Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 31 of 125
Found at i:8912571 original size:18 final size:18
Alignment explanation
Indices: 8912506--8912572 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 18
8912496 TGAGCATGAG
8912506 ATTATGTTTAAAGGAAGA
1 ATTATGTTTAAAGGAAGA
* * *
8912524 CTCATGTCTTGGAAAGAGCATGA
1 ATTATGT-TT--AAAG-G-AAGA
8912547 GATTATGTTTAAAGGAAGA
1 -ATTATGTTTAAAGGAAGA
8912566 ATTATGT
1 ATTATGT
8912573 CTCGGTGGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
18 12 0.32
19 5 0.14
20 1 0.03
21 8 0.22
22 1 0.03
23 5 0.14
24 5 0.14
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (18 bp):
ATTATGTTTAAAGGAAGA
Found at i:8913765 original size:40 final size:38
Alignment explanation
Indices: 8913694--8913773 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 38
8913684 GTATGACATG
***
8913694 TTGCAGTATTTACAGTGTCACTACTGGCTCAGTTATAATA
1 TTGCAGTATTTACAGTGTCACTACCAACTCAG-TA-AATA
* *
8913734 TTGCAGTGTTTACAGTGTCACTTCCAACTCAGTAAATA
1 TTGCAGTATTTACAGTGTCACTACCAACTCAGTAAATA
8913772 TT
1 TT
8913774 CTCAAGTGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 6 0.17
39 2 0.06
40 27 0.77
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (38 bp):
TTGCAGTATTTACAGTGTCACTACCAACTCAGTAAATA
Found at i:8914418 original size:55 final size:55
Alignment explanation
Indices: 8914290--8914576 Score: 301
Period size: 55 Copynumber: 5.2 Consensus size: 55
8914280 AGAATAGTTT
* * *
8914290 ACACACACCTTGACACACGCCCGTGTGCCAGCTCATGTGCCT-CAGGAACAATAT--
1 ACACACACCCTGACACACGCCCGTGTGCCAGCCCGTGTGCCTCCA--AACAATATAG
* * * * *
8914344 ACACACACCCTGACCCACGCCCGTGTGCTAGCCCGTGTACCTCCAAACAATACAC
1 ACACACACCCTGACACACGCCCGTGTGCCAGCCCGTGTGCCTCCAAACAATATAG
* * * * *
8914399 ACACACACCCTGGCACACGCCCATGTGCCAACCCGTGTGCCTCCAAGCAGTATAG
1 ACACACACCCTGACACACGCCCGTGTGCCAGCCCGTGTGCCTCCAAACAATATAG
** * *
8914454 ACACACACCCTGACACACGCTTGTGTGTCAGCCCGTGTGCCTCCAAACAATATGG
1 ACACACACCCTGACACACGCCCGTGTGCCAGCCCGTGTGCCTCCAAACAATATAG
* * * * * * * *
8914509 ACACACACCCTAGACACACCCCCGTGTGTCAACCTGTGTGCCTCTAAATAGTATAA
1 ACACACACCCT-GACACACGCCCGTGTGCCAGCCCGTGTGCCTCCAAACAATATAG
8914565 ACACACACCCTG
1 ACACACACCCTG
8914577 GCCACACCCT
Statistics
Matches: 193, Mismatches: 36, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
53 7 0.04
54 36 0.19
55 105 0.54
56 45 0.23
ACGTcount: A:0.28, C:0.38, G:0.17, T:0.17
Consensus pattern (55 bp):
ACACACACCCTGACACACGCCCGTGTGCCAGCCCGTGTGCCTCCAAACAATATAG
Found at i:8914491 original size:110 final size:110
Alignment explanation
Indices: 8914237--8914576 Score: 341
Period size: 110 Copynumber: 3.1 Consensus size: 110
8914227 AGAATAGTAT
* * * * **
8914237 ACACATACCCTGACACACGCTTATGTGTCAGCCTGTGTACC-CC--AGAATAGTTTACACACACC
1 ACACACACCCTGACACACGCTTGTGTGTCAGCCCGTGTACCTCCAAACAATA-TACACACACACC
* * * * * ** *
8914299 TTGACACACGCCCGTGTGCCAGCTCATGTGCCT-CAGGAACAATAT
65 CTGACACACGCCCGTGTGCCAACCCGTGTGCCTCCAAGAAGTATAA
* ** *
8914344 ACACACACCCTGACCCACGCCCGTGTG-CTAGCCCGTGTACCTCCAAACAATACACACACACACC
1 ACACACACCCTGACACACGCTTGTGTGTC-AGCCCGTGTACCTCCAAACAATATACACACACACC
* * * *
8914408 CTGGCACACGCCCATGTGCCAACCCGTGTGCCTCCAAGCAGTATAG
65 CTGACACACGCCCGTGTGCCAACCCGTGTGCCTCCAAGAAGTATAA
* **
8914454 ACACACACCCTGACACACGCTTGTGTGTCAGCCCGTGTGCCTCCAAACAATATGGACACACACCC
1 ACACACACCCTGACACACGCTTGTGTGTCAGCCCGTGTACCTCCAAACAATATACACACACACCC
* * * *
8914519 TAGACACACCCCCGTGTGTCAACCTGTGTGCCTCTAA-ATAGTATAA
66 T-GACACACGCCCGTGTGCCAACCCGTGTGCCTCCAAGA-AGTATAA
8914565 ACACACACCCTG
1 ACACACACCCTG
8914577 GCCACACCCT
Statistics
Matches: 189, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
106 1 0.01
107 33 0.17
108 2 0.01
109 36 0.19
110 69 0.37
111 48 0.25
ACGTcount: A:0.27, C:0.37, G:0.17, T:0.19
Consensus pattern (110 bp):
ACACACACCCTGACACACGCTTGTGTGTCAGCCCGTGTACCTCCAAACAATATACACACACACCC
TGACACACGCCCGTGTGCCAACCCGTGTGCCTCCAAGAAGTATAA
Found at i:8914595 original size:56 final size:56
Alignment explanation
Indices: 8914375--8914607 Score: 229
Period size: 55 Copynumber: 4.2 Consensus size: 56
8914365 CGTGTGCTAG
* * * * *
8914375 CCCGTGTACCTCCAAACAATACACACACACACCCTGG-CACACGCC-CATGTGCCAA
1 CCCGTGTGCCTCCAAACAGTATAGACACACACCCTGGACACAC-CCTCATGTGTCAA
* * ** *
8914430 CCCGTGTGCCTCCAAGCAGTATAGACACACACCCT-GACACACGCTTGTGTGTCAG
1 CCCGTGTGCCTCCAAACAGTATAGACACACACCCTGGACACACCCTCATGTGTCAA
* * * * *
8914485 CCCGTGTGCCTCCAAACAATATGGACACACACCCTAGACACACCCCCGTGTGTCAA
1 CCCGTGTGCCTCCAAACAGTATAGACACACACCCTGGACACACCCTCATGTGTCAA
* * * * * * *
8914541 CCTGTGTGCCTCTAAATAGTATAAACACACACCCTGGCCACACCCTCATATGTCAT
1 CCCGTGTGCCTCCAAACAGTATAGACACACACCCTGGACACACCCTCATGTGTCAA
*
8914597 CTCGTGTGCCT
1 CCCGTGTGCCT
8914608 TCGAAAAGCA
Statistics
Matches: 144, Mismatches: 31, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
54 2 0.01
55 73 0.51
56 69 0.48
ACGTcount: A:0.27, C:0.38, G:0.16, T:0.19
Consensus pattern (56 bp):
CCCGTGTGCCTCCAAACAGTATAGACACACACCCTGGACACACCCTCATGTGTCAA
Found at i:8916793 original size:29 final size:29
Alignment explanation
Indices: 8916760--8916851 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 29
8916750 GAAATAATAT
* * *
8916760 AGATACAGTTACGGATACAATCATGCCAC
1 AGATACAGTTACAGACACAATCATGTCAC
* * *
8916789 AGATATAGTTACAGACACAATCATGTTAG
1 AGATACAGTTACAGACACAATCATGTCAC
* *
8916818 AGATACAGTTATAGACACAGTCATGTCAC
1 AGATACAGTTACAGACACAATCATGTCAC
8916847 AGATA
1 AGATA
8916852 TACTTATAGA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (29 bp):
AGATACAGTTACAGACACAATCATGTCAC
Found at i:8916858 original size:29 final size:29
Alignment explanation
Indices: 8916780--8916867 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
8916770 ACGGATACAA
* * *
8916780 TCATGCCACAGATATAGTTACAGACACAA
1 TCATGTCACAGATATAGTTATAGACACAG
* * *
8916809 TCATGTTAGAGATACAGTTATAGACACAG
1 TCATGTCACAGATATAGTTATAGACACAG
* *
8916838 TCATGTCACAGATATACTTATAGATACAG
1 TCATGTCACAGATATAGTTATAGACACAG
8916867 T
1 T
8916868 TACAGATACA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (29 bp):
TCATGTCACAGATATAGTTATAGACACAG
Found at i:8916870 original size:70 final size:70
Alignment explanation
Indices: 8916789--8916921 Score: 203
Period size: 70 Copynumber: 1.9 Consensus size: 70
8916779 ATCATGCCAC
* * * *
8916789 AGATATAGTTACAGACACAATCATGTTAGAGATACAGTTATAGACACAGTCATGTCACAGATATA
1 AGATACAGTTACAGACACAATCATGTCACAGATACAGTTACAGACACAGTCATGTCACAGATATA
8916854 CTTAT
66 CTTAT
* * *
8916859 AGATACAGTTACAGATACAATCATGTCACAGATATAGTTACAGATACAGTCATGTCACAGATA
1 AGATACAGTTACAGACACAATCATGTCACAGATACAGTTACAGACACAGTCATGTCACAGATA
8916922 CAATTACGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 56 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.27
Consensus pattern (70 bp):
AGATACAGTTACAGACACAATCATGTCACAGATACAGTTACAGACACAGTCATGTCACAGATATA
CTTAT
Found at i:8916883 original size:41 final size:41
Alignment explanation
Indices: 8916818--8916908 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
8916808 ATCATGTTAG
* * *
8916818 AGATACAGTTATAGACACAGTCATGTCACAGATATACTTAT
1 AGATACAGTTACAGACACAATCATGTCACAGATATACTTAC
* *
8916859 AGATACAGTTACAGATACAATCATGTCACAGATATAGTTAC
1 AGATACAGTTACAGACACAATCATGTCACAGATATACTTAC
8916900 AGATACAGT
1 AGATACAGT
8916909 CATGTCACAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.27
Consensus pattern (41 bp):
AGATACAGTTACAGACACAATCATGTCACAGATATACTTAC
Found at i:8916891 original size:17 final size:17
Alignment explanation
Indices: 8916869--8916925 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
8916859 AGATACAGTT
8916869 ACAGATACAATCATGTC
1 ACAGATACAATCATGTC
*
8916886 ACAGAT---AT-A-GTT
1 ACAGATACAATCATGTC
*
8916898 ACAGATACAGTCATGTC
1 ACAGATACAATCATGTC
8916915 ACAGATACAAT
1 ACAGATACAAT
8916926 TACGGATGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
12 8 0.26
13 1 0.03
14 2 0.06
15 1 0.03
16 1 0.03
17 18 0.58
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (17 bp):
ACAGATACAATCATGTC
Found at i:8916891 original size:29 final size:29
Alignment explanation
Indices: 8916859--8916961 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
8916849 ATATACTTAT
8916859 AGATACAGTTACAGATACAATCATGTCAC
1 AGATACAGTTACAGATACAATCATGTCAC
* *
8916888 AGATATAGTTACAGATACAGTCATGTCAC
1 AGATACAGTTACAGATACAATCATGTCAC
* * * *
8916917 AGATACAATTACGGATGCAAACATGAT-AC
1 AGATACAGTTACAGATACAATCATG-TCAC
* *
8916946 ATATATAGTTACAGAT
1 AGATACAGTTACAGAT
8916962 GCAGACATAA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 60 0.98
30 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.26
Consensus pattern (29 bp):
AGATACAGTTACAGATACAATCATGTCAC
Found at i:8917782 original size:55 final size:55
Alignment explanation
Indices: 8917723--8917840 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 55
8917713 GATTAGTATG
* * * * * *
8917723 CACACACCCTAACCTGTGCCCGTGTGCTAGCCCGTGTTCCTCCAAACT-GTATACA
1 CACACACCCTAACATATGCCCGTGTGCCAACCCGTATGCCTCCAAA-TAGTATACA
* * *
8917778 CACACACCCTAACATATGCCTGTGTGCCAACCTGTATGCCTCCAAATAGTATAGA
1 CACACACCCTAACATATGCCCGTGTGCCAACCCGTATGCCTCCAAATAGTATACA
8917833 CACACACC
1 CACACACC
8917841 TTGACACACG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 1 0.02
55 52 0.98
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.22
Consensus pattern (55 bp):
CACACACCCTAACATATGCCCGTGTGCCAACCCGTATGCCTCCAAATAGTATACA
Found at i:8917922 original size:56 final size:55
Alignment explanation
Indices: 8917814--8917953 Score: 156
Period size: 56 Copynumber: 2.5 Consensus size: 55
8917804 CCAACCTGTA
* * * **
8917814 TGCCTCCAAATAGTATAGACACACACCTTGACACACGCTAGTGTGTTGGCCCGTG
1 TGCCTCCAAACAATATAGACACACACCTGGACACACGCTAGTGTGTCAGCCCGTG
* * *
8917869 TGCCTCCTAACAATATAGACACATACCCTGGACACAC-CTCCGTGTGTCAGCCCGTG
1 TGCCTCCAAACAATATAGACACACA-CCTGGACACACGCT-AGTGTGTCAGCCCGTG
* * *
8917925 TGCCTTCAAACAGTATAGACACACCCCTG
1 TGCCTCCAAACAATATAGACACACACCTG
8917954 TGTGCCAGCT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
55 27 0.39
56 43 0.61
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (55 bp):
TGCCTCCAAACAATATAGACACACACCTGGACACACGCTAGTGTGTCAGCCCGTG
Found at i:8919498 original size:18 final size:17
Alignment explanation
Indices: 8919439--8919498 Score: 54
Period size: 18 Copynumber: 3.6 Consensus size: 17
8919429 ATACTTTCAT
*
8919439 TATTTTATTTTATTTT-
1 TATTTAATTTTATTTTG
8919455 TA-TTAATTTTATTTTG
1 TATTTAATTTTATTTTG
* *
8919471 CAAATT-ATTTCTATTTTG
1 -TATTTAATTT-TATTTTG
8919489 TATTTAATTT
1 TATTTAATTT
8919499 AATCCATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 12 0.34
16 2 0.06
17 8 0.23
18 13 0.37
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TATTTAATTTTATTTTG
Found at i:8921033 original size:15 final size:15
Alignment explanation
Indices: 8920999--8921040 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
8920989 ATTAGGCATG
*
8920999 AAAATAAAT-GACAA
1 AAAATAAATAAACAA
8921013 ATAAATAAATAAACAA
1 A-AAATAAATAAACAA
*
8921029 AAAATTAATAAA
1 AAAATAAATAAA
8921041 TTAAATATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 18 0.75
16 5 0.21
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAATAAATAAACAA
Found at i:8921456 original size:17 final size:17
Alignment explanation
Indices: 8921434--8921475 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
8921424 CTAATTCTAC
8921434 AGATTCTCAAATCTTGG
1 AGATTCTCAAATCTTGG
8921451 AGATTCTCAAATCTTGG
1 AGATTCTCAAATCTTGG
8921468 AGATTCTC
1 AGATTCTC
8921476 CGGGCAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (17 bp):
AGATTCTCAAATCTTGG
Found at i:8921962 original size:66 final size:66
Alignment explanation
Indices: 8921891--8922058 Score: 336
Period size: 66 Copynumber: 2.5 Consensus size: 66
8921881 TTTTTTTAGG
8921891 GGTGTAAGATTCACCGTTGCGGCTTCAATCTATTCCTTCCTCATCATCATTTCATTTTTTTCAAA
1 GGTGTAAGATTCACCGTTGCGGCTTCAATCTATTCCTTCCTCATCATCATTTCATTTTTTTCAAA
8921956 A
66 A
8921957 GGTGTAAGATTCACCGTTGCGGCTTCAATCTATTCCTTCCTCATCATCATTTCATTTTTTTCAAA
1 GGTGTAAGATTCACCGTTGCGGCTTCAATCTATTCCTTCCTCATCATCATTTCATTTTTTTCAAA
8922022 A
66 A
8922023 GGTGTAAGATTCACCGTTGCGGCTTCAATCTATTCC
1 GGTGTAAGATTCACCGTTGCGGCTTCAATCTATTCC
8922059 CCTTTTGGTT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 102 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (66 bp):
GGTGTAAGATTCACCGTTGCGGCTTCAATCTATTCCTTCCTCATCATCATTTCATTTTTTTCAAA
A
Found at i:8922438 original size:49 final size:49
Alignment explanation
Indices: 8922021--8922847 Score: 415
Period size: 49 Copynumber: 16.9 Consensus size: 49
8922011 TTTTTTTCAA
* ** * * * *
8922021 AAGGTGTAAGATTCACCGTTGCGGCTTCAATCTATTCCC-CTTTTGGTTTT
1 AAGGTGTTAGATTCGTCGTTGCGACTTCAACCTA-TCCCTC-TTCGATTTT
* * * * * * *
8922071 AAGGTGTTAGATCCGTCGTCGTGGCTTCAATCTATCCCTCTTTGGTTTT
1 AAGGTGTTAGATTCGTCGTTGCGACTTCAACCTATCCCTCTTCGATTTT
* * * *
8922120 ACGGTATTACG--TCTGTCGTCGCGGCTTCAACCTATCCCTCTTCGATTTT
1 AAGGTGTTA-GATTC-GTCGTTGCGACTTCAACCTATCCCTCTTCGATTTT
* * * * * *
8922169 AAGGTGTAAGA-TCGATCGTTACGACTTTAATCTTTCCCTCTT-TATTTTT
1 AAGGTGTTAGATTCG-TCGTTGCGACTTCAACCTATCCCTCTTCGA-TTTT
* * *
8922218 AAGGTGTTAGGTCCGTCGTTGCG-CTTCAACCTATCCCTCTTCAATTTT
1 AAGGTGTTAGATTCGTCGTTGCGACTTCAACCTATCCCTCTTCGATTTT
* * * * * **
8922266 AAGGTGTAAG-GTCTGTCGTTGTGGCTTCAACCTTTCCCTCTTTAATTTT
1 AAGGTGTTAGATTC-GTCGTTGCGACTTCAACCTATCCCTCTTCGATTTT
* * * * * * * * *
8922315 AGGGTGTTCGATCCGCCATTGTGACTTCAATCTATCCCTTTTCAATTTT
1 AAGGTGTTAGATTCGTCGTTGCGACTTCAACCTATCCCTCTTCGATTTT
* * *
8922364 AAGGTGTTAGATCCATCATTGCGACTTCAACCTATCCCTCTTCGATTTT
1 AAGGTGTTAGATTCGTCGTTGCGACTTCAACCTATCCCTCTTCGATTTT
* * * * * *
8922413 AAGGTGTAAGATTCGTCGTTACGACTTTAATCTTTTCCTCTTCGATTTT
1 AAGGTGTTAGATTCGTCGTTGCGACTTCAACCTATCCCTCTTCGATTTT
* * * * * *
8922462 TAGGTGTTAGGTTCGCCGTTACGGCTTCAACCTATCTCTCTTC-ATTTTT
1 AAGGTGTTAGATTCGTCGTTGCGACTTCAACCTATCCCTCTTCGA-TTTT
* * * * * * * * *
8922511 AAGGTGTAAGGTTTGTCGTTGCGGCTTCAACCATTTTCTTTTTAG-TTTT
1 AAGGTGTTAGATTCGTCGTTGCGACTTCAACC-TATCCCTCTTCGATTTT
* * ** * *
8922560 AGGGTGTTAGA-TCTGTCATT-AAAGCTTCAATCTATCCCTATTCGATTTT
1 AAGGTGTTAGATTC-GTCGTTGCGA-CTTCAACCTATCCCTCTTCGATTTT
* * * * **
8922609 CAGGTGTTAGGTTCGTCGTTGTGACTTTAACCTATCCCTCTTAAATTTT
1 AAGGTGTTAGATTCGTCGTTGCGACTTCAACCTATCCCTCTTCGATTTT
* ** * * * * * * * *
8922658 AAGGTGTAAGACCCGCCATTG-TAGTTTTAATCTTTCCCTCTTTGATTTT
1 AAGGTGTTAGATTCGTCGTTGCGA-CTTCAACCTATCCCTCTTCGATTTT
* * * * * *
8922707 AGGGTATTAG-GTCTGTCGTTAC-AGCTCCAACCTATCCCTCTTCAATTTT
1 AAGGTGTTAGATTC-GTCGTTGCGA-CTTCAACCTATCCCTCTTCGATTTT
* * * ** * * *
8922756 AAGGTGTAAGGTCCACCGTTGTGGCTTCAACCTTTCCCTCTTCGATTTT
1 AAGGTGTTAGATTCGTCGTTGCGACTTCAACCTATCCCTCTTCGATTTT
* * ** * * *
8922805 -AGGATGTTAGGTCCACCGTTGCGGCTTCATCCTATCCTTCTTC
1 AAGG-TGTTAGATTCGTCGTTGCGACTTCAACCTATCCCTCTTC
8922848 AAACTCTATG
Statistics
Matches: 594, Mismatches: 158, Indels: 51
0.74 0.20 0.06
Matches are distributed among these distances:
47 1 0.00
48 54 0.09
49 497 0.84
50 42 0.07
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (49 bp):
AAGGTGTTAGATTCGTCGTTGCGACTTCAACCTATCCCTCTTCGATTTT
Found at i:8922453 original size:147 final size:146
Alignment explanation
Indices: 8922045--8922454 Score: 362
Period size: 146 Copynumber: 2.8 Consensus size: 146
8922035 ACCGTTGCGG
** * * *
8922045 CTTCAATCTATTCCC-CTTTTGGTTTTAAGGTGTTAGATCCGTCGTCGTG-GCTTCAATCTATCC
1 CTTCAATCTA-TCCCTC-TTTAATTTTAAGGTGTTAGATCCATCAT--TGCGCTTCAACCTATCC
*** * * * * ** * * ** *
8922108 CTCTTTGGTTTTACGGTATTACGTCTGTCGTCGCGGCTTCAACCTATCCCTCTTCGATTTTAAGG
62 CTCTTCAATTTTAAGGTGTAAGGTCTGTCGTTACGACTTCAACCTTTCCCTCTTTAATTTTAGGG
** * * **
8922173 TGTAAGAT-CGATCGTTACGA
127 TGTTCGATCCG-CCATTGTGA
* * * * * *
8922193 CTTTAATCTTTCCCTCTTTATTTTTAAGGTGTTAGGTCCGTCGTTGCGCTTCAACCTATCCCTCT
1 CTTCAATCTATCCCTCTTTAATTTTAAGGTGTTAGATCCATCATTGCGCTTCAACCTATCCCTCT
** *
8922258 TCAATTTTAAGGTGTAAGGTCTGTCGTTGTGGCTTCAACCTTTCCCTCTTTAATTTTAGGGTGTT
66 TCAATTTTAAGGTGTAAGGTCTGTCGTTACGACTTCAACCTTTCCCTCTTTAATTTTAGGGTGTT
8922323 CGATCCGCCATTGTGA
131 CGATCCGCCATTGTGA
8922339 CTTCAATCTATCCCT-TTTCAATTTTAAGGTGTTAGATCCATCATTGCGACTTCAACCTATCCCT
1 CTTCAATCTATCCCTCTTT-AATTTTAAGGTGTTAGATCCATCATTGCG-CTTCAACCTATCCCT
* * * * *
8922403 CTTCGATTTTAAGGTGTAAGAT-TCGTCGTTACGACTTTAATCTTTTCCTCTT
64 CTTCAATTTTAAGGTGTAAGGTCT-GTCGTTACGACTTCAACCTTTCCCTCTT
8922455 CGATTTTTAG
Statistics
Matches: 217, Mismatches: 39, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
145 5 0.02
146 115 0.53
147 88 0.41
148 9 0.04
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (146 bp):
CTTCAATCTATCCCTCTTTAATTTTAAGGTGTTAGATCCATCATTGCGCTTCAACCTATCCCTCT
TCAATTTTAAGGTGTAAGGTCTGTCGTTACGACTTCAACCTTTCCCTCTTTAATTTTAGGGTGTT
CGATCCGCCATTGTGA
Found at i:8923911 original size:16 final size:16
Alignment explanation
Indices: 8923898--8923954 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 16
8923888 TCCTTTTTGT
8923898 TTTTTTCTCTTTTT-TC
1 TTTTTTCT-TTTTTCTC
8923914 TTTTTTCTTTTTCTCTC
1 TTTTTTCTTTTT-TCTC
*
8923931 TTTTTCTTTTTCTTTCTC
1 TTTTT-TCTTT-TTTCTC
8923949 TTTTTT
1 TTTTTT
8923955 GCTAGTTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
15 4 0.11
16 9 0.25
17 8 0.22
18 13 0.36
19 2 0.06
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTCTTTTTTCTC
Found at i:8923917 original size:6 final size:6
Alignment explanation
Indices: 8923908--8923953 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
8923898 TTTTTTCTCT
* *
8923908 TTTTTC TTTTTTC TTTTTC --TCTC TTTTTC TTTTTC TTTCTC TTTTT
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
8923954 TGCTAGTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
4 3 0.09
6 24 0.73
7 6 0.18
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:8923924 original size:22 final size:22
Alignment explanation
Indices: 8923890--8923954 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
8923880 TCGACCCCTC
*
8923890 CTTTTTGTTTTTTTCTCTTTTTT
1 CTTTTT-TCTTTTTCTCTTTTTT
8923913 CTTTTTTCTTTTTCTCTCTTTTT
1 CTTTTTTCTTTTTCTCT-TTTTT
8923936 C-TTTTTC--TTTCTCTTTTTT
1 CTTTTTTCTTTTTCTCTTTTTT
8923955 GCTAGTTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 5 0.12
20 7 0.17
22 16 0.40
23 12 0.30
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (22 bp):
CTTTTTTCTTTTTCTCTTTTTT
Found at i:8924007 original size:46 final size:46
Alignment explanation
Indices: 8923949--8924038 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
8923939 TTTCTTTCTC
* *
8923949 TTTTTTGCTAGTTTGAGCTGCCCTTTCAGGTTTTCAACTCAAACTT
1 TTTTTTGCTAGTTTGAGCCGCCCTTTCAAGTTTTCAACTCAAACTT
* *
8923995 TTTTTTGTTAGTTTGATCCGCCCTTTCAAGTTTTCAACTCAAAC
1 TTTTTTGCTAGTTTGAGCCGCCCTTTCAAGTTTTCAACTCAAAC
8924039 CCTCTTTTTT
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:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (46 bp):
TTTTTTGCTAGTTTGAGCCGCCCTTTCAAGTTTTCAACTCAAACTT
Found at i:8932148 original size:15 final size:15
Alignment explanation
Indices: 8932128--8932156 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8932118 ACATACATAA
8932128 AATAAAATGCAAAGC
1 AATAAAATGCAAAGC
8932143 AATAAAATGCAAAG
1 AATAAAATGCAAAG
8932157 AATCACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (15 bp):
AATAAAATGCAAAGC
Found at i:8933026 original size:29 final size:29
Alignment explanation
Indices: 8932963--8933045 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 29
8932953 AATTAATAAC
* *
8932963 ACAATAAAAATATAATTATAGTATTAAAT
1 ACAATAAAAATATAATCATAGTAATAAAT
* *
8932992 AAAATAACAATATAATCATAGTAAT-AAT
1 ACAATAAAAATATAATCATAGTAATAAAT
* *
8933020 GACAATAAATAT-TAATTA-AGTAATAA
1 -ACAATAAAAATATAATCATAGTAATAA
8933046 TATAAGCAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
27 6 0.14
28 9 0.20
29 29 0.66
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (29 bp):
ACAATAAAAATATAATCATAGTAATAAAT
Found at i:8933226 original size:24 final size:24
Alignment explanation
Indices: 8933181--8933229 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8933171 ATCAATATGT
8933181 AATTAAATTAAAAGAAAAAAATAA
1 AATTAAATTAAAAGAAAAAAATAA
* *
8933205 AATT-AATTATAAATAAATAAATAA
1 AATTAAATTA-AAAGAAAAAAATAA
8933229 A
1 A
8933230 CAAACAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (24 bp):
AATTAAATTAAAAGAAAAAAATAA
Found at i:8933333 original size:30 final size:31
Alignment explanation
Indices: 8933299--8933384 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 31
8933289 AAATGACATG
8933299 AAAAAAAAATAACAACAATA-T-AAATAAACA
1 AAAAAAAAATAACAA-AATACTAAAATAAACA
* *
8933329 AAAAATAAA-AATAAAATACTAAAATAAACA
1 AAAAAAAAATAACAAAATACTAAAATAAACA
* *
8933359 AAAAAAATATAA-AAAATA-AAAAATAA
1 AAAAAAAAATAACAAAATACTAAAATAA
8933385 TTGAGATTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.08
29 12 0.25
30 30 0.62
31 2 0.04
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (31 bp):
AAAAAAAAATAACAAAATACTAAAATAAACA
Found at i:8933344 original size:13 final size:13
Alignment explanation
Indices: 8933328--8933380 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
8933318 ATAAATAAAC
8933328 AAAAAATAAAAAT
1 AAAAAATAAAAAT
*
8933341 AAAATACT-AAAAT
1 AAAA-AATAAAAAT
*
8933354 AAACAAAAAAAATAT
1 AAA-AAATAAAA-AT
8933369 AAAAAATAAAAA
1 AAAAAATAAAAA
8933381 ATAATTGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 14 0.44
14 13 0.41
15 5 0.16
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:8933377 original size:7 final size:7
Alignment explanation
Indices: 8933318--8933384 Score: 52
Period size: 7 Copynumber: 9.6 Consensus size: 7
8933308 TAACAACAAT
8933318 ATAAATAA
1 ATAAA-AA
*
8933326 ACAAAAA
1 ATAAAAA
8933333 AT-AAAA
1 ATAAAAA
8933339 AT--AAA
1 ATAAAAA
*
8933344 ATACTAAA
1 ATA-AAAA
8933352 ATAAACAA
1 ATAAA-AA
8933360 A-AAAAA
1 ATAAAAA
8933366 TATAAAAA
1 -ATAAAAA
8933374 ATAAAAA
1 ATAAAAA
8933381 ATAA
1 ATAA
8933385 TTGAGATTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
5 5 0.10
6 8 0.16
7 19 0.38
8 18 0.36
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.16
Consensus pattern (7 bp):
ATAAAAA
Found at i:8933480 original size:24 final size:23
Alignment explanation
Indices: 8933432--8933482 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
8933422 ATAAACAAAA
8933432 AAACAATAAATTAAATATCAGAAT
1 AAACAATAAATTAAATA-CAGAAT
*
8933456 AAACAATTAAATATAAATA-ATAAT
1 AAACAA-TAAAT-TAAATACAGAAT
8933480 AAA
1 AAA
8933483 AAAGAAGACG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 13 0.54
25 5 0.21
26 6 0.25
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (23 bp):
AAACAATAAATTAAATACAGAAT
Found at i:8937968 original size:21 final size:21
Alignment explanation
Indices: 8937925--8937979 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
8937915 TTTCCCCAAA
*
8937925 CCACATGTCAAAACTCACCAG
1 CCACATGTCAAAACGCACCAG
***
8937946 CCACATGTCAAAACGCGTTAG
1 CCACATGTCAAAACGCACCAG
8937967 CCACATGTTCAAA
1 CCACATG-TCAAA
8937980 CACATCTGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.36, C:0.33, G:0.13, T:0.18
Consensus pattern (21 bp):
CCACATGTCAAAACGCACCAG
Found at i:8940108 original size:16 final size:16
Alignment explanation
Indices: 8940087--8940132 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
8940077 GATAATAGTT
*
8940087 AGAGGAGAAGAGAGAA
1 AGAGGAGAAGAAAGAA
8940103 AGAGGAGAAGAAAG-A
1 AGAGGAGAAGAAAGAA
*
8940118 AGA-AAGAAGAAAGAA
1 AGAGGAGAAGAAAGAA
8940133 GAAGATTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 9 0.33
15 5 0.19
16 13 0.48
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (16 bp):
AGAGGAGAAGAAAGAA
Found at i:8940118 original size:7 final size:7
Alignment explanation
Indices: 8940108--8940135 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
8940098 GAGAAAGAGG
8940108 AGAAGAA
1 AGAAGAA
8940115 AGAAGAA
1 AGAAGAA
8940122 AGAAGAA
1 AGAAGAA
8940129 AGAAGAA
1 AGAAGAA
8940136 GATTGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (7 bp):
AGAAGAA
Found at i:8941230 original size:29 final size:30
Alignment explanation
Indices: 8941197--8941262 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
8941187 AATATACGAT
*
8941197 ATAATTTTACTC-CAT-ATAATTAATGTAAA
1 ATAATTTTACTCAAATAATAATTAAT-TAAA
* *
8941226 ATAATATTATTCAAAATAATAATTAATTAAA
1 ATAATTTTACTC-AAATAATAATTAATTAAA
8941257 ATAATT
1 ATAATT
8941263 AATTTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 10 0.33
31 11 0.37
32 9 0.30
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.41
Consensus pattern (30 bp):
ATAATTTTACTCAAATAATAATTAATTAAA
Found at i:8941250 original size:16 final size:16
Alignment explanation
Indices: 8941212--8941266 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
8941202 TTTACTCCAT
8941212 ATAATTAATGTAAAATA
1 ATAATTAAT-TAAAATA
8941229 AT-ATT-ATTCAAAATA
1 ATAATTAATT-AAAATA
8941244 ATAATTAATTAAAATA
1 ATAATTAATTAAAATA
8941260 ATTAATT
1 A-TAATT
8941267 TATATTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.03
15 10 0.29
16 13 0.38
17 10 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
ATAATTAATTAAAATA
Found at i:8943639 original size:35 final size:35
Alignment explanation
Indices: 8943569--8943644 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
8943559 AAGATAATAT
* *
8943569 ATTTTGTTTAACTTGATTTGCAAGCAATATTTTAG
1 ATTTTGTTTAACTTGACTTGCAAGCAATATCTTAG
* * *
8943604 ATTTTTTTTAACTTGACTTGCAAGTAATCTCTTAG
1 ATTTTGTTTAACTTGACTTGCAAGCAATATCTTAG
*
8943639 AATTTG
1 ATTTTG
8943645 GGTCACACAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.49
Consensus pattern (35 bp):
ATTTTGTTTAACTTGACTTGCAAGCAATATCTTAG
Found at i:8944133 original size:16 final size:16
Alignment explanation
Indices: 8944114--8944151 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
8944104 TTACTTTAAT
8944114 ATTTCATTATTGAGAC
1 ATTTCATTATTGAGAC
8944130 ATTTCATTATTGAGAC
1 ATTTCATTATTGAGAC
*
8944146 AGTTCA
1 ATTTCA
8944152 AACTTACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTTCATTATTGAGAC
Found at i:8944723 original size:3 final size:3
Alignment explanation
Indices: 8944715--8944739 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8944705 TACGGTTGGC
8944715 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
8944740 GTATTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8945887 original size:31 final size:31
Alignment explanation
Indices: 8945849--8945912 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
8945839 CTCTGAATAA
8945849 TATCCTCCAATAACTAGAGTCGAAAAAGATC
1 TATCCTCCAATAACTAGAGTCGAAAAAGATC
* **
8945880 TATCCTCCGATGCCTAGAGTCGAAAAAGATC
1 TATCCTCCAATAACTAGAGTCGAAAAAGATC
8945911 TA
1 TA
8945913 GATTCCAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (31 bp):
TATCCTCCAATAACTAGAGTCGAAAAAGATC
Found at i:8950646 original size:18 final size:17
Alignment explanation
Indices: 8950623--8950658 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
8950613 GGGAAGAATA
8950623 TATTATTTTGGTATATAT
1 TATTATTTTGGTAT-TAT
*
8950641 TATTATTTTTGTATTAT
1 TATTATTTTGGTATTAT
8950658 T
1 T
8950659 TTAGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (17 bp):
TATTATTTTGGTATTAT
Found at i:8953827 original size:19 final size:19
Alignment explanation
Indices: 8953803--8953840 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8953793 TATTTTAGTT
8953803 TATTAAATTT-TTGTTTTAA
1 TATT-AATTTATTGTTTTAA
*
8953822 TATTAATTTATTTTTTTAA
1 TATTAATTTATTGTTTTAA
8953841 AAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TATTAATTTATTGTTTTAA
Found at i:8955328 original size:14 final size:14
Alignment explanation
Indices: 8955309--8955335 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8955299 AAACCTTTAG
8955309 TTTTTTCAACTTTT
1 TTTTTTCAACTTTT
8955323 TTTTTTCAACTTT
1 TTTTTTCAACTTT
8955336 GATATGTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTTCAACTTTT
Found at i:8955480 original size:32 final size:30
Alignment explanation
Indices: 8955422--8955480 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
8955412 TAAAAATATA
*
8955422 ATTTTTAAAGAATTAAATCAAAATTTTATC
1 ATTTTTAAAGAATCAAATCAAAATTTTATC
*
8955452 ATTTTTAAGAGAGATCAAATTAAAATTTT
1 ATTTTTAA-AGA-ATCAAATCAAAATTTT
8955481 GTCTTTACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 3 0.12
32 14 0.56
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (30 bp):
ATTTTTAAAGAATCAAATCAAAATTTTATC
Found at i:8958065 original size:45 final size:45
Alignment explanation
Indices: 8958001--8958092 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
8957991 AAAGCTTTCC
* *
8958001 ACCTAATGTGTTACACTCGAAGAGCTTAGTAGGTACACTCAGATT
1 ACCTAATGTGTTACACTCGAAGAGCTTAGTACGTACACTCAAATT
* *
8958046 ACCTAATGTGTTTCACTCGAAGAGCTTCGTACGTACACTCAAATT
1 ACCTAATGTGTTACACTCGAAGAGCTTAGTACGTACACTCAAATT
8958091 AC
1 AC
8958093 TTATCTTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (45 bp):
ACCTAATGTGTTACACTCGAAGAGCTTAGTACGTACACTCAAATT
Found at i:8967417 original size:19 final size:17
Alignment explanation
Indices: 8967384--8967423 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
8967374 AAAATTGAGG
*
8967384 ATTTTAAGGTTTTAAGT
1 ATTTTAAGGTTTTAAAT
8967401 ATTTTAAAGGATTTTAAAT
1 ATTTT-AAGG-TTTTAAAT
8967420 ATTT
1 ATTT
8967424 GAGAGGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 4 0.20
19 11 0.55
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (17 bp):
ATTTTAAGGTTTTAAAT
Found at i:8967430 original size:19 final size:19
Alignment explanation
Indices: 8967389--8967432 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
8967379 TGAGGATTTT
* *
8967389 AAGG-TTTTAAGTATTTTA
1 AAGGATTTTAAATATTTGA
8967407 AAGGATTTTAAATATTTGA
1 AAGGATTTTAAATATTTGA
*
8967426 GAGGATT
1 AAGGATT
8967433 AAGGGGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.43
Consensus pattern (19 bp):
AAGGATTTTAAATATTTGA
Found at i:8971913 original size:19 final size:20
Alignment explanation
Indices: 8971878--8971921 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
8971868 AACTCAAAGG
8971878 CCCAATTTGGGAACCCAATA
1 CCCAATTTGGGAACCCAATA
* *
8971898 CCCAATTT-GTAACCCATTA
1 CCCAATTTGGGAACCCAATA
8971917 CCCAA
1 CCCAA
8971922 CACACACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.23
Consensus pattern (20 bp):
CCCAATTTGGGAACCCAATA
Found at i:8977656 original size:17 final size:19
Alignment explanation
Indices: 8977631--8977670 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
8977621 TTAATCAAGA
*
8977631 AAATTTACAAAAT-TTT-C
1 AAATATACAAAATCTTTAC
8977648 AAATATACAAAATCTTTAC
1 AAATATACAAAATCTTTAC
8977667 AAAT
1 AAAT
8977671 TGGTTTCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 3 0.15
19 5 0.25
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATACAAAATCTTTAC
Found at i:8977697 original size:30 final size:30
Alignment explanation
Indices: 8977662--8977721 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
8977652 ATACAAAATC
8977662 TTTACAAATTGGTTTCTAGATTTTAAACTA
1 TTTACAAATTGGTTTCTAGATTTTAAACTA
8977692 TTTACAAATTGGTTTCTAGATTTTAAACTA
1 TTTACAAATTGGTTTCTAGATTTTAAACTA
8977722 GTTAAATAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (30 bp):
TTTACAAATTGGTTTCTAGATTTTAAACTA
Found at i:8978318 original size:27 final size:26
Alignment explanation
Indices: 8978266--8978322 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
8978256 TTTTCTTGAA
*
8978266 CATTCAAAATCAATACAAAGAAATAGG
1 CATTCAAAATCAATACAAACAAATA-G
*
8978293 CATTCAAAA-CTAATACAAACAGATAG
1 CATTCAAAATC-AATACAAACAAATAG
8978319 CATT
1 CATT
8978323 TGAGGTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.53, C:0.18, G:0.09, T:0.21
Consensus pattern (26 bp):
CATTCAAAATCAATACAAACAAATAG
Found at i:8979142 original size:58 final size:59
Alignment explanation
Indices: 8979052--8979166 Score: 196
Period size: 59 Copynumber: 2.0 Consensus size: 59
8979042 TTCTAAATAG
* * *
8979052 AAAAATGGGGGGAGGCTGAGTTTTTTT-TAAAAACCTGATGTGAAAATGATTTTTTTCT
1 AAAAAAGGGGGGAGGCTGAGTTTTTTTAAAAAAAACTGATGTGAAAATGATTTTTTTCT
8979110 AAAAAAGGGGGGAGGCTGAGTTTTTTTAAAAAAAACTGATGTGAAAATGATTTTTTT
1 AAAAAAGGGGGGAGGCTGAGTTTTTTTAAAAAAAACTGATGTGAAAATGATTTTTTT
8979167 TTCTAAAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
58 26 0.49
59 27 0.51
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (59 bp):
AAAAAAGGGGGGAGGCTGAGTTTTTTTAAAAAAAACTGATGTGAAAATGATTTTTTTCT
Found at i:8979575 original size:58 final size:60
Alignment explanation
Indices: 8979504--8979701 Score: 197
Period size: 58 Copynumber: 3.3 Consensus size: 60
8979494 TATTTTCTTT
* *
8979504 CAAAAATACATTTTGACCTC-AAACTTTTCTAAAATTA-ATTTTGAGCCCTAAACTTCTC
1 CAAAATTAAATTTTGACCTCAAAACTTTTCTAAAATTACATTTTGAGCCCTAAACTTCTC
* * * * * *
8979562 TAAAATTATATTTTGACC-CTAAACATCTCTAAAATTACATTTTG-GCCCCAAACTTCTC
1 CAAAATTAAATTTTGACCTCAAAACTTTTCTAAAATTACATTTTGAGCCCTAAACTTCTC
* * * * * * *
8979620 CAAAATTAAATTTTGACCACCAAAACTTTCCAAAAATTATATTTTGACCCCTAAAATTCAC
1 CAAAATTAAATTTTGACC-TCAAAACTTTTCTAAAATTACATTTTGAGCCCTAAACTTCTC
* *
8979681 CAAATTTACCATTTTGACCTC
1 CAAAATTA-AATTTTGACCTC
8979702 GAACATCCAA
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
57 1 0.01
58 59 0.52
59 6 0.05
60 20 0.18
61 18 0.16
62 9 0.08
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (60 bp):
CAAAATTAAATTTTGACCTCAAAACTTTTCTAAAATTACATTTTGAGCCCTAAACTTCTC
Found at i:8979577 original size:30 final size:30
Alignment explanation
Indices: 8979513--8979674 Score: 181
Period size: 29 Copynumber: 5.5 Consensus size: 30
8979503 TCAAAAATAC
* *
8979513 ATTTTGACCTC-AAACTTTTCTAAAATTA-
1 ATTTTGACCCCTAAACTTCTCTAAAATTAT
*
8979541 ATTTTGAGCCCTAAACTTCTCTAAAATTAT
1 ATTTTGACCCCTAAACTTCTCTAAAATTAT
* *
8979571 ATTTTGA-CCCTAAACATCTCTAAAATTAC
1 ATTTTGACCCCTAAACTTCTCTAAAATTAT
* * *
8979600 ATTTTGGCCCC-AAACTTCTCCAAAATTAA
1 ATTTTGACCCCTAAACTTCTCTAAAATTAT
* *
8979629 ATTTTGACCACCAAAACTT-TCCAAAAATTAT
1 ATTTTGACC-CCTAAACTTCT-CTAAAATTAT
8979660 ATTTTGACCCCTAAA
1 ATTTTGACCCCTAAA
8979675 ATTCACCAAA
Statistics
Matches: 115, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
28 9 0.08
29 65 0.57
30 18 0.16
31 23 0.20
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (30 bp):
ATTTTGACCCCTAAACTTCTCTAAAATTAT
Found at i:8979656 original size:31 final size:29
Alignment explanation
Indices: 8979504--8979699 Score: 162
Period size: 29 Copynumber: 6.6 Consensus size: 29
8979494 TATTTTCTTT
* * * *
8979504 CAAAAATACATTTTGACCTCAAACTTTTC
1 CAAAATTAAATTTTGACCCCAAACTTCTC
* *
8979533 TAAAATT-AATTTTGAGCCCTAAACTTCTC
1 CAAAATTAAATTTTGA-CCCCAAACTTCTC
* * * *
8979562 TAAAATTATATTTTGACCCTAAACATCTC
1 CAAAATTAAATTTTGACCCCAAACTTCTC
* * *
8979591 TAAAATTACATTTTGGCCCCAAACTTCTC
1 CAAAATTAAATTTTGACCCCAAACTTCTC
8979620 CAAAATTAAATTTTGACCACCAAAACTT-TC
1 CAAAATTAAATTTTGACC-CC-AAACTTCTC
* * *
8979650 CAAAAATTATATTTTGACCCCTAAAATTCAC
1 C-AAAATTAAATTTTGACCCC-AAACTTCTC
* *
8979681 CAAATTTACCATTTTGACC
1 CAAAATTA-AATTTTGACC
8979700 TCGAACATCC
Statistics
Matches: 139, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
28 7 0.05
29 74 0.53
30 25 0.18
31 33 0.24
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (29 bp):
CAAAATTAAATTTTGACCCCAAACTTCTC
Found at i:8979730 original size:119 final size:118
Alignment explanation
Indices: 8979524--8979737 Score: 254
Period size: 119 Copynumber: 1.8 Consensus size: 118
8979514 TTTTGACCTC
* * * * * * *
8979524 AAACTTTTCTAAAATTAATTTTGAGCCCTAAACTTCTCTAAAATTATATTTTGACCCTAAACATC
1 AAACTTTCCAAAAATTAATTTTGACCCCTAAAATTCACCAAAATTACATTTTGACCCTAAACATC
* **
8979589 TCTAAAATTACATTTTGGCCCCAAACTTCTCCAAAATTAAATTTTGACCACCA
66 TCAAAAATTACATTTTCCCCCCAAACTTCTCCAAAATTAAATTTTGACCACCA
* *
8979642 AAACTTTCCAAAAATTATATTTTGACCCCTAAAATTCACCAAATTTACCATTTTGA-CCTCGAAC
1 AAACTTTCCAAAAATTA-ATTTTGACCCCTAAAATTCACCAAAATTA-CATTTTGACCCT-AAAC
*
8979706 ATC-CAAAAATTACCA-TTTCCCCCCAAATTTCT
63 ATCTCAAAAATTA-CATTTTCCCCCCAAACTTCT
8979738 AAAAATCACA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
118 15 0.19
119 49 0.62
120 15 0.19
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.34
Consensus pattern (118 bp):
AAACTTTCCAAAAATTAATTTTGACCCCTAAAATTCACCAAAATTACATTTTGACCCTAAACATC
TCAAAAATTACATTTTCCCCCCAAACTTCTCCAAAATTAAATTTTGACCACCA
Found at i:8992112 original size:78 final size:78
Alignment explanation
Indices: 8992021--8992574 Score: 497
Period size: 78 Copynumber: 7.1 Consensus size: 78
8992011 GATTGAAGAT
* * ** * *
8992021 TCCGATCTCTTACCCCGAGCCTAAGGCAGATCATCATCAGCTAATCTCTTACCTCGAGCCTGAGG
1 TCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCTAATCTCTTACCTCGAGCCTGGGG
* *
8992086 TAGATTACAATCG
66 CAGATTACAACCG
* * * * * *
8992099 TTCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCTCGAGCTTGGGG
1 TCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCTAATCTCTTACCTCGAGCCTGGGG
* * *
8992164 TAGATTGCAGCCG
66 CAGATTACAACCG
* * * * * * * ** *
8992177 TCCAATCTCTTACCCTAAGCTTGGGGTAGATCATCATCAACCGATCTCTTACCCCGAGCCTGGGG
1 TCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCTAATCTCTTACCTCGAGCCTGGGG
* ** *
8992242 TAGATTGTAGA-CA
66 CAGATTACA-ACCG
* * * * *
8992255 TCCGATCTCTTACCTTGAG-CTCGGGGTAGATCATCATCAGCTAATCTCTTACCTCGAGCTTGGG
1 TCCGATCTTTTACCCTGAGCCT-GGGGCAGATCACCATCAGCTAATCTCTTACCTCGAGCCTGGG
* *
8992319 GCAGATTGCAGCCG
65 GCAGATTACAACCG
* * * **
8992333 TCCAATCTTTTACCCTGGGCCTGAGGCAGATCACCATCAGCTAATCTCTTACC-CTGAGATTGGG
1 TCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCTAATCTCTTACCTC-GAGCCTGGG
*
8992397 GCAAATTACAACCG
65 GCAGATTACAACCG
* * * * *
8992411 TCTGATCTTTTACCCCGAGCTTGGGGCAAATCACCATCAGCTAATCTCTTACCCCGAGCCTGGGG
1 TCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCTAATCTCTTACCTCGAGCCTGGGG
*
8992476 CAGATTACAGA-CA
66 CAGATTACA-ACCG
* * * * *
8992489 TCCGATCTTTTACCCTGAGCCTGGGGCAAATCACTATCAG-TCAGTCTCTTACCTCGCGACTGGG
1 TCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCT-AATCTCTTACCTCGAGCCTGGG
* * *
8992553 GCAAATTGCAACCA
65 GCAGATTACAACCG
*
8992567 TCCAATCT
1 TCCGATCT
8992575 CTAAAAAAAA
Statistics
Matches: 395, Mismatches: 72, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
77 4 0.01
78 387 0.98
79 4 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (78 bp):
TCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCTAATCTCTTACCTCGAGCCTGGGG
CAGATTACAACCG
Found at i:8992502 original size:39 final size:38
Alignment explanation
Indices: 8992025--8992576 Score: 246
Period size: 39 Copynumber: 14.2 Consensus size: 38
8992015 GAAGATTCCG
** * * *
8992025 ATCTCTTACCCCGAGCCTAAGGCAGATCATCATCAGCTA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CATCATCCA
* * * * * *
8992064 ATCTCTTACCTCGAGCCTGAGGTAGATTACAATCGTTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTAC-ATCATCCA
* * * *
8992103 ATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CATCATCCA
* * * * * *
8992142 ATCTCTTACCTCGAGCTTGGGGTAGATTGCAGCCGTCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACA-TCATCCA
** * * * * *
8992181 ATCTCTTACCCTAAGCTTGGGGTAGATCATCATCAACCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CATCATCCA
* * *
8992220 ATCTCTTACCCCGAGCCTGGGGTAGATTGTAGA-CATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-TACATCATCCA
** * * * *
8992259 ATCTCTTACCTTGAG-CTCGGGGTAGATCATCATCAGCTA
1 ATCTCTTACCCCGAGCCT-GGGGCAGATTA-CATCATCCA
* * * * *
8992298 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCGTCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACA-TCATCCA
* * * * * * *
8992337 ATCTTTTACCCTGGGCCTGAGGCAGATCACCATCAGCTA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CATCATCCA
* ** * * * **
8992376 ATCTCTTACCCTGAGATTGGGGCAAATTACAACCGTCTG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTAC-ATCATCCA
* * * * * *
8992415 ATCTTTTACCCCGAGCTTGGGGCAAATCACCATCAGCTA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CATCATCCA
* *
8992454 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGACATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACA-TCATCCA
* * * *
8992493 ATCTTTTACCCTGAGCCTGGGGCAAATCACTATCAGT-CA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTAC-ATCA-TCCA
* * * * * * *
8992532 GTCTCTTACCTCGCGACTGGGGCAAATTGCAACCATCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTAC-ATCATCCA
8992571 ATCTCT
1 ATCTCT
8992577 AAAAAAAATC
Statistics
Matches: 381, Mismatches: 114, Indels: 36
0.72 0.21 0.07
Matches are distributed among these distances:
37 1 0.00
38 13 0.03
39 355 0.93
40 11 0.03
41 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (38 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTACATCATCCA
Found at i:8992514 original size:117 final size:116
Alignment explanation
Indices: 8992220--8992576 Score: 275
Period size: 117 Copynumber: 3.1 Consensus size: 116
8992210 TCATCAACCG
* ** * * *
8992220 ATCTCTTACCCCGAGCCTGGGGTAGATTGTAGACATCCGATCTCTTACCTTGAGCTCGGGGTAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGACATCCGATCTCTTACCCTGAGCT-GGGGCAAA
* * * *
8992285 TCATCATCAGCTAATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCGTCCA
65 TCATCAACAGCTAATCTCTTACCCCGAGCTTGGGGCAGAATGCAGCCATCCA
* * * * * * * ** *
8992337 ATCTTTTACCCTGGGCCTGAGGCAGATCACCA-TCAGCTAATCTCTTACCCTGAGATTGGGGCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGACATCCGATCTCTTACCCTGAG-CTGGGGCAA
* * * *
8992401 ATTA-CAACCGTCTGATCTTTTACCCCGAGCTTGGGGCA-AAT-CA-CCATCAGCTA
64 ATCATCAACAG-CTAATCTCTTACCCCGAGCTTGGGGCAGAATGCAGCCATC--C-A
*
8992454 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGACATCCGATCTTTTACCCTGAGCCTGGGGCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGACATCCGATCTCTTACCCTGAG-CTGGGGCAAA
* * *
8992519 TCA-CTATCAG-TCAGTCTCTTACCTCGCGA-C-TGGGGCA-AATTGCAACCATCCA
65 TCATC-AACAGCT-AATCTCTTACC-C-CGAGCTTGGGGCAGAA-TGCAGCCATCCA
8992571 ATCTCT
1 ATCTCT
8992577 AAAAAAAATC
Statistics
Matches: 184, Mismatches: 42, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
114 4 0.02
115 2 0.01
116 10 0.05
117 149 0.81
118 9 0.05
119 5 0.03
120 5 0.03
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (116 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTACAGACATCCGATCTCTTACCCTGAGCTGGGGCAAAT
CATCAACAGCTAATCTCTTACCCCGAGCTTGGGGCAGAATGCAGCCATCCA
Found at i:8994572 original size:29 final size:29
Alignment explanation
Indices: 8994481--8994616 Score: 123
Period size: 30 Copynumber: 4.6 Consensus size: 29
8994471 TTTTCTTTCA
* * * *
8994481 AAAATCACATTTTGACCTCAAACTTTTTT
1 AAAATTACATTTTGACCCCAAACTTCTCT
* *** * *
8994510 AAAAATCACATTTTGACTTTGAAA-TTTTCC
1 -AAAATTACATTTTGAC-CCCAAACTTCTCT
8994540 AAAATTACATTTTGACCCCAAACTTCTCT
1 AAAATTACATTTTGACCCCAAACTTCTCT
*
8994569 AAAATTACATTTTAACCCCCAAACTTCTCT
1 AAAATTACATTTTGA-CCCCAAACTTCTCT
8994599 AAAATTATCATTTT-ACCC
1 AAAATTA-CATTTTGACCC
8994617 TCGAAAATCC
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.03
29 36 0.40
30 42 0.46
31 10 0.11
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCAAACTTCTCT
Found at i:8998222 original size:22 final size:21
Alignment explanation
Indices: 8998193--8998275 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 21
8998183 GGCCCAAACC
*
8998193 ATTT-TTTTACTTTGAAATTTA
1 ATTTATTTTAATTT-AAATTTA
* *
8998214 ATTTATTTTAAATTCAATTTTA
1 ATTTATTTT-AATTTAAATTTA
*
8998236 ATTTGAATTTAATTTAAATTTA
1 ATTT-ATTTTAATTTAAATTTA
* *
8998258 ATATTATTATAAATTAAA
1 AT-TTATTTTAATTTAAA
8998276 AAAAAAAAGA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
21 4 0.08
22 36 0.73
23 9 0.18
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTATTTTAATTTAAATTTA
Found at i:8998244 original size:6 final size:5
Alignment explanation
Indices: 8998208--8998259 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
8998198 TTTACTTTGA
* *
8998208 AATTT AATTT ATTTT AAATTC AATTTT AATTT GAATTT AATTT AAATTT
1 AATTT AATTT AATTT -AATTT AA-TTT AATTT -AATTT AATTT -AATTT
8998257 AAT
1 AAT
8998260 ATTATTATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 22 0.56
6 17 0.44
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:8998246 original size:11 final size:11
Alignment explanation
Indices: 8998198--8998259 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
8998188 AAACCATTTT
*
8998198 TTTACTTTGAAA
1 TTTAATTTG-AA
*
8998210 TTTAATTT-AT
1 TTTAATTTGAA
* *
8998220 TTTAAATTCAA
1 TTTAATTTGAA
8998231 TTTTAATTTGAA
1 -TTTAATTTGAA
*
8998243 TTTAATTTAAA
1 TTTAATTTGAA
8998254 TTTAAT
1 TTTAAT
8998260 ATTATTATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
10 8 0.20
11 17 0.41
12 16 0.39
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.56
Consensus pattern (11 bp):
TTTAATTTGAA
Found at i:8998256 original size:17 final size:16
Alignment explanation
Indices: 8998198--8998252 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
8998188 AAACCATTTT
*
8998198 TTTACTTTGAAATTTAA
1 TTTAATTTG-AATTTAA
* * *
8998215 TTTATTTTAAATTCAA
1 TTTAATTTGAATTTAA
8998231 TTTTAATTTGAATTTAA
1 -TTTAATTTGAATTTAA
8998248 TTTAA
1 TTTAA
8998253 ATTTAATATT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 11 0.35
17 20 0.65
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (16 bp):
TTTAATTTGAATTTAA
Found at i:8998272 original size:28 final size:28
Alignment explanation
Indices: 8998208--8998272 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
8998198 TTTACTTTGA
* *
8998208 AATTT-AATTTATTTTAAATTCAATTTT
1 AATTTAAATTTAATTTAAATTCAATATT
* *
8998235 AATTTGAATTTAATTTAAATTTAATATT
1 AATTTAAATTTAATTTAAATTCAATATT
8998263 -ATTATAAATT
1 AATT-TAAATT
8998273 AAAAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 8 0.25
28 24 0.75
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (28 bp):
AATTTAAATTTAATTTAAATTCAATATT
Found at i:8998358 original size:37 final size:39
Alignment explanation
Indices: 8998300--8998372 Score: 100
Period size: 37 Copynumber: 1.9 Consensus size: 39
8998290 CCAAAATGTC
8998300 CAAAGTCCAAATACATAGCCCAATT-G-GGCCCAAAACT
1 CAAAGTCCAAATACATAGCCCAATTGGCGGCCCAAAACT
8998337 CAAA-TCCAACATACA-AGGCCCAATTGGCGGCCCAAA
1 CAAAGTCCAA-ATACATA-GCCCAATTGGCGGCCCAAA
8998373 CACCCCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
36 6 0.19
37 17 0.53
38 1 0.03
39 8 0.25
ACGTcount: A:0.40, C:0.32, G:0.15, T:0.14
Consensus pattern (39 bp):
CAAAGTCCAAATACATAGCCCAATTGGCGGCCCAAAACT
Found at i:8999157 original size:21 final size:22
Alignment explanation
Indices: 8999114--8999166 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
8999104 ATCATAAAGG
*
8999114 TTTTAATAATAATAAATACA-T
1 TTTTAATAATAACAAATACATT
*
8999135 TTTTAATAATAAC-AATAATATT
1 TTTTAATAATAACAAAT-ACATT
8999157 TATTTAATAA
1 T-TTTAATAA
8999167 AAAAAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 14 0.52
22 2 0.07
23 8 0.30
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTAATAATAACAAATACATT
Found at i:9000135 original size:162 final size:162
Alignment explanation
Indices: 8999936--9000257 Score: 536
Period size: 162 Copynumber: 2.0 Consensus size: 162
8999926 TTCAATTTAG
* ** *
8999936 TCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGTTTATTTCTGCATTTA
1 TCCTTTAACTGTTTGACTGCACCAGAGGCCACCACGTGTCACTTTTTGGTTTATTTATGCATTTA
9000001 GTCCCTGTCATTTTCAATTTGTTTTAATTTAATCCTCAAAGCAACTTCTGCTTAATTACAAAATT
66 GTCCCTGTCATTTTCAATTTGTTTTAATTTAATCCTCAAAGCAACTTCTGCTTAATTACAAAATT
*
9000066 AGCCCAAGAATTTTTCAAGATTTATAAATTAA
131 AGCCCAAGAATTTTTCAAGATTTACAAATTAA
*
9000098 TCCTTTAACTGTTTGACTGCACCAGAGGCCACCACGTGTCACTTTTTGGTTTATTTATGTATTTA
1 TCCTTTAACTGTTTGACTGCACCAGAGGCCACCACGTGTCACTTTTTGGTTTATTTATGCATTTA
* * * *
9000163 GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCTTCAAATCAGCTTCTGCTTAATTACAAAATT
66 GTCCCTGTCATTTTCAATTTGTTTTAATTTAATCCTCAAAGCAACTTCTGCTTAATTACAAAATT
* *
9000228 GGCCCGAGAATTTTTCAAGATTTACAAATT
131 AGCCCAAGAATTTTTCAAGATTTACAAATT
9000258 CGTCCCTTGA
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
162 148 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (162 bp):
TCCTTTAACTGTTTGACTGCACCAGAGGCCACCACGTGTCACTTTTTGGTTTATTTATGCATTTