAATTATCAAATTATATAAAATTATTA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAAATTATCAAATTATATAAAATTATTA
* * * *
53036829 ATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
65 ATTGTTAGTACCAG-AAAAAAAATTTTCCAAATCTAACATTATGTGAAAGTA
53036881 AAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
53036945 TTGTTAGTACCAGGAAAAAATAATTTTCCAAATCTAACATTATGTGAAAGTA
66 TTGTTAGTACCA-GAAAAAA-AATTTTCCAAATCTAACATTATGTGAAAGTA
53036997 AAATTATTAATT
1 AAATTATTAATT
53037009 TAGTTTAGGG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
115 45 0.37
116 42 0.35
117 34 0.28
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (115 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
TTGTTAGTACCAGAAAAAAAATTTTCCAAATCTAACATTATGTGAAAGTA
Found at i:53037188 original size:45 final size:43
Alignment explanation
Indices: 53037065--53037986 Score: 511
Period size: 45 Copynumber: 20.4 Consensus size: 43
53037055 GGTTTAGGAT
* *
53037065 TTAGGGTTTTTAA-TTAAATTAAGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAA---ATTTAGG
**
53037111 TTAGGGTTTTTAAGTTAA-GGGGTT-GGGATTTTTAAATTTAGGG
1 TTAGGGTTTTTAAGTTAATTAGGTTAGGG-TTTTTAAATTTA-GG
*
53037154 TTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGG
1 -TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAATTTA-GG
*
53037199 TTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTTAAGG
1 -TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAATTT-AGG
53037244 TTTAGGG-TTTTAA-TTAAATTAGGTTAGGGTTTTTTATTTAA-TTAGG
1 -TTAGGGTTTTTAAGTT-AATTAGGTTAGGG-TTTTTA---AATTTAGG
* * *
53037290 TTAAGGTTTTTAAG-T--TTAGGGTTTAGGATTTTTAATTAAATTAGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTT-A--AATTTAGG
* *
53037335 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAA---ATTTAGG
* *** *
53037381 TTAAGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAA---ATTTAGG
* *** *
53037427 TTAAGGTTTTTAAGTTAAGCGGGTTAGGGTTTTTAAGTTTAGAG
1 TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAATTTAG-G
* * * *
53037471 TTTAGGGTTTTTAATTTAATTAGTTTAGGGGTTTTAATTTAATTAGG
1 -TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAA---ATTTAGG
*
53037518 TTAGGGTTTTTAAG---ATTAGGGTTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTT-A--AATTTAGG
53037563 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTT-AATTTAATTGGG
1 TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAATTT-A---GG
* *
53037609 TTAGGGTTTTTAAG-T--TTAGGGTTTAAGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTT-A--AATTTAGG
* *
53037654 TTAGGATTTTTAA-TTAAATTAGGTTAGGGTTTTGAGTTAA-TTAGG
1 TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTT---TAAATTTAGG
* * *
53037699 TTAAGGTTTTTAAG-T--TTAGGGTTTAGGGTTTTTAATTAAATTGGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTT-A--AATTTAGG
* *
53037744 TTAGGGTTTTTAAG-T--TTAGGGTTTAAGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTT-A--AATTTAGG
* * *
53037789 TTAGGGTTTCTAAG-T--TTAGGGTTTAAGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTT-A--AATTTAGG
* * *
53037834 TTAGAGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTCAGGG
1 TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAATTTA-GG
* * *
53037878 TTTAAGGTTTTTAA-TTAAATTAGGTTAGAGTTTTTAATTTAATTAGG
1 -TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAA---ATTTAGG
* * *
53037925 TTAGGGTTTTTAAGTTAATTAAGTTAGGGTTTTTAAGTTAAAAGGG
1 TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAATT--TA-GG
53037971 TTAGGGTTTTTAAGTT
1 TTAGGGTTTTTAAGTT
53037987 TAGGGTTTAA
Statistics
Matches: 735, Mismatches: 65, Indels: 152
0.77 0.07 0.16
Matches are distributed among these distances:
41 1 0.00
42 11 0.01
43 24 0.03
44 74 0.10
45 348 0.47
46 233 0.32
47 17 0.02
48 22 0.03
49 5 0.01
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (43 bp):
TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAATTTAGG
Found at i:53037279 original size:68 final size:67
Alignment explanation
Indices: 53037065--53038030 Score: 657
Period size: 68 Copynumber: 14.2 Consensus size: 67
53037055 GGTTTAGGAT
* *
53037065 TTAGGGTTTTTAATTAAATTAAGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTT-AA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-ATAAGGTTAGGG-TTTTAA-TTAAA
**
53037129 -GGGG
63 TTAGG
* *
53037133 TT-GGGATTTTT-A--AATTTAGGGTTTAGGGTTTTTAAGTTAATTAGGTTAGGG-TTT--TTAA
1 TTAGGG-TTTTTAATTAAATTA-GG-TTAGGGTTTTTAAGTT-ATAAGGTTAGGGTTTTAATTAA
*
53037191 GTTTAGGG
62 -ATTA-GG
53037199 TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-TAAGGTTTAGGGTTTTAATTAAAT
1 -TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTATAAGG-TTAGGGTTTTAATTAAAT
