Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 314 of 438
Found at i:98077572 original size:43 final size:43
Alignment explanation
Indices: 98077525--98077642 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 43
98077515 TCCTAGATTT
*
98077525 GGTCTTACATGTAA-TCAAATATCG-ATGCCATTGTCCCAGACAG
1 GGTCTTACATGTAATTCAAATA--GAATGCCAATGTCCCAGACAG
*
98077568 GGTCTTACATG-AATTCAAATAGAATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATTCAAATAGAATGCCAATGTCCCAGACAG
* *
98077610 GGTCTTACACGTAAATCTCAAATTG-ATGCCAAT
1 GGTCTTACATGT-AAT-TCAAATAGAATGCCAAT
98077643 ATCTCAGATG
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
41 1 0.02
42 29 0.44
43 18 0.27
44 11 0.17
45 7 0.11
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATTCAAATAGAATGCCAATGTCCCAGACAG
Found at i:98077657 original size:44 final size:44
Alignment explanation
Indices: 98077549--98077669 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
98077539 TCAAATATCG
* * * *
98077549 ATGCCATTGTCCCAGACAGGGTCTTACATG-AAT-TCAAATAGA
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCTCAAATAGA
* *
98077591 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAATTG-
1 ATGCCAATATCCCAGACATGGTCTTACACG-AAATCTCAAATAGA
* **
98077635 ATGCCAATATCTCAGATGTGGTCTTACACGAAATC
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATC
98077670 ACATATCGGA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 27 0.40
43 5 0.07
44 29 0.43
45 7 0.10
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (44 bp):
ATGCCAATATCCCAGACATGGTCTTACACGAAATCTCAAATAGA
Found at i:98096121 original size:44 final size:45
Alignment explanation
Indices: 98095960--98096127 Score: 207
Period size: 46 Copynumber: 3.7 Consensus size: 45
98095950 CTGTTACGTG
* * * * *
98095960 AGCTAGTGTAAGGCATGTCTGGGACATGCAT-CGACATTGAGACGAG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCCG-CCTCGAGATG-T
*
98096006 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCCGCCTCGAGATGT
*
98096051 AAGCTAGTGTAAGACATGTCTAGGACATGCATCCG-CTACGAGATGT
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCCGCCT-CGAGATGT
*
98096097 -GCTAGTGTAAGACATGTATGGGACATGCATC
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC
98096128 GGCACAGATA
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
44 29 0.27
45 2 0.02
46 77 0.71
47 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCCGCCTCGAGATGT
Found at i:98096127 original size:90 final size:91
Alignment explanation
Indices: 98095960--98096130 Score: 242
Period size: 90 Copynumber: 1.9 Consensus size: 91
98095950 CTGTTACGTG
* * *
98095960 AGCTAGTGTAAGGCATGTCTGGGACATGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTC
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGACA-TGAGACGAGAGCTAGTGTAAGACATGTA
98096025 TGGGACATGCATCGGCCTCGAGATGTA
65 TGGGACATGCATCGGCCTCGAGATGTA
*
98096052 AGCTAGTGTAAGACATGTCTAGGACATGCATCCG-C-T-ACGA-GATGTGCTAGTGTAAGACATG
1 AGCTAGTGTAAGACATGTCTAGGACATGCAT-CGACATGA-GACGA-GAGCTAGTGTAAGACATG
98096113 TATGGGACATGCATCGGC
63 TATGGGACATGCATCGGC
98096131 ACAGATAAGT
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
89 3 0.04
90 37 0.51
92 30 0.42
93 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (91 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATCGACATGAGACGAGAGCTAGTGTAAGACATGTAT
GGGACATGCATCGGCCTCGAGATGTA
Found at i:98100223 original size:31 final size:31
Alignment explanation
Indices: 98100183--98100294 Score: 190
Period size: 31 Copynumber: 3.6 Consensus size: 31
98100173 TTAGTCTTGA
* *
98100183 CATAT-ACTGGGCCGAAGCCTTTCCATTAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
98100213 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
98100244 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
98100275 CATATCACTGGGCCGAAGCC
1 CATATCACTGGGCCGAAGCC
98100295 GTTACTGTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:98100368 original size:42 final size:42
Alignment explanation
Indices: 98100321--98100454 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
98100311 TGGCCCTTAG
*
98100321 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
98100363 GCCCATTTCAATATTACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
98100405 GGCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
98100447 GCCCATTT
1 GCCCATTT
98100455 GGGGAGACTA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:98100630 original size:25 final size:25
Alignment explanation
Indices: 98100602--98100667 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
98100592 CTCTTTTAAT
98100602 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* *
98100627 AACTGGGGCAAATCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
98100652 AACTGAGGCAGAGCCC
1 AACTGGGGCAAAGCCC
98100668 GTTTAGCACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 31 0.89
26 4 0.11
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.21
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:98101554 original size:27 final size:27
Alignment explanation
Indices: 98101482--98101546 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
98101472 GGCATATTCC
*
98101482 TCATTTTACCATACAAGG-G-TATTACGG
1 TCATTTTACCTTAC-AGGAGCT-TTACGG
98101509 TCATTTTACCTTACAGGAGCTTTACGG
1 TCATTTTACCTTACAGGAGCTTTACGG
*
98101536 TCTTTTTACCT
1 TCATTTTACCT
98101547 ATTAGGAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 3 0.09
27 30 0.88
28 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (27 bp):
TCATTTTACCTTACAGGAGCTTTACGG
Found at i:98101629 original size:27 final size:26
Alignment explanation
Indices: 98101599--98101696 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 26
98101589 GTAAATCTAA
98101599 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCA-TAATTTTGT
* *
98101626 AAACCAATGGTATTTTTATAATTTT-T
1 AAACCAAGGGTA-TTTCATAATTTTGT
*
98101652 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTC-ATAATTTTGT
* *
98101682 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
98101697 TGGTAATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
26 1 0.02
27 29 0.49
28 13 0.22
29 15 0.25
30 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (26 bp):
AAACCAAGGGTATTTCATAATTTTGT
Found at i:98101703 original size:27 final size:27
Alignment explanation
Indices: 98101673--98101783 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
98101663 GGTATTTCTA
**
98101673 TAATTTTGTAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* *
98101700 TAATTTTACAAAT-TGAGGGTATTTCGG
1 TAATTTTACAAATCAG-GGGTATTTTGG
* * * *
98101727 TAATTTCACAAACCAGTGGTATTTAGG
1 TAATTTTACAAATCAGGGGTATTTTGG
*
98101754 TAATGTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGG
98101781 TAA
1 TAA
98101784 CTCTATCCTA
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.03
27 65 0.96
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:98101825 original size:27 final size:26
Alignment explanation
Indices: 98101683--98101825 Score: 87
Period size: 27 Copynumber: 5.3 Consensus size: 26
98101673 TAATTTTGTA
* *
98101683 AATCAGGGGTATTTTGGTAATTTTAC
1 AATCAGGGGTATTTCGGTAATTTCAC
*
98101709 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 -AATCAG-GGGTATTTCGGTAATTTCAC
* * *
98101736 AAACCAGTGGTATTTAGGTAATGTT-AC
1 -AATCAGGGGTATTTCGGTAAT-TTCAC
* *
98101763 AAACTAGGGGTATTTTGGTAACTCTATC-C
1 AATC-AGGGGTATTTCGGTAA-T-T-TCAC
* *
98101792 TA-CAGGGGTATTTCAGTAATTTCAC
1 AATCAGGGGTATTTCGGTAATTTCAC
98101817 AATCGAGGG
1 AATC-AGGG
98101826 TAAAACGGTA
Statistics
Matches: 91, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
24 2 0.02
25 3 0.03
26 6 0.07
27 71 0.78
28 6 0.07
29 3 0.03
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (26 bp):
AATCAGGGGTATTTCGGTAATTTCAC
Found at i:98101847 original size:27 final size:27
Alignment explanation
Indices: 98101817--98102014 Score: 279
Period size: 27 Copynumber: 7.3 Consensus size: 27
98101807 GTAATTTCAC
98101817 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
98101844 AATCGAAGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
98101871 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
98101898 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
98101925 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
98101952 AATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
98101979 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
98102006 AATCGAGGG
1 AATCGAGGG
98102015 CATTTTAGTA
Statistics
Matches: 149, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:98102034 original size:81 final size:81
Alignment explanation
Indices: 98101817--98102014 Score: 360
Period size: 81 Copynumber: 2.4 Consensus size: 81
98101807 GTAATTTCAC
* *
98101817 AATCGAGGGTAAAACGGTAATTCTATAAATCGAAGGTAAAACGATAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
*
98101882 AAACGGTAATTCTATA
66 AAACGATAATTCTATA
98101898 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
98101963 AAACGATAATTCTATA
66 AAACGATAATTCTATA
*
98101979 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
98102015 CATTTTAGTA
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 113 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
AAACGATAATTCTATA
Found at i:98103929 original size:19 final size:19
Alignment explanation
Indices: 98103905--98103944 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
98103895 CTCCAAAAAC
98103905 TTGTTCAACCGTCAGAGGT
1 TTGTTCAACCGTCAGAGGT
**
98103924 TTGTTCAAGTGTCAGAGGT
1 TTGTTCAACCGTCAGAGGT
98103943 TT
