Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 46 of 410
Found at i:11775022 original size:26 final size:28
Alignment explanation
Indices: 11774982--11775054 Score: 109
Period size: 26 Copynumber: 2.8 Consensus size: 28
11774972 ACACCTTTTG
*
11774982 TTTATATTAAAATATTTTTTTTGT-TTT
1 TTTATAATAAAATATTTTTTTTGTCTTT
11775009 TTTA-AATAAAATA--TTTTTTGTCTTT
1 TTTATAATAAAATATTTTTTTTGTCTTT
11775034 TTTATAATAAAATATTTTTTT
1 TTTATAATAAAATATTTTTTT
11775055 GCAGGTCAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
24 8 0.20
25 7 0.17
26 17 0.41
27 4 0.10
28 5 0.12
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTATAATAAAATATTTTTTTTGTCTTT
Found at i:11779373 original size:30 final size:30
Alignment explanation
Indices: 11779339--11779396 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
11779329 AAGCCTTTTC
*
11779339 CCACACGGG-TTGAGCACACACCCATGTGAG
1 CCACACGGGCTTG-CCACACACCCATGTGAG
*
11779369 CCACACGGGCTTGCCACACGCCCATGTG
1 CCACACGGGCTTGCCACACACCCATGTG
11779397 CCAGCCTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.22, C:0.38, G:0.26, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTTGCCACACACCCATGTGAG
Found at i:11794046 original size:46 final size:46
Alignment explanation
Indices: 11793993--11794208 Score: 194
Period size: 46 Copynumber: 4.7 Consensus size: 46
11793983 TTGTGTGCTG
* * *
11793993 GTGTAAGACATGTCTGGGACGTGCATCAGCCATATTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAGAGCCA
* *
11794039 GTGTAAGACCATGTCTGGGATATGGCATCGG-CAT-TGAGATGAGAGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATAT--GATGAGAGCCA
* * *
11794087 GTGTAAGACATGTTTGGGACATGCATTGGCC-TCGA-GAT-ATAAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATGATGA-GAGCCA
* * * *
11794133 GTGTAAGATATGTCTGGGACATGCATCGGCTACATGATGTGA--CA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAGAGCCA
11794177 GTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGC
11794209 ATTATACCCT
Statistics
Matches: 138, Mismatches: 18, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 62 0.45
47 28 0.20
48 23 0.17
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAGAGCCA
Found at i:11795350 original size:21 final size:21
Alignment explanation
Indices: 11795324--11795371 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
11795314 TTATAATGAA
11795324 CACACGAGCATGTTGCCCTTC
1 CACACGAGCATGTTGCCCTTC
* **
11795345 CACACGGGTGTGTTGCCCTTC
1 CACACGAGCATGTTGCCCTTC
11795366 CACACG
1 CACACG
11795372 GGCGTGCGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.23
Consensus pattern (21 bp):
CACACGAGCATGTTGCCCTTC
Found at i:11795372 original size:21 final size:21
Alignment explanation
Indices: 11795334--11795373 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
11795324 CACACGAGCA
11795334 TGTTGCCCTTCCACACGGGTG
1 TGTTGCCCTTCCACACGGGTG
11795355 TGTTGCCCTTCCACACGGG
1 TGTTGCCCTTCCACACGGG
11795374 CGTGCGCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.35, G:0.28, T:0.28
Consensus pattern (21 bp):
TGTTGCCCTTCCACACGGGTG
Found at i:11795749 original size:3 final size:3
Alignment explanation
Indices: 11795743--11795788 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
11795733 TTTTATTTTT
* *
11795743 TTA TTA TAA TTA TTA TT- TTA TTA TTA TT- TCTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
11795787 TT
1 TT
11795789 TATTTATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 3 0.08
3 32 0.89
4 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:11795765 original size:11 final size:12
Alignment explanation
Indices: 11795751--11795780 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
11795741 TTTTATTATA
11795751 ATTATTATTT-T
1 ATTATTATTTCT
11795762 ATTATTATTTCT
1 ATTATTATTTCT
11795774 ATTATTA
1 ATTATTA
11795781 ATATTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTATTATTTCT
Found at i:11795776 original size:20 final size:19
Alignment explanation
Indices: 11795732--11795793 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 19
11795722 TTCTTTACCC
*
11795732 ATTTTATTTTTTTATTA-T
1 ATTTTATTATTTTATTATT
*
11795750 A-ATTATTATTTTATTATT
1 ATTTTATTATTTTATTATT
*
11795768 ATTTCTATTATTAATATTATTT
1 ATTT-TATTATT-TTATTA-TT
11795790 ATTT
1 ATTT
11795794 ATTCATTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 13 0.37
18 3 0.09
19 1 0.03
20 7 0.20
21 5 0.14
22 6 0.17
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTTATTATTTTATTATT
Found at i:11795795 original size:17 final size:17
Alignment explanation
Indices: 11795735--11795796 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 17
11795725 TTTACCCATT
*
11795735 TTATTTTTTTATT-ATAA
1 TTATTTATTTATTAAT-A
*
11795752 TTA-TTA-TT-TTATTA
1 TTATTTATTTATTAATA
*
11795766 TTATTTCTATTATTAATA
1 TTATTTAT-TTATTAATA
11795784 TTATTTATTTATT
1 TTATTTATTTATT
11795797 CATTCCTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
14 6 0.17
15 5 0.14
16 2 0.06
17 10 0.29
18 12 0.34
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTATTTATTAATA
Found at i:11797432 original size:19 final size:20
Alignment explanation
Indices: 11797394--11797446 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
11797384 CTATTTATCA
11797394 TTTAA-TTTTAATTTTAATT
1 TTTAATTTTTAATTTTAATT
*
11797413 TTTAATTTTTAGTTTT-ATT
1 TTTAATTTTTAATTTTAATT
*
11797432 TCT-ATTTTTATATTT
1 TTTAATTTTTA-ATTT
11797447 ATTGTTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 7 0.24
19 13 0.45
20 9 0.31
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTAATTTTTAATTTTAATT
Found at i:11799595 original size:28 final size:28
Alignment explanation
Indices: 11799555--11799682 Score: 193
Period size: 28 Copynumber: 4.6 Consensus size: 28
11799545 CGCATACTTG
*
11799555 ATGTCTCGCACACTAAGTGCCACAATCA
1 ATGTCTCGCACACTAAGTGCCATAATCA
*
11799583 ATGTCTCGCACACTAAGTGCAATAATCA
1 ATGTCTCGCACACTAAGTGCCATAATCA
* *
11799611 TTGTCTCGCACACTAAGTGCCATGATCA
1 ATGTCTCGCACACTAAGTGCCATAATCA
* *
11799639 ATATCTCACACACTAAGTGCCATAATCA
1 ATGTCTCGCACACTAAGTGCCATAATCA
*
11799667 AAGTCTCGCACACTAA
1 ATGTCTCGCACACTAA
11799683 ATGTTTTAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 88 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
ATGTCTCGCACACTAAGTGCCATAATCA
Found at i:11807060 original size:31 final size:31
Alignment explanation
Indices: 11807022--11807083 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
11807012 CAAATAAAGA
11807022 AGATTATGATACTAAGTTGTTAACACAGTTG
1 AGATTATGATACTAAGTTGTTAACACAGTTG
11807053 AGATTATGATACTAAGTTGTTAACACAGTTG
1 AGATTATGATACTAAGTTGTTAACACAGTTG
11807084 GTACCTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (31 bp):
AGATTATGATACTAAGTTGTTAACACAGTTG
Found at i:11807162 original size:17 final size:17
Alignment explanation
Indices: 11807126--11807163 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11807116 TCAAACAATG
*
11807126 AATTCACTCAACAATTT
1 AATTCACTCAACAATAT
11807143 AATTCACATCAACAA-AT
1 AATTCAC-TCAACAATAT
11807160 AATT
1 AATT
11807164 TTAGCTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (17 bp):
AATTCACTCAACAATAT
Found at i:11808984 original size:52 final size:51
Alignment explanation
Indices: 11808893--11808995 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 51
11808883 AGATAGCAAG
* * * * *
11808893 ACTGCGAGCTTATTAAAAGTGTGAGCTCTACAAAGTTGCGAGTTCACTCAAA
1 ACTGCAAGCTCATCAAAAGTGTGAGCTCCACAAAGTTGCGAGCTCA-TCAAA
* *
11808945 ACTGCAAGCTCATCAAATGTGTGAGCTCC-CCAAGATTGCGAGCTCATCAAA
1 ACTGCAAGCTCATCAAAAGTGTGAGCTCCACAAAG-TTGCGAGCTCATCAAA
11808996 GTTACGAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
51 9 0.21
52 34 0.79
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (51 bp):
ACTGCAAGCTCATCAAAAGTGTGAGCTCCACAAAGTTGCGAGCTCATCAAA
Found at i:11810547 original size:19 final size:19
Alignment explanation
Indices: 11810519--11810561 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11810509 TAAAAATAAC
11810519 AATAACATTCACAATAAAA-
1 AATAACATTC-CAATAAAAT
* *
11810538 AATAATATTCTAATAAAAT
1 AATAACATTCCAATAAAAT
11810557 AATAA
1 AATAA
11810562 AGAAATAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (19 bp):
AATAACATTCCAATAAAAT
Found at i:11810893 original size:18 final size:18
Alignment explanation
Indices: 11810870--11810910 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11810860 AAAGAAAAGC
* *
11810870 TATAATAATAGTAGTAAT
1 TATAATAAAAGTAATAAT
11810888 TATAATAAAAGTAATAAT
1 TATAATAAAAGTAATAAT
*
11810906 AATAA
1 TATAA
11810911 ATATAACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (18 bp):
TATAATAAAAGTAATAAT
Found at i:11810894 original size:15 final size:15
Alignment explanation
Indices: 11810871--11810911 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11810861 AAGAAAAGCT
**
11810871 ATAATAATAGTAGTA
1 ATAATAATAAAAGTA
*
11810886 ATTATAATAAAAGTA
1 ATAATAATAAAAGTA
11810901 ATAATAATAAA
1 ATAATAATAAA
11810912 TATAACAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (15 bp):
ATAATAATAAAAGTA
Found at i:11810959 original size:15 final size:16
Alignment explanation
Indices: 11810923--11810956 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11810913 ATAACAATAG
*
11810923 AAATATTAGCGATAAA
1 AAATAATAGCGATAAA
*
11810939 AAATAATAGCTATAAA
1 AAATAATAGCGATAAA
11810955 AA
1 AA
11810957 TAAACATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.24
Consensus pattern (16 bp):
AAATAATAGCGATAAA
Found at i:11811245 original size:3 final size:3
Alignment explanation
Indices: 11811231--11811601 Score: 180
Period size: 3 Copynumber: 122.7 Consensus size: 3
11811221 AAATATACAC
*
11811231 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
11811279 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TGA -AA T-C
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * * *
11811325 TAA AAA GCA -AA T-A TAA TAA AAA TAT TAA -AA TAA -AG TAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * *
11811367 GAA TAA TAC T-A TATA TAAA TATA TACA T-A TACA TACA -CA TAA TAA
1 TAA TAA TAA TAA TA-A T-AA TA-A TA-A TAA TA-A TA-A TAA TAA TAA
* ** *
11811412 AACA TACA CTAA TGT TAA TAA TAA TAA TAA -AA CTAGA -AA TGA TAA
1 TA-A TA-A -TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA
* * ** *
11811457 TAA CTAG TAA TAA TAA TACA TTAA GAA TAA TTAA T-A TGT TAA TAA AAA
1 TAA -TAA TAA TAA TAA TA-A -TAA TAA TAA -TAA TAA TAA TAA TAA TAA
* * * *
11811505 TAA TAT TAA TGAA -AA TAA TAC TAA CAG TAA TAA TAA TGAA -AA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* * * *
11811550 TAGA -AA TAA -AA TAA TAG TAA TAA TAT TAA TAA TAT TAA AAA TAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
11811594 TAA GAA TA
1 TAA TAA TA
11811602 TTTAATAAAG
Statistics
Matches: 276, Mismatches: 60, Indels: 64
0.69 0.15 0.16
Matches are distributed among these distances:
2 24 0.09
3 212 0.77
4 34 0.12
5 6 0.02
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:11811463 original size:16 final size:16
Alignment explanation
Indices: 11811434--11811474 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
11811424 TGTTAATAAT
11811434 AATAATAA-AACTAGA
1 AATAATAATAACTAGA
* *
11811449 AATGATAATAACTAGT
1 AATAATAATAACTAGA
11811465 AATAATAATA
1 AATAATAATA
11811475 CATTAAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (16 bp):
AATAATAATAACTAGA
Found at i:11811562 original size:14 final size:14
Alignment explanation
Indices: 11811543--11811572 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11811533 AATAATAATG
11811543 AAAATAATAGAAAT
1 AAAATAATAGAAAT
*
11811557 AAAATAATAGTAAT
1 AAAATAATAGAAAT
11811571 AA
1 AA
11811573 TATTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAATAATAGAAAT
Found at i:11815386 original size:29 final size:29
Alignment explanation
Indices: 11815340--11815402 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
11815330 CAAAGTTAAT
11815340 ATTTAGTTTTTCTATTTTTAT-TTTCAAAA
1 ATTTAGTTTTTCTATTTTTATATTT-AAAA
* *
11815369 ATTTA-TTTTTTTATTTTTTATATTTTAAA
1 ATTTAGTTTTTCTA-TTTTTATATTTAAAA
11815398 ATTTA
1 ATTTA
11815403 AGTCTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.23
29 20 0.67
30 3 0.10
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (29 bp):
ATTTAGTTTTTCTATTTTTATATTTAAAA
Found at i:11818565 original size:46 final size:46
Alignment explanation
Indices: 11818507--11818596 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
11818497 GAACCTTAAA
* * *
11818507 TTGAAGCATTCGTTAATTTATCATATATTCATTTTTATTCCCACCG
1 TTGAAGCATTCGTTAATTTACCATAAATTCATTTTTATCCCCACCG
*
11818553 TTGAAGCTTTCGTTAATTTACCATAAATTCATTTTTATCCCCAC
1 TTGAAGCATTCGTTAATTTACCATAAATTCATTTTTATCCCCAC
11818597 ACACCAACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (46 bp):
TTGAAGCATTCGTTAATTTACCATAAATTCATTTTTATCCCCACCG
Found at i:11825718 original size:15 final size:16
Alignment explanation
Indices: 11825695--11825727 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11825685 GGTCTGATCG
*
11825695 ATATTCTCAT-AACAC
1 ATATACTCATAAACAC
11825710 ATATACTCATAAACAC
1 ATATACTCATAAACAC
11825726 AT
1 AT
11825728 TGTGAATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
ATATACTCATAAACAC
Found at i:11832846 original size:47 final size:47
Alignment explanation
Indices: 11832793--11833181 Score: 634
Period size: 47 Copynumber: 8.3 Consensus size: 47
11832783 ACAAGATATG
*
11832793 TATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
11832840 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
11832887 TATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
11832934 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
11832981 TATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
11833028 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
11833075 TATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
11833122 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
11833169 TAAATGTGATAAG
1 TATATGTGATAAG
11833182 TCCCGAAGGG
Statistics
Matches: 321, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 321 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:11835664 original size:32 final size:32
Alignment explanation
Indices: 11835623--11835688 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
11835613 TTATGCAATT
11835623 CACAAACACAACATTTAATTCAAGCATAAAAG
1 CACAAACACAACATTTAATTCAAGCATAAAAG
11835655 CACAAACACAACATTTAATTCAAGCATAAAAG
1 CACAAACACAACATTTAATTCAAGCATAAAAG
11835687 CA
1 CA
11835689 TATACAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.53, C:0.23, G:0.06, T:0.18
Consensus pattern (32 bp):
CACAAACACAACATTTAATTCAAGCATAAAAG
Found at i:11839925 original size:19 final size:20
Alignment explanation
Indices: 11839903--11839943 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11839893 AAAGAGGGGA
*
11839903 GGAAGGAAGAAAGGGAA-GG
1 GGAAAGAAGAAAGGGAACGG
*
11839922 GGAAAGAAGAAGGGGAACGG
1 GGAAAGAAGAAAGGGAACGG
11839942 GG
1 GG
11839944 GTGCGACGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.44, C:0.02, G:0.54, T:0.00
Consensus pattern (20 bp):
GGAAAGAAGAAAGGGAACGG
Found at i:11847747 original size:25 final size:26
Alignment explanation
Indices: 11847688--11847754 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
11847678 GTTATAAGTG
*
11847688 ACCAAAAGTTGTCACTTGGTTACTAA
1 ACCAAAAGTTGTCACTTGATTACTAA
11847714 ACCAAAAGTTGTCACTTGATTACT-A
1 ACCAAAAGTTGTCACTTGATTACTAA
11847739 ACCAAAAGTTGTCACT
1 ACCAAAAGTTGTCACT
11847755 ATTACTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 17 0.43
26 23 0.57
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (26 bp):
ACCAAAAGTTGTCACTTGATTACTAA
Found at i:11849754 original size:25 final size:25
Alignment explanation
Indices: 11849726--11849787 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
11849716 GTGAACCAGG
11849726 TAACGGGAAGCTTATCCGGGCTGTA
1 TAACGGGAAGCTTATCCGGGCTGTA
11849751 TAACGGGAAGCTTATCCGGGCTGTA
1 TAACGGGAAGCTTATCCGGGCTGTA
*
11849776 TAACGAGAAGCT
1 TAACGGGAAGCT
11849788 CATAAGAGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (25 bp):
TAACGGGAAGCTTATCCGGGCTGTA
Found at i:11849949 original size:26 final size:26
Alignment explanation
Indices: 11849920--11849970 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
11849910 CGGAGATTAA
11849920 TTAATTAAGAAGCTAACAAAGAGCCT
1 TTAATTAAGAAGCTAACAAAGAGCCT
* * *
11849946 TTAATTAGGAAGCTCACGAAGAGCC
1 TTAATTAAGAAGCTAACAAAGAGCC
11849971 ATATAATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (26 bp):
TTAATTAAGAAGCTAACAAAGAGCCT
Found at i:11859057 original size:32 final size:32
Alignment explanation
Indices: 11859009--11859070 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
11858999 TGAGTATGAA
*
11859009 AATGTGTTACACGTTCTTTGATATTACAATAC
1 AATGTGTTACACGTTCTTCGATATTACAATAC
* *
11859041 AATGTGTTGCATGTTCTTCGATATTACAAT
1 AATGTGTTACACGTTCTTCGATATTACAAT
11859071 GCAGCTAGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (32 bp):
AATGTGTTACACGTTCTTCGATATTACAATAC
Found at i:11867591 original size:27 final size:27
Alignment explanation
Indices: 11867543--11867700 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
11867533 GCGAGGCTGC
* *
11867543 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
11867570 CAGATATTGTGGCAGAACCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
11867596 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
11867623 CAGATAATCGTGGCATAGCCACCACA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
11867650 CAGATAATGTGGCAGAGCCACCAGAT-
1 CAGATATTGTGGCAGAGCCACCAGATA
*
11867676 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
11867701 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
26 29 0.26
27 79 0.71
28 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:11867627 original size:53 final size:53
Alignment explanation
Indices: 11867561--11867700 Score: 219
Period size: 53 Copynumber: 2.6 Consensus size: 53
11867551 GTGACGAAGT
* *
11867561 CACCAGATACAGAT-ATTGTGGCAGAACCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATA-ATGTGGCAGAGC
* *
11867615 CACCAGATCAGATAATCGTGGCATAGCCACCACAACAGATAATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATAATGTGGCAGAGC
11867668 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
11867701 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 48 0.61
54 31 0.39
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (53 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATAATGTGGCAGAGC
Found at i:11869343 original size:26 final size:26
Alignment explanation
Indices: 11869312--11869419 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
11869302 TGAAATGCCC
*
11869312 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11869338 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
11869364 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11869390 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11869416 ATCA
1 ATCA
11869420 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11875707 original size:27 final size:27
Alignment explanation
Indices: 11875663--11875795 Score: 173
Period size: 27 Copynumber: 5.0 Consensus size: 27
11875653 GTCACTAGAT
*
11875663 ACAGATAT-TATGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
11875689 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
** *
11875716 TTAGATA-ATCGTGGCATAGCCACCAGA
1 ACAGATATAT-GTGGCAGAGCCACCAGA
11875743 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
11875770 TCAGATA-ATTGTGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
11875796 GACGCTTCCT
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
26 11 0.12
27 81 0.86
28 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:11875739 original size:54 final size:54