53037263 TAGG
64 TAGG
* * * * *
53037267 TTAGGGTTTTTTATTTAATTAGGTTAAGGTTTTTAAGTT-TAGGGTTTAGGATTTTTAATTAAAT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTATAAGG-TTAGG-GTTTTAATTAAAT
53037331 TAGG
64 TAGG
* * *
53037335 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAAGGTTTTTAAGTT-AA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-ATAAGGTT-AGGGTTTTAA-TTAAA
***
53037399 GGGGG
63 TTAGG
* *
53037404 TTAGGGTTTTTAAGTT-AATTAGGTTAAGGTTTTTAAGTTA-AGCGGGTTAGGG-TTT--TTAAG
1 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTATA--AGGTTAGGGTTTTAATTAA-
*
53037464 TTTAGAG
62 ATTAG-G
* * * * *
53037471 TTTAGGGTTTTTAATTTAATTAGTTTAGGGGTTTTAATTTAATTAGGTTAGGG-TTT--TTAAGA
1 -TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-ATAAGGTTAGGGTTTTAATTAA-A
53037533 TTAGGG
63 TTA-GG
* *
53037539 TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAATTTA
1 -TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT--ATAAGGTTAGGG-TTTTAATTAA
*
53037603 ATTGGG
62 ATTAGG
* * * *
53037609 TTAGGGTTTTTAAGT---TTAGGGTTTAAGGTTTTTAA-TTAAATTAGGTTAGGATTTTTAATTA
1 TTAGGGTTTTTAATTAAATTA-GG-TTAGGGTTTTTAAGTT--ATAAGGTTAGG-GTTTTAATTA
53037670 AATTAGG
61 AATTAGG
* * * *
53037677 TTAGGGTTTTGAGTT-AATTAGGTTAAGGTTTTTAAGTT-TAGGGTTTAGGGTTTTTAATTAAAT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTATAAGG-TTAGGG-TTTTAATTAAAT
*
53037740 TGGG
64 TAGG
* * * *
53037744 TTAGGGTTTTTAAGT---TTAGGGTTTAAGGTTTTTAA-TTAAATTAGGTTAGGGTTTCTAAGT-
1 TTAGGGTTTTTAATTAAATTA-GG-TTAGGGTTTTTAAGTT--ATAAGGTTAGGGTTT-TAATTA
53037804 --TTAGGG
61 AATTA-GG
* * * *
53037810 TTTAAGGTTTTTAATTAAATTAGGTTAGAGTTTTTAA-TTAAATTAGGTTAGGG-TTT--TTAAG
1 -TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT--ATAAGGTTAGGGTTTTAATTAAA
53037871 TTCAGGG
63 TT-A-GG
* * * *
53037878 TTTAAGGTTTTTAATTAAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTT-A
1 -TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-ATAAGGTTAGGG-TTTTAA-TTAA
*
53037942 ATTAAG
62 ATTAGG
* *
53037948 TTAGGGTTTTTAAGTTAAA--AGGGTTAGGGTTTTTAAGTT-TAGGGTTTAAGGTTTTTAATTAA
1 TTAGGGTTTTTAA-TTAAATTA-GGTTAGGGTTTTTAAGTTATAAGG-TT-AGGGTTTTAATTAA
53038010 ATTAGG
62 ATTAGG
*
53038016 TTAAGGTTTTTAATT
1 TTAGGGTTTTTAATT
53038031 TAAGGGTATT
Statistics
Matches: 753, Mismatches: 74, Indels: 143
0.78 0.08 0.15
Matches are distributed among these distances:
62 2 0.00
63 1 0.00
64 3 0.00
65 14 0.02
66 21 0.03
67 174 0.23
68 372 0.49
69 115 0.15
70 39 0.05
71 4 0.01
72 6 0.01
73 2 0.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (67 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTATAAGGTTAGGGTTTTAATTAAATTA
GG
Found at i:53037375 original size:28 final size:23
Alignment explanation
Indices: 53037002--53038030 Score: 835
Period size: 23 Copynumber: 45.1 Consensus size: 23
53036992 AAGTAAAATT
* *
53037002 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
53037025 ATTAAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
**
53037048 AGTTTAGGGTTTAGGATTTAGGGTTTTTA
1 A--TTA--AATTAGG--TTAGGGTTTTTA
*
53037077 ATTAAATTAAGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
53037100 AGTT-AATTAGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
**
53037123 AGTT-AA-GGGGTT-GGGATTTTT-
1 A-TTAAATTAGGTTAGGG-TTTTTA
*
53037144 A--AATTTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
53037167 AGTT-AATTAGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
53037190 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
53037212 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
53037235 AGTT---TAAGGTTTAGGG-TTTTA
1 A-TTAAATTAGG-TTAGGGTTTTTA
*
53037256 ATTAAATTAGGTTAGGGTTTTTT
1 ATTAAATTAGGTTAGGGTTTTTA
* *
53037279 ATTTAATTAGGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
53037302 AGT---TTAGGGTTTAGGATTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
53037324 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
53037347 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
53037370 AGTT-AATTAGGTTAAGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
***
53037393 AGTT-AAGGGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
53037416 AGTT-AATTAGGTTAAGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
***
53037439 AGTT-AAGCGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
53037462 AGT---TTAGAGTTTAGGGTTTTTA
1 ATTAAATTAG-G-TTAGGGTTTTTA
* * *
53037484 ATTTAATTAGTTTAGGGGTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
53037507 ATTTAATTAGGTTAGGGTTTTT-
1 ATTAAATTAGGTTAGGGTTTTTA
*
53037529 A--AGATTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