1 TT
98103945 CCCAGTCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.38
Consensus pattern (19 bp):
TTGTTCAACCGTCAGAGGT
Found at i:98106979 original size:40 final size:40
Alignment explanation
Indices: 98106894--98107044 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
98106884 AATTGAATGA
* * * **
98106894 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTT
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
98106934 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
98106975 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
98107014 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
98107045 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 77 0.85
41 5 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:98107058 original size:40 final size:40
Alignment explanation
Indices: 98106934--98107060 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
98106924 CTGGAAATTT
* * * * *
98106934 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
98106974 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
98107014 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
98107054 TATCCGG
1 TATCCGG
98107061 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:98108560 original size:15 final size:15
Alignment explanation
Indices: 98108540--98108569 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
98108530 GCAACTTCTC
98108540 CAATGGAAAATGTTG
1 CAATGGAAAATGTTG
*
98108555 CAATGGCAAATGTTG
1 CAATGGAAAATGTTG
98108570 GCATAGAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (15 bp):
CAATGGAAAATGTTG
Found at i:98114478 original size:3 final size:3
Alignment explanation
Indices: 98114470--98114515 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
98114460 CTCTTTGGGA
98114470 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
98114516 ATTATTATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:98114520 original size:3 final size:3
Alignment explanation
Indices: 98114514--98114602 Score: 169
Period size: 3 Copynumber: 29.7 Consensus size: 3
98114504 CTTCTTCTTC
98114514 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
98114562 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTC TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
98114603 CTTCTTCTTC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:98114613 original size:9 final size:9
Alignment explanation
Indices: 98114470--98114615 Score: 76
Period size: 9 Copynumber: 16.2 Consensus size: 9
98114460 CTCTTTGGGA
*
98114470 TCTTCTTCT
1 TCTTATTCT
*
98114479 TCTTCTTCT
1 TCTTATTCT
*
98114488 TCTTCTTCT
1 TCTTATTCT
*
98114497 TCTTCTTCT
1 TCTTATTCT
*
98114506 TCTTCTTCT
1 TCTTATTCT
* *
98114515 TATTATTAT
1 TCTTATTCT
* *
98114524 TATTATTAT
1 TCTTATTCT
* *
98114533 TATTATTAT
1 TCTTATTCT
* *
98114542 TATTATTAT
1 TCTTATTCT
* *
98114551 TATTATTAT
1 TCTTATTCT
* *
98114560 TATTATTAT
1 TCTTATTCT
* *
98114569 TATTATTAT
1 TCTTATTCT
* *
98114578 TATTATTAT
1 TCTTATTCT
* *
98114587 TATTATTAT
1 TCTTATTCT
98114596 TCTTATTCT
1 TCTTATTCT
*
98114605 TCTTCTTCT
1 TCTTATTCT
98114614 TC
1 TC
98114616 AAGATCCTTG
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 131 1.00
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.66
Consensus pattern (9 bp):
TCTTATTCT
Found at i:98117629 original size:40 final size:40
Alignment explanation
Indices: 98117573--98117803 Score: 329
Period size: 40 Copynumber: 5.8 Consensus size: 40
98117563 CGGATGATAA
*
98117573 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * *
98117613 ACGGGCTAAGTCCCGAAGGAATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
98117653 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * * * *
98117693 CCGGGCTAAGTCTCGAGGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * *
98117733 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* *
98117773 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
98117804 AGCTATATCC
Statistics
Matches: 172, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 8 0.05
40 164 0.95
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
Found at i:98117717 original size:80 final size:80
Alignment explanation
Indices: 98117573--98117829 Score: 331
Period size: 80 Copynumber: 3.2 Consensus size: 80
98117563 CGGATGATAA
* * *
98117573 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTATTACATACGGGCTAAGTCCCGAAGGAATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
98117638 TGTGAGTTATTACAT
66 TGCGAGCTACTACAT
* *
98117653 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTCTCGAGGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTG
*
98117718 TGCGAGCTACTATAT
66 TGCGAGCTACTACAT
* * * *
98117733 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTG
* *
98117797 AGCGAG-TAGCTATAT
66 TGCGAGCTA-CTACAT
* *
98117812 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
98117830 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
78 16 0.10
79 16 0.10
80 126 0.80
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGCTACTACAT
Found at i:98119712 original size:29 final size:29
Alignment explanation
Indices: 98119656--98119713 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
98119646 GCCTTTCGAA
*
98119656 AATATTTACAAAAAACAACATCTAATTTTT
1 AATATTTACAAAAAACAACA-CAAATTTTT
*
98119686 AATATTTACAAAAGAGCAAC-CAAATTTT
1 AATATTTACAAAA-AACAACACAAATTTT
98119714 GAAAATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 13 0.52
31 5 0.20
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAACAACACAAATTTTT
Found at i:98122448 original size:25 final size:25
Alignment explanation
Indices: 98122419--98122592 Score: 285
Period size: 25 Copynumber: 7.0 Consensus size: 25
98122409 GTTAACTTGC
98122419 TCTTAATAATTCCGGTTAAATTTGT
1 TCTTAATAATTCCGGTTAAATTTGT
* *
98122444 TCTTAATAATTTCGGTTAAATTTGC
1 TCTTAATAATTCCGGTTAAATTTGT
*
98122469 TCTTAATAATTCCGATTAAATTTGT
1 TCTTAATAATTCCGGTTAAATTTGT
98122494 TCTTAATAATTCCGGTTAAATTTGT
1 TCTTAATAATTCCGGTTAAATTTGT
98122519 TCTTAATAATTCCGGTTAAATTTGT
1 TCTTAATAATTCCGGTTAAATTTGT
** *
98122544 TCTTAATAATTTTGGTTAAATTTGC
1 TCTTAATAATTCCGGTTAAATTTGT
*
98122569 TCTTAATATTTCCGGTTAAATTTG
1 TCTTAATAATTCCGGTTAAATTTG
98122593 CCCTTATTAT
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 137 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.49
Consensus pattern (25 bp):
TCTTAATAATTCCGGTTAAATTTGT
Found at i:98123491 original size:45 final size:45
Alignment explanation
Indices: 98123427--98123736 Score: 448
Period size: 45 Copynumber: 7.0 Consensus size: 45
98123417 TATCGTACAG
* * *
98123427 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGATGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
98123472 TACTATTCGGGCTTTTGAGCCTAGCATGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
98123517 TACTATTCGGGCCTTTGAGCTTCGCAGGCTATAATGTCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
98123562 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
98123607 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
98123652 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGTCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
98123697 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
98123737 ATGAATTCGG
Statistics
Matches: 242, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
42 11 0.05
43 17 0.07
44 5 0.02
45 208 0.86
46 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:98128584 original size:40 final size:40
Alignment explanation
Indices: 98128491--98128747 Score: 313
Period size: 40 Copynumber: 6.5 Consensus size: 40
98128481 AAGCCAAGTA
* * * *
98128491 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATA-ATAACTCGCACAAATG
* * *
98128529 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* *
98128569 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* * * *
98128609 CCCTCGGTACTTAACCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* * * *
98128649 CCTTCGAGACTTAGCCCAGATGTAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* *
98128689 CCTTCGGGACTTAGCCCGTATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
98128729 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
98128748 TTATCATCCG
Statistics
Matches: 191, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 12 0.06
39 16 0.08
40 163 0.85
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
Found at i:98130520 original size:26 final size:26
Alignment explanation
Indices: 98130481--98130533 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
98130471 TTATACAAGT
*
98130481 TATGATAGTGTTACATCTCCTAACTA
1 TATGATAGTCTTACATCTCCTAACTA
98130507 TATGATAGTCTTACATCTCCTAACTA
1 TATGATAGTCTTACATCTCCTAACTA
98130533 T
1 T
98130534 TTTTAATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (26 bp):
TATGATAGTCTTACATCTCCTAACTA
Found at i:98132607 original size:43 final size:44
Alignment explanation
Indices: 98132541--98132667 Score: 127
Period size: 45 Copynumber: 2.9 Consensus size: 44
98132531 TTTTCTCAAA
* * *
98132541 TCACCAGCATT-TTGCCTGTTAGGCTCG-AGGCCCGATATCAG-T-
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA-AT-AGATC
*
98132583 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAG-ATC
** * *
98132628 TCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
98132668 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 12 0.17
43 16 0.23
44 8 0.11
45 35 0.49
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGATC
Found at i:98133032 original size:43 final size:43
Alignment explanation
Indices: 98132984--98133214 Score: 308
Period size: 43 Copynumber: 5.4 Consensus size: 43
98132974 ACATATCATT
* *
98132984 TCACCGGCATTACA-CCTGCTAGGCACGAAGGTCCGAATACACA
1 TCACCGGCACTA-AGCCTGCTAGGCACGAAGGCCCGAATACACA
*
98133027 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * * *
98133070 TCACCGGCACGAAGCCTACTAGGCATGAA-GCCCGAATACATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
98133112 TCACCGGCATTAAGCCTGCTAGGCACGAAGGCCCGAGTACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
98133155 TCATCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
98133197 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
98133215 GGGATTTATC
Statistics
Matches: 167, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
41 14 0.08
42 40 0.24
43 113 0.68
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.14
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:98133128 original size:85 final size:86
Alignment explanation
Indices: 98133002--98133193 Score: 296
Period size: 85 Copynumber: 2.2 Consensus size: 86
98132992 ATTACACCTG
*
98133002 CTAGGCACGAAGGTCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATAC
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATAC
98133067 ACATCACCGGCACGAAGCCTA
66 ACATCACCGGCACGAAGCCTA
* * ** *
98133088 CTAGGCATGAA-GCCCGAATACATATCACCGGCATTAAGCCTGCTAGGCACGAAGGCCCGAGTAC
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATAC
* * *
98133152 ACATCATCGGCACTAAGCCTG
66 ACATCACCGGCACGAAGCCTA
98133173 CTAGGCACGAAGGCCCGAATA
1 CTAGGCACGAAGGCCCGAATA
98133194 TAATACCAGC
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 76 0.80
86 19 0.20
ACGTcount: A:0.31, C:0.32, G:0.24, T:0.13
Consensus pattern (86 bp):
CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATAC
ACATCACCGGCACGAAGCCTA
Found at i:98133259 original size:38 final size:38
Alignment explanation
Indices: 98133186--98133269 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
98133176 GGCACGAAGG
* * * * *
98133186 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTACGAGATTTAA
*
98133224 CCCGGATATAATACCAGCACGAAGCCTACGAGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTACGAGATTTAA
98133262 CCCGAATA
1 CCCGAATA
98133270 CACATCAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTACGAGATTTAA
Found at i:98150126 original size:6 final size:6
Alignment explanation
Indices: 98150115--98150141 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
98150105 TTACCATCTC
98150115 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
98150142 GCTACAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:98156489 original size:40 final size:40
Alignment explanation
Indices: 98156442--98156622 Score: 238
Period size: 40 Copynumber: 4.5 Consensus size: 40
98156432 CAAGCACCAT
* * *
98156442 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAA
*
98156482 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGTACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAA
* * *
98156522 TGCCTTCAGGTCTTAGCCCGGATATAACAACTCACACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAA
* * *
98156562 TGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAA
* *
98156602 TGCCTTAGGGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
98156623 GTATCATTCA
Statistics
Matches: 124, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
40 123 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAA
Found at i:98156606 original size:80 final size:79
Alignment explanation
Indices: 98156421--98156622 Score: 244
Period size: 80 Copynumber: 2.5 Consensus size: 79
98156411 GAATTTAACT
* * * * * * *
98156421 GGATATAACCACAAGCACCATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCC
1 GGATATAA-CACTAGCACAATTGCCTTCAGGTCTTAGCCCGGATATAACAACTCACACAAATGCC
98156486 TTCGGGTCTTAGCCC
65 TTCGGGTCTTAGCCC
* * * *
98156501 GGATATAACAACTCGTACAAATGCCTTCAGGTCTTAGCCCGGATATAACAACTCACACGAATGCC
1 GGATATAAC-ACTAGCACAATTGCCTTCAGGTCTTAGCCCGGATATAACAACTCACACAAATGCC
98156566 TTCGGGTCTTAGCCC
65 TTCGGGTCTTAGCCC
* *
98156581 GGATATAATCACTAGCATAATTGCCTT-AGGGACTTAGCCCGG
1 GGATATAA-CACTAGCACAATTGCCTTCA-GGTCTTAGCCCGG
98156623 GTATCATTCA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 2 0.02
80 100 0.97
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
GGATATAACACTAGCACAATTGCCTTCAGGTCTTAGCCCGGATATAACAACTCACACAAATGCCT
TCGGGTCTTAGCCC
Found at i:98172636 original size:18 final size:17
Alignment explanation
Indices: 98172610--98172643 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
98172600 CCATATCGTA
98172610 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
98172628 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
98172644 TAGCCTAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:98175012 original size:21 final size:21
Alignment explanation
Indices: 98174988--98175027 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
98174978 AGTCCTCCCA
98174988 ACTACCTTAGAAATCTATCGC
1 ACTACCTTAGAAATCTATCGC
98175009 ACTACCTTAGAAATCTATC
1 ACTACCTTAGAAATCTATC
98175028 ACACAACTCC
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:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (21 bp):
ACTACCTTAGAAATCTATCGC
Found at i:98177191 original size:13 final size:14
Alignment explanation
Indices: 98177169--98177200 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
98177159 TCAACTATTC
98177169 TAAA-ATTTTAAT-
1 TAAATATTTTAATG
98177181 TAAATATTTTAATG
1 TAAATATTTTAATG
98177195 TAAATA
1 TAAATA
98177201 AAAATTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.22
13 8 0.44
14 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
TAAATATTTTAATG
Found at i:98178783 original size:126 final size:126
Alignment explanation
Indices: 98178548--98179168 Score: 879
Period size: 126 Copynumber: 5.0 Consensus size: 126
98178538 TATAGTTAGT
* * *
98178548 AAAAGTACTGAAAAAAGCTCCTAGTTGGACGCTCTTTTTGTACAGTTGTTTCTG-AAAAATAATT
1 AAAAGTACTAAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
* * *
98178612 TTGAGAAGATGGTTCTAAAAAAAAAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAAC
66 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGC
*
98178673 AAAAGTACTAAAAAAAGCTCTCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
1 AAAAGTACTAAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
* * * * * *
98178738 TTGAGAAGATTGTTCTGAAAAAATAGGTTTAAAAACGCTCCAAGCAAGATCCACTATCAGC
66 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGC
* * * *
98178799 AAAAGTACT-CAAAAAGCTCCCAGTTGGACGCTTTTTTTGTACAATTGTTTCTG-AAAAATAATT
1 AAAAGTACTAAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
* * * *
98178862 TTGAGAAGATGGTTGTGAAAAAATAGGTTGAAAAATGCTTCAAGCAAGATGCACTGTTAGC
66 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGC
* * *
98178923 AAAAGTACTAAAAAAAGCTCCCAACTAGATGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
1 AAAAGTACTAAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
* * * * *
98178988 TTGAGATGATGGTTTTGGAAAAATAGGTTAAAAAACGCTTTAAGCAGGATGCACTGTCAGC
66 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGC
* * * * * *
98179049 AAAAGTATTGAAAAAAGCTCCCAACTAGACGCTCTTTTTGTATAGTTGTTTCTAAAAAAATAATT
1 AAAAGTACTAAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
* * *
98179114 TTGAGAAGATGGTTTTGAAAAAATAGGTTGAAAAATGCTTCAAGGAGGATGCACT
66 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACT
98179169 ATTAGTGGAA
Statistics
Matches: 441, Mismatches: 52, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
124 72 0.16
125 126 0.29
126 243 0.55
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (126 bp):
AAAAGTACTAAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGC
Found at i:98178828 original size:250 final size:251
Alignment explanation
Indices: 98178548--98179168 Score: 929
Period size: 250 Copynumber: 2.5 Consensus size: 251
98178538 TATAGTTAGT
*
98178548 AAAAGTACTGAAAAAAGCTCCTAGTTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAATAATTT
1 AAAAGTACTGAAAAAAGCTCCCAGTTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAATAATTT
* * *
98178613 TGAGAAGATGGTTCTAAAAAAAAAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAACAAAAG
66 TGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTCAACAAAAG
* * *
98178678 TACTAAAAAAAGCTCTCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAG
131 TACTAAAAAAAGCTCCCAACTAGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAG
* *
98178743 AAGATTGTTCTGAAAAAATAGGTTTAAAAACGCTCCAAGCAAGATCCACTATCAGC
196 AAGATGGTTCTGAAAAAATAGGTTAAAAAACGCTCCAAGCAAGATCCACTATCAGC
* * *
98178799 AAAAGTACT-CAAAAAGCTCCCAGTTGGACGCTTTTTTTGTACAATTGTTTCTGAAAAATAATTT
1 AAAAGTACTGAAAAAAGCTCCCAGTTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAATAATTT
* * * *
98178863 TGAGAAGATGGTTGTGAAAAAATAGGTTGAAAAATGCTTCAAGCAAGATGCACTGTTAGCAAAAG
66 TGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTCAACAAAAG
*
98178928 TACTAAAAAAAGCTCCCAACTAGATGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAG
131 TACTAAAAAAAGCTCCCAACTAGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAG
* * * ** * * *
98178993 ATGATGGTTTTGGAAAAATAGGTTAAAAAACGCTTTAAGCAGGATGCACTGTCAGC
196 AAGATGGTTCTGAAAAAATAGGTTAAAAAACGCTCCAAGCAAGATCCACTATCAGC
* ** * * *
98179049 AAAAGTATTGAAAAAAGCTCCCAACTAGACGCTCTTTTTGTATAGTTGTTTCTAAAAAAATAATT
1 AAAAGTACTGAAAAAAGCTCCCAGTTGGACGCTCTTTTTGTACAGTTGTTTCT-GAAAAATAATT
* *
98179114 TTGAGAAGATGGTTTTGAAAAAATAGGTTGAAAAATGCTTCAAGGAGGATGCACT