Alignment explanation
Indices: 11875673--11875795 Score: 219
Period size: 54 Copynumber: 2.3 Consensus size: 54
11875663 ACAGATATTA
* *
11875673 TGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATTAGATAATCG
1 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCG
*
11875727 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTG
1 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCG
11875781 TGGCATAGCCACCAG
1 TGGCATAGCCACCAG
11875796 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (54 bp):
TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCG
Found at i:11879944 original size:15 final size:14
Alignment explanation
Indices: 11879926--11879966 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
11879916 ATTTATTTTA
11879926 TTATTTTTTTTAATT
1 TTATTTTTTTT-ATT
*
11879941 TTATTTTTTTTCTT
1 TTATTTTTTTTATT
11879955 TTATTTATTTTT
1 TTATTT-TTTTT
11879967 GAAAACTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (14 bp):
TTATTTTTTTTATT
Found at i:11879956 original size:23 final size:24
Alignment explanation
Indices: 11879917--11879966 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
11879907 TTTAAGTCTA
11879917 TTTATTTTATTATTTTT-TTTAAT
1 TTTATTTTATTATTTTTATTTAAT
* *
11879940 TTTATTTT-TTTTCTTTTATTTATT
1 TTTATTTTATTAT-TTTTATTTAAT
11879964 TTT
1 TTT
11879967 GAAAACTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 12 0.52
24 8 0.35
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTATTTTATTATTTTTATTTAAT
Found at i:11879961 original size:18 final size:18
Alignment explanation
Indices: 11879917--11879966 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
11879907 TTTAAGTCTA
*
11879917 TTTATTTTATTATTTTTT
1 TTTATTTTATTTTTTTTT
*
11879935 TTAATTTTATTTTTTTTCT
1 TTTATTTTATTTTTTTT-T
11879954 TTTA-TTTATTTTT
1 TTTATTTTATTTTT
11879967 GAAAACTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTATTTTATTTTTTTTT
Found at i:11883343 original size:30 final size:30
Alignment explanation
Indices: 11883309--11883410 Score: 129
Period size: 30 Copynumber: 3.5 Consensus size: 30
11883299 ATAGTGAATC
*
11883309 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
11883339 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
11883367 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
11883397 CGCACACTTAGTGC
1 CGCACACTTAGTGC
11883411 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
27 2 0.03
28 22 0.35
30 38 0.60
31 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:11891094 original size:30 final size:30
Alignment explanation
Indices: 11891060--11891161 Score: 129
Period size: 30 Copynumber: 3.5 Consensus size: 30
11891050 ATAGTGAATC
*
11891060 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
11891090 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
11891118 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
11891148 CGCACACTTAGTGC
1 CGCACACTTAGTGC
11891162 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
27 2 0.03
28 22 0.35
30 38 0.60
31 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:11893809 original size:131 final size:130
Alignment explanation
Indices: 11893576--11893835 Score: 412
Period size: 131 Copynumber: 2.0 Consensus size: 130
11893566 TAATTATTCA
* *
11893576 TTTAAAAATTCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGAGAATCGTGCCCTATCG
1 TTTAAAAATTATTCAAAACGAAGGCAATATTCGATGTTTGGCAATTCGAGAATCGTGCCCTATCG
* *
11893641 TGCTGGGTTACGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGTC
66 TGCTGGGATACGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTC
* * * *
11893706 TTTAAAAATTATTCAAAACGAAGGTAATGTTTGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTATTCAAAACGAAGGCAATATTCGATGTTTGGCAATTC-GAGAATCGTGCCCTATC
* * *
11893771 GTGCTGGGATGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
65 GTGCTGGGATACGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGT
11893836 TCTCTAAATT
Statistics
Matches: 118, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
130 42 0.36
131 76 0.64
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (130 bp):
TTTAAAAATTATTCAAAACGAAGGCAATATTCGATGTTTGGCAATTCGAGAATCGTGCCCTATCG
TGCTGGGATACGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTC
Found at i:11897324 original size:17 final size:17
Alignment explanation
Indices: 11897302--11897339 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
11897292 ACAATCTGTT
11897302 AAAAAAAATTGAATCT-
1 AAAAAAAATTGAATCTG
11897318 AAAAAAAATTGAATCTG
1 AAAAAAAATTGAATCTG
11897335 AAAAA
1 AAAAA
11897340 TAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (17 bp):
AAAAAAAATTGAATCTG
Found at i:11897396 original size:26 final size:27
Alignment explanation
Indices: 11897360--11897410 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
11897350 AAAATATTAC
11897360 TCTTGCCTCTGTCAGAGGC-GCACTGG
1 TCTTGCCTCTGTCAGAGGCGGCACTGG
11897386 TCTTGCCTCTGTCAGAGGCGGCACT
1 TCTTGCCTCTGTCAGAGGCGGCACT
11897411 AGTTGGTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.12, C:0.31, G:0.29, T:0.27
Consensus pattern (27 bp):
TCTTGCCTCTGTCAGAGGCGGCACTGG
Found at i:11903278 original size:23 final size:23
Alignment explanation
Indices: 11903217--11903279 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
11903207 TTTGTCTCTT
*
11903217 TATTATTTGTATTTCTAAAATATTC
1 TATT-TTTGTATTT-TAAAATATAC
* * * *
11903242 GAATTTTATTTTTTAAAATATAC
1 TATTTTTGTATTTTAAAATATAC
11903265 TATTTTTGTATTTTA
1 TATTTTTGTATTTTA
11903280 TTTTTTATCT
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
23 20 0.69
24 7 0.24
25 2 0.07
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (23 bp):
TATTTTTGTATTTTAAAATATAC
Found at i:11903374 original size:135 final size:133
Alignment explanation
Indices: 11903028--11904162 Score: 1692
Period size: 135 Copynumber: 8.7 Consensus size: 133
11903018 TAAATATTTA
* *
11903028 TTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCTCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
11903093 TATTTCTAAAATATTC-AGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCT
66 TATTTCTAAAATATTCGA-ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCT
11903157 TATT
130 TATT
* * *
11903161 TTAGTACATAAATGTATTACTTTAGTATTTTTTATATAACCTTAATTTTGTCTCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
*
11903226 TATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATC--
11903291 ATTATT
129 -TTATT
* *
11903297 TTAGTAAATAAATGTATTA-TTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTAATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
* *
11903361 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
11903426 ATT
131 ATT
*
11903429 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATA-AACCTTAATTTTGTCCCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
* *
11903493 TATTTCTAAAATATTTGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATC--
11903558 ATTATT
129 -TTATT
11903564 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCT-A------------A-T-TTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
*
11903614 TATTTCTAAAATATTCGAATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
11903679 ATT
131 ATT
*
11903682 TTAGTACATAAATGTATTACTTTAGTGTTTTTT-TAT-A---TAA------CCC---AAT-TTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
* * *
11903732 TATTTCTAAAATATTCGGATTCTATTTTTTAAAATATACTATTTTCGTATTTTATATTTTATCTT
66 TATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
11903797 ATT
131 ATT
*
11903800 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
*
11903865 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTA-TTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATC--
11903929 ATTATT
129 -TTATT
*
11903935 TTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
* * *
11904000 TATTTCTAAAATATTTGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATCTT
66 TATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
11904064 ATT
131 ATT
* *
11904067 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATCTA
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
*
11904132 TATTTCTAAAATATTCGTATTTTATTTTTTA
66 TATTTCTAAAATATTCGAATTTTATTTTTTA
11904163 TCTTATTTTA
Statistics
Matches: 934, Mismatches: 35, Indels: 67
0.90 0.03 0.06
Matches are distributed among these distances:
113 1 0.00
114 1 0.00
116 1 0.00
117 4 0.00
118 142 0.15
119 3 0.00
120 1 0.00
121 64 0.07
122 1 0.00
123 4 0.00
129 3 0.00
132 228 0.24
133 182 0.19
134 1 0.00
135 258 0.28
136 40 0.04
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (133 bp):
TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
TATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
ATT
Found at i:11903413 original size:23 final size:23
Alignment explanation
Indices: 11903361--11903414 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
11903351 TAATTATTTG
*
11903361 TATTTCTAAAATATTCGGATTTTA
1 TATTT-TAAAATATACGGATTTTA
* *
11903385 TTTTTTAAAATATAC-TATTTTCA
1 TATTTTAAAATATACGGATTTT-A
11903408 TATTTTA
1 TATTTTA
11903415 TTTTTTATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 5 0.20
23 16 0.64
24 4 0.16
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (23 bp):
TATTTTAAAATATACGGATTTTA
Found at i:11903590 original size:268 final size:266
Alignment explanation
Indices: 11903028--11904162 Score: 1717
Period size: 268 Copynumber: 4.4 Consensus size: 266
11903018 TAAATATTTA
* *
11903028 TTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCTCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
*
11903093 TATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
* *
11903158 ATTTTAGTACATAAATGTATTACTTTAGTATTTTTTATATAACCTTAATTTTGTCTCTTTATTAT
131 ATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTAT
*
