Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 78 of 325
Found at i:21919434 original size:27 final size:27
Alignment explanation
Indices: 21919224--21919460 Score: 152
Period size: 27 Copynumber: 8.7 Consensus size: 27
21919214 TGTAGGATAG
* * * *
21919224 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTATAA
* * *
21919251 AATTACCAAAATACCCCTAGTTTATAA
1 AATTACCGAAATACCCTTGGTTTATAA
* *
21919278 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCGAAATACC-CTTGGTTTATAA
*** *
21919305 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCGAAATACCCTTGGTTTATAA
* * ** *
21919332 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTTGGTTTATAA
* * * *
21919359 AATTACAGAAATACCCTCGACTTTCAAAA
1 AATTACCGAAATACCCTTG-GTTT-ATAA
** * *
21919388 AATTATAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTTGGTTTATAA
* * *
21919415 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCGAAATACCCTTGGTTTATAA
* * *
21919442 ATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTG
21919461 TAGGATGAAA
Statistics
Matches: 170, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 143 0.84
28 7 0.04
29 19 0.11
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGGTTTATAA
Found at i:21919514 original size:27 final size:27
Alignment explanation
Indices: 21919482--21919533 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
21919472 GACTAAAATA
21919482 CCCCTAATA-GGTAAAAAGACCGTAAAG
1 CCCCT-ATAGGGTAAAAAGACCGTAAAG
**
21919509 CCCCTATAGGGTAAAGTGACCGTAA
1 CCCCTATAGGGTAAAAAGACCGTAA
21919534 TACCCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:21920403 original size:25 final size:24
Alignment explanation
Indices: 21920365--21920434 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
21920355 AGGAAGTGCT
*
21920365 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
21920389 GAAAAGGGATTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
21920414 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
21920435 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:21920447 original size:24 final size:24
Alignment explanation
Indices: 21920364--21920447 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
21920354 GAGGAAGTGC
* *
21920364 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
21920389 GAAAAGGGATTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
21920413 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
21920437 TAAAAGAGGCT
1 TAAAAG-GGCT
21920448 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 36 0.72
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:21920629 original size:42 final size:42
Alignment explanation
Indices: 21920582--21920828 Score: 458
Period size: 42 Copynumber: 5.9 Consensus size: 42
21920572 TAGTCTCCCC
*
21920582 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21920624 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
* *
21920666 AAATGGGCTTGCATACATTCATTGACATTACATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
21920708 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21920750 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21920792 AAATGGGCTTGCATACATCCATTGACATTACATGTGA
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGA
21920829 AATGGGCTTA
Statistics
Matches: 200, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 200 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:21920894 original size:31 final size:31
Alignment explanation
Indices: 21920859--21920937 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
21920849 CGTTTACAGT
21920859 AAAGGCTTCGGCCCAGTGATAAGATTTATGA
1 AAAGGCTTCGGCCCAGTGATAAGATTTATGA
*
21920890 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATAAGATTTATGA
21920921 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
21920938 ATATGTCAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATAAGATTTATGA
Found at i:21924862 original size:42 final size:42
Alignment explanation
Indices: 21924793--21924940 Score: 138
Period size: 42 Copynumber: 3.5 Consensus size: 42
21924783 TCAGCATAAG
**
21924793 TATGAG-TTATCATGTAAGACCATATCTGGGATATGGCGTTGA
1 TATGAGATT-TCATGTAAGACCATATCTGGGATATGGCGTCAA
* * *
21924835 TATGAGATTTCATGTAATACCACATCTGGGACATGGCGTCAA
1 TATGAGATTTCATGTAAGACCATATCTGGGATATGGCGTCAA
* * * * *
21924877 AATGAGAATTT-GTATAAGACCATATCTGGGATATGGCATCGA
1 TATGAG-ATTTCATGTAAGACCATATCTGGGATATGGCGTCAA
* ** *
21924919 TGTGAGATCCCATATAAGACCA
1 TATGAGATTTCATGTAAGACCA
21924941 CGTTTGTGAC
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
41 2 0.02
42 77 0.91
43 6 0.07
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TATGAGATTTCATGTAAGACCATATCTGGGATATGGCGTCAA
Found at i:21936707 original size:27 final size:27
Alignment explanation
Indices: 21936666--21936729 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
21936656 GTATGCTATC
* *
21936666 AAGGCATTCCTTTCAGAATTTTTCATG
1 AAGGCATTCCCTTCAGAATTTGTCATG
*
21936693 AAGGTATTCCCTTCAGAATTTGTCATG
1 AAGGCATTCCCTTCAGAATTTGTCATG
21936720 AAGGCATTCC
1 AAGGCATTCC
21936730 TCTCGTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
AAGGCATTCCCTTCAGAATTTGTCATG
Found at i:21941365 original size:18 final size:20
Alignment explanation
Indices: 21941347--21941397 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
21941337 GAATAGTAAA
21941347 AATATATAAATTCTAAAAAG
1 AATATATAAATTCTAAAAAG
* * *
21941367 AATAAAATAAAATT-TTAAAAT
1 AAT-ATAT-AAATTCTAAAAAG
21941388 AATATATAAA
1 AATATATAAA
21941398 ATTTGATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 3 0.12
20 6 0.24
21 11 0.44
22 5 0.20
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AATATATAAATTCTAAAAAG
Found at i:21941391 original size:21 final size:20
Alignment explanation
Indices: 21941362--21941401 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21941352 ATAAATTCTA
21941362 AAAAGAATAAAATAAAATTTT
1 AAAAGAAT-AAATAAAATTTT
* *
21941383 AAAATAATATATAAAATTT
1 AAAAGAATAAATAAAATTT
21941402 GATTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAGAATAAATAAAATTTT
Found at i:21941473 original size:25 final size:26
Alignment explanation
Indices: 21941445--21941493 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
21941435 ATATATTAAT
21941445 TATAAAAAATAAA-AATACAAAAATA
1 TATAAAAAATAAATAATACAAAAATA
* * *
21941470 TATATAATATAAATAATTCAAAAA
1 TATAAAAAATAAATAATACAAAAA
21941494 AAAGAGAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (26 bp):
TATAAAAAATAAATAATACAAAAATA
Found at i:21941787 original size:5 final size:5
Alignment explanation
Indices: 21941772--21941803 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
21941762 ATAAAAAGGT
21941772 TTTTC -TTTC TTTTC TTTTC TTTTC TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
21941804 AATCGAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:21942026 original size:22 final size:22
Alignment explanation
Indices: 21942001--21942045 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
21941991 TAAGAAGAAG
21942001 AATGATTTCCTTTCTTGTCGCT
1 AATGATTTCCTTTCTTGTCGCT
21942023 AATGATTTCCTTTCTTGTCGCT
1 AATGATTTCCTTTCTTGTCGCT
21942045 A
1 A
21942046 TTACTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.16, C:0.22, G:0.13, T:0.49
Consensus pattern (22 bp):
AATGATTTCCTTTCTTGTCGCT
Found at i:21947020 original size:21 final size:21
Alignment explanation
Indices: 21946990--21947029 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21946980 AAGAAGGTTT
*
21946990 CGAATCAGTAGATTTTATACA
1 CGAATCAGTAGAATTTATACA
*
21947011 CGAATTAGTAGAATTTATA
1 CGAATCAGTAGAATTTATA
21947030 AATGTGTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (21 bp):
CGAATCAGTAGAATTTATACA
Found at i:21949826 original size:24 final size:24
Alignment explanation
Indices: 21949794--21949841 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
21949784 AATCATAACT
21949794 TAATCAAAATTAATTCTAATAGTG
1 TAATCAAAATTAATTCTAATAGTG
*
21949818 TAATCAAAATTCATTCTAATAGTG
1 TAATCAAAATTAATTCTAATAGTG
21949842 GTATGAGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (24 bp):
TAATCAAAATTAATTCTAATAGTG
Found at i:21950542 original size:13 final size:13
Alignment explanation
Indices: 21950509--21950545 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
21950499 CATTGGTGCA
*
21950509 CACGGCCATGTTG
1 CACGGCCGTGTTG
21950522 CACGGCCGTGTTG
1 CACGGCCGTGTTG
21950535 CACGGCCGTGT
1 CACGGCCGTGT
21950546 CAGTCTTCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.11, C:0.32, G:0.35, T:0.22
Consensus pattern (13 bp):
CACGGCCGTGTTG
Found at i:21954442 original size:12 final size:13
Alignment explanation
Indices: 21954425--21954462 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
21954415 AAACTGGAAT
21954425 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
21954437 ATTAAGAACACATA
1 ATTAAGAACA-AGA
21954451 ATTAAGAACAAG
1 ATTAAGAACAAG
21954463 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:21973477 original size:64 final size:63
Alignment explanation
Indices: 21973376--21973540 Score: 258
Period size: 64 Copynumber: 2.6 Consensus size: 63
21973366 TGAGCTTATA
*
21973376 TAATTTATATAAAAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTGGTAATGTATT
1 TAATTTATAT-AAATAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTGGTAATGTATT
* * *
21973440 TAATTTATATAGAGTAATTTCTATTACAAAGTTTGTTCCAATTAGATTATGGTTGTAATGTATT
1 TAATTTATATA-AATAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTGGTAATGTATT
*
21973504 TAATTTATATAACATAATTTATATTACAAAGGTTGTT
1 TAATTTATATAA-ATAATTTATATTACAAAGTTTGTT
21973541 ACAAGTTTTA
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
63 2 0.02
64 90 0.98
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.45
Consensus pattern (63 bp):
TAATTTATATAAATAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTGGTAATGTATT
Found at i:21976837 original size:206 final size:206
Alignment explanation
Indices: 21976483--21976895 Score: 826
Period size: 206 Copynumber: 2.0 Consensus size: 206
21976473 ATCAAAAGGG
21976483 ATGATTACAATGCTTCATCAGAGTCTCTATTTATAGGCATAAGAAGTATAAAAGAAGTAGAGATC
1 ATGATTACAATGCTTCATCAGAGTCTCTATTTATAGGCATAAGAAGTATAAAAGAAGTAGAGATC
21976548 TAATTCTAATAACTATTAGAATTTAAAGTATACCAAAACTTTATCTTAATCATGATAGACATCCA
66 TAATTCTAATAACTATTAGAATTTAAAGTATACCAAAACTTTATCTTAATCATGATAGACATCCA
21976613 CTTAATAAGATATTCATAACACTCCCCCTTGGATGTCCATTGGTAGATAATGTGCCTCGTTAAAA
131 CTTAATAAGATATTCATAACACTCCCCCTTGGATGTCCATTGGTAGATAATGTGCCTCGTTAAAA
21976678 CCTTATTAGGA
196 CCTTATTAGGA
21976689 ATGATTACAATGCTTCATCAGAGTCTCTATTTATAGGCATAAGAAGTATAAAAGAAGTAGAGATC
1 ATGATTACAATGCTTCATCAGAGTCTCTATTTATAGGCATAAGAAGTATAAAAGAAGTAGAGATC
21976754 TAATTCTAATAACTATTAGAATTTAAAGTATACCAAAACTTTATCTTAATCATGATAGACATCCA
66 TAATTCTAATAACTATTAGAATTTAAAGTATACCAAAACTTTATCTTAATCATGATAGACATCCA
21976819 CTTAATAAGATATTCATAACACTCCCCCTTGGATGTCCATTGGTAGATAATGTGCCTCGTTAAAA
131 CTTAATAAGATATTCATAACACTCCCCCTTGGATGTCCATTGGTAGATAATGTGCCTCGTTAAAA
21976884 CCTTATTAGGA
196 CCTTATTAGGA
21976895 A
1 A
21976896 AAACCCTGTG
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
206 207 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (206 bp):
ATGATTACAATGCTTCATCAGAGTCTCTATTTATAGGCATAAGAAGTATAAAAGAAGTAGAGATC
TAATTCTAATAACTATTAGAATTTAAAGTATACCAAAACTTTATCTTAATCATGATAGACATCCA
CTTAATAAGATATTCATAACACTCCCCCTTGGATGTCCATTGGTAGATAATGTGCCTCGTTAAAA
CCTTATTAGGA
Found at i:21980789 original size:51 final size:51
Alignment explanation
Indices: 21980713--21980813 Score: 202
Period size: 51 Copynumber: 2.0 Consensus size: 51
21980703 TTTAAAGTAT
21980713 ACCAAAACTTTATCTTAATCATGATGAACATTCACTTAATAAGATATTCAC
1 ACCAAAACTTTATCTTAATCATGATGAACATTCACTTAATAAGATATTCAC
21980764 ACCAAAACTTTATCTTAATCATGATGAACATTCACTTAATAAGATATTCA
1 ACCAAAACTTTATCTTAATCATGATGAACATTCACTTAATAAGATATTCA
21980814 TAGCACATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.34
Consensus pattern (51 bp):
ACCAAAACTTTATCTTAATCATGATGAACATTCACTTAATAAGATATTCAC
Found at i:21982324 original size:15 final size:15
Alignment explanation
Indices: 21982284--21982324 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
21982274 ATACTTATAT
21982284 TATTTTAATTTAATA
1 TATTTTAATTTAATA
**
21982299 TATAATAATTTAATA
1 TATTTTAATTTAATA
*
21982314 TATTTTTATTT
1 TATTTTAATTT
21982325 GGTGAATTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTTAATTTAATA
Found at i:21984166 original size:13 final size:13
Alignment explanation
Indices: 21984148--21984172 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21984138 ACTTGTAAAA
21984148 ATAGTAAAATTTC
1 ATAGTAAAATTTC
21984161 ATAGTAAAATTT
1 ATAGTAAAATTT
21984173 ATCAAATGAT
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:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (13 bp):
ATAGTAAAATTTC
Found at i:21984785 original size:26 final size:26
Alignment explanation
Indices: 21984755--21984874 Score: 222
Period size: 26 Copynumber: 4.6 Consensus size: 26
21984745 CGTTTCGACC
21984755 CGCAGCTCGTGTGAGCTGGCCCATTT
1 CGCAGCTCGTGTGAGCTGGCCCATTT
*
21984781 TGCAGCTCGTGTGAGCTGGCCCATTT
1 CGCAGCTCGTGTGAGCTGGCCCATTT
21984807 CGCAGCTCGTGTGAGCTGGCCCATTT
1 CGCAGCTCGTGTGAGCTGGCCCATTT
21984833 CGCAGCTCGTGTGAGCTGGCCCATTT
1 CGCAGCTCGTGTGAGCTGGCCCATTT
*
21984859 CACAGCTCGTGTGAGC
1 CGCAGCTCGTGTGAGC
21984875 AATGATGTAA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 91 1.00
ACGTcount: A:0.12, C:0.30, G:0.31, T:0.27
Consensus pattern (26 bp):
CGCAGCTCGTGTGAGCTGGCCCATTT
Found at i:21989382 original size:12 final size:12
Alignment explanation
Indices: 21989365--21989389 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21989355 ATATTTTTTA
21989365 AAAATGAATTTG
1 AAAATGAATTTG
21989377 AAAATGAATTTG
1 AAAATGAATTTG
21989389 A
1 A
21989390 TTCAACTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
AAAATGAATTTG
Found at i:21992394 original size:17 final size:18
Alignment explanation
Indices: 21992362--21992395 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21992352 CAAGTTTGAT
*
21992362 TAAAACTTTTAGAATTTA
1 TAAAACTTTTAAAATTTA
21992380 TAAAA-TTTTAAAATTT
1 TAAAACTTTTAAAATTT
21992396 TTGCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
TAAAACTTTTAAAATTTA
Found at i:22001415 original size:13 final size:14
Alignment explanation
Indices: 22001394--22001428 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
22001384 TTACAGAATC
22001394 AAATGAAATTAT-T
1 AAATGAAATTATCT
*
22001407 AAATTAAATTATCT
1 AAATGAAATTATCT
22001421 AAATGAAA
1 AAATGAAA
22001429 ACTCTACACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (14 bp):
AAATGAAATTATCT
Found at i:22001853 original size:18 final size:18
Alignment explanation
Indices: 22001827--22001861 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22001817 CACCAAAAAA
22001827 AAAAAAAAAAGAGAAGAG
1 AAAAAAAAAAGAGAAGAG
*
22001845 AAAAGAAAAAGAGAAGA
1 AAAAAAAAAAGAGAAGA
22001862 ATAAACTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAGAGAAGAG
Found at i:22003302 original size:92 final size:92
Alignment explanation
Indices: 22003133--22003450 Score: 340
Period size: 92 Copynumber: 3.5 Consensus size: 92
22003123 CTTTGGAGGT
* * * *
22003133 TCTAGCGTGATATTGGTTGGAATAGCTCTTATGAACAAAAT-AGCTTGTTATC-GGGGAAGAATA
1 TCTAACGTGATATTGGTTGGAATAGCTCTTATGAGCAAACTGA-CGTGTTATCAGGGG-AGAATA
22003196 TTTAGCCTACGGGCTTTGCACTATGTGCA
64 TTTAGCCTACGGGCTTTGCACTATGTGCA
*
22003225 TCTAACGTGTTATTGGTTGGAATAGCTCTTATGAGCAAACTGACGTGTTA-CAGGAGGAGAATAT
1 TCTAACGTGATATTGGTTGGAATAGCTCTTATGAGCAAACTGACGTGTTATCAGG-GGAGAATAT
* * * *
22003289 TTATCCTATGGGCTTTGTATTATGTGCA
65 TTAGCCTACGGGCTTTGCACTATGTGCA
* *** * * * * * * *
22003317 TTTGGTGTGATATCGGCTGGAATAGCTCTTATGGGAAAATTGGCGTGTTATTA-GGGAGAATATT
1 TCTAACGTGATATTGGTTGGAATAGCTCTTATGAGCAAACTGACGTGTTATCAGGGGAGAATATT
22003381 TAGCCTACGGGCTTTGCACTATGTGCA
66 TAGCCTACGGGCTTTGCACTATGTGCA
* * ** *
22003408 TCTAACGTGTTATTGAG-GGGAATAATTCTTATGAGCAATCTGA
1 TCTAACGTGATATTG-GTTGGAATAGCTCTTATGAGCAAACTGA
22003451 TGTATTATTA
Statistics
Matches: 182, Mismatches: 39, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
91 61 0.34
92 117 0.64
93 4 0.02
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (92 bp):
TCTAACGTGATATTGGTTGGAATAGCTCTTATGAGCAAACTGACGTGTTATCAGGGGAGAATATT
TAGCCTACGGGCTTTGCACTATGTGCA
Found at i:22007624 original size:50 final size:51
Alignment explanation
Indices: 22007532--22007632 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 51
22007522 AAGTAGAAAT
* * **
22007532 GACGCCGAAGAATCCTGGGGACCTAAAACGATTATCCGGTAACCAAGTAAA
1 GACGCAGAAGAATCCTGGGGACCTAAAACGACTATCAAGTAACCAAGTAAA
*
22007583 GACGCAGAAGAATCCT-GGGACCTAAAATGACTATCAAGTAACCAAGTAAA
1 GACGCAGAAGAATCCTGGGGACCTAAAACGACTATCAAGTAACCAAGTAAA
22007633 CAACTTATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 30 0.67
51 15 0.33
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.16
Consensus pattern (51 bp):
GACGCAGAAGAATCCTGGGGACCTAAAACGACTATCAAGTAACCAAGTAAA
Found at i:22008033 original size:27 final size:27
Alignment explanation
Indices: 22008003--22008064 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
22007993 CGAAAGTAAA
**
22008003 GAAAAAGAAAACAA-AGAAAATTAAAAT
1 GAAAAAGAAAACAATA-AAAAGAAAAAT
22008030 GAAAAA-AGAAACAATAAAAAGAAAAAT
1 GAAAAAGA-AAACAATAAAAAGAAAAAT
22008057 -AAAAAGAA
1 GAAAAAGAA
22008065 GAAGGAACGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
26 7 0.23
27 22 0.73
28 1 0.03
ACGTcount: A:0.77, C:0.03, G:0.11, T:0.08
Consensus pattern (27 bp):
GAAAAAGAAAACAATAAAAAGAAAAAT
Found at i:22008039 original size:19 final size:20
Alignment explanation
Indices: 22008004--22008055 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
22007994 GAAAGTAAAG
*
22008004 AAAAAGAAAACAAAGAAA-ATT
1 AAAAAG-AAA-AAAGAAACAAT
*
22008025 AAAATGAAAAAAGAAACAAT
1 AAAAAGAAAAAAGAAACAAT
22008045 AAAAAGAAAAA
1 AAAAAGAAAAA
22008056 TAAAAAGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.79, C:0.04, G:0.10, T:0.08
Consensus pattern (20 bp):
AAAAAGAAAAAAGAAACAAT
Found at i:22008048 original size:13 final size:12
Alignment explanation
Indices: 22008032--22008064 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
22008022 ATTAAAATGA
22008032 AAAAAGAAACAAT
1 AAAAAGAAA-AAT
22008045 AAAAAGAAAAAT
1 AAAAAGAAAAAT
22008057 AAAAAGAA
1 AAAAAGAA
22008065 GAAGGAACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.82, C:0.03, G:0.09, T:0.06
Consensus pattern (12 bp):
AAAAAGAAAAAT
Found at i:22009549 original size:21 final size:21
Alignment explanation
Indices: 22009511--22009554 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22009501 ATTTTTATCA
*
22009511 AAACAAAAGCCTAAAAAATAC
1 AAACAAAAGCCTAAAAAACAC
*
22009532 AAACAAGAGCC-AAGAAAACAC
1 AAACAAAAGCCTAA-AAAACAC
22009553 AA
1 AA
22009555 CCCGAGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.66, C:0.20, G:0.09, T:0.05
Consensus pattern (21 bp):
AAACAAAAGCCTAAAAAACAC
Found at i:22013229 original size:6 final size:6
Alignment explanation
Indices: 22013218--22013281 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
22013208 ATCGAAAGTC
* *
22013218 AAGAAA AAG-AA AA-ACA AAGAAA ATGAAA AAGAAAA AAGAAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AAG-AAA AAGAAA
* *
22013266 TAGAAA AATAAA AAGA
1 AAGAAA AAGAAA AAGA
22013282 GGAAGGAACG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
5 7 0.15
6 27 0.57
7 13 0.28
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.05
Consensus pattern (6 bp):
AAGAAA
Found at i:22013230 original size:22 final size:22
Alignment explanation
Indices: 22013220--22013273 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
22013210 CGAAAGTCAA