65 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACT
98179169 ATTAGTGGAA
Statistics
Matches: 331, Mismatches: 37, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
250 224 0.68
251 45 0.14
252 62 0.19
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (251 bp):
AAAAGTACTGAAAAAAGCTCCCAGTTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAATAATTT
TGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTCAACAAAAG
TACTAAAAAAAGCTCCCAACTAGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAG
AAGATGGTTCTGAAAAAATAGGTTAAAAAACGCTCCAAGCAAGATCCACTATCAGC
Found at i:98182294 original size:28 final size:28
Alignment explanation
Indices: 98182262--98182360 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
98182252 GCAATAAGCC
*
98182262 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
98182290 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
98182318 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
98182347 CGCACACTTAGTGC
1 CGCACACTTAGTGC
98182361 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:98186791 original size:28 final size:28
Alignment explanation
Indices: 98186759--98186857 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
98186749 GCAATAAGCC
*
98186759 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
98186787 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
98186815 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
98186844 CGCACACTTAGTGC
1 CGCACACTTAGTGC
98186858 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:98194467 original size:28 final size:28
Alignment explanation
Indices: 98194435--98194533 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
98194425 GCAATAAGCC
*
98194435 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
98194463 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
98194491 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
98194520 CGCACACTTAGTGC
1 CGCACACTTAGTGC
98194534 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:98200733 original size:37 final size:37
Alignment explanation
Indices: 98200683--98200759 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
98200673 TTCTGTGGGA
98200683 TTACACACTGAGTTTACGTAAACTCACCCTTTTTTGT
1 TTACACACTGAGTTTACGTAAACTCACCCTTTTTTGT
98200720 TTACACACTGAGTTTACGTAAACTCACCCTTTTTTGT
1 TTACACACTGAGTTTACGTAAACTCACCCTTTTTTGT
98200757 TTA
1 TTA
98200760 TTGTGTATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (37 bp):
TTACACACTGAGTTTACGTAAACTCACCCTTTTTTGT
Found at i:98203277 original size:15 final size:15
Alignment explanation
Indices: 98203259--98203301 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
98203249 TTTAAATAAC
98203259 GAATTATACAATATT
1 GAATTATACAATATT
98203274 GAATTATACTAAT-TT
1 GAATTATAC-AATATT
98203289 G-ATCTATACAATA
1 GAAT-TATACAATA
98203302 AATTGCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.20
15 17 0.68
16 3 0.12
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (15 bp):
GAATTATACAATATT
Found at i:98215207 original size:39 final size:40
Alignment explanation
Indices: 98215029--98215211 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
98215019 CCGCACCAAG
* * * * * * * *
98215029 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
98215069 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
98215109 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * * *
98215149 GCCTTCGGGTCTTAACCCGGATGTAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
98215188 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
98215212 CATTCAATTT
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
39 30 0.25
40 88 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:98224346 original size:40 final size:39
Alignment explanation
Indices: 98224260--98224443 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
98224250 AAATTGAATG
* * * * *
98224260 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
98224300 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
98224340 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
98224380 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
98224419 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
98224444 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:98226269 original size:40 final size:40
Alignment explanation
Indices: 98226161--98226370 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
98226151 CGGGATTTAA
* * * * *
98226161 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
98226201 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98226241 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98226281 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98226321 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98226361 CCGGATATAT
1 CCGGATATAT
98226371 TTTCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:98231471 original size:13 final size:13
Alignment explanation
Indices: 98231455--98231484 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
98231445 AGCTACACGG
98231455 GCTGCTCACACAA
1 GCTGCTCACACAA
98231468 GCTGCTCACACAA
1 GCTGCTCACACAA
98231481 GCTG
1 GCTG
98231485 TTAGGTATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.17
Consensus pattern (13 bp):
GCTGCTCACACAA
Found at i:98236206 original size:26 final size:26
Alignment explanation
Indices: 98236176--98236227 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
98236166 GATACTCGTC
98236176 AGATTGTGTGAACAGCACTATGTAGT
1 AGATTGTGTGAACAGCACTATGTAGT
98236202 AGATTGTGTGAACAGCACTATGTAGT
1 AGATTGTGTGAACAGCACTATGTAGT
98236228 TTCATCATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (26 bp):
AGATTGTGTGAACAGCACTATGTAGT
Found at i:98238323 original size:40 final size:40
Alignment explanation
Indices: 98238227--98238450 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
98238217 TATTCGGATG
98238227 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
98238270 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
98238310 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
98238350 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
98238390 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
98238430 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
98238451 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 15 0.09
40 117 0.71
41 2 0.01
43 31 0.19
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:98244972 original size:21 final size:20
Alignment explanation
Indices: 98244946--98244989 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
98244936 TAAAGCCTTA
98244946 TTTTGGATTAT-GGTTTGAGGT
1 TTTTGGATT-TGGGTTTG-GGT
98244967 TTTTGGATTTGGGTTTGGGT
1 TTTTGGATTTGGGTTTGGGT
98244987 TTT
1 TTT
98244990 ATGCATGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.57
Consensus pattern (20 bp):
TTTTGGATTTGGGTTTGGGT
Found at i:98254823 original size:23 final size:25
Alignment explanation
Indices: 98254768--98254828 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
98254758 CCACAGCTAG
*
98254768 TATGAGCTTACTGATATATCAGCTTG
1 TATGAGCTTACTGA-ATATCAGCTTA
98254794 TATGAGCTTACTG-AT-TCAGCTTA
1 TATGAGCTTACTGAATATCAGCTTA
98254817 -ATAGAGCTTACT
1 TAT-GAGCTTACT
98254829 ATCCATCAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
22 2 0.06
23 16 0.48
24 2 0.06
26 13 0.39
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (25 bp):
TATGAGCTTACTGAATATCAGCTTA
Found at i:98261824 original size:69 final size:69
Alignment explanation
Indices: 98261740--98261877 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
98261730 AACATGGCCT
*
98261740 GGCAATCACGTCACACGGTCGTGGTACACGGGCGTGTCCCTGCCGAACCCAAGTTAAGTCCAATT
1 GGCAATCACGTCACACGGTCGTGGCACACGGGCGTGTCCCTGCCGAACCCAAGTTAAGTCCAATT
98261805 CGGA
66 CGGA
*
98261809 GGCAATCACGTCACACGGTCGTGGCACACGGGCGTGTCCCTGCCGAGCCCAAGTTAAGTCCAATT
1 GGCAATCACGTCACACGGTCGTGGCACACGGGCGTGTCCCTGCCGAACCCAAGTTAAGTCCAATT
98261874 CGGA
66 CGGA
98261878 AAAGGCCATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.18
Consensus pattern (69 bp):
GGCAATCACGTCACACGGTCGTGGCACACGGGCGTGTCCCTGCCGAACCCAAGTTAAGTCCAATT
CGGA
Found at i:98280148 original size:179 final size:179
Alignment explanation
Indices: 98279842--98280310 Score: 672
Period size: 179 Copynumber: 2.6 Consensus size: 179
98279832 AAACACCTTT
* * *
98279842 AGAGAGATGAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGGTTCACCATCT
1 AGAGAGATGAGGCTGGTGGTAAAATCTGCTCCATTACCGATACATGAAGATAAGATTCACCATCT
* * *** * *
98279907 ACGAAAATCTACTCTGTTGCAATCTC-GGAGAGATAAAATCTTCAATTCTCAGTTTACTTCCTTG
66 GCGAAGATCTACTCCACTGCAACCTCAGG-GAGATAAAATCTTCAATTCTCAGTCTACTTCCTTG
* * * *
98279971 CTACCTTAGGAAGATAGGACTCATTCTTTATCCTGCTCTCTTACTACCTC
130 CTACCTGAGGAAGATAAGACTCATTCTTCATCCTACTCTCTTACTACCTC
* * *
98280021 AGAGAGATGAAGCTGGTGGTAAAATCTACTCCATTACCGATACATGAAGATAAGATTAACCATCT
1 AGAGAGATGAGGCTGGTGGTAAAATCTGCTCCATTACCGATACATGAAGATAAGATTCACCATCT
* * *
98280086 GTGAAGATCTGCTCCACTGCAACCTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGC
66 GCGAAGATCTACTCCACTGCAACCTCAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTGC
98280151 TACCTGAGGAAGATAAGACTCATTCTTCATCCTACTCTCTTACTACCTC
131 TACCTGAGGAAGATAAGACTCATTCTTCATCCTACTCTCTTACTACCTC
* * * *
98280200 AGAGAGACGAGGCTGGTGGTAAAATCTGCTCTATTTCTGATACAT-AGAGATAAGATTCACCATC
1 AGAGAGATGAGGCTGGTGGTAAAATCTGCTCCATTACCGATACATGA-AGATAAGATTCACCATC
* *
98280264 TGCGAAGATCTACTCCACTGCAACTTCAGGGAGATAAGATCTTCAAT