11903223 TTGTATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTAT
196 TTGTATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
11903288 CTTATTATT
261 C---TTATT
* *
11903297 TTAGTAAATAAATGTATTA-TTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTAATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
*
11903361 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
11903426 ATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATA-AACCTTAATTTTGTCCCTTTATTAT
131 ATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTAT
* *
11903490 TTGTATTTCTAAAATATTTGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTAT
196 TTGTATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
11903555 CTTATTATT
261 C---TTATT
11903564 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCT-A------------A-T-TTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
* *
11903614 TATTTCTAAAATATTCGAATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
*
11903679 ATTTTAGTACATAAATGTATTACTTTAGTGTTTTTT-TAT-A---TAA------CCC---AAT-T
131 ATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTAT
* * *
11903729 TTGTATTTCTAAAATATTCGGATTCTATTTTTTAAAATATACTATTTTCGTATTTTATATTTTAT
196 TTGTATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
11903794 CTTATT
261 CTTATT
*
11903800 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
11903865 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTA-TTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATC--
* *
11903929 ATTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTAT
129 -TTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTAT
* * *
11903994 TATTTGTATTTCTAAAATATTTGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTT
193 TATTTGTATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTT
11904058 TATCTTATT
258 TATCTTATT
* *
11904067 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATCTA
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
*
11904132 TATTTCTAAAATATTCGTATTTTATTTTTTA
66 TATTTCTAAAATATTCGGATTTTATTTTTTA
11904163 TCTTATTTTA
Statistics
Matches: 797, Mismatches: 34, Indels: 72
0.88 0.04 0.08
Matches are distributed among these distances:
236 47 0.06
237 1 0.00
239 62 0.08
240 2 0.00
243 3 0.00
249 4 0.01
250 22 0.03
251 43 0.05
252 3 0.00
253 139 0.17
254 4 0.01
255 2 0.00
258 3 0.00
264 3 0.00
267 220 0.28
268 222 0.28
269 17 0.02
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (266 bp):
TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
ATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTAT
TTGTATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
CTTATT
Found at i:11903617 original size:121 final size:118
Alignment explanation
Indices: 11903489--11903850 Score: 627
Period size: 118 Copynumber: 3.0 Consensus size: 118
11903479 CCCTTTATTA
* * *
11903489 TTTGTATTTCTAAAATATTTGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTA
1 TTTGTATTTCTAAAATATTCGAATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA
11903554 TCTTATTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAAT
66 TC---TTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAAT
11903610 TTTGTATTTCTAAAATATTCGAATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA
1 TTTGTATTTCTAAAATATTCGAATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA
11903675 TCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTTATATAACCC-AAT
66 TCTTATTTTAGTACATAAATGTATTACTTTAGTG-TTTTTTATATAACCCTAAT
* *
11903728 TTTGTATTTCTAAAATATTCGGATTCTATTTTTTAAAATATACTATTTTCGTATTTTATATTTTA
1 TTTGTATTTCTAAAATATTCGAATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA
*
11903793 TCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAAT
66 TCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAAT
11903846 TTTGT
1 TTTGT
11903851 CCCTTTATTA
Statistics
Matches: 233, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
117 14 0.06
118 140 0.60
119 15 0.06
121 64 0.27
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (118 bp):
TTTGTATTTCTAAAATATTCGAATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA
TCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAAT
Found at i:11903947 original size:371 final size:376
Alignment explanation
Indices: 11903028--11904117 Score: 1531
Period size: 371 Copynumber: 2.8 Consensus size: 376
11903018 TAAATATTTA
* * *
11903028 TTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCTCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATA-AACCTTAATTTTGTCCCTTTATTATTTG
*
11903093 TATTTCTAAAATATTC-AGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATC-
65 TATTTCTAAAATATTCGA-ATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATCT
* * *
11903156 --TTATTTTAGTACATAAATGTATTACTTTAGTATTTTTTATATAACCTTAATTTTGTCTCTTTA
129 TATTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAA-----------TA
*
11903219 TTATTTGTATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTT
183 TTATTTGTATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTT
*
11903284 TTATCTTATTATTTTAGTAAATAAATGTATTA-TTTAGTGTTTTTTATATAACCCTAATTTTGTC
248 TTATC---TTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTT-TAT-A---TAA------C
*
11903348 CCTTAATTATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCATATTT
299 CC-TAA-T-TTTGTATTTCTAAAATATTCGGATTCTATTTTTTAAAATATACTATTTTCATATTT
*
11903413 TATTTTTTATCTTATT
361 TATATTTTATCTTATT
11903429 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATAAACCTTAATTTTGTCCCTTTATTATTTGT
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATAAACCTTAATTTTGTCCCTTTATTATTTGT
*
11903494 ATTTCTAAAATATTTGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATCTTA
66 ATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATCTTA
*
11903559 TTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCT-A-A-T-TTTGTATTTC
131 TTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATATTATTTGTATTTC
*
11903620 TAAAATATTCGAATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTTA
196 TAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTTA
11903685 GTACATAAATGTATTACTTTAGTGTTTTTTTATATAACCC-AATTTTGTATTTCTAAAATATTCG
261 GTACATAAATGTATTACTTTAGTGTTTTTTTATATAACCCTAATTTTGTATTTCTAAAATATTCG
*
11903749 GATTCTATTTTTTAAAATATACTATTTTCGTATTTTATATTTTATCTTATT
326 GATTCTATTTTTTAAAATATACTATTTTCATATTTTATATTTTATCTTATT
11903800 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATA-AACCTTAATTTTGTCCCTTTATTATTTG
* *
11903865 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTA-TTTCGTATTTTATTTTTTATCTT
65 TATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATCTT
11903929 ATTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTAT
130 ATTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAA-----------TAT
* * *
11903994 TATTTGTATTTCTAAAATATTTGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTT
184 TATTTGTATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTT
11904058 TATCTTATTTTAGTACATAAATGTATTACTTTAGTG-TTTTTTATATAACCCTAATTTTGT
249 TATCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTTATATAACCCTAATTTTGT
11904118 CCCTTTATTA
Statistics
Matches: 646, Mismatches: 21, Indels: 60
0.89 0.03 0.08
Matches are distributed among these distances:
371 175 0.27
372 69 0.11
373 2 0.00
375 3 0.00
381 3 0.00
384 17 0.03
385 75 0.12
386 67 0.10
388 65 0.10
389 1 0.00
390 1 0.00
400 85 0.13
401 36 0.06
402 1 0.00
403 46 0.07
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (376 bp):
TTAGTACATAAATGTATTACTTTAGTGTTTTTTATAAACCTTAATTTTGTCCCTTTATTATTTGT
ATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATCTTA
TTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATATTATTTGTATTTC
TAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTTA
GTACATAAATGTATTACTTTAGTGTTTTTTTATATAACCCTAATTTTGTATTTCTAAAATATTCG
GATTCTATTTTTTAAAATATACTATTTTCATATTTTATATTTTATCTTATT
Found at i:11903995 original size:63 final size:63
Alignment explanation
Indices: 11903927--11904128 Score: 146
Period size: 63 Copynumber: 3.1 Consensus size: 63
11903917 ATTTTTTATC
11903927 TTATTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCT
1 TTATTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCT
* * * * * * ** *
11903990 TTATTATTTGTATTTC-TAAAATATTTGGATTTTA-T-TTTTTAAAATATATTATTTTCGT-ATT
1 TTATTATTT-TAGTACAT-AAATGTAT-AACTTTAGTGTTTTT----TATA-TA--ACCCTAATT
* *
11904051 TTAT--TT
56 TTGTCCCT
*
11904057 TTATCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCT
1 TTA--TTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCT
11904122 TTATTAT
1 TTATTAT
11904129 CTATATTTCT
Statistics
Matches: 99, Mismatches: 22, Indels: 36
0.63 0.14 0.23
Matches are distributed among these distances:
62 2 0.02
63 25 0.25
64 13 0.13
65 13 0.13
67 13 0.13
68 13 0.13
69 18 0.18
70 2 0.02
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.56
Consensus pattern (63 bp):
TTATTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCT
Found at i:11904200 original size:132 final size:128
Alignment explanation
Indices: 11903028--11903614 Score: 624
Period size: 133 Copynumber: 4.4 Consensus size: 128
11903018 TAAATATTTA
* *
11903028 TTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCTCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
* * ** * *
11903093 TATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA-TCT
66 TATTTCTAAAATATTCGGATTTTATTTTTT--AA-AT--TATTTTAGTA-CATATTTTATATTAT
11903157 TATT
125 TATT
* * *
11903161 TTAGTACATAAATGTATTACTTTAGTATTTTTTATATAACCTTAATTTTGTCTCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
* * * * *
11903226 TATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTT--AA-AT--TATTTTAGTA---CATATTTTATATT
11903291 ATTATT
123 ATTATT
* *
11903297 TTAGTAAATAAATGTATTA-TTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTAATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