22013220 GAAAAAGAAAAACAAAGAAAAT
1 GAAAAAGAAAAACAAAGAAAAT
22013242 GAAAAAGAAAAA-AGAA-AAAA-
1 GAAAAAGAAAAACA-AAGAAAAT
*
22013262 GAAATAGAAAAA
1 GAAAAAGAAAAA
22013274 TAAAAAGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 11 0.37
21 5 0.17
22 14 0.47
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.04
Consensus pattern (22 bp):
GAAAAAGAAAAACAAAGAAAAT
Found at i:22013271 original size:26 final size:28
Alignment explanation
Indices: 22013218--22013281 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
22013208 ATCGAAAGTC
22013218 AAGAAAAAGAAAAACAAAGAAAATGAAA
1 AAGAAAAAGAAAAACAAAGAAAATGAAA
*
22013246 AAGAAAAA-AGAAA-AAAG-AAATAGAAA
1 AAGAAAAAGAAAAACAAAGAAAAT-GAAA
*
22013272 AATAAAAAGA
1 AAGAAAAAGA
22013282 GGAAGGAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 4 0.12
26 15 0.47
27 5 0.16
28 8 0.25
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.05
Consensus pattern (28 bp):
AAGAAAAAGAAAAACAAAGAAAATGAAA
Found at i:22019655 original size:66 final size:68
Alignment explanation
Indices: 22019579--22019765 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
22019569 TAGTACCACT
*
22019579 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
22019641 CACG
65 CACG
22019645 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
22019710 ATCACG
63 ATCACG
22019716 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
22019766 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:22019690 original size:71 final size:71
Alignment explanation
Indices: 22019602--22019765 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22019592 CGATTTGTCT
22019602 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22019667 CTTTCA
66 CTTTCA
22019673 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22019738 CTTTCA
66 CTTTCA
22019744 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
22019766 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:22019803 original size:71 final size:70
Alignment explanation
Indices: 22019602--22019799 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
22019592 CGATTTGTCT
* * *
22019602 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22019667 CTTTCA
65 CTTTCA
* * *
22019673 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22019738 CTTTCA
65 CTTTCA
* *
22019744 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
22019800 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:22027221 original size:66 final size:68
Alignment explanation
Indices: 22027145--22027331 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
22027135 TAGTACCACT
*
22027145 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
22027207 CACG
65 CACG
22027211 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
22027276 ATCACG
63 ATCACG
22027282 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
22027332 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:22027256 original size:71 final size:71
Alignment explanation
Indices: 22027168--22027331 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22027158 CGATTTGTCT
22027168 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22027233 CTTTCA
66 CTTTCA
22027239 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22027304 CTTTCA
66 CTTTCA
22027310 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
22027332 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:22027369 original size:71 final size:70
Alignment explanation
Indices: 22027168--22027365 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
22027158 CGATTTGTCT
* * *
22027168 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22027233 CTTTCA
65 CTTTCA
* * *
22027239 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22027304 CTTTCA
65 CTTTCA
* *
22027310 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
22027366 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:22029957 original size:59 final size:60
Alignment explanation
Indices: 22029861--22029993 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
22029851 GACAAGATTG
* * *
22029861 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
22029921 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
22029980 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
22029994 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:22030006 original size:29 final size:29
Alignment explanation
Indices: 22029891--22029993 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
22029881 AAAATTGTAC
*
22029891 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
22029920 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
22029950 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
22029979 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22029994 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:22037491 original size:59 final size:59
Alignment explanation
Indices: 22037382--22037513 Score: 194
Period size: 59 Copynumber: 2.2 Consensus size: 59
22037372 GACAAGATTG
* * *
22037382 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCAACTGAAAATATATA
* * *
22037441 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGC-AACTGAAAATATATA
22037500 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
22037514 GATTCACTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 23 0.35
59 43 0.65
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (59 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCAACTGAAAATATATA
Found at i:22037526 original size:29 final size:29
Alignment explanation
Indices: 22037412--22037513 Score: 179
Period size: 30 Copynumber: 3.5 Consensus size: 29
22037402 AAAATTGTAC
*
22037412 AGCACTAAGTGTGC-AACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
22037440 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
22037470 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
22037499 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22037514 GATTCACTAT
Statistics
Matches: 71, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
28 14 0.20
29 28 0.39
30 29 0.41
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:22040843 original size:3 final size:3
Alignment explanation
Indices: 22040835--22040887 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
22040825 TTACTATGTT
22040835 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22040883 ATA AT
1 ATA AT
22040888 TTATCTTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22046313 original size:48 final size:48
Alignment explanation
Indices: 22046242--22046610 Score: 288
Period size: 48 Copynumber: 7.6 Consensus size: 48
22046232 ACAGAGAGCC
* *
22046242 AGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTCATATGTGTGCT
* ** *
22046290 AGTGTAATACCATGTCTGGGACATGGCATCGG-CCACATTATGAGAT-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTCA-TATGTG-TGCT
* * *
22046338 AATGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTCATATGTGTGCT
* * ** * * *
22046386 CGTATAAGACCATGTCTGGGACATGGCATCGG-CCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTCA-TATGTGTGCT
* * * * *
22046434 AGTGTAAGACCATGTCTGAGACATGGCATCAG-CCTCAATATGCGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTC-ATATGTGTGCT
* * * *
22046482 AGTGTAAGACCATGTTTGGAACATGGCATC-GACATTGTTATATGTGT-C-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTC--T-TCATATGTGTGCT
* * * * *
22046530 AGTGTAAGACCATTTTTGGGACATGGCATCGGTAC--CAATGTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGT-CTTC-A--TATGTGTGCT
* *
22046580 ACTGTAAGACCATGTCCGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
22046611 ACATTTTACC
Statistics
Matches: 257, Mismatches: 47, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
46 1 0.00
47 4 0.02
48 211 0.82
49 6 0.02
50 34 0.13
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTCATATGTGTGCT
Found at i:22046408 original size:96 final size:96
Alignment explanation
Indices: 22046235--22046512 Score: 385
Period size: 96 Copynumber: 2.9 Consensus size: 96
22046225 AGATGTTACA
* * * *
22046235 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCTAGTGTAATAC
1 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCTAGTATAAGAC
22046300 CATGTCTGGGACATGGCATCGGCCACATTAT
66 CATGTCTGGGACATGGCATCGGCCACATTAT
* * *
22046331 GAGATCTAATGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCTCGTATAAGAC
1 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCTAGTATAAGAC
22046396 CATGTCTGGGACATGGCATCGGCCACATTAT
66 CATGTCTGGGACATGGCATCGGCCACATTAT
* * * ** ** * * *
22046427 GAGAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCAATATGCGAGCTAGTGTAAGAC
1 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCTAGTATAAGAC
* *
22046492 CATGTTTGGAACATGGCATCG
66 CATGTCTGGGACATGGCATCG
22046513 ACATTGTTAT
Statistics
Matches: 160, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 160 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (96 bp):
GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCTAGTATAAGAC
CATGTCTGGGACATGGCATCGGCCACATTAT
Found at i:22046506 original size:144 final size:144
Alignment explanation
Indices: 22046241--22046609 Score: 438
Period size: 144 Copynumber: 2.5 Consensus size: 144
22046231 TACAGAGAGC
* *** * * * *
22046241 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGA-TATGTGTGCTAGTGTAATACCATGT
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGT-CCAATTATGAGAGCCAGTGTAAGACCATGT
* * * * *
22046305 CTGGGACATGGCATCGGCCACATTATGAGATCTAATGTAAGACCATGTCTGGGACATGGCATCGG
65 CTGGGACATGGCATCAGCCACAATATGAGAGCTAATGTAAGACCATGTCTGGAACATGGCATCGA
* *
22046370 TATTGATATGTGTGCT
130 CATTGATATATGTG-T
22046386 C-GTATAAGACCATGTCTGGGACATGGCATCGG-CCACATTATGAGAGCCAGTGTAAGACCATGT
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGTCCA-ATTATGAGAGCCAGTGTAAGACCATGT
* * * * *