65 TGCGAAGATCTACTCCACTGCAACCTCAGGGAGATAAAATCTTCAAT
98280311 CTTTATCAAT
Statistics
Matches: 257, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
178 1 0.00
179 254 0.99
180 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (179 bp):
AGAGAGATGAGGCTGGTGGTAAAATCTGCTCCATTACCGATACATGAAGATAAGATTCACCATCT
GCGAAGATCTACTCCACTGCAACCTCAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTGC
TACCTGAGGAAGATAAGACTCATTCTTCATCCTACTCTCTTACTACCTC
Found at i:98299523 original size:2 final size:2
Alignment explanation
Indices: 98299516--98299559 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
98299506 AATCGCTAGC
98299516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98299558 AT
1 AT
98299560 TCCAAAGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98303343 original size:30 final size:30
Alignment explanation
Indices: 98303307--98303367 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
98303297 CAAAGTCTGT
98303307 TTCAACCGCATTAACTCATAATTATAAGAA
1 TTCAACCGCATTAACTCATAATTATAAGAA
98303337 TTCAACCGCATTAACTCATAATTATAAGAA
1 TTCAACCGCATTAACTCATAATTATAAGAA
98303367 T
1 T
98303368 ATCCCGACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.31
Consensus pattern (30 bp):
TTCAACCGCATTAACTCATAATTATAAGAA
Found at i:98304450 original size:17 final size:19
Alignment explanation
Indices: 98304402--98304442 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
98304392 TCCTGTAATC
*
98304402 AACACTGGAACAATAAACT
1 AACACTGGAATAATAAACT
98304421 AACACTGGAATAATAAACT
1 AACACTGGAATAATAAACT
98304440 AAC
1 AAC
98304443 TGGCATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.54, C:0.20, G:0.10, T:0.17
Consensus pattern (19 bp):
AACACTGGAATAATAAACT
Found at i:98311295 original size:27 final size:28
Alignment explanation
Indices: 98311250--98311302 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
98311240 TACTTCTGTT
* *
98311250 ACTGATAAGGGCTAAGGCCCTAATTGAG
1 ACTGATAAAGGCTAAGGCCCAAATTGAG
*
98311278 ACTGA-AAAGGCTTAGGCCCAAATTG
1 ACTGATAAAGGCTAAGGCCCAAATTG
98311303 TGTATTCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (28 bp):
ACTGATAAAGGCTAAGGCCCAAATTGAG
Found at i:98328708 original size:42 final size:42
Alignment explanation
Indices: 98328589--98328708 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
98328579 TACCATACCA
* **
98328589 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
98328631 ATGCCAATAGCCCAGCTATGGTCTTATACAAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
98328674 ATTCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCT
98328709 TAACTCACCC
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:98334512 original size:29 final size:28
Alignment explanation
Indices: 98334458--98334513 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
98334448 CACAGGCGAT
* *
98334458 GACACGGGCGTGTCTAGGCCGTGTGAAG
1 GACACGGGCATGTCTAGGCCATGTGAAG
*
98334486 GACACGGGCATGTACTCGGCCATGTGAA
1 GACACGGGCATGT-CTAGGCCATGTGAA
98334514 AACCCCTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.18
Consensus pattern (28 bp):
GACACGGGCATGTCTAGGCCATGTGAAG
Found at i:98341698 original size:16 final size:15
Alignment explanation
Indices: 98341672--98341704 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
98341662 GAAGGTTTGT
98341672 TTTAAAATTTTTACG
1 TTTAAAATTTTTACG
98341687 TTTAAAATTTTTACG
1 TTTAAAATTTTTACG
98341702 TTT
1 TTT
98341705 CTTTTTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTAAAATTTTTACG
Found at i:98345060 original size:55 final size:56
Alignment explanation
Indices: 98344995--98345109 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
98344985 AGCATGGCTG
* *
98344995 CCAGATACAGA-AAATGTGACA-GAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGGA-CCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* *
98345051 CCAGA-ACAGATATATGTGGCAGGACCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGGACCACCAGAACAGATAATTTGTGGCATAGCCA
98345106 CCAG
1 CCAG
98345110 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 20 0.38
57 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGGACCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:98345072 original size:27 final size:27
Alignment explanation
Indices: 98345020--98345109 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 27
98345010 GTGACAGAGT
98345020 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
*
98345049 CACCAGAACAGATATATGTGGCAG-GAC
1 CACCAGAACAGATATTTGTGGCAGTG-C
98345076 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
98345104 CACCAG
1 CACCAG
98345110 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.02
27 23 0.42
28 23 0.42
29 8 0.15
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:98349725 original size:15 final size:15
Alignment explanation
Indices: 98349705--98349734 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
98349695 AAATATCATA
98349705 TTAATTTTAATTAAT
1 TTAATTTTAATTAAT
*
98349720 TTAATTTTACTTAAT
1 TTAATTTTAATTAAT
98349735 CAAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTAAT
Found at i:98353484 original size:40 final size:40
Alignment explanation
Indices: 98353439--98353605 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
98353429 CGGAATATAA
98353439 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
98353479 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
98353519 CCGGATGTAGCCACTAGCA-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
98353558 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
98353598 CCGGATAT
1 CCGGATAT
98353606 CATTCAATTT
Statistics
Matches: 102, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 31 0.30
40 70 0.69
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:98353588 original size:79 final size:78
Alignment explanation
Indices: 98353458--98353603 Score: 190
Period size: 79 Copynumber: 1.9 Consensus size: 78
98353448 ATCACGTGCA
*
98353458 CAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGCCCG
1 CAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGCCCG
98353522 GATGTAGCCACTAG
65 GATGTAGCCACTAG
* * * *
98353536 CAAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAGCC
1 CAAA-TGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAGCC
98353599 CGGAT
63 CGGAT
98353604 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
78 7 0.12
79 51 0.86
80 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (78 bp):
CAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCCCGG
ATGTAGCCACTAG
Found at i:98361357 original size:40 final size:40
Alignment explanation
Indices: 98361312--98361479 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
98361302 CGGAATATAA
98361312 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
98361352 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
98361392 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
98361432 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
98361472 CCGGATAT
1 CCGGATAT
98361480 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:98363947 original size:25 final size:25
Alignment explanation
Indices: 98363919--98363986 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
98363909 CTTGTACTTG
*
98363919 TATGCTCACACGAGCTGTAAAACGA
1 TATGCTCTCACGAGCTGTAAAACGA
** *
98363944 TATGCTCTCACGAGCTGTAAGTCGG
1 TATGCTCTCACGAGCTGTAAAACGA
98363969 TATGCTCTCACGAGCTGT
1 TATGCTCTCACGAGCTGT
98363987 GGGTCAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (25 bp):
TATGCTCTCACGAGCTGTAAAACGA
Found at i:98365280 original size:15 final size:15
Alignment explanation
Indices: 98365260--98365313 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
98365250 GACTTATGGC
98365260 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
98365275 ATATTTATAATTATAAT
1 ATATTTATTA-T-TAAT
*
98365292 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
98365309 ATATT
1 ATATT
98365314 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:98365299 original size:19 final size:19
Alignment explanation
Indices: 98365275--98365311 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
98365265 TATTATTAAT
*
98365275 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
98365294 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
98365312 TTAATATTGA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:98365434 original size:22 final size:22
Alignment explanation
Indices: 98365394--98365449 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
98365384 AATAAAATTT
*
98365394 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
98365414 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
98365436 TATTAATAATTTAT
1 AAATAATAAATTAT
98365450 TATAAGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:98365978 original size:36 final size:36
Alignment explanation
Indices: 98365931--98366003 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
98365921 TGAACAAAGG
98365931 TTAAAAGATGATAACTTTAACTTTTGTTTTATTTAA
1 TTAAAAGATGATAACTTTAACTTTTGTTTTATTTAA
98365967 TTAAAAGATGATAACTTTAACTTTTGTTTTATTTAA
1 TTAAAAGATGATAACTTTAACTTTTGTTTTATTTAA
98366003 T
1 T
98366004 ATTAACATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (36 bp):
TTAAAAGATGATAACTTTAACTTTTGTTTTATTTAA
Found at i:98379509 original size:46 final size:44
Alignment explanation
Indices: 98379396--98379564 Score: 137
Period size: 46 Copynumber: 3.7 Consensus size: 44
98379386 ATTATGAGCT
* *
98379396 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA-AATGA-GTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-ACAA-GACGTGCC