* ** * * *
11903361 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAATTATTTTA-GTACATATTTTA--TATTA--TT
11903426 ATT
126 ATT
*
11903429 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATA-AACCTTAATTTTGTCCCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
* * * * *
11903493 TATTTCTAAAATATTTGAATTTTATTTTTTAAAATATACTATTTTCA-TATTTTATTTTTTATCT
66 TATTTCTAAAATATTCGGATTTTATTTTTT--AA-AT--TATTTT-AGTA---CATATTTTATAT
11903557 TATTATT
122 TATTATT
11903564 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGT
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGT
11903615 ATTTCTAAAA
Statistics
Matches: 396, Mismatches: 39, Indels: 35
0.84 0.08 0.07
Matches are distributed among these distances:
128 7 0.02
130 8 0.02
131 1 0.00
132 78 0.20
133 126 0.32
134 2 0.01
135 120 0.30
136 38 0.10
137 8 0.02
138 1 0.00
139 7 0.02
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (128 bp):
TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
TATTTCTAAAATATTCGGATTTTATTTTTTAAATTATTTTAGTACATATTTTATATTATTATT
Found at i:11904234 original size:24 final size:25
Alignment explanation
Indices: 11904207--11904253 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
11904197 TTTTTTAAAA
11904207 TATAATATTTTT-GTATTTTATTTT
1 TATAATATTTTTAGTATTTTATTTT
*
11904231 TATACTATTTTTAGTATTTTATT
1 TATAATATTTTTAGTATTTTATT
11904254 GTATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (25 bp):
TATAATATTTTTAGTATTTTATTTT
Found at i:11904274 original size:16 final size:16
Alignment explanation
Indices: 11904250--11904328 Score: 70
Period size: 16 Copynumber: 4.9 Consensus size: 16
11904240 TTTAGTATTT
*
11904250 TATTGTATTTTTTTCA
1 TATTTTATTTTTTTCA
* *
11904266 TATTCTATTTCTTTTCG
1 TATTTTATTT-TTTTCA
11904283 TATTTTA-TTTTTTCA
1 TATTTTATTTTTTTCA
***
11904298 TTAAGATATTTTTTTCA
1 -TATTTTATTTTTTTCA
*
11904315 TATTTTCTTTTTTT
1 TATTTTATTTTTTT
11904329 ATACTATTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
15 5 0.10
16 25 0.51
17 19 0.39
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.70
Consensus pattern (16 bp):
TATTTTATTTTTTTCA
Found at i:11904654 original size:11 final size:11
Alignment explanation
Indices: 11904638--11904667 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11904628 AATAAATTTA
11904638 TAAATTAAATC
1 TAAATTAAATC
11904649 TAAATTAAATC
1 TAAATTAAATC
11904660 -AAATTAAA
1 TAAATTAAA
11904668 ATCAACAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAATTAAATC
Found at i:11904669 original size:11 final size:10
Alignment explanation
Indices: 11904639--11904672 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
11904629 ATAAATTTAT
11904639 AAATTAAATC
1 AAATTAAATC
11904649 TAAATTAAATC
1 -AAATTAAATC
11904660 AAATTAAAATC
1 AAATT-AAATC
11904671 AA
1 AA
11904673 CAATAAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (10 bp):
AAATTAAATC
Found at i:11904821 original size:22 final size:20
Alignment explanation
Indices: 11904796--11904845 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
11904786 TGGTTGCTCC
*
11904796 TTCTTCTTCTTCTTCTCTTATT
1 TTCTTCTTCTT-TTCTCTCA-T
11904818 TTCTTCTTTCTTTTCTCTCAT
1 TTCTTC-TTCTTTTCTCTCAT
11904839 TTCTTCT
1 TTCTTCT
11904846 CCCCAAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 7 0.27
22 13 0.50
23 5 0.19
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCTTCTTCTTTTCTCTCAT
Found at i:11905054 original size:19 final size:19
Alignment explanation
Indices: 11905018--11905054 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11905008 TATGTGCAGC
* *
11905018 CTTTTTTTTTCGATTTTAG
1 CTTTTTTTTTCAACTTTAG
11905037 CTTTTTTTTTCAACTTTA
1 CTTTTTTTTTCAACTTTA
11905055 TACTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.05, T:0.68
Consensus pattern (19 bp):
CTTTTTTTTTCAACTTTAG
Found at i:11906101 original size:26 final size:25
Alignment explanation
Indices: 11906044--11906101 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
11906034 ATCGCTCCAA
*
11906044 GAAAGAGAAATTTCTTGAAAGAAATC
1 GAAAGAGAAATTTCTTG-AAGAAAAC
*
11906070 GGAAGAGAAATATTCTCTG-AGAAAAC
1 GAAAGAGAAAT-TTCT-TGAAGAAAAC
11906096 GAAAGA
1 GAAAGA
11906102 AGAAGAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 21 0.78
27 4 0.15
28 2 0.07
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (25 bp):
GAAAGAGAAATTTCTTGAAGAAAAC
Found at i:11907909 original size:18 final size:18
Alignment explanation
Indices: 11907886--11907924 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
11907876 TGTTAACATG
11907886 TTATGCATAATATTAATT
1 TTATGCATAATATTAATT
11907904 TTATGCATAATATTAATT
1 TTATGCATAATATTAATT
11907922 TTA
1 TTA
11907925 ATTAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (18 bp):
TTATGCATAATATTAATT
Found at i:11908526 original size:52 final size:50
Alignment explanation
Indices: 11908448--11908549 Score: 177
Period size: 52 Copynumber: 2.0 Consensus size: 50
11908438 CTAACAAAAG
11908448 TCTGTAATTTCAATTTACAATAGGATAAATCAACCCCCATGAAAAGGATGGA
1 TCTGTAATTTCAATTTACAATAGGAT-AATCAA-CCCCATGAAAAGGATGGA
*
11908500 TCTGTAATTTCAATTTACAATAGGATAATGAACCCCATGAAAAGGATGGA
1 TCTGTAATTTCAATTTACAATAGGATAATCAACCCCATGAAAAGGATGGA
11908550 ATTGGGGGAT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 18 0.37
51 5 0.10
52 26 0.53
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGTAATTTCAATTTACAATAGGATAATCAACCCCATGAAAAGGATGGA
Found at i:11909374 original size:37 final size:37
Alignment explanation
Indices: 11909333--11909410 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
11909323 TAAATTTTTA
* *
11909333 AAAATCATGAAAAAAATTTCTTAA-ATTTTAAAAATAT
1 AAAATCATGAAAAAAATTT-TAAACATCTTAAAAATAT
***
11909370 AAAATCATTTTAAAAATTTTAAACATCTTAAAAATAT
1 AAAATCATGAAAAAAATTTTAAACATCTTAAAAATAT
11909407 AAAA
1 AAAA
11909411 AAAATCGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 3 0.09
37 32 0.91
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (37 bp):
AAAATCATGAAAAAAATTTTAAACATCTTAAAAATAT
Found at i:11909379 original size:19 final size:18
Alignment explanation
Indices: 11909357--11909410 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
11909347 AATTTCTTAA
11909357 ATTTTAAAAATATAAAATC
1 ATTTTAAAAATATAAAA-C
* *
11909376 ATTTTAAAAATTTTAAAC
1 ATTTTAAAAATATAAAAC
*
11909394 ATCTTAAAAATATAAAA
1 ATTTTAAAAATATAAAA
11909411 AAAATCGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTTAAAAATATAAAAC
Found at i:11911026 original size:7 final size:8
Alignment explanation
Indices: 11911007--11911047 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
11910997 AATGATACTT
11911007 TTTTTAAA
1 TTTTTAAA
11911015 TTTTTAAA
1 TTTTTAAA
*
11911023 TTTTTCATA
1 TTTTT-AAA
11911032 TTTTTAAA
1 TTTTTAAA
*
11911040 ATTTTAAA
1 TTTTTAAA
11911048 GCGTTTTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTTTAAA
Found at i:11911026 original size:17 final size:17
Alignment explanation
Indices: 11911006--11911044 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
11910996 GAATGATACT
*
11911006 TTTTTTAAATTTTTAAA
1 TTTTTCAAATTTTTAAA
*
11911023 TTTTTCATATTTTTAAA
1 TTTTTCAAATTTTTAAA
*
11911040 ATTTT
1 TTTTT
11911045 AAAGCGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTCAAATTTTTAAA
Found at i:11918797 original size:21 final size:21
Alignment explanation
Indices: 11918773--11918846 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
11918763 ACATAAGTGC
*
11918773 TAAACGGAAACCCGTAAGGGT
1 TAAACGGAAACCCGAAAGGGT
* * * *
11918794 TAAAC-TAAAGCTCGAAAGAGC
1 TAAACGGAAA-CCCGAAAGGGT
11918815 TAAACGGAAACCC-AATAGGGT
1 TAAACGGAAACCCGAA-AGGGT
*
11918836 TAAACTGAAAC
1 TAAACGGAAAC
11918847 TCATACGAGT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
20 5 0.12
21 32 0.80
22 3 0.08
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.15
Consensus pattern (21 bp):
TAAACGGAAACCCGAAAGGGT
Found at i:11920393 original size:19 final size:18
Alignment explanation
Indices: 11920369--11920404 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
11920359 TAATAAATTA
*
11920369 TTTAATATTATAATTTTAT
1 TTTAATAATA-AATTTTAT
11920388 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
11920405 AATAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:11920790 original size:31 final size:31
Alignment explanation
Indices: 11920755--11920820 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
11920745 TTTTTTTTGA
11920755 AAATGAACGAAACCGACATTCCTATTTTTAC
1 AAATGAACGAAACCGACATTCCTATTTTTAC
11920786 AAATGAACGAAACCGACATTCCTATTTTTAC
1 AAATGAACGAAACCGACATTCCTATTTTTAC
11920817 AAAT
1 AAAT
11920821 AGGAATCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (31 bp):
AAATGAACGAAACCGACATTCCTATTTTTAC
Found at i:11924667 original size:13 final size:13
Alignment explanation
Indices: 11924613--11924680 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
11924603 TTAGTTTAGT
*
11924613 AATACTTTTGAAA
1 AATACTTTTAAAA
* * * *
11924626 AGTGCTTTTGAGA
1 AATACTTTTAAAA
* *
11924639 AATACTGTAAAAA
1 AATACTTTTAAAA
* *
11924652 AATATTTTTAAGA
1 AATACTTTTAAAA
11924665 AATACTTTTAAAA
1 AATACTTTTAAAA
11924678 AAT
1 AAT
11924681 TTAGTTTAAA
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (13 bp):
AATACTTTTAAAA
Found at i:11924680 original size:26 final size:26
Alignment explanation
Indices: 11924613--11924680 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
11924603 TTAGTTTAGT
* * * *
11924613 AATACTTTTGAAAAGTGCTTTTGAGA
1 AATACTTTTAAAAAATACTTTTAAGA
* * *
11924639 AATACTGTAAAAAAATATTTTTAAGA
1 AATACTTTTAAAAAATACTTTTAAGA
11924665 AATACTTTTAAAAAAT
1 AATACTTTTAAAAAAT
11924681 TTAGTTTAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (26 bp):
AATACTTTTAAAAAATACTTTTAAGA
Found at i:11924897 original size:24 final size:24
Alignment explanation
Indices: 11924868--11924923 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