22046449 CTGAGACATGGCATCAGCCTCAATATGCGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGA
65 CTGGGACATGGCATCAGCCACAATATGAGAGCTAATGTAAGACCATGTCTGGAACATGGCATCGA
*
22046514 CATTGTTATATGTGT
130 CATTGATATATGTGT
* * * *
22046529 CAGTGTAAGACCATTTTTGGGACATGGCATCGGTACCAATGTATGAGAGCCACTGTAAGACCATG
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGT-CCAAT-TATGAGAGCCAGTGTAAGACCATG
*
22046594 TCCGGGACATGGCATC
64 TCTGGGACATGGCATC
22046610 GACATTTTAC
Statistics
Matches: 191, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
143 3 0.02
144 145 0.76
145 3 0.02
146 40 0.21
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (144 bp):
CAGTATAAGACCATGTCTGGGACATGGCATCGGTCCAATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCCACAATATGAGAGCTAATGTAAGACCATGTCTGGAACATGGCATCGAC
ATTGATATATGTGT
Found at i:22046533 original size:96 final size:95
Alignment explanation
Indices: 22046241--22046610 Score: 377
Period size: 96 Copynumber: 3.8 Consensus size: 95
22046231 TACAGAGAGC
* ** * *
22046241 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCTAGTGTAATACCATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTCTCAATATGTGAGCTAGTGTAAGACCATGTC
* *
22046306 TGGGACATGGCATCGGCCACATTATGAGAT
66 TGGGACATGGCATCGGACACATTATGAGGT
* * ** * * *
22046336 CTAATGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCTCGTATAAGACCATGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGTCTCAATATGTGAGCTAGTGTAAGACCATGT
* *
22046401 CTGGGACATGGCATCGGCCACATTATGAGAGC
65 CTGGGACATGGCATCGGACACATTATGAG-GT
* * * * *
22046433 CAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCAATATGCGAGCTAGTGTAAGACCATGTT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTCTCAATATGTGAGCTAGTGTAAGACCATGTC
* **
22046498 TGGAACATGGCATC-GACATTGTTAT-ATGTGT
66 TGGGACATGGCATCGGACA-CATTATGA-G-GT
* * * * *
22046529 CAGTGTAAGACCATTTTTGGGACATGGCATCGGTAC-CAATGTATGAGAGCCACTGTAAGACCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGT-CTCAA--TATGTGAGCTAGTGTAAGACCAT
*
22046593 GTCCGGGACATGGCATCG
63 GTCTGGGACATGGCATCG
22046611 ACATTTTACC
Statistics
Matches: 231, Mismatches: 36, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
95 5 0.02
96 190 0.82
97 2 0.01
98 34 0.15
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (95 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGTCTCAATATGTGAGCTAGTGTAAGACCATGTC
TGGGACATGGCATCGGACACATTATGAGGT
Found at i:22047100 original size:24 final size:24
Alignment explanation
Indices: 22047073--22047121 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
22047063 AAACTATGTA
22047073 AGCAATAGAATTTCATGTTATGAG
1 AGCAATAGAATTTCATGTTATGAG
22047097 AGCAATAGAATTTCATGTTATGAG
1 AGCAATAGAATTTCATGTTATGAG
22047121 A
1 A
22047122 TATTTCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (24 bp):
AGCAATAGAATTTCATGTTATGAG
Found at i:22048406 original size:30 final size:30
Alignment explanation
Indices: 22048372--22048444 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
22048362 CGGTTGGAGG
22048372 ACACGGGCGTGTGTGATCACAGGGTTGCCC
1 ACACGGGCGTGTGTGATCACAGGGTTGCCC
*
22048402 ACACGGGCGTGTGTGATCACAGGGTTGCCT
1 ACACGGGCGTGTGTGATCACAGGGTTGCCC
*
22048432 ACACGGGCATGTG
1 ACACGGGCGTGTG
22048445 ACTCTCCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.18, C:0.25, G:0.37, T:0.21
Consensus pattern (30 bp):
ACACGGGCGTGTGTGATCACAGGGTTGCCC
Found at i:22053065 original size:48 final size:48
Alignment explanation
Indices: 22052994--22053085 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
22052984 AAGACATTCA
* *
22052994 GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGT
1 GTTGATATATGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGT
22053042 GTTGATATATGTGCTAGTGTAAGACCATGTCTGGGACATGGCAT
1 GTTGATATATGTGCTAGTGTAAGACCATGTCTGGGACATGGCAT
22053086 TGGCCACTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.33
Consensus pattern (48 bp):
GTTGATATATGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGT
Found at i:22054191 original size:30 final size:30
Alignment explanation
Indices: 22054156--22054243 Score: 151
Period size: 30 Copynumber: 2.9 Consensus size: 30
22054146 CACGGCCATG
22054156 ACACACGGGCGTGTGGTCTACCCGTGTGTC
1 ACACACGGGCGTGTGGTCTACCCGTGTGTC
*
22054186 ACACACGGGCGTGTGGTCTACCCGCGTGTC
1 ACACACGGGCGTGTGGTCTACCCGTGTGTC
22054216 ACACACGGGCGTGTGGGTC-ACCCGTGTG
1 ACACACGGGCGTGT-GGTCTACCCGTGTG
22054244 GAAGTGCCTA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
30 51 0.93
31 4 0.07
ACGTcount: A:0.14, C:0.31, G:0.35, T:0.20
Consensus pattern (30 bp):
ACACACGGGCGTGTGGTCTACCCGTGTGTC
Found at i:22060274 original size:44 final size:44
Alignment explanation
Indices: 22060211--22060374 Score: 168
Period size: 44 Copynumber: 3.6 Consensus size: 44
22060201 TTTGAGTACT
*
22060211 TCTGATCAGTGACAAGTGATAAGTGGTA-ATCTCAACTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCT-TCAACTACACTTA
* *
22060255 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTCAACTACACTTA
* * **
22060299 TCAGATAAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTA
1 TC---TGA-T--C-AGTGACAAGTGATAAGTGGTAGCTTCAACTACACTTA
* *
22060350 TCTGATCAGTGATAAGTGACAAGTG
1 TCTGATCAGTGACAAGTGATAAGTG
22060375 ATAAATCTGA
Statistics
Matches: 104, Mismatches: 8, Indels: 16
0.81 0.06 0.12
Matches are distributed among these distances:
44 57 0.55
45 2 0.02
47 3 0.03
48 3 0.03
50 1 0.01
51 38 0.37
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTCAACTACACTTA
Found at i:22060317 original size:51 final size:51
Alignment explanation
Indices: 22060262--22060378 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
22060252 TTATCTGATC
22060262 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCAGATAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCAGATAAGTGACA
* * * *
22060313 AGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCAGATAAGTGACA
22060364 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
22060379 ATCTGATCTG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCAGATAAGTGACA
Found at i:22076122 original size:50 final size:50
Alignment explanation
Indices: 22076047--22076146 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
22076037 TCAGGACAAC
22076047 TGGTAAATTTTGATAAATCTTTGATTTATTTCAGTAACAATATAAGCAAG
1 TGGTAAATTTTGATAAATCTTTGATTTATTTCAGTAACAATATAAGCAAG
22076097 TGGTAAATTTTGATAAATCTTTGATTTATTTCAGTAACAATATAAGCAAG
1 TGGTAAATTTTGATAAATCTTTGATTTATTTCAGTAACAATATAAGCAAG
22076147 GAAGTCAAGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (50 bp):
TGGTAAATTTTGATAAATCTTTGATTTATTTCAGTAACAATATAAGCAAG
Found at i:22077333 original size:13 final size:13
Alignment explanation
Indices: 22077315--22077341 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22077305 CACTAGTTAG
22077315 CTGAGACTTTTAA
1 CTGAGACTTTTAA
22077328 CTGAGACTTTTAA
1 CTGAGACTTTTAA
22077341 C
1 C
22077342 ATCAATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (13 bp):
CTGAGACTTTTAA
Found at i:22081030 original size:124 final size:124
Alignment explanation
Indices: 22080810--22081053 Score: 407
Period size: 124 Copynumber: 2.0 Consensus size: 124
22080800 AAGGTAGGGG
* *
22080810 AACAAAGATGAATTGAAGGCATAATGTAATCACTGTAAGAGTACCTTCTTTGCTAAATCCTCTGA
1 AACAAAGATGAATTGAAGGCATAATGTAATCAATGTAAGAGTACCTTCTTTGCTAAATCCTCTAA
22080875 TGGAACCTCCCATTTAAGACATCATCTAAATAGTTGTATGAAAAAATTTAATAAGGTAT
66 TGGAACCTCCCATTTAAGACATCATCTAAATAGTTGTATGAAAAAATTTAATAAGGTAT
* *
22080934 AACAAAGATGAATTGATGGCATAATGTAATCAATGTAAGAGTACCTTCTTTGCTAAATCTTCTAA
1 AACAAAGATGAATTGAAGGCATAATGTAATCAATGTAAGAGTACCTTCTTTGCTAAATCCTCTAA
* * * **
22080999 TGGAATCTCCCATTTAAGACATTATCTAAATAGTTGTTTGAAAATTTTTAATAAG
66 TGGAACCTCCCATTTAAGACATCATCTAAATAGTTGTATGAAAAAATTTAATAAG
22081054 ATATCACTCA
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
124 111 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (124 bp):
AACAAAGATGAATTGAAGGCATAATGTAATCAATGTAAGAGTACCTTCTTTGCTAAATCCTCTAA
TGGAACCTCCCATTTAAGACATCATCTAAATAGTTGTATGAAAAAATTTAATAAGGTAT
Found at i:22087289 original size:18 final size:19
Alignment explanation
Indices: 22087230--22087297 Score: 79
Period size: 18 Copynumber: 3.6 Consensus size: 19
22087220 TTACAAAAAT
*
22087230 AATTCAAAATAATTTTTAAA
1 AATTCAAAA-AATTTATAAA
22087250 AA-T-AAAAATATTTATAAA
1 AATTCAAAAA-ATTTATAAA
22087268 AATTCAAAAAA-TTATAAA
1 AATTCAAAAAATTTATAAA
22087286 AATTTCAAAAAA
1 AA-TTCAAAAAA
22087298 ATATAAAGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
17 1 0.02
18 23 0.53
19 12 0.28
20 7 0.16
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.32
Consensus pattern (19 bp):
AATTCAAAAAATTTATAAA
Found at i:22087419 original size:16 final size:16
Alignment explanation
Indices: 22087398--22087428 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22087388 TTGAAAAAGT
22087398 TTTCAAATATATGTGG
1 TTTCAAATATATGTGG
*
22087414 TTTCAAATTTATGTG
1 TTTCAAATATATGTG
22087429 TTGTAACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATGTGG
Found at i:22088358 original size:21 final size:21
Alignment explanation
Indices: 22088332--22088380 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
22088322 TAACATGAAA
*
22088332 CTGAACCGAACATTATAAAAC
1 CTGAACCGAACAATATAAAAC
*
22088353 CTGAACCGAATAATATAAAAC
1 CTGAACCGAACAATATAAAAC
*
22088374 CTAAACC
1 CTGAACC
22088381 AAATTGAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.18
Consensus pattern (21 bp):
CTGAACCGAACAATATAAAAC
Found at i:22093394 original size:16 final size:16
Alignment explanation
Indices: 22093369--22093402 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22093359 ATCACGGCAT
22093369 GTGTTCATTTTGTCAA
1 GTGTTCATTTTGTCAA
*
22093385 GTGTTTATTTTGTCAA
1 GTGTTCATTTTGTCAA
22093401 GT
1 GT
22093403 CTTTTTGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (16 bp):
GTGTTCATTTTGTCAA