53037552 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
53037575 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
53037598 ATTTAATTGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
53037621 AGT---TTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
53037643 ATTAAATTAGGTTAGGATTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
53037666 ATTAAATTAGGTTAGGGTTTTGA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
53037689 GTT-AATTAGGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
53037711 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
53037733 ATTAAATTGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
53037756 AGT---TTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
53037778 ATTAAATTAGGTTAGGGTTTCTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
53037801 AGT---TTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
53037823 ATTAAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
53037846 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* * *
53037869 AGTT-CA--GGGTTTAAGGTTTTTA
1 A-TTAAATTAGG-TTAGGGTTTTTA
*
53037891 ATTAAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
53037914 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
53037937 AGTT-AATTAAGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
53037960 AGTTAAA--AGGGTTAGGGTTTTTA
1 A-TTAAATTA-GGTTAGGGTTTTTA
* *
53037983 AGT---TTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
53038005 ATTAAATTAGGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
53038028 ATT
1 ATT
53038031 TAAGGGTATT
Statistics
Matches: 828, Mismatches: 100, Indels: 156
0.76 0.09 0.14
Matches are distributed among these distances:
19 1 0.00
20 23 0.03
21 39 0.05
22 179 0.22
23 494 0.60
24 32 0.04
25 40 0.05
27 8 0.01
29 12 0.01
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (23 bp):
ATTAAATTAGGTTAGGGTTTTTA
Found at i:53038042 original size:23 final size:23
Alignment explanation
Indices: 53037975--53038042 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
53037965 AAAGGGTTAG
53037975 GGTTTTTAAGTTT-AGGGT-TTAA
1 GGTTTTTAA-TTTAAGGGTATTAA
**
53037997 GGTTTTTAA-TTAA-ATTAGGTTAA
1 GGTTTTTAATTTAAGGGTA--TTAA
53038020 GGTTTTTAATTTAAGGGTATTAA
1 GGTTTTTAATTTAAGGGTATTAA
53038043 TGGGTAGTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 9 0.25
23 17 0.47
24 4 0.11
25 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (23 bp):
GGTTTTTAATTTAAGGGTATTAA
Found at i:53038106 original size:25 final size:25
Alignment explanation
Indices: 53038076--53038123 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
53038066 TATCAAAAAT
53038076 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
53038101 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
53038124 TATTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:53039253 original size:7 final size:7
Alignment explanation
Indices: 53039241--53039265 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53039231 TTATATAAAT
53039241 AATACTA
1 AATACTA
53039248 AATACTA
1 AATACTA
53039255 AATACTA
1 AATACTA
53039262 AATA
1 AATA
53039266 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:53039450 original size:20 final size:20
Alignment explanation
Indices: 53039413--53039450 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
53039403 TTTATTTTTA
*
53039413 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
53039433 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
53039451 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:53040370 original size:12 final size:11
Alignment explanation
Indices: 53040345--53040386 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
53040335 ATTTTTACGG
*
53040345 TTTAAAAAAAT
1 TTTAAAAATAT
53040356 TTTAAAAATATT
1 TTTAAAAATA-T
*
53040368 TTTAAAATTAT
1 TTTAAAAATAT
53040379 TTTAAAAA
1 TTTAAAAA
53040387 AGGGAGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:53040426 original size:21 final size:22
Alignment explanation
Indices: 53040384--53040426 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
53040374 ATTATTTTAA
* *
53040384 AAAAGGGAGTTAAGAGGAATTT
1 AAAAGGAACTTAAGAGGAATTT
53040406 AAAAGGAACTTAAGA-GAATTT
1 AAAAGGAACTTAAGAGGAATTT
53040427 TTGAAGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.49, C:0.02, G:0.26, T:0.23
Consensus pattern (22 bp):
AAAAGGAACTTAAGAGGAATTT
Found at i:53044905 original size:23 final size:23
Alignment explanation
Indices: 53044879--53044997 Score: 148
Period size: 23 Copynumber: 5.2 Consensus size: 23
53044869 ATAAGTGCCA
*