* * *
98379444 AGTGTAAGGCATGTTTGGGACATGTATCGGCCT-CAAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGACGT--GCC
* * **
98379490 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGACGTGCC
98379534 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
98379565 ACACAGATAT
Statistics
Matches: 101, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
43 2 0.02
44 14 0.14
45 17 0.17
46 46 0.46
47 14 0.14
48 8 0.08
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGACGTGCC
Found at i:98379745 original size:45 final size:45
Alignment explanation
Indices: 98379681--98379773 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
98379671 AACGGTGAAA
98379681 GTATGATTTCAAGTTAACAAGGAAACTATAACCGTGTTATGAGTG
1 GTATGATTTCAAGTTAACAAGGAAACTATAACCGTGTTATGAGTG
*
98379726 GTATGATTTCAAGTTAACAAGGAAACTATAACCGTGTTTTGAGTG
1 GTATGATTTCAAGTTAACAAGGAAACTATAACCGTGTTATGAGTG
98379771 GTA
1 GTA
98379774 CAGGTACCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (45 bp):
GTATGATTTCAAGTTAACAAGGAAACTATAACCGTGTTATGAGTG
Found at i:98396731 original size:71 final size:70
Alignment explanation
Indices: 98396647--98396809 Score: 299
Period size: 71 Copynumber: 2.3 Consensus size: 70
98396637 CGATTTGTCT
*
98396647 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCACGCGA-CCAGCTACATTTAT
98396712 CTTTCA
65 CTTTCA
*
98396718 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCACGCGACCAGCTACATTTATC
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCACGCGACCAGCTACATTTATC
98396783 TTTCA
66 TTTCA
98396788 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
98396810 GATACATCCG
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
70 42 0.47
71 48 0.53
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCACGCGACCAGCTACATTTATC
TTTCA
Found at i:98396847 original size:70 final size:68
Alignment explanation
Indices: 98396647--98396842 Score: 218
Period size: 71 Copynumber: 2.8 Consensus size: 68
98396637 CGATTTGTCT
* * * *
98396647 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACATCAC-T-GAATCACACACGCGA-CCAGCTACATTTAT
98396712 CTTTCA
63 CTTTCA
* * *
98396718 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCACGCGACCAGCTACATTTATC
1 CGTAGCTCTCTTGTCTACATGGTGTACATCAC-T-GAATCACACACGCGACCAGCTACATTTATC
98396783 TTTCA
64 TTTCA
* * *
98396788 CGTAGCTCTCTTGTCTACATGG-GATACATC-C-GTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATCACTGAATCACACACGCGACC-AGCTAC
98396843 TACATGGTGT
Statistics
Matches: 115, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
69 2 0.02
70 46 0.40
71 48 0.42
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.32
Consensus pattern (68 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATCACTGAATCACACACGCGACCAGCTACATTTATCTT
TCA
Found at i:98404311 original size:71 final size:71
Alignment explanation
Indices: 98404225--98404388 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
98404215 CGATTTGTCT
98404225 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
98404290 CTTTCA
66 CTTTCA
98404296 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
98404361 CTTTCA
66 CTTTCA
98404367 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
98404389 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:98404426 original size:71 final size:70
Alignment explanation
Indices: 98404225--98404422 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
98404215 CGATTTGTCT
* * * *
98404225 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
98404290 CTTTCA
65 CTTTCA
* * * *
98404296 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
98404361 CTTTCA
65 CTTTCA
* *
98404367 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
98404423 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:98407489 original size:48 final size:47
Alignment explanation
Indices: 98407367--98407692 Score: 237
Period size: 48 Copynumber: 6.8 Consensus size: 47
98407357 AAAAGGGTAA
* ** * *
98407367 AATGTCGATGCCATG-TCTGAACATGGTCTTACACTGGCTTTCATACATC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGACTCT-ATA-A-C
** * * *
98407416 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATAAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGACTC-TATAAC
* * **
98407464 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCCCATATT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGACT-CTATAAC
* * * * **
98407512 GAGGCCGTTGCCATGTCCCAAACATGGTCTTACACT-AGCTCTCATGGC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGA-CTCT-ATAAC
** * * * **
98407560 AATGTTGATGCCATGCTCCAAACATGGTCTTTCACTGGCTCGTATATT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGACTC-TATAAC
* * * *
98407608 GAGGCCGTTGCCATG-TCCTAGACATGGTCTTACACT-AGCTCTCATAAC
1 AATGCCGATGCCATGTTCC-AAACATGGTCTTACACTGA-CTCT-ATAAC
*
98407656 AATGCCGATGCCGTGTTCCAAACATGGTCTTACACTG
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTG
98407693 GCTCCTACAT
Statistics
Matches: 210, Mismatches: 55, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
47 5 0.02
48 165 0.79
49 18 0.09
50 21 0.10
51 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGACTCTATAAC
Found at i:98407540 original size:96 final size:96
Alignment explanation
Indices: 98407367--98407697 Score: 418
Period size: 96 Copynumber: 3.4 Consensus size: 96
98407357 AAAAGGGTAA
* ** ** * *
98407367 AATGTCGATGCCATG-TCTGAACATGGTCTTACACTGGCTTTCATACATCG-GTGCCGATGCCAT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCCCAT--ATTGAG-GCCGTTGCCAT
*
98407430 GTCCCAGACATGGTCTTACACT-GACACAT-ATAAC
63 GTCCCAGACATGGTCTTACACTAG-CTC-TCATAAC
98407464 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCCCATATTGAGGCCGTTGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCCCATATTGAGGCCGTTGCCATGTC
* **
98407529 CCAAACATGGTCTTACACTAGCTCTCATGGC
66 CCAGACATGGTCTTACACTAGCTCTCATAAC
** * * **
98407560 AATGTTGATGCCATGCTCCAAACATGGTCTTTCACTGGCTCGTATATTGAGGCCGTTGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCCCATATTGAGGCCGTTGCCATGTC
*
98407625 CTAGACATGGTCTTACACTAGCTCTCATAAC
66 CCAGACATGGTCTTACACTAGCTCTCATAAC
*
98407656 AATGCCGATGCCGTGTTCCAAACATGGTCTTACACTGGCTCC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCC
98407698 TACATAACCC
Statistics
Matches: 203, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
95 1 0.00
96 161 0.79
97 16 0.08
98 25 0.12
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (96 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCCCATATTGAGGCCGTTGCCATGTC
CCAGACATGGTCTTACACTAGCTCTCATAAC
Found at i:98409271 original size:2 final size:2
Alignment explanation
Indices: 98409264--98409300 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
98409254 CATCATATGC
98409264 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
98409301 CACTTAAGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:98412763 original size:16 final size:16
Alignment explanation
Indices: 98412742--98412772 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98412732 TTTGTAAGGA
98412742 GCATTGCAAGGTGGTT
1 GCATTGCAAGGTGGTT
*
98412758 GCATTGCAATGTGGT
1 GCATTGCAAGGTGGT
98412773 AATATTTTGG
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:0.19, C:0.13, G:0.35, T:0.32
Consensus pattern (16 bp):
GCATTGCAAGGTGGTT
Found at i:98417574 original size:8 final size:8
Alignment explanation
Indices: 98417560--98417589 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
98417550 TAGTATAGTT
98417560 GATATATA
1 GATATATA
*
98417568 TATATATA
1 GATATATA
98417576 GATATATA
1 GATATATA
98417584 GATATA
1 GATATA
98417590 CATATTCGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (8 bp):
GATATATA
Found at i:98418270 original size:29 final size:29
Alignment explanation
Indices: 98418235--98418308 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
98418225 GTTGTGAGAT
* *
98418235 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
98418264 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
98418293 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
98418309 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:98424046 original size:28 final size:28
Alignment explanation
Indices: 98423989--98424089 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
98423979 GCAATAAGCC
*
98423989 CGCACACTTAGTGCTTAATATAGTCGAACT
1 CGCACACTTAGTGC-T-ATATAATCGAACT
*
98424019 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCGAACT
* * * *
98424047 TGCACACTTAGTGCTGTATAATTTGAACC
1 CGCACACTTAGTGCTATATAA-TCGAACT
98424076 CGCACACTTAGTGC
1 CGCACACTTAGTGC
98424090 CAATTGTGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 30 0.48
29 18 0.29
30 14 0.23
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCGAACT
Found at i:98431696 original size:28 final size:28
Alignment explanation
Indices: 98431664--98431762 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
98431654 GCAATAAGCC
*
98431664 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
98431692 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
98431720 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
98431749 CGCACACTTAGTGC
1 CGCACACTTAGTGC
98431763 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:98436087 original size:29 final size:30
Alignment explanation
Indices: 98436054--98436128 Score: 98
Period size: 33 Copynumber: 2.4 Consensus size: 30
98436044 AACTATCTTT
*
98436054 TTATTATTTAAC-CTAGAAATAAAAAGGGG
1 TTATTATTAAACACTAGAAATAAAAAGGGG