11924858 TATTTTAATA
11924868 TATAAAATATAAA-ATATAAATATT
1 TATAAAATATAAATAT-TAAATATT
* *
11924892 TTTAAACA-ATAAATATTAATTATT
1 TATAAA-ATATAAATATTAAATATT
11924916 TATAAAAT
1 TATAAAAT
11924924 TTTATTAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
23 1 0.04
24 22 0.85
25 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TATAAAATATAAATATTAAATATT
Found at i:11930165 original size:11 final size:11
Alignment explanation
Indices: 11930149--11930182 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11930139 CTCATCTAGT
11930149 TTTGTTCTTGA
1 TTTGTTCTTGA
*
11930160 TTTGTTCTTAA
1 TTTGTTCTTGA
*
11930171 TTTATTCTTGA
1 TTTGTTCTTGA
11930182 T
1 T
11930183 GATTTGACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.12, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTGA
Found at i:11936595 original size:23 final size:23
Alignment explanation
Indices: 11936568--11936642 Score: 141
Period size: 23 Copynumber: 3.2 Consensus size: 23
11936558 CATACAACAG
11936568 ACACTGATTCAACTTTCCTTTCT
1 ACACTGATTCAACTTTCCTTTCT
11936591 ACACTGATTCAACTTTCCTTTCT
1 ACACTGATTCAACTTTCCTTTCT
11936614 ACACTGATTCAACTTTCCTTTCT
1 ACACTGATTCAACTTTCCTTTCT
11936637 AACACT
1 -ACACT
11936643 TTTGAATCGA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 46 0.90
24 5 0.10
ACGTcount: A:0.24, C:0.31, G:0.04, T:0.41
Consensus pattern (23 bp):
ACACTGATTCAACTTTCCTTTCT
Found at i:11938285 original size:33 final size:32
Alignment explanation
Indices: 11938243--11938314 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
11938233 AAATGAGTAC
11938243 ATTTGTATTATTTA-TATATAATTAGTAAAAAGAT
1 ATTT-TATTATTTATTAT-TAATTAGT-AAAAGAT
*
11938277 ATTTTATTATTTATTATTAATTTGTAAAAGAT
1 ATTTTATTATTTATTATTAATTAGTAAAAGAT
11938309 -TTTTAT
1 ATTTTAT
11938315 ATGATAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 6 0.17
32 7 0.19
33 16 0.44
34 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (32 bp):
ATTTTATTATTTATTATTAATTAGTAAAAGAT
Found at i:11938432 original size:14 final size:14
Alignment explanation
Indices: 11938413--11938440 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11938403 TTTGTTATTA
11938413 AATAAATATTTAAT
1 AATAAATATTTAAT
11938427 AATAAATATTTAAT
1 AATAAATATTTAAT
11938441 TTATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATAAATATTTAAT
Found at i:11939346 original size:39 final size:39
Alignment explanation
Indices: 11939298--11939444 Score: 186
Period size: 39 Copynumber: 3.8 Consensus size: 39
11939288 TTAATAAGGG
* *
11939298 TAAACTACTGTACTGAATAATTGCTAGTTACTGAATAAC
1 TAAACTACTGCACTGAATAATTGATAGTTACTGAATAAC
* * * *
11939337 TAAATTACTGTATTGAATAATTGATAGTTATTGAATAAC
1 TAAACTACTGCACTGAATAATTGATAGTTACTGAATAAC
* * *
11939376 TAGACTACTGCACTGAATATTTGATAGTTACTGAATGAC
1 TAAACTACTGCACTGAATAATTGATAGTTACTGAATAAC
* * *
11939415 TAAATTACTGCACTGAATAACTGATTGTTA
1 TAAACTACTGCACTGAATAATTGATAGTTA
11939445 TTGATTGTTT
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (39 bp):
TAAACTACTGCACTGAATAATTGATAGTTACTGAATAAC
Found at i:11939391 original size:78 final size:78
Alignment explanation
Indices: 11939301--11939448 Score: 224
Period size: 78 Copynumber: 1.9 Consensus size: 78
11939291 ATAAGGGTAA
* * * * *
11939301 ACTACTGTACTGAATAATTGCTAGTTACTGAATAACTAAATTACTGTATTGAATAATTGATAGTT
1 ACTACTGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGCACTGAATAACTGATAGTT
11939366 ATTGAATAACTAG
66 ATTGAATAACTAG
* * *
11939379 ACTACTGCACTGAATATTTGATAGTTACTGAATGACTAAATTACTGCACTGAATAACTGATTGTT
1 ACTACTGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGCACTGAATAACTGATAGTT
11939444 ATTGA
66 ATTGA
11939449 TTGTTTGATA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (78 bp):
ACTACTGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGCACTGAATAACTGATAGTT
ATTGAATAACTAG
Found at i:11939394 original size:21 final size:20
Alignment explanation
Indices: 11939368--11939436 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
11939358 TGATAGTTAT
11939368 TGAATAACTAGACTACTGCAC
1 TGAATAACTAGA-TACTGCAC
* * * *
11939389 TGAAT-ATTTGATAGT-TAC
1 TGAATAACTAGATACTGCAC
* *
11939407 TGAATGACTAAATTACTGCAC
1 TGAATAACTAGA-TACTGCAC
11939428 TGAATAACT
1 TGAATAACT
11939437 GATTGTTATT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
18 7 0.20
19 6 0.17
20 7 0.20
21 15 0.43
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (20 bp):
TGAATAACTAGATACTGCAC
Found at i:11943306 original size:54 final size:54
Alignment explanation
Indices: 11943127--11943321 Score: 241
Period size: 55 Copynumber: 3.6 Consensus size: 54
11943117 CTTACCATTA
* * * * * *
11943127 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-TAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
* ** *
11943180 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTGACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTTATCAATG
* *
11943235 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
*
11943289 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGCCTTGACATGGTCTTACATGATATCCTT
11943322 ATCTTACCAA
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 33 0.27
54 41 0.34
55 43 0.36
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
Found at i:11944161 original size:30 final size:30
Alignment explanation
Indices: 11944127--11944183 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
11944117 TAACTCAAAA
*
11944127 TTTTGCAAAATTACAATTTTGCCCCTAAAC
1 TTTTGCAAAATTACAATTTTACCCCTAAAC
* **
11944157 TTTTGCAGAATTATGATTTTACCCCTA
1 TTTTGCAAAATTACAATTTTACCCCTA
11944184 GGCTCGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTACCCCTAAAC
Found at i:11949027 original size:53 final size:52
Alignment explanation
Indices: 11948965--11949073 Score: 182
Period size: 53 Copynumber: 2.1 Consensus size: 52
11948955 ATTAAAACCT
* *
11948965 TTTATAACCAATAAAATAGTGATATATTTCCAATTAAGAAAAATAAAAAAATA
1 TTTATAACCAATAAAATAGTGATATATGTCCAATCAAGAAAAAT-AAAAAATA
*
11949018 TTTATAACCAATAAAATAGTGATATATGTCTAATCAAGAAAAATAAAAAATA
1 TTTATAACCAATAAAATAGTGATATATGTCCAATCAAGAAAAATAAAAAATA
11949070 TTTA
1 TTTA
11949074 ACGTGAAAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
52 12 0.23
53 41 0.77
ACGTcount: A:0.55, C:0.07, G:0.06, T:0.31
Consensus pattern (52 bp):
TTTATAACCAATAAAATAGTGATATATGTCCAATCAAGAAAAATAAAAAATA
Found at i:11949044 original size:26 final size:26
Alignment explanation
Indices: 11948965--11949044 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
11948955 ATTAAAACCT
11948965 TTTATAACCAATAAAATAGTGATATA
1 TTTATAACCAATAAAATAGTGATATA
** ** * *** *
11948991 TTTCCAATTAAGAAAAATAAAAAAATA
1 TTTATAACCAA-TAAAATAGTGATATA
11949018 TTTATAACCAATAAAATAGTGATATA
1 TTTATAACCAATAAAATAGTGATATA
11949044 T
1 T
11949045 GTCTAATCAA
Statistics
Matches: 35, Mismatches: 18, Indels: 2
0.64 0.33 0.04
Matches are distributed among these distances:
26 18 0.51
27 17 0.49
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (26 bp):
TTTATAACCAATAAAATAGTGATATA
Found at i:11950011 original size:4 final size:4
Alignment explanation
Indices: 11950002--11950035 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
11949992 AGAATAATTG
11950002 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
11950036 TGCACGGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:11951747 original size:2 final size:2
Alignment explanation
Indices: 11951740--11951765 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11951730 ATACCTATCC
11951740 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
11951766 GATCTTTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11952941 original size:2 final size:2
Alignment explanation
Indices: 11952934--11952963 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11952924 AATTTCATTT
11952934 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11952964 AACAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11956637 original size:20 final size:20
Alignment explanation
Indices: 11956614--11956651 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11956604 ATATAAATTA
*
11956614 TTAAATTTTAATAAAAATAT
1 TTAAAATTTAATAAAAATAT
*
11956634 TTAAAATTTATTAAAAAT
1 TTAAAATTTAATAAAAAT
11956652 TGAAAAAAAT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAAATTTAATAAAAATAT
Found at i:11956659 original size:20 final size:20
Alignment explanation
Indices: 11956636--11956688 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
11956626 AAAAATATTT
11956636 AAAATTTATTAAAAATTGAA
1 AAAATTTATTAAAAATTGAA
* * *
11956656 AAAAATTATAAAAAATTGTA
1 AAAATTTATTAAAAATTGAA
*
11956676 AAACTTTA-TAAAA
1 AAAATTTATTAAAA
11956689 TCATAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (20 bp):
AAAATTTATTAAAAATTGAA
Found at i:11956668 original size:18 final size:18
Alignment explanation
Indices: 11956643--11956707 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
11956633 TTTAAAATTT
11956643 ATTA-AAAATTGAAAAAA
1 ATTATAAAATTGAAAAAA
* *
11956660 ATTATAAAAAATTGTAAAAC
1 ATTAT--AAAATTGAAAAAA
* *
11956680 TTTATAAAA-TCATAAAAA
1 ATTATAAAATTGA-AAAAA
11956698 ATTATAAAAT
1 ATTATAAAAT
11956708 GCATAAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
17 5 0.14
18 16 0.44
20 15 0.42
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
ATTATAAAATTGAAAAAA
Found at i:11956678 original size:28 final size:27
Alignment explanation
Indices: 11956643--11956707 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
11956633 TTTAAAATTT
*
11956643 ATTA-AAAATTGAAAAAAATTATAAAAA
1 ATTATAAAATT-AAAAAAATCATAAAAA
* * *
11956670 ATTGTAAAACTTTATAAAATCATAAAAA
1 ATTATAAAA-TTAAAAAAATCATAAAAA
11956698 ATTATAAAAT
1 ATTATAAAAT
11956708 GCATAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
27 4 0.13
28 25 0.81
29 2 0.06
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (27 bp):
ATTATAAAATTAAAAAAATCATAAAAA
Found at i:11956697 original size:19 final size:19
Alignment explanation
Indices: 11956681--11956716 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
11956671 TTGTAAAACT
11956681 TTATAAAAT-CATAAAAAA
1 TTATAAAATGCATAAAAAA
11956699 TTATAAAATGCATAAAAA
1 TTATAAAATGCATAAAAA
11956717 TGATCATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (19 bp):
TTATAAAATGCATAAAAAA
Found at i:11956716 original size:28 final size:29
Alignment explanation
Indices: 11956656--11956717 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
11956646 AAAAATTGAA
* * **
11956656 AAAAATTATAAAAAATTGTAAAACTTTAT
1 AAAAATCATAAAAAATTATAAAACTGCAT
11956685 -AAAATCATAAAAAATTATAAAA-TGCAT
1 AAAAATCATAAAAAATTATAAAACTGCAT
11956712 AAAAAT
1 AAAAAT
11956718 GATCATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (29 bp):
AAAAATCATAAAAAATTATAAAACTGCAT
Found at i:11956985 original size:28 final size:30
Alignment explanation
Indices: 11956928--11957025 Score: 125
Period size: 29 Copynumber: 3.4 Consensus size: 30
11956918 TTCTTTACAT
* *
11956928 TTTTATAA-ATTTCTTACGGCTTTATAAAA
1 TTTTATAATTTTTCTTACGACTTTATAAAA
*
11956957 TTTTATAATTTTTC-TA-TACTTCTAT-AAA
1 TTTTATAATTTTTCTTACGACTT-TATAAAA
11956985 TTTTATAA-TTTTCTTACGACTTTATAAAA
1 TTTTATAATTTTTCTTACGACTTTATAAAA
11957014 TTTTATAATTTT
1 TTTTATAATTTT
11957026 ATAATTTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
27 5 0.08
28 19 0.32
29 28 0.47
30 7 0.12
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (30 bp):
TTTTATAATTTTTCTTACGACTTTATAAAA
Found at i:11957046 original size:57 final size:57
Alignment explanation
Indices: 11956926--11957051 Score: 159
Period size: 57 Copynumber: 2.2 Consensus size: 57
11956916 ATTTCTTTAC
* * *
11956926 ATTTTTATAAATTTCTTACGGCTTTATAAAATTTTATAATTTTTCTATACTTCTATAA
1 ATTTTTATAATTTTCTTACGACTTTATAAAATTTTATAA-TTTTCTATAATTCTATAA
* *
11956984 A-TTTTATAATTTTCTTACGACTTTATAAAATTTTATAA-TTT-TATAATTTTTTAA
1 ATTTTTATAATTTTCTTACGACTTTATAAAATTTTATAATTTTCTATAATTCTATAA
11957038 GATTTTTTATAATT
1 -A-TTTTTATAATT
11957052 ATTTTTTTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
54 10 0.17
55 4 0.07
57 45 0.75
58 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.56
Consensus pattern (57 bp):
ATTTTTATAATTTTCTTACGACTTTATAAAATTTTATAATTTTCTATAATTCTATAA
Found at i:11957150 original size:24 final size:24
Alignment explanation
Indices: 11957123--11957178 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
11957113 TTCTAATTTA
11957123 ATTATTTTTTACA-ATTATATATAT
1 ATTATTTTTTA-ATATTATATATAT
*
11957147 ATTATAATTTTTAATATTTTATATAT
1 ATTAT--TTTTTAATATTATATATAT
*
11957173 TTTATT
1 ATTATT
11957179 AAAATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 6 0.22
25 1 0.04
26 20 0.74
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTATTTTTTAATATTATATATAT
Found at i:11957157 original size:26 final size:26
Alignment explanation
Indices: 11957128--11957177 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
11957118 ATTTAATTAT
11957128 TTTTTACA-ATTATATATATATTATAA
1 TTTTTA-ATATTATATATATATTATAA
* *
11957154 TTTTTAATATTTTATATATTTTAT
1 TTTTTAATATTATATATATATTAT
11957178 TAAAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTTAATATTATATATATATTATAA
Found at i:11957171 original size:19 final size:19
Alignment explanation
Indices: 11957149--11957215 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 19
11957139 ATATATATAT
11957149 TATAATTTTTAATATTTTA
1 TATAATTTTTAATATTTTA
* *
11957168 TATATTTTATTAA-AATTTA
1 TATAATTT-TTAATATTTTA
* *
11957187 TTTATTTTTATAAT-TTTTA
1 TATAATTTT-TAATATTTTA
*
11957206 T-TGATTTTTA
1 TATAATTTTTA
11957216 TCTTTTATCA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
17 2 0.05
18 6 0.15
19 27 0.69
20 4 0.10
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (19 bp):
TATAATTTTTAATATTTTA
Found at i:11957204 original size:29 final size:29
Alignment explanation
Indices: 11957137--11957232 Score: 78
Period size: 29 Copynumber: 3.4 Consensus size: 29
11957127 TTTTTTACAA
* *
11957137 TTATATA-TATATTATAATTTTTAATATT
1 TTATATATTTTATTAAAATTTTTAATATT
*
11957165 TTATATATTTTATTAAAATTTATTTAT-TT
1 TTATATATTTTATTAAAATTT-TTAATATT
* *
11957194 TTATA-ATTTTTATT--GATTTTT-ATCTT
1 TTATATA-TTTTATTAAAATTTTTAATATT
11957220 TTATCATATTTTA
1 TTAT-ATATTTTA
11957233 GCCACATGTC
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
25 2 0.03
26 8 0.14
27 10 0.17
28 9 0.16
29 25 0.43
30 4 0.07
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (29 bp):
TTATATATTTTATTAAAATTTTTAATATT
Found at i:11957450 original size:85 final size:85
Alignment explanation
Indices: 11957315--11957521 Score: 236
Period size: 85 Copynumber: 2.4 Consensus size: 85
11957305 AATTGAGTGC
* * ** * *
11957315 AAAAAAGCAGGAGCTTAATTGCATTTTTT-GAAAAAGTTTAAAGGCCTTTTTGATGTATTTTGAA
1 AAAAAAACAGGAGCTTAATT--ATTTTTTAAAAAAAGTTTAAAGGCCTTTTTGATAAATTGTAAA
*
11957379 AGTTCAAGTACCCAATTAAATG
64 AGTTCAAGTACCCAAGTAAATG
* **
11957401 AAAAAAACAGGAGCTTAATTATTTTTTAAAAAAAGTTTGAAGGTTTTTTTGATAAATTGTAAAAG
1 AAAAAAACAGGAGCTTAATTATTTTTTAAAAAAAGTTTAAAGGCCTTTTTGATAAATTGTAAAAG
* *
11957466 TTTAAGTACCCAAGTGAATG
66 TTCAAGTACCCAAGTAAATG
* * *
11957486 AAAAAAAAAGAAGGTTTAATTATTTTTTTAAAAAAA
1 AAAAAAACAGGA-GCTTAATTA-TTTTTTAAAAAAA
11957522 ATTGAGAATT
Statistics
Matches: 103, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
84 7 0.07
85 56 0.54
86 27 0.26
87 13 0.13
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (85 bp):
AAAAAAACAGGAGCTTAATTATTTTTTAAAAAAAGTTTAAAGGCCTTTTTGATAAATTGTAAAAG
TTCAAGTACCCAAGTAAATG
Found at i:11963020 original size:27 final size:29
Alignment explanation
Indices: 11962967--11963022 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
11962957 GTGTGACTAG
* *
11962967 CTCGTGTGTTTTGAAAATGGCCACACATA
1 CTCGTGTGCTTTGAAAATAGCCACACATA
*
11962996 CTCGTGTGCTTTGGAAATAGCCACACA
1 CTCGTGTGCTTTGAAAATAGCCACACA
11963023 CGCCCGTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (29 bp):
CTCGTGTGCTTTGAAAATAGCCACACATA
Found at i:11963030 original size:29 final size:29
Alignment explanation
Indices: 11962969--11963033 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
11962959 GTGACTAGCT
* * * *
11962969 CGTGTGTTTTGAAAATGGCCACACATACT
1 CGTGTGCTTTGAAAATAGCCACACACACC
* *
11962998 CGTGTGCTTTGGAAATAGCCACACACGCC
1 CGTGTGCTTTGAAAATAGCCACACACACC
11963027 CGTGTGC
1 CGTGTGC
11963034 CAGCCGTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (29 bp):
CGTGTGCTTTGAAAATAGCCACACACACC
Found at i:11964744 original size:25 final size:24
Alignment explanation
Indices: 11964706--11964765 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
11964696 TTTGAAAAGG
*
11964706 TCTTTTTTTTTTATATTC-TGCATCT
1 TCTTTTTTTATTAT-TTCGTGCAT-T
11964731 TCTTTTTTTATTATTTCGTGCATT
1 TCTTTTTTTATTATTTCGTGCATT
*
11964755 T-TATTTTTATT
1 TCTTTTTTTATT
11964766 TTTTTAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 9 0.28
24 5 0.16
25 18 0.56
ACGTcount: A:0.13, C:0.12, G:0.05, T:0.70
Consensus pattern (24 bp):
TCTTTTTTTATTATTTCGTGCATT
Found at i:11965550 original size:22 final size:21
Alignment explanation
Indices: 11965510--11965550 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11965500 CTTGGTATTT
* *
11965510 TTATTTTTTCCCTTCTTATGG
1 TTATTTTTTCCATTATTATGG
11965531 TTATTTTATTCCATTATTAT
1 TTATTTT-TTCCATTATTAT
11965551 TTTATTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.17, C:0.15, G:0.05, T:0.63
Consensus pattern (21 bp):
TTATTTTTTCCATTATTATGG
Found at i:11965555 original size:21 final size:20
Alignment explanation
Indices: 11965508--11965556 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
11965498 AGCTTGGTAT
* *
11965508 TTTTATTTTTTCCCTTCTTA
1 TTTTATTTTTTCCATTATTA
*
11965528 TGGTTATTTTATTCCATTATTA
1 T-TTTATTTT-TTCCATTATTA
11965550 TTTTATT
1 TTTTATT
11965557 ATCAAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 10 0.43
ACGTcount: A:0.16, C:0.12, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTATTTTTTCCATTATTA
Found at i:11965651 original size:3 final size:3
Alignment explanation
Indices: 11965643--11965686 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
11965633 TATATTGTTC
*
11965643 TTA TTA TTA CTA TTA TTA TT- TTA TCTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TT
11965687 TATTTATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11965692 original size:27 final size:27
Alignment explanation
Indices: 11965643--11965698 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
11965633 TATATTGTTC
*
11965643 TTATTATTACTATTATTATTTTATCTA
1 TTATTATTACTATTATTATTTTATATA
*
11965670 TTATTATTATTATTATT-TATTTATATA
1 TTATTATTACTATTATTAT-TTTATATA
11965697 TT
1 TT
11965699 TTACTACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (27 bp):
TTATTATTACTATTATTATTTTATATA
Found at i:11965698 original size:24 final size:24
Alignment explanation
Indices: 11965643--11965698 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
11965633 TATATTGTTC
11965643 TTATTATTACTATTATTATTTTAT
1 TTATTATTACTATTATTATTTTAT
* *
11965667 CTATTATTATTATTATTA-TTTAT
1 TTATTATTACTATTATTATTTTAT
11965690 TTATATATT
1 TTAT-TATT
11965699 TTACTACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (24 bp):
TTATTATTACTATTATTATTTTAT
Found at i:11972869 original size:12 final size:12
Alignment explanation
Indices: 11972838--11972871 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
11972828 CGCCATATCC
11972838 GAAGAAG-GAACT
1 GAAGAAGAG-ACT
11972850 GAAGAAGAGACT
1 GAAGAAGAGACT
11972862 GAAGAAGAGA
1 GAAGAAGAGA
11972872 ATTTGTCAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 20 0.95
13 1 0.05
ACGTcount: A:0.53, C:0.06, G:0.35, T:0.06
Consensus pattern (12 bp):
GAAGAAGAGACT
Found at i:11975981 original size:20 final size:21
Alignment explanation
Indices: 11975942--11975981 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11975932 GTCAAAATGA
* *
11975942 CCACATGGGCGTCTTGCCCTT
1 CCACACGGGCGTCGTGCCCTT
11975963 CCACACGGGCGT-GTGCCCT
1 CCACACGGGCGTCGTGCCCT
11975982 GTTTTAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.40, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTCGTGCCCTT
Found at i:11977112 original size:13 final size:13
Alignment explanation
Indices: 11977096--11977120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11977086 GCACACGGGC
11977096 GTGTCACATGGGT
1 GTGTCACATGGGT
11977109 GTGTCACATGGG
1 GTGTCACATGGG
11977121 CGTATCCCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (13 bp):
GTGTCACATGGGT
Found at i:11977505 original size:14 final size:15
Alignment explanation
Indices: 11977486--11977515 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11977476 ATATTTAACT
11977486 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
11977500 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
11977515 T
1 T
11977516 TTTGATATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:11984130 original size:40 final size:40
Alignment explanation
Indices: 11984083--11984364 Score: 393
Period size: 40 Copynumber: 7.0 Consensus size: 40
11984073 GAATACACAT
*
11984083 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* * *
11984123 CATCGGCACGAATACCCTTCGGAATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* *
11984163 CACCGGCACGAATGCCCTTCGGGATTTTGCCTGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
*
11984203 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* *
11984243 CACCGACACGAATGCCCTTCGGGATTTTGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* * * *
11984283 CACCGGCACAAATGCCCTTCGGGACTTAGCCCGGGTATAT
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* * * * * *
11984323 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGAATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
11984363 CA
1 CA
11984365 TACTGAACTT
Statistics
Matches: 217, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (40 bp):
CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
Found at i:11986287 original size:47 final size:47
Alignment explanation
Indices: 11986224--11986714 Score: 748
Period size: 47 Copynumber: 10.4 Consensus size: 47
11986214 CCCTTCGGGA
* * *
11986224 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
11986271 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * * *
11986318 CTTATCTCATATATATACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
11986365 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
11986412 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
11986459 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
11986506 CTTATCACATATATACACTTTCACATTCATCACATTGCCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
11986553 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
11986600 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
11986647 CTTATCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
11986694 CTTATCACATATACACACTTT
1 CTTATCACATATATACACTTT
11986715 GTACACCAAT
Statistics
Matches: 402, Mismatches: 42, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 402 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:11986396 original size:25 final size:25
Alignment explanation
Indices: 11986368--11986446 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
11986358 ACTCGGCCTT
11986368 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
11986393 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
11986415 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
11986440 ATCACAT
1 ATCACAT
11986447 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:11986479 original size:141 final size:141
Alignment explanation
Indices: 11986224--11986711 Score: 832
Period size: 141 Copynumber: 3.5 Consensus size: 141
11986214 CCCTTCGGGA
* * *
11986224 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
11986289 CTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATATACTTTCACATTCATCACGTT
66 CTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
*
11986354 GGCCACTCGGC
131 GGCCATTCGGC
*
11986365 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* * * * *
11986430 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATT
66 CTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
11986495 GGCCATTCGGC
131 GGCCATTCGGC
*
11986506 CTTATCACATATATACACTTTCACATTCATCACATTGCCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
11986571 CTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
66 CTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
11986636 GGCCATTCGGC
131 GGCCATTCGGC
* * *
11986647 CTTATCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
11986712 TTTGTACACC
Statistics
Matches: 326, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
141 326 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
CTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
GGCCATTCGGC
Found at i:11992469 original size:21 final size:21
Alignment explanation
Indices: 11992430--11992469 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11992420 GTCAAAATGA
*
11992430 CCACACGGGCGTATTCCCCTT
1 CCACACGGGCGTATGCCCCTT
*
11992451 CCACACGGGCGTGTGCCCC
1 CCACACGGGCGTATGCCCC
11992470 ATTTTAAGGG
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:0.12, C:0.45, G:0.25, T:0.17
Consensus pattern (21 bp):
CCACACGGGCGTATGCCCCTT
Found at i:11997150 original size:44 final size:44
Alignment explanation
Indices: 11997087--11997584 Score: 270
Period size: 44 Copynumber: 10.9 Consensus size: 44
11997077 ATGGTGAATA
* * * *
11997087 TTATCTCCTTAAAGTTGCAGTGAAGCAGATTAAAGCTATTAACC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTATAAATC
* * **
11997131 TTATCTCCCTGAAGTTGCAGTGGAA-CA-AGTTGAAGATAGTGGATC
1 TTATCTCCCTGAAGTTGCAGT-GAAGCAGA-TTAAAGCTA-TAAATC
* * *
11997176 TTATTTCCCTGAAGTTGCAGTGGAA-TAGATTTAAGCAGCAAGTTACAATTC
1 TTATCTCCCTGAAGTTGCAGT-GAAGCAGA-TTAA--AGCTA--TA-AA-TC
* * * *
11997227 TTATAC-CCTTGAAGTTGCAGTG-GGACAGATTGAAGTTATCATGGTAAATC
1 TTAT-CTCCCTGAAGTTGCAGTGAAG-CAGATT-AA---AGC-T-ATAAATC
* * * *
11997277 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATAAACC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTATAAATC
* * * **
11997321 TTATCTCCCTGGAGTTGCAGTGAAGTAGATTAAAGCCACGAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTATAAATC
* * * * * *
11997365 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTATAAATC
* * * *** *
11997409 TTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAAAAAAACAAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGA-T-TAAAGCTATAAATC
** * * *
11997455 TTATCTCGTTGAAATTGCAAT-AGAGCAGATTAAAGCTATAAACC
1 TTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGCTATAAATC
* * * * * *
11997499 TTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAACAAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCT-ATAAATC
* * * **
11997544 TCATTTCCCTGAAGTTGTAGTGGGGCAGATTAAAGCTATAA
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTATAA
11997585 GTCACAAATC
Statistics
Matches: 351, Mismatches: 80, Indels: 46
0.74 0.17 0.10
Matches are distributed among these distances:
43 1 0.00
44 175 0.50
45 67 0.19
46 39 0.11
48 3 0.01
49 4 0.01
50 30 0.09
51 28 0.08
52 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTATAAATC
Found at i:11997909 original size:17 final size:17
Alignment explanation
Indices: 11997889--11997922 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11997879 AAAAATAAAC
11997889 ATAAATAAAAGTCCAAA
1 ATAAATAAAAGTCCAAA
* *
11997906 ATAATTAACAGTCCAAA
1 ATAAATAAAAGTCCAAA
11997923 TCACAAGTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.21
Consensus pattern (17 bp):
ATAAATAAAAGTCCAAA
Found at i:11998153 original size:20 final size:21
Alignment explanation
Indices: 11998128--11998170 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 21
11998118 ACCACTGCCT
11998128 CCTCCACGTCA-ACCTCCGTA
1 CCTCCACGTCACACCTCCGTA
11998148 CCTCCACGTCAGCACCTCCGTA
1 CCTCCACGTCA-CACCTCCGTA
11998170 C
1 C
11998171 ACAGCTAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.19, C:0.51, G:0.12, T:0.19
Consensus pattern (21 bp):
CCTCCACGTCACACCTCCGTA
Found at i:11999296 original size:3 final size:3
Alignment explanation
Indices: 11999288--11999337 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
11999278 TATATTGTTC
11999288 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
11999333 TTA TT
1 TTA TT
11999338 TATTTATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11999960 original size:131 final size:131
Alignment explanation
Indices: 11999730--11999996 Score: 333
Period size: 131 Copynumber: 2.0 Consensus size: 131
11999720 GAAAGTTTTC
* * * *
11999730 AAAAT-AAGGCAATGTTTCGAATTTTAGAGACTCGAGAAAATCGTGCCCTAACTTACGGGGTTTC
1 AAAATAAAGGCAATATTCCGAATTTTAGAAACTCGAGAAAATCGTGCCCTAACTCACGGGGTTTC
* * * * * *
11999794 GATTTTTCTCGTTGAATCTAAATAGCCAAATATCCTTTTAAATATTAAAATACATGA-ATTTCAA
66 AATTTTTCTCCTTGAATCTAAATAACCAAACATCCTTCT-AA-ATTAAAACACATGAGATTTCAA
*
11999858 ATA
129 AAA
* *
11999861 AAAATAAAGGCAATATTCCGTA-TTTAGAAACTCGAGAAAGTCGTGCCCTAACTCACGGGGTTTC
1 AAAATAAAGGCAATATTCCGAATTTTAGAAACTCGAGAAAATCGTGCCCTAACTCACGGGGTTTC
* * ** *
11999925 AATTTTTCTCCTTGGATCTGAATAACTGAACATCCTTCTAAATTAAAACACGTGAGATTTCAAAA
66 AATTTTTCTCCTTGAATCTAAATAACCAAACATCCTTCTAAATTAAAACACATGAGATTTCAAAA
11999990 A
131 A
11999991 AAAATA
1 AAAATA
11999997 TAAAACAAAA
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
129 12 0.10
130 17 0.15
131 74 0.64
132 13 0.11
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (131 bp):
AAAATAAAGGCAATATTCCGAATTTTAGAAACTCGAGAAAATCGTGCCCTAACTCACGGGGTTTC
AATTTTTCTCCTTGAATCTAAATAACCAAACATCCTTCTAAATTAAAACACATGAGATTTCAAAA
A
Done.