Found at i:22098565 original size:20 final size:21
Alignment explanation
Indices: 22098536--22098575 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
22098526 GGTCATAGAG
22098536 CATATAACCAA-CATGCATGT
1 CATATAACCAACCATGCATGT
*
22098556 CATATTACCAACCATGCATG
1 CATATAACCAACCATGCATG
22098576 GCAAACAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.25
Consensus pattern (21 bp):
CATATAACCAACCATGCATGT
Found at i:22100131 original size:48 final size:46
Alignment explanation
Indices: 22099964--22100232 Score: 174
Period size: 48 Copynumber: 5.7 Consensus size: 46
22099954 AGGGTACGAT
* * * *
22099964 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCT-AA
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCT-TCATATCTGAG
* * * * * * *
22100012 GTCGATGCCATATCCCAGACAGGTCTTACACT-GAC-ACATGTC--AA
1 GCCGATG-CATGTCCCAAACATGTCTTACACTAG-CTTCATATCTGAG
* * *
22100056 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTTGCATATCTCGAG
1 GCCGATG-CATGTCCCAAACATGTCTTACACTAGCTT-CATATCT-GAG
* * * *
22100105 GCCGATGTATGTCCCAAACATGTCTTACACTAGCTCTCATCT-TAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCT-TCATATCTGAG
* *
22100151 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA-ATGTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCT-TCATATCTGAG
* **
22100199 GCCAATGCATGTCCCAGGCATGTCTTACACTAGC
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGC
22100233 ACAATCCATA
Statistics
Matches: 183, Mismatches: 27, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
44 32 0.17
45 7 0.04
46 27 0.15
47 37 0.20
48 71 0.39
49 9 0.05
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCTTCATATCTGAG
Found at i:22100924 original size:20 final size:18
Alignment explanation
Indices: 22100891--22100928 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
22100881 AGCAATTCAC
22100891 CATTTCAATTATTTTACA
1 CATTTCAATTATTTTACA
22100909 CATTTACAACTTATTTTACA
1 CATTT-CAA-TTATTTTACA
22100929 ACTTTACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.47
Consensus pattern (18 bp):
CATTTCAATTATTTTACA
Found at i:22103011 original size:13 final size:13
Alignment explanation
Indices: 22102993--22103039 Score: 94
Period size: 13 Copynumber: 3.6 Consensus size: 13
22102983 CATTCATTTT
22102993 AAGGCACACGGCC
1 AAGGCACACGGCC
22103006 AAGGCACACGGCC
1 AAGGCACACGGCC
22103019 AAGGCACACGGCC
1 AAGGCACACGGCC
22103032 AAGGCACA
1 AAGGCACA
22103040 TGCCCGTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.34, C:0.36, G:0.30, T:0.00
Consensus pattern (13 bp):
AAGGCACACGGCC
Found at i:22111039 original size:23 final size:23
Alignment explanation
Indices: 22111013--22111058 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22111003 TATTTTCCAA
22111013 GCCTTTGGTCACCTTCTATCATC
1 GCCTTTGGTCACCTTCTATCATC
22111036 GCCTTTGGTCACCTTCTATCATC
1 GCCTTTGGTCACCTTCTATCATC
22111059 CATACACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.35, G:0.13, T:0.39
Consensus pattern (23 bp):
GCCTTTGGTCACCTTCTATCATC
Found at i:22113306 original size:40 final size:41
Alignment explanation
Indices: 22113196--22113340 Score: 195
Period size: 41 Copynumber: 3.6 Consensus size: 41
22113186 CGCTGACTTA
* *
22113196 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
22113237 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
22113277 AAAAG-CCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
22113317 AAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCG
22113341 AATTTAAACC
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 15 0.17
40 34 0.40
41 37 0.43
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:22123819 original size:27 final size:28
Alignment explanation
Indices: 22123763--22123832 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
22123753 AAATTTGTAC
22123763 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
22123791 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
22123818 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22123833 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:22131734 original size:27 final size:28
Alignment explanation
Indices: 22131678--22131747 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
22131668 AAATTTGTAC
22131678 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
22131706 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
22131733 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22131748 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:22134266 original size:66 final size:68
Alignment explanation
Indices: 22134190--22134376 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
22134180 TAGTACCACT
*
22134190 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
22134252 CACG
65 CACG
22134256 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
22134321 ATCACG
63 ATCACG
22134327 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
22134377 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:22134301 original size:71 final size:71
Alignment explanation
Indices: 22134213--22134376 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22134203 CGATTTGTCT
22134213 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22134278 CTTTCA
66 CTTTCA
22134284 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22134349 CTTTCA
66 CTTTCA
22134355 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
22134377 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:22134414 original size:71 final size:70
Alignment explanation
Indices: 22134213--22134410 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
22134203 CGATTTGTCT
* * *
22134213 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22134278 CTTTCA
65 CTTTCA
* * *
22134284 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22134349 CTTTCA
65 CTTTCA
* *
22134355 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
22134411 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:22141833 original size:66 final size:68
Alignment explanation
Indices: 22141757--22141943 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
22141747 TAGTACCACT
*
22141757 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
22141819 CACG
65 CACG
22141823 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
22141888 ATCACG
63 ATCACG
22141894 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
22141944 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:22141868 original size:71 final size:71
Alignment explanation
Indices: 22141780--22141943 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22141770 CGATTTGTCT
22141780 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22141845 CTTTCA
66 CTTTCA
22141851 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22141916 CTTTCA
66 CTTTCA
22141922 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
22141944 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:22141981 original size:71 final size:70
Alignment explanation
Indices: 22141780--22141977 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
22141770 CGATTTGTCT
* * *
22141780 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22141845 CTTTCA
65 CTTTCA
* * *
22141851 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22141916 CTTTCA
65 CTTTCA
* *
22141922 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
22141978 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:22146067 original size:39 final size:39
Alignment explanation
Indices: 22146013--22146125 Score: 190
Period size: 39 Copynumber: 2.9 Consensus size: 39
22146003 TACCAGTACA
*
22146013 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCTGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
22146052 AAGCCTACGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
22146091 AAGCCTGCGGGACTTTAGCCTGAATACATTTCCAG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
22146126 TATCTTGCAT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:22147901 original size:20 final size:20
Alignment explanation
Indices: 22147857--22147893 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22147847 AGGCAAGTGG
*
22147857 TTTTA-TTTTATTCCTTTTC
1 TTTTATTTTTATTACTTTTC
22147876 TTTTATTTTTATTACTTT
1 TTTTATTTTTATTACTTT
22147894 CATTTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTATTTTTATTACTTTTC
Found at i:22148182 original size:11 final size:11
Alignment explanation
Indices: 22148166--22148191 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22148156 CATTCAAAAC
22148166 ATAGATAAATA
1 ATAGATAAATA
22148177 ATAGATAAATA
1 ATAGATAAATA
22148188 ATAG
1 ATAG
22148192 CTTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (11 bp):
ATAGATAAATA
Found at i:22168025 original size:22 final size:22
Alignment explanation
Indices: 22168000--22168043 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22167990 AAATATTAGC
*
22168000 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
*
22168022 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAATTAATTTT
22168044 GATTATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:22176821 original size:23 final size:24
Alignment explanation
Indices: 22176771--22176870 Score: 84
Period size: 23 Copynumber: 4.2 Consensus size: 24
22176761 AAGCTCAATT
22176771 GAGCTGA-AACAGTAAGCTC-TGA-
1 GAGCTGAGAACAGTAAGCTCAT-AC
*
22176793 GAAGCTGA-ATCAGTAAGCTCATAC
1 G-AGCTGAGAACAGTAAGCTCATAC
* * *
22176817 GAGCTGAGAACAATAATCTCTTAC
1 GAGCTGAGAACAGTAAGCTCATAC
*
22176841 GAGCTGATATATCAGT-AGCTCATAC
1 GAGCTGAGA-A-CAGTAAGCTCATAC
22176866 GAGCT
1 GAGCT
22176871 ACGATGAGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
22 1 0.02
23 24 0.38
24 22 0.35
25 13 0.21
26 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (24 bp):
GAGCTGAGAACAGTAAGCTCATAC
Found at i:22179144 original size:92 final size:92
Alignment explanation
Indices: 22179007--22179392 Score: 474
Period size: 92 Copynumber: 4.2 Consensus size: 92
22178997 CATTGGTTGA
* * *** * *
22179007 AATAGCTCTTATGAGAAAATTGACATGTTATTGAGGGAAAATATTTAGCCTACGA-GCTTTGTAC
1 AATAGCTCTTATGAGCAAACTGGTGTGTTATTGAGGGAGAATATTTAGCCTA-GAGGCTTTGCAC
*
22179071 TATGTGCATTTGGCGTGTTATCGATTGG
65 TATGTGCATCTGGCGTGTTATCGATTGG
* * *
22179099 AATAGCTCTTACGAGCAAACTGGTGTGTTATTGAGGGAGAATATTTAGTCTATAGGCTTTGCACT
1 AATAGCTCTTATGAGCAAACTGGTGTGTTATTGAGGGAGAATATTTAGCCTAGAGGCTTTGCACT
* *
22179164 ATGTGCATCTGGTGAGTTAT-GAGTTGG
66 ATGTGCATCTGGCGTGTTATCGA-TTGG
* ** *
22179191 AATAGCTCTTATGAGCAATCTGGCATGTTATTGGGGGAGAATATTTAGCCTACGA-GCTTTGCAC
1 AATAGCTCTTATGAGCAAACTGGTGTGTTATTGAGGGAGAATATTTAGCCTA-GAGGCTTTGCAC
* *
22179255 TATGTGCATCTGGCGTGATATCGGTTGG
65 TATGTGCATCTGGCGTGTTATCGATTGG
* * * *
22179283 AATAGCTCTTATGAGCAAACTGGTGTGTTATTG-GTGGGGAATATTTAACCTATAGGCTTTTCAC
1 AATAGCTCTTATGAGCAAACTGGTGTGTTATTGAG-GGAGAATATTTAGCCTAGAGGCTTTGCAC
*
22179347 TATGTGCATCTGGCGTGTTATCGGTTGG
65 TATGTGCATCTGGCGTGTTATCGATTGG
* *
22179375 AATAGCACTTATAAGCAA
1 AATAGCTCTTATGAGCAA
22179393 TCTAACATGT
Statistics
Matches: 254, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
91 5 0.02
92 247 0.97
93 2 0.01
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (92 bp):
AATAGCTCTTATGAGCAAACTGGTGTGTTATTGAGGGAGAATATTTAGCCTAGAGGCTTTGCACT
ATGTGCATCTGGCGTGTTATCGATTGG
Found at i:22179327 original size:184 final size:184
Alignment explanation
Indices: 22179001--22179405 Score: 591
Period size: 184 Copynumber: 2.2 Consensus size: 184
22178991 GCGTCACATT
* *
22179001 GGTTGAAATAGCTCTTATGAGAAAAT-TGACATGTTATTGAGGGAAAATATTTAGCCTACGAGCT
1 GGTTGGAATAGCTCTTATGAG-CAATCTGACATGTTATTGAGGGAAAATATTTAGCCTACGAGCT
* * *
22179065 TTGTACTATGTGCATTTGGCGTGTTATCGATTGGAATAGCTCTTACGAGCAAACTGGTGTGTTAT
65 TTGCACTATGTGCATCTGGCGTGATATCGATTGGAATAGCTCTTACGAGCAAACTGGTGTGTTAT
** *
22179130 TGAGGGAGAATATTTAGTCTATAGGCTTTGCACTATGTGCATCTGGTGAGTTAT-
130 TGAGGGAGAATATTTAACCTATAGGCTTTGCACTATGTGCATCTGGCGAGTTATC
* * *
22179184 GAGTTGGAATAGCTCTTATGAGCAATCTGGCATGTTATTGGGGGAGAATATTTAGCCTACGAGCT
1 G-GTTGGAATAGCTCTTATGAGCAATCTGACATGTTATTGAGGGAAAATATTTAGCCTACGAGCT
* *
22179249 TTGCACTATGTGCATCTGGCGTGATATCGGTTGGAATAGCTCTTATGAGCAAACTGGTGTGTTAT
65 TTGCACTATGTGCATCTGGCGTGATATCGATTGGAATAGCTCTTACGAGCAAACTGGTGTGTTAT
* * *
22179314 TG-GTGGGGAATATTTAACCTATAGGCTTTTCACTATGTGCATCTGGCGTGTTATC
130 TGAG-GGAGAATATTTAACCTATAGGCTTTGCACTATGTGCATCTGGCGAGTTATC
* * *
22179369 GGTTGGAATAGCACTTATAAGCAATCTAACATGTTAT
1 GGTTGGAATAGCTCTTATGAGCAATCTGACATGTTAT
22179406 CAGATGATTA
Statistics
Matches: 198, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
183 5 0.03
184 192 0.97
185 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (184 bp):
GGTTGGAATAGCTCTTATGAGCAATCTGACATGTTATTGAGGGAAAATATTTAGCCTACGAGCTT
TGCACTATGTGCATCTGGCGTGATATCGATTGGAATAGCTCTTACGAGCAAACTGGTGTGTTATT
GAGGGAGAATATTTAACCTATAGGCTTTGCACTATGTGCATCTGGCGAGTTATC
Found at i:22180039 original size:16 final size:15
Alignment explanation
Indices: 22180020--22180059 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
22180010 GATCAAAGTC
22180020 AAATAAAAAAAAAGAT
1 AAATAAAAAAAAA-AT
*
22180036 AAATAAATAAAACAAT
1 AAATAAA-AAAAAAAT
22180052 AAATAAAA
1 AAATAAAA
22180060 GACTAGAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.73
17 5 0.23
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (15 bp):
AAATAAAAAAAAAAT
Found at i:22181595 original size:27 final size:26
Alignment explanation
Indices: 22181556--22181621 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
22181546 ATTTTTAGTT
* * *
22181556 TTTTTATTGTTATTTTCTTAGACT-TA
1 TTTTTATTTTTATCTT-TTAAACTATA
*
22181582 TTTTGTTTTTTTATCTTTTAAACTATA
1 TTTT-TATTTTTATCTTTTAAACTATA
22181609 TTTTTATTTTTAT
1 TTTTTATTTTTAT
22181622 GGCTGATCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.20, C:0.06, G:0.05, T:0.70
Consensus pattern (26 bp):
TTTTTATTTTTATCTTTTAAACTATA
Found at i:22183542 original size:41 final size:41
Alignment explanation
Indices: 22183497--22183579 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
22183487 GTATTTATAG
22183497 TTAGTTTTGTGACTATCAACGCCTAAGCGTGTGGGATTGAT
1 TTAGTTTTGTGACTATCAACGCCTAAGCGTGTGGGATTGAT
22183538 TTAGTTTTGTGACTATCAACGCCTAAGCGTGTGGGATTGAT
1 TTAGTTTTGTGACTATCAACGCCTAAGCGTGTGGGATTGAT
22183579 T
1 T
22183580 GGGGTCCTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (41 bp):
TTAGTTTTGTGACTATCAACGCCTAAGCGTGTGGGATTGAT
Found at i:22184518 original size:14 final size:14
Alignment explanation
Indices: 22184501--22184531 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22184491 TTATAAACCA
*
22184501 AAACCAATAATAAT
1 AAACCAAAAATAAT
22184515 AAACCAAAAATAAT
1 AAACCAAAAATAAT
22184529 AAA
1 AAA
22184532 TAGGATTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCAAAAATAAT
Found at i:22184529 original size:20 final size:20
Alignment explanation
Indices: 22184493--22184530 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22184483 CCGGCCTGTT
*
22184493 ATAAACCAAAACCAATAATA
1 ATAAACCAAAAACAATAATA
*
22184513 ATAAACCAAAAATAATAA
1 ATAAACCAAAAACAATAA
22184531 ATAGGATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (20 bp):
ATAAACCAAAAACAATAATA
Found at i:22185907 original size:26 final size:26
Alignment explanation
Indices: 22185878--22185932 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
22185868 TTTTAGCTTC
* *
22185878 AAATTATTTTTTACATTATTTATTTT
1 AAATTATTTTATACACTATTTATTTT
* *
22185904 AAATTGTTTTATATACTATTTATTTT
1 AAATTATTTTATACACTATTTATTTT
22185930 AAA
1 AAA
22185933 GTTTTATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
AAATTATTTTATACACTATTTATTTT
Found at i:22186012 original size:34 final size:35
Alignment explanation
Indices: 22185981--22186050 Score: 83
Period size: 36 Copynumber: 2.1 Consensus size: 35
22185971 TTATTTTAAG
22185981 ATTT-CATATATTATTTATATTAAATTGTTTTATAC
1 ATTTACATATATTATTTAT-TTAAATTGTTTTATAC
* * *
22186016 TTTTATATATATTATTTATTTTAATT-TTTT-TAC
1 ATTTACATATATTATTTATTTAAATTGTTTTATAC
22186049 AT
1 AT
22186051 ATTATTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
33 4 0.13
34 4 0.13
35 9 0.30
36 13 0.43
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (35 bp):
ATTTACATATATTATTTATTTAAATTGTTTTATAC
Found at i:22186033 original size:134 final size:134
Alignment explanation
Indices: 22185892--22186136 Score: 307
Period size: 134 Copynumber: 1.8 Consensus size: 134
22185882 TATTTTTTAC
* * * * *
22185892 ATTATTTATTTTAAATTGTTTTATATACTATTTATTTTAAAGTTTTATATGTATTTAGT-ATATA
1 ATTATTTATTTT-AATTGTTTTACATACTATTTATTCT-AAGTTTTATATATATGTAGTCATAAA
22185956 CT-TTTTTATTATTATTTATTTTAAG-ATTTCATATATTATTTATATTAAATTGTTTTATACTTT
64 CTGTTTTTATTATTATTTATTTTAAGTATTTCATATATTATTT-TATTAAATTGTTTTATACTTT
22186019 TATATAT
128 TATATAT
* * * * * *
22186026 ATTATTTATTTTAATTTTTTTACATATTATTTATTCTAATTTTTTTATATATGTCGTCTTAAACT
1 ATTATTTATTTTAATTGTTTTACATACTATTTATTCTAAGTTTTATATATATGTAGTCATAAACT
* * *
22186091 GTTTTTCTTATTATTTATTTTAAGTTGTTTTATATATTATTTTATT
66 GTTTTTATTATTATTTATTTTAAG-TATTTCATATATTATTTTATT
22186137 TTAGATTTTT
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
132 15 0.16
133 26 0.28
134 34 0.37
135 4 0.04
136 14 0.15
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (134 bp):
ATTATTTATTTTAATTGTTTTACATACTATTTATTCTAAGTTTTATATATATGTAGTCATAAACT
GTTTTTATTATTATTTATTTTAAGTATTTCATATATTATTTTATTAAATTGTTTTATACTTTTAT
ATAT
Found at i:22186113 original size:26 final size:27
Alignment explanation
Indices: 22186084--22186139 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
22186074 ATATGTCGTC
*
22186084 TTAAACTGTTTT-TCTTATTA-TTTATT
1 TTAAACTGTTTTAT-ATATTATTTTATT
**
22186110 TTAAGTTGTTTTATATATTATTTTATT
1 TTAAACTGTTTTATATATTATTTTATT
22186137 TTA
1 TTA
22186140 GATTTTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.66
Consensus pattern (27 bp):
TTAAACTGTTTTATATATTATTTTATT
Found at i:22186148 original size:27 final size:25
Alignment explanation
Indices: 22186016--22186156 Score: 117
Period size: 25 Copynumber: 5.6 Consensus size: 25
22186006 TGTTTTATAC
*
22186016 TTTTATATATATTATTTATTTTAAT
1 TTTTTTATATATTATTTATTTTAAT
* *
22186041 TTTTTTACATATTATTTATTCTAAT
1 TTTTTTATATATTATTTATTTTAAT
** * *
22186066 TTTTTTATATATGT-CGT-CTTAAACT
1 TTTTTTATATAT-TATTTATTTTAA-T
* *
22186091 GTTTTTCT-TATTATTTATTTTAAGT
1 TTTTTTATATATTATTTATTTTAA-T
*
22186116 TGTTTTATATATTATTTTATTTTAGAT
1 TTTTTTATATATTA-TTTATTTTA-AT
*
22186143 TTTTTTGTATATTA
1 TTTTTTATATATTA
22186157 ATCGTTTTAA
Statistics
Matches: 88, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
23 1 0.01
24 7 0.08
25 51 0.58
26 6 0.07
27 22 0.25
28 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (25 bp):
TTTTTTATATATTATTTATTTTAAT
Found at i:22191051 original size:3 final size:3
Alignment explanation
Indices: 22191043--22191128 Score: 145
Period size: 3 Copynumber: 28.7 Consensus size: 3
22191033 CCTCCTAAAA
* *
22191043 AAG AAG AAG AAG AAG AAT AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
22191091 AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
22191129 AATGGAGAGG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:22191720 original size:46 final size:46
Alignment explanation
Indices: 22191667--22191909 Score: 299
Period size: 46 Copynumber: 5.3 Consensus size: 46
22191657 ACCCAGATCA
* *
22191667 ATGGATTGAAGAAGATACAAATCCTATACCCCTAAGTTGTAGTGGG
1 ATGGATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGG
*
22191713 ATGGATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGA
1 ATGGATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGG
* * * *
22191759 ATGGATTGAAGATGATAAAAATCCCATACCCCTTAGTTGCAGTGGG
1 ATGGATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGG
* * * * *
22191805 ATAGAGTGAAGATGATACAAAT-CTCATACACTTGAGTTGCAGTGGG
1 ATGGATTGAAGAAGATACAAATCCT-ATACCCCTGAGTTGCAGTGGG
* * * * *
22191851 ATGGATGGAAGATGATACAAATCCTATACCCTTGAGTTGTAGCGGG
1 ATGGATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGG
* *
22191897 GTGGATGGAAGAA
1 ATGGATTGAAGAA
22191910 ACCATAAATT
Statistics
Matches: 172, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
45 1 0.01
46 169 0.98
47 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (46 bp):
ATGGATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGG
Found at i:22192427 original size:45 final size:44
Alignment explanation
Indices: 22192259--22192428 Score: 182
Period size: 45 Copynumber: 3.8 Consensus size: 44
22192249 TGAACCCACA
* * *
22192259 AATCTTATCTCTCTAAAGTAGCAGTGGAGCAGATTGAAG-T-CG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCG
* * * * **
22192301 TAGATCTTATCTCCTTGAAGTTGCTGTAGAGTAGATCAAAGATGGCG
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-GCG
*
22192348 AATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-GCG
* *
22192393 AATCTCATTTCCCTGAAGTTGCAGTGGAGCAGATTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
22192429 TATCTACAAA
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
43 1 0.01
44 29 0.28
45 70 0.68
46 1 0.01
47 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCG
Found at i:22192519 original size:143 final size:143
Alignment explanation
Indices: 22192351--22192920 Score: 781
Period size: 143 Copynumber: 4.0 Consensus size: 143
22192341 GATGGCGAAT
*
22192351 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCGAATCTCATTTCCCTGAAGTTACA
** * * * * *
22192416 GTGGAGCAGATTGTATCTACAAATTATGGTGAATGTTATCTTCCTGAAGTTTCAGTAGAACAGAT
66 GTGGAAAAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTAGAACAGAT
22192481 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* *
22192494 CTTATCTCCCTGAAGTTGCAGCGGAGCA-ATATGAGGATAGC-AAGTAT-ATTTTCCCTGAAGTT
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGAT-TGAAGATAGCGAA-TCTCA-TTTCCCTGAAGTT
* *
22192556 ACAGTGGAAAAGATTGAAGCTACAAATTATGGC-AGATCTTATCTTCCTGAAGTTGCAGTGGAGC
63 ACAGTGGAAAAGATTGAAGCTACAAATTATGGCGA-ATCTTATCTTCCTGAAGTTGCAGTAGAAC
*
22192620 AGATTGAAGGCACCAGC
127 AGATTGAAGCCACCAGC
* * * * ** * * *
22192637 ATTATCTCCTTGAAGTTGCAGTGGAGTAGACAGAAGATAGTGAATCTCATTTCCCTAAAGTTATA
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCGAATCTCATTTCCCTGAAGTTACA
* *
22192702 GTGGAATAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTGTAGTAGAACAGAT
66 GTGGAAAAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTAGAACAGAT
22192767 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* * * * * *
22192780 CTTATCTCCCTGAAGTTACAGCGGAGCATAATGAAGATAGCAAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCGAATCTCATTTCCCTGAAGTTACA
*
22192845 GTGGAAAAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGT-GAAGCAGA
66 GTGGAAAAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTAGAA-CAGA
22192909 TTGAAGCCACCA
130 TTGAAGCCACCA
22192921 ACTCCCTAAA
Statistics
Matches: 372, Mismatches: 46, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
142 9 0.02
143 358 0.96
144 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (143 bp):
CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCGAATCTCATTTCCCTGAAGTTACA
GTGGAAAAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTAGAACAGAT
TGAAGCCACCAGC
Found at i:22192864 original size:286 final size:286
Alignment explanation
Indices: 22192352--22192920 Score: 883
Period size: 286 Copynumber: 2.0 Consensus size: 286
22192342 ATGGCGAATC
** * *
22192352 TTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGATAGCGAATCTCATTTCCCTAAAGTTACAG
* * * * *
22192417 TGGAGCAGATTGTATCTACAAATTATGGTGAATGTTATCTTCCTGAAGTTTCAGTAGAACAGATT
66 TGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTTCAGTAGAACAGATT
* * *
22192482 GAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAATATGAGGATAGCAAGTATATTTTC
131 GAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAATATGAAGATAGCAAATATATTTTC
22192547 CCTGAAGTTACAGTGGAAAAGATTGAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGC
196 CCTGAAGTTACAGTGGAAAAGATTGAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGC
* *
22192612 AGTGGAGCAGATTGAAGGCACCAGCA
261 AGTGAAGCAGATTGAAGCCACCAGCA
* * * * *
22192638 TTATCTCCTTGAAGTTGCAGTGGAGTAGACAGAAGATAGTGAATCTCATTTCCCTAAAGTTATAG
1 TTATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGATAGCGAATCTCATTTCCCTAAAGTTACAG
*
22192703 TGGAATAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTGT-AGTAGAACAGAT
66 TGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTT-TCAGTAGAACAGAT
*
22192767 TGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGC-ATAATGAAGATAGCAAATCT-TAT
130 TGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAAT-ATGAAGATAGCAAATATAT-T
* *
22192830 TTCCCTGAAGTTGCAGTGGAAAAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGT
193 TTCCCTGAAGTTACAGTGGAAAAGATTGAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGT
22192895 TGCAGTGAAGCAGATTGAAGCCACCA
258 TGCAGTGAAGCAGATTGAAGCCACCA
22192921 ACTCCCTAAA
Statistics
Matches: 257, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
285 3 0.01
286 253 0.98
287 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (286 bp):
TTATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGATAGCGAATCTCATTTCCCTAAAGTTACAG
TGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTTCAGTAGAACAGATT
GAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAATATGAAGATAGCAAATATATTTTC
CCTGAAGTTACAGTGGAAAAGATTGAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGC
AGTGAAGCAGATTGAAGCCACCAGCA
Found at i:22193423 original size:20 final size:20
Alignment explanation
Indices: 22193398--22193435 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22193388 CTGTCCCGTT
22193398 ATAAACCAAAAACAATAATA
1 ATAAACCAAAAACAATAATA
*
22193418 ATAAACCAAAAATAATAA
1 ATAAACCAAAAACAATAA
22193436 ATAAGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (20 bp):
ATAAACCAAAAACAATAATA
Found at i:22194825 original size:26 final size:25
Alignment explanation
Indices: 22194796--22194945 Score: 97
Period size: 27 Copynumber: 5.7 Consensus size: 25
22194786 TTTTAGCTTC
22194796 AAATTATTTTATATATTATTTATTTT
1 AAATTATTTT-TATATTATTTATTTT
* *
22194822 AAATTTCTTTTTTATGCATTATTTATTCT
1 AAA-TT-ATTTTTAT--ATTATTTATTTT
* * *
22194851 AAA-TATTTTTATA-TACGTCATCTT
1 AAATTATTTTTATATTA-TTTATTTT
* *
22194875 AAATTGTTTTTCTTATTATTTATTTT
1 AAATTATTTTT-ATATTATTTATTTT
* *
22194901 AAGTGATTTTATATATTATTTTATTTT
1 AAATTATTTT-TATATTA-TTTATTTT
* *
22194928 AGATTGTTTTGTATATTA
1 AAATTATTTT-TATATTA
22194946 ATCGTTTTAA
Statistics
Matches: 93, Mismatches: 21, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
23 2 0.02
24 8 0.09
25 6 0.06
26 29 0.31
27 30 0.32
28 4 0.04
29 14 0.15
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (25 bp):
AAATTATTTTTATATTATTTATTTT
Found at i:22195067 original size:19 final size:19
Alignment explanation
Indices: 22195011--22195079 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
22195001 TTTAAACTTG
* *
22195011 TTTTTTTTTATATCATTTA
1 TTTTATTTTATATTATTTA
* *
22195030 TTTAAAATTTTCCTATTATTTA
1 TTT--TATTTT-ATATTATTTA
22195052 TTTTATTTTATATTATTTA
1 TTTTATTTTATATTATTTA
*
22195071 TTTCATTTT
1 TTTTATTTT
22195080 CTTTGATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 20 0.50
20 5 0.12
21 4 0.10
22 11 0.28
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTTTATATTATTTA
Found at i:22199938 original size:16 final size:16
Alignment explanation
Indices: 22199906--22199937 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22199896 TAATAACAAG
22199906 ATTCGCCTTAGGTTAT
1 ATTCGCCTTAGGTTAT
22199922 ATTC-CCTTAGG-TAT
1 ATTCGCCTTAGGTTAT
22199936 AT
1 AT
22199938 AGGGGTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 7 0.44
16 4 0.25
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.44
Consensus pattern (16 bp):
ATTCGCCTTAGGTTAT
Found at i:22207650 original size:20 final size:20
Alignment explanation
Indices: 22207625--22207665 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22207615 AGAGACAGCA
22207625 AAAAAAAAAGAGAAAAAAAT
1 AAAAAAAAAGAGAAAAAAAT
* * *
22207645 AAAAAAATATATAAAAAAAT
1 AAAAAAAAAGAGAAAAAAAT
22207665 A
1 A
22207666 TCGTGGGGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (20 bp):
AAAAAAAAAGAGAAAAAAAT
Found at i:22208234 original size:3 final size:3
Alignment explanation
Indices: 22208226--22208347 Score: 226
Period size: 3 Copynumber: 40.7 Consensus size: 3
22208216 ACCTCCTAAA
22208226 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
22208274 AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAA AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
22208322 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
22208348 AATAGAGAGT
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 115 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22209129 original size:46 final size:46
Alignment explanation
Indices: 22209062--22209304 Score: 272
Period size: 46 Copynumber: 5.3 Consensus size: 46
22209052 ACCCAGATCA
* * * *
22209062 ATGGATTGAA-AAGGATACAAATCTTGTACCCCTGAGTTTCAATGGG
1 ATGGATTGAAGAA-GATACAAATCCTATACCCCTGAGTTGCAGTGGG
* *
22209108 ATGGATTGAAGAAGATACAAATCCTATACCCCTGAATTGTAGTGGG
1 ATGGATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGG
** * * * *
22209154 ATGGATTGAAGTTGATAAAAATCCCATACCCCTTAGTTACAGTGGG
1 ATGGATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGG
* * * *
22209200 ATGGATTGAAGATGATACAAATCCCATACCCTTGAGTTGCGGTGGG
1 ATGGATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGG
* * * * *
22209246 ATGGATGGAGGATGATAGAAATCCTATACCCTTGAGTTGCAGTGGG
1 ATGGATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGG
*
22209292 ATGGATGGAAGAA
1 ATGGATTGAAGAA
22209305 ACCACAAATT
Statistics
Matches: 169, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
46 167 0.99
47 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (46 bp):
ATGGATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGG
Found at i:22209783 original size:45 final size:45
Alignment explanation
Indices: 22209654--22209969 Score: 174
Period size: 45 Copynumber: 6.9 Consensus size: 45
22209644 TGAATCCACA
* * *
22209654 AATCTCATTTCCCTGAAGTAGCAGTGGAGCAGATTGAAG-TCGT-
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTG
* * * * * ** *
22209697 AGATCTTATCTCCTTGAAGTTACAGTGAAGTAGATCAAAGATGGTG
1 A-ATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTG
* * * *
22209743 AATCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCG
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTG
* * * **
22209788 AATCTCATTTCCCTGGAGTTGCAGTGGAACAGATTGAAGCTACAAATTCTGG
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG------ATAGT-G
* * * * ** **
22209840 CAGATTTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-CC
1 -A-ATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTG
** * * * *
22209886 AGCCTTATCTCCCTGAAGTTACAGCT-GAGCAGACTGAAGATAGCG
1 AATCTCATCTCCCTGAAGTTGCAG-TGGAGCAGATTGAAGATAGTG
*
22209931 AATCTCAT-TCCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 AATCTCATCT-CCCTGAAGTTGCAGTGGAGCAGATTGAAG
22209970 CTACAAATTA
Statistics
Matches: 200, Mismatches: 57, Indels: 30
0.70 0.20 0.10
Matches are distributed among these distances:
43 1 0.00
44 61 0.31
45 102 0.51
46 1 0.00
51 2 0.01
52 1 0.00
53 1 0.00
54 31 0.16
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
AATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTG
Found at i:22209916 original size:143 final size:143
Alignment explanation
Indices: 22209746--22210202 Score: 689
Period size: 143 Copynumber: 3.2 Consensus size: 143
22209736 GATGGTGAAT
*
22209746 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGGAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCA
* * *
22209811 GTGGAACAGATTGAAGCTACAAATTCTGGCAGATTTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
* *
22209876 TAAAGCCACCAGC
131 TGAAGCCACCAAC
* * *
22209889 CTTATCTCCCTGAAGTTACAGCTGAGCAGACTGAAGATAGCGAATCTCATTCCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCA
* * *
22209954 GTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCATTAGAGTAGAT
66 GTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
**
22210019 TGAAGCCATTAAC
131 TGAAGCCACCAAC
* ** * * * *
22210032 CTTATCTCCCTGAAGTTGCAACGGAGTTGACTGGAGATAGCAAATCTCATTTCCTTGAAGTTGGA
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCA
* * *
22210097 GTGGAAAAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGAAACAGAT
66 GTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
22210162 TGAAGCCACCAAC
131 TGAAGCCACCAAC
*
22210175 CTTATCTCCCTGAAGTTGCAGTGGAGCA
1 CTTATCTCCCTGAAGTTGCAGCGGAGCA
22210203 TGTTGAAATT
Statistics
Matches: 278, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
143 278 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (143 bp):
CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCA
GTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
TGAAGCCACCAAC
Found at i:22210379 original size:179 final size:179
Alignment explanation
Indices: 22210172--22210504 Score: 506
Period size: 179 Copynumber: 1.9 Consensus size: 179
22210162 TGAAGCCACC
* * *
22210172 AACCTTATCTCCCTGAAGTTGCAGTGGAGCATGTTGAAATTACTAATTCTTATCTCCTTTAAGTT
1 AACCATATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTTAAGTT
* * * * *
22210237 CCAGTGGAGTAGATCGAAGATACAAATCTCTTCTCCCTAAAATTATATTGGAGCAGATCGAAGCC
66 CCAGCGGAGTAGATCGAAGATACAAATCTCTTCTCCCTAAAACTATACTAGAGCAAATCGAAGCC
*
22210302 ACAA-TCCTTATCTCTCTGAAGTTGTAGTAGAGTAGGATAAAACTACACA
131 ACAAGT-CTCATCTCTCTGAAGTTGTAGTAGAGTAGGATAAAACTACACA
*
22210351 AACCATATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTTAAGTT
1 AACCATATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTTAAGTT
* ** * *
22210416 CCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCGTTGAAACTATACTAGAGCAAATCGAAGCT
66 CCAGCGGAGTAGATCGAAGATACAAATCTCTTCTCCCTAAAACTATACTAGAGCAAATCGAAGCC
*
22210481 ACAAGTCTCATCTTTCTGAAGTTG
131 ACAAGTCTCATCTCTCTGAAGTTG
22210505 CAGTGGGACT
Statistics
Matches: 137, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
179 136 0.99
180 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (179 bp):
AACCATATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTTAAGTT
CCAGCGGAGTAGATCGAAGATACAAATCTCTTCTCCCTAAAACTATACTAGAGCAAATCGAAGCC
ACAAGTCTCATCTCTCTGAAGTTGTAGTAGAGTAGGATAAAACTACACA
Found at i:22210684 original size:20 final size:20
Alignment explanation
Indices: 22210659--22210696 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
22210649 TCGACCCGTT
22210659 ATAAACCAAAAATAATAATA
1 ATAAACCAAAAATAATAATA
22210679 ATAAACCAAAAATAATAA
1 ATAAACCAAAAATAATAA
22210697 ATAAGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (20 bp):
ATAAACCAAAAATAATAATA
Found at i:22212518 original size:40 final size:40
Alignment explanation
Indices: 22212433--22212583 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
22212423 AATTGAATGA
* * *
22212433 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
22212473 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
22212514 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
22212553 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
22212584 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:22212597 original size:40 final size:40
Alignment explanation
Indices: 22212470--22212599 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
22212460 ATGCTGGAAA
* * * *
22212470 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
22212510 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
22212550 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
22212590 TTATATCCGG
1 TTATATCCGG
22212600 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:22220543 original size:40 final size:40
Alignment explanation
Indices: 22220458--22220608 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
22220448 AATTGAATGA
* * *
22220458 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
22220498 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
22220539 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
22220578 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
22220609 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:22220622 original size:40 final size:40
Alignment explanation
Indices: 22220495--22220624 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
22220485 ATGCTGGAAA
* * * *
22220495 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
22220535 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
22220575 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
22220615 TTATATCCGG
1 TTATATCCGG
22220625 TTATATTCCA
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:22223323 original size:26 final size:26
Alignment explanation
Indices: 22223294--22223348 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
22223284 TTTTAGCTTC
22223294 AAATTATTTTATACATTATTTATTTT
1 AAATTATTTTATACATTATTTATTTT
* *
22223320 AAATTGTTTTATATATTATTTATTTT
1 AAATTATTTTATACATTATTTATTTT
22223346 AAA
1 AAA
22223349 GTTTTATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (26 bp):
AAATTATTTTATACATTATTTATTTT
Found at i:22223362 original size:26 final size:25
Alignment explanation
Indices: 22223300--22223430 Score: 110
Period size: 26 Copynumber: 5.3 Consensus size: 25
22223290 CTTCAAATTA
*
22223300 TTTTATACATTATTTATTTTAAATTG
1 TTTTATATATTATTTATTTTAAA-TG
22223326 TTTTATATATTATTTATTTTAAA-G
1 TTTTATATATTATTTATTTTAAATG
* * * *
22223350 TTTTATAT-GTATTTAGTATATACTG
1 TTTTATATATTATTTATTTTA-AATG
*
22223375 TTTT-TTTATTATTTATTTT-AA-G
1 TTTTATATATTATTTATTTTAAATG
* * *
22223397 ATTTCATATATTATTTATATTAAACTA
1 -TTTTATATATTATTTATTTTAAA-TG
22223424 TTTTATA
1 TTTTATA
22223431 CTTTTATATA
Statistics
Matches: 82, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
22 1 0.01
23 13 0.16
24 25 0.30
25 15 0.18
26 28 0.34
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (25 bp):
TTTTATATATTATTTATTTTAAATG
Found at i:22223426 original size:34 final size:36
Alignment explanation
Indices: 22223388--22223456 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
22223378 TTTTATTATT
*
22223388 TATTTTA-AGATTT-CATATATTATTTATATTAAAC
1 TATTTTATACATTTACATATATTATTTATATTAAAC
* * *
22223422 TATTTTATACTTTTATATATATTATTTATTTTAAA
1 TATTTTATACATTTACATATATTATTTATATTAAA
22223457 TTTCTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 7 0.24
35 4 0.14
36 18 0.62
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (36 bp):
TATTTTATACATTTACATATATTATTTATATTAAAC
Found at i:22223533 original size:26 final size:26
Alignment explanation
Indices: 22223504--22223576 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
22223494 ATATGTCATC
*
22223504 TTAAATTTTTTTTCTTATTA-TTTATT
1 TTAAATTTTTTTT-ATATTATTTTATT
* *
22223530 TTAAGTTGTTTTATATATTATTTTATT
1 TTAAATT-TTTTTTATATTATTTTATT
*
22223557 TTAGATTTTTTTGTATATTA
1 TTAAATTTTTTT-TATATTA
22223577 ATCGTTTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 15 0.39
27 23 0.61
ACGTcount: A:0.25, C:0.01, G:0.05, T:0.68
Consensus pattern (26 bp):
TTAAATTTTTTTTATATTATTTTATT
Found at i:22225859 original size:4 final size:4
Alignment explanation
Indices: 22225850--22225881 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
22225840 TTATAAAAAT
22225850 TTAA TTAA TTAA TTAA TTAA TTATA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTA-A TTAA TTA
22225882 TTTTTACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Done.