53044879 CACTGATATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
53044902 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * * *
53044925 CACTAAAATGTTGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
53044948 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
53044971 CATTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
53044994 CACT
1 CACT
53044998 AATCAATAAC
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:53044966 original size:46 final size:46
Alignment explanation
Indices: 53044886--53044997 Score: 170
Period size: 46 Copynumber: 2.4 Consensus size: 46
53044876 CCACACTGAT
*
53044886 ATGTAGCCGAAGTTACCACTGATACGTAGCCGTAGCTACCACTAAA
1 ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTAAA
* * * * *
53044932 ATGTTGCTGAAGCTACCACTGATATGTAGCCGTAGCTACCATTGAA
1 ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTAAA
53044978 ATGTAGCCGAAGCTACCACT
1 ATGTAGCCGAAGCTACCACT
53044998 AATCAATAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTAAA
Found at i:53045014 original size:69 final size:68
Alignment explanation
Indices: 53044879--53045014 Score: 148
Period size: 69 Copynumber: 2.0 Consensus size: 68
53044869 ATAAGTGCCA
* * * ** **
53044879 CACTGATATGTAGCCGAAGTTACCACTGATACGTAGCCGTAGCTACCACTAAAATGTTGCTGAAG
1 CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTACCACTAAAA-GTAACACAAG
53044944 CTAC
65 CTAC
* * *
53044948 CACTGATATGTAGCCGTAGCTACCATTGAAATGTAGCCGAAGCTACCACTAATCAA-TAACACAA
1 CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTACCACTAA--AAGTAACACAA
53045012 GCT
64 GCT
53045015 GTTAGGTATC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
69 53 0.96
71 2 0.04
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (68 bp):
CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTACCACTAAAAGTAACACAAGC
TAC
Found at i:53046887 original size:11 final size:11
Alignment explanation
Indices: 53046873--53046910 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
53046863 ATTGTTTGAT
53046873 TTTTATAGAAA
1 TTTTATAGAAA
*
53046884 TTTTACAGAAA
1 TTTTATAGAAA
53046895 TTTTATAGAAA
1 TTTTATAGAAA
53046906 TTTTA
1 TTTTA
53046911 ATACAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (11 bp):
TTTTATAGAAA
Found at i:53050364 original size:18 final size:18
Alignment explanation
Indices: 53050341--53050388 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
53050331 AAAATTTGAG
* *
53050341 AAATGATGTTCATATTTT
1 AAATGATGTTCACATTTC
53050359 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
53050377 AAATGATGTTCA
1 AAATGATGTTCA
53050389 AATTGATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:53050913 original size:72 final size:72
Alignment explanation
Indices: 53050813--53050984 Score: 260
Period size: 72 Copynumber: 2.4 Consensus size: 72
53050803 AACAACAATG
* * *
53050813 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTGTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
53050877 ATTTATGA
66 ATTTAT-A
* *
53050885 GT-AATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
53050949 ATTTATA
66 ATTTATA
*
53050956 CTAAAT-TAATTTTATCAATAGTTGTTTAT
1 CTAAATCTAGTTTTATCAATAGTTGTTTAT
53050985 ATATGATTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
71 25 0.28
72 65 0.72
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.53
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
ATTTATA
Found at i:53065793 original size:30 final size:31
Alignment explanation
Indices: 53065754--53065813 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
53065744 GGAGGTGAGA
*
53065754 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
53065785 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
53065814 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:53066041 original size:9 final size:9
Alignment explanation
Indices: 53066027--53066072 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
53066017 TATAGTTTGA
53066027 TATTCGAAT
1 TATTCGAAT
*
53066036 TATTCGAGT
1 TATTCGAAT
53066045 TATTCGAAT
1 TATTCGAAT
*
53066054 TATTCGAGT
1 TATTCGAAT
53066063 TATTCGAAT
1 TATTCGAAT
53066072 T
1 T
53066073 CGAAAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:53066050 original size:18 final size:18
Alignment explanation
Indices: 53066027--53066072 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
53066017 TATAGTTTGA
53066027 TATTCGAATTATTCGAGT
1 TATTCGAATTATTCGAGT
53066045 TATTCGAATTATTCGAGT
1 TATTCGAATTATTCGAGT
53066063 TATTCGAATT
1 TATTCGAATT
53066073 CGAAAACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (18 bp):
TATTCGAATTATTCGAGT
Done.