98436083 TTATTTATTAAACTAACTAGAAATAAAAAGGGG
1 TTA-TTATTAAAC--ACTAGAAATAAAAAGGGG
98436116 TTATTTATTAAAC
1 TTA-TTATTAAAC
98436129 TAATTAACTA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 3 0.07
30 8 0.20
33 30 0.73
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (30 bp):
TTATTATTAAACACTAGAAATAAAAAGGGG
Found at i:98436090 original size:33 final size:32
Alignment explanation
Indices: 98436066--98436131 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 32
98436056 ATTATTTAAC
98436066 CTAGAAATAAAAAGGGGTTATTTATTAAACTAA
1 CTAGAAATAAAAAGGGGTTATTTATT-AACTAA
98436099 CTAGAAATAAAAAGGGGTTATTTATTAAACTAA
1 CTAGAAATAAAAAGGGGTTATTTATT-AACTAA
98436132 TTAACTAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (32 bp):
CTAGAAATAAAAAGGGGTTATTTATTAACTAA
Found at i:98436142 original size:13 final size:13
Alignment explanation
Indices: 98436124--98436148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98436114 GGTTATTTAT
98436124 TAAACTAATTAAC
1 TAAACTAATTAAC
98436137 TAAACTAATTAA
1 TAAACTAATTAA
98436149 TTGATTAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:98439334 original size:16 final size:16
Alignment explanation
Indices: 98439309--98439342 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
98439299 AATTTGGATG
*
98439309 TTATTGTTATTATTAT
1 TTATTATTATTATTAT
98439325 TTATTATTATTATTAT
1 TTATTATTATTATTAT
98439341 TT
1 TT
98439343 CGTAGGTTTA
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:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:98441389 original size:26 final size:25
Alignment explanation
Indices: 98441360--98441418 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
98441350 ATTTACTAAA
*
98441360 ATACCCTAAGTATG-AAAATTACCATT
1 ATACCCT-AG-ATGCAAAATGACCATT
*
98441386 ATACCTCTAGGTGCAAAATGACCATT
1 ATACC-CTAGATGCAAAATGACCATT
98441412 ATACCCT
1 ATACCCT
98441419 TAGGGTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 4 0.14
26 23 0.79
27 2 0.07
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (25 bp):
ATACCCTAGATGCAAAATGACCATT
Found at i:98441565 original size:28 final size:28
Alignment explanation
Indices: 98441525--98441640 Score: 146
Period size: 28 Copynumber: 4.2 Consensus size: 28
98441515 GGAGGAAGCG
*
98441525 TTCTGGTGGCTCTGCCATAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
98441553 TTCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
98441581 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * * *
98441609 ATCTGGTGACTCTGTCGC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
98441635 TTCTGG
1 TTCTGG
98441641 CAGCCTTGCT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
26 5 0.07
27 7 0.09
28 64 0.84
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:98443667 original size:13 final size:13
Alignment explanation
Indices: 98443649--98443676 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
98443639 AATTTGGATG
98443649 TTATTATTATTAT
1 TTATTATTATTAT
98443662 TTATTATTATTAT
1 TTATTATTATTAT
98443675 TT
1 TT
98443677 CGTAGGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:98444738 original size:26 final size:25
Alignment explanation
Indices: 98444677--98444739 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
98444667 TTTTTGACAA
*
98444677 TTCTTTT-CTCT-TCTTCTTTTCTC
1 TTCTTTTCCTCTATCTTCTCTTCTC
* * *
98444700 CTCTTTTCATCTATTTTCTCTTCTTC
1 TTCTTTTCCTCTATCTTCTCTTC-TC
98444726 TTCTTTTCCTCTAT
1 TTCTTTTCCTCTAT
98444740 AGCTGAATCT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 6 0.19
24 3 0.10
25 8 0.26
26 14 0.45
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (25 bp):
TTCTTTTCCTCTATCTTCTCTTCTC
Found at i:98447298 original size:71 final size:71
Alignment explanation
Indices: 98447212--98447375 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
98447202 CGATTTGTCT
98447212 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
98447277 CTTTCA
66 CTTTCA
98447283 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
98447348 CTTTCA
66 CTTTCA
98447354 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
98447376 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:98447413 original size:71 final size:70
Alignment explanation
Indices: 98447212--98447409 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
98447202 CGATTTGTCT
* * * *
98447212 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
98447277 CTTTCA
65 CTTTCA
* * * *
98447283 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
98447348 CTTTCA
65 CTTTCA
* *
98447354 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
98447410 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:98454873 original size:70 final size:70
Alignment explanation
Indices: 98454790--98454951 Score: 324
Period size: 70 Copynumber: 2.3 Consensus size: 70
98454780 CGATTTGTCT
98454790 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCAGCTACATTTATC
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCAGCTACATTTATC
98454855 TTTCA
66 TTTCA
98454860 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCAGCTACATTTATC
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCAGCTACATTTATC
98454925 TTTCA
66 TTTCA
98454930 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
98454952 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 92 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCAGCTACATTTATC
TTTCA
Found at i:98456769 original size:21 final size:20
Alignment explanation
Indices: 98456730--98456771 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
98456720 TCTTTAAAAC
*
98456730 AGGGCACAAGCCTGTGTGGA
1 AGGGCACAAGCCCGTGTGGA
*
98456750 AGGGCAACACGCCCGTGTGGA
1 AGGGC-ACAAGCCCGTGTGGA
98456771 A
1 A
98456772 TTAATTTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.26, C:0.24, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCACAAGCCCGTGTGGA
Found at i:98457857 original size:47 final size:48
Alignment explanation
Indices: 98457804--98458024 Score: 255
Period size: 47 Copynumber: 4.7 Consensus size: 48
98457794 GGTAAGGTTT
* *
98457804 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGC
* *
98457851 CGATGCCATGTCCCAAACATGGTCTTACACT-GACT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTC-AAGC
*
98457899 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA-GC
**
98457945 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCAT-AAAATGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA--GC
*
98457993 CGAT-ACATGTCCCAGACAT-GTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
98458025 CAACCATAAC
Statistics
Matches: 154, Mismatches: 11, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
45 1 0.01
46 41 0.27
47 81 0.53
48 31 0.20
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGC
Found at i:98457971 original size:94 final size:93
Alignment explanation
Indices: 98457804--98458024 Score: 284
Period size: 94 Copynumber: 2.3 Consensus size: 93
98457794 GGTAAGGTTT
* *
98457804 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAAAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAAAC
****
98457869 ATGGTCTTACACT-GACTATCATCTCGTAGC
64 ATGGTCTTACACTAG-CTATCATAAAATAGC
* *
98457899 CGATGCATGTCCCAGACATGTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCCCAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAAAC
* *
98457963 ATGGTCTTACACTAGCTCTCATAAAATGGC
64 ATGGTCTTACACTAGCTATCATAAAATAGC
*
98457993 CGATACATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
98458025 CAACCATAAC
Statistics
Matches: 112, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
92 1 0.01
93 20 0.18
94 85 0.76
95 6 0.05
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (93 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAAACAT
GGTCTTACACTAGCTATCATAAAATAGC
Found at i:98460635 original size:14 final size:14
Alignment explanation
Indices: 98460616--98460657 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
98460606 TATCGTTATT
98460616 TTTAATTATATATA
1 TTTAATTATATATA
98460630 TTTAA-TATATTATA
1 TTTAATTATA-TATA
**
98460644 TAAAATTATATATA
1 TTTAATTATATATA
98460658 AATATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATTATATATA
Found at i:98460716 original size:20 final size:20
Alignment explanation
Indices: 98460691--98460729 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
98460681 AAAATTTTAA
98460691 ATATAAAATACTATTTAATT
1 ATATAAAATACTATTTAATT
*
98460711 ATATAAAATATTATTTAAT
1 ATATAAAATACTATTTAAT
98460730 AAATTTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATAAAATACTATTTAATT
Found at i:98466107 original size:25 final size:25
Alignment explanation
Indices: 98466079--98466126 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
98466069 TTATATAGCT
98466079 AGAACTTAGAAATCTATGATAGGCA
1 AGAACTTAGAAATCTATGATAGGCA
98466104 AGAACTTAGAAATCTATGATAGG
1 AGAACTTAGAAATCTATGATAGG
98466127 AACAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (25 bp):
AGAACTTAGAAATCTATGATAGGCA
Found at i:98473866 original size:3 final size:3
Alignment explanation
Indices: 98473860--98473891 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
98473850 TAAAAGTATG
98473860 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
98473892 TCTACAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:98473989 original size:2 final size:2
Alignment explanation
Indices: 98473982--98474009 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
98473972 ATATGTACAA
98473982 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98474010 GTATGTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98474085 original size:16 final size:16
Alignment explanation
Indices: 98474018--98474093 Score: 50
Period size: 16 Copynumber: 4.8 Consensus size: 16
98474008 ATGTATGTAC
* *
98474018 ATAA-AATATACACTA
1 ATAATAATATATAATA
* *
98474033 AT-ATAATA-ATAGTT
1 ATAATAATATATAATA
*
98474047 ATAATAATACTAGCAATA
1 ATAATAATA-TA-TAATA
* *
98474065 GTAATAATTTATAATA
1 ATAATAATATATAATA
98474081 ATAATAATATATA
1 ATAATAATATATA
98474094 CACAATATGG
Statistics
Matches: 45, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
14 6 0.13
15 12 0.27
16 15 0.33
17 3 0.07
18 9 0.20
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (16 bp):
ATAATAATATATAATA
Found at i:98474161 original size:2 final size:2
Alignment explanation
Indices: 98474112--98474142 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
98474102 GGTATTTAAA
*
98474112 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
98474143 ATAGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98474721 original size:29 final size:27
Alignment explanation
Indices: 98474668--98474719 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
98474658 TTTTTGGGGG
98474668 GGGGGTTAGG--TTTTTCTTTTTTTTT
1 GGGGGTTAGGTTTTTTTCTTTTTTTTT
98474693 GGGGGTTAGGTTTTTTTCTTTTTTTTT
1 GGGGGTTAGGTTTTTTTCTTTTTTTTT
98474720 TTTTTGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 10 0.40
27 15 0.60
ACGTcount: A:0.04, C:0.04, G:0.27, T:0.65
Consensus pattern (27 bp):
GGGGGTTAGGTTTTTTTCTTTTTTTTT
Found at i:98474728 original size:29 final size:31
Alignment explanation
Indices: 98474678--98474738 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
98474668 GGGGGTTAGG
98474678 TTTTTCTTTTTTTTTGGGGGTTAGGTTTTTTTC
1 TTTTTCTTTTTTTTT--GGGTTAGGTTTTTTTC
98474711 TTTTT-TTTTTTTTT-GGTTAGGTTTTTTT
1 TTTTTCTTTTTTTTTGGGTTAGGTTTTTTT
98474739 TTGGGTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 14 0.50
32 9 0.32
33 5 0.18
ACGTcount: A:0.03, C:0.03, G:0.18, T:0.75
Consensus pattern (31 bp):
TTTTTCTTTTTTTTTGGGTTAGGTTTTTTTC
Found at i:98477069 original size:9 final size:10
Alignment explanation
Indices: 98477021--98477082 Score: 61
Period size: 11 Copynumber: 5.8 Consensus size: 10
98477011 TAAAGAGAGT
*
98477021 TTTGAGAAAA
1 TTTGAGAGAA
* *
98477031 TATGAAAGAAA
1 TTTGAGAG-AA
98477042 TTTGAGAGAA
1 TTTGAGAGAA
98477052 TTTGGAGAGAA
1 TTT-GAGAGAA
98477063 TTTAGAGAGAA
1 TTT-GAGAGAA
98477074 TTATGAGAG
1 TT-TGAGAG
98477083 GACTTTTGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
10 10 0.23
11 32 0.74
12 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:98478614 original size:16 final size:18
Alignment explanation
Indices: 98478582--98478618 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
98478572 ATATAATATT
98478582 TATCATAAATATAAATAA
1 TATCATAAATATAAATAA
98478600 TATCA-AAAT-TAAATAA
1 TATCATAAATATAAATAA
98478616 TAT
1 TAT
98478619 TTATCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
TATCATAAATATAAATAA
Found at i:98485139 original size:11 final size:13
Alignment explanation
Indices: 98485110--98485140 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
98485100 CTAAAGTTGT
98485110 ATATATGGTTATA
1 ATATATGGTTATA
98485123 ATATATGGTTATA
1 ATATATGGTTATA
98485136 ATATA
1 ATATA
98485141 GCTGATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
ATATATGGTTATA
Found at i:98486621 original size:105 final size:105
Alignment explanation
Indices: 98486503--98486712 Score: 377
Period size: 105 Copynumber: 2.0 Consensus size: 105
98486493 CCAAAATTTA
*
98486503 AAAATAAATATAT-GAGCTAATTGCACCTTATGACCCTCATTCTAAATTGATCCCTAAATTTCAA
1 AAAATAAATATATGGA-CTAATTGCACCTTATGACCCTCATTCTAAATTGATCCCGAAATTTCAA
98486567 GTCATTCTAATTACACCTCCAACTATCAAGGTCATATCAAT
65 GTCATTCTAATTACACCTCCAACTATCAAGGTCATATCAAT
*
98486608 AAAATAAATATATGGACTAATTGCACCTTATGACCCTCATTCTAAATTGGTCCCGAAATTTCAAG
1 AAAATAAATATATGGACTAATTGCACCTTATGACCCTCATTCTAAATTGATCCCGAAATTTCAAG
*
98486673 TCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
66 TCATTCTAATTACACCTCCAACTATCAAGGTCATATCAAT
98486713 TAGGACATTT
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
105 99 0.98
106 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (105 bp):
AAAATAAATATATGGACTAATTGCACCTTATGACCCTCATTCTAAATTGATCCCGAAATTTCAAG
TCATTCTAATTACACCTCCAACTATCAAGGTCATATCAAT
Found at i:98492193 original size:21 final size:20
Alignment explanation
Indices: 98492161--98492199 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
98492151 TATTAAAAGG
*
98492161 TTAATATAATAAATTAGTTA
1 TTAATATAATAAAATAGTTA
*
98492181 TTAATTATGATAAAATAGT
1 TTAA-TATAATAAAATAGT
98492200 AAAACAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
TTAATATAATAAAATAGTTA
Found at i:98499752 original size:197 final size:197
Alignment explanation
Indices: 98499417--98499812 Score: 783
Period size: 197 Copynumber: 2.0 Consensus size: 197
98499407 CTTCATGACC
98499417 TAGATTGTCGGATATCACAGTGATATCAACTGCATTCAAATAATAAACCACCACAAGATCCAGAT
1 TAGATTGTCGGATATCACAGTGATATCAACTGCATTCAAATAATAAACCACCACAAGATCCAGAT
*
98499482 TTACAAGCAAATATCTTCGATATACTCCAAGAATACAAACAAGTATCATAGCTCATATGACATTT
66 TTACAAGCAAATATCTTCGAAATACTCCAAGAATACAAACAAGTATCATAGCTCATATGACATTT
98499547 GAACACCAAACTATGCCTAGTTATTGGTTGATGATTATTGTTAAGCATCCAGCCAAACACCAATT
131 GAACACCAAACTATGCCTAGTTATTGGTTGATGATTATTGTTAAGCATCCAGCCAAACACCAATT
98499612 GG
196 GG
98499614 TAGATTGTCGGATATCACAGTGATATCAACTGCATTCAAATAATAAACCACCACAAGATCCAGAT
1 TAGATTGTCGGATATCACAGTGATATCAACTGCATTCAAATAATAAACCACCACAAGATCCAGAT
98499679 TTACAAGCAAATATCTTCGAAATACTCCAAGAATACAAACAAGTATCATAGCTCATATGACATTT
66 TTACAAGCAAATATCTTCGAAATACTCCAAGAATACAAACAAGTATCATAGCTCATATGACATTT
98499744 GAACACCAAACTATGCCTAGTTATTGGTTGATGATTATTGTTAAGCATCCAGCCAAACACCAATT
131 GAACACCAAACTATGCCTAGTTATTGGTTGATGATTATTGTTAAGCATCCAGCCAAACACCAATT
98499809 GG
196 GG
98499811 TA
1 TA
98499813 ATCTAGAGGC
Statistics
Matches: 198, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
197 198 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (197 bp):
TAGATTGTCGGATATCACAGTGATATCAACTGCATTCAAATAATAAACCACCACAAGATCCAGAT
TTACAAGCAAATATCTTCGAAATACTCCAAGAATACAAACAAGTATCATAGCTCATATGACATTT
GAACACCAAACTATGCCTAGTTATTGGTTGATGATTATTGTTAAGCATCCAGCCAAACACCAATT
GG
Found at i:98503242 original size:40 final size:40
Alignment explanation
Indices: 98503158--98503242 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
98503148 AAGTTAACTT
**** *
98503158 CATGTTTTTCTATAGAATTAGAGTGCACATAAAATGTTCT
1 CATGTTTTTCTATAGAATTAGAGTGCACATAAAACCCCCA
98503198 CATGTTCTTT-TATAGAATTAGAGTGCACATAAAACCCCCA
1 CATGTT-TTTCTATAGAATTAGAGTGCACATAAAACCCCCA
98503238 CATGT
1 CATGT
98503243 ACACACTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 36 0.92
41 3 0.08
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (40 bp):
CATGTTTTTCTATAGAATTAGAGTGCACATAAAACCCCCA
Found at i:98521122 original size:56 final size:56
Alignment explanation
Indices: 98521044--98521155 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
98521034 TACAAAATTA
*
98521044 AATAGATGGCTTACAATAAACAATTCTCTGGTATAGTCCCTTCAACAAAATCACTT
1 AATAGATGGCTCACAATAAACAATTCTCTGGTATAGTCCCTTCAACAAAATCACTT
* *
98521100 AATAGATGGCTCACAATCAACAATTCTCTGGTGTAGTCCCTTCAACAAAATCACTT
1 AATAGATGGCTCACAATAAACAATTCTCTGGTATAGTCCCTTCAACAAAATCACTT
98521156 CCTTTAGTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (56 bp):
AATAGATGGCTCACAATAAACAATTCTCTGGTATAGTCCCTTCAACAAAATCACTT
Found at i:98522961 original size:25 final size:25
Alignment explanation
Indices: 98522933--98523007 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
98522923 ACACAATGAA
98522933 AAGGAAAAATCAAAGTTTTAAATTT
1 AAGGAAAAATCAAAGTTTTAAATTT
98522958 AAGGAAAAATCAAAGTTTTAAATTT
1 AAGGAAAAATCAAAGTTTTAAATTT
98522983 AAGGAAAAATCAAAGTTTTAAATTT
1 AAGGAAAAATCAAAGTTTTAAATTT
98523008 GTTTCCAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (25 bp):
AAGGAAAAATCAAAGTTTTAAATTT
Found at i:98528602 original size:29 final size:29
Alignment explanation
Indices: 98528512--98528671 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
98528502 ACTCGATTTC
* * **
98528512 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
98528541 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
98528569 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
98528599 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
98528628 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
98528657 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
98528672 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:98534079 original size:68 final size:68
Alignment explanation
Indices: 98533942--98534098 Score: 194
Period size: 68 Copynumber: 2.3 Consensus size: 68
98533932 TTAACTGTGA
* * * *
98533942 AATC-AACAGATTCGGACAGCTACATTTACTAAATAAAACAGCATATATGGTAGTGTATCGAACA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGTATCGAACA
98534006 ATG
66 ATG
* *
98534009 AATTTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGAT-GATGCT-TTGAA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAG-TG-TATCGAA
* *
98534072 TAGTG
64 CAATG
*
98534077 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCGGACAGCT
98534099 TAATTTTAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
67 4 0.05
68 72 0.94
69 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (68 bp):
AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGTATCGAACA
ATG
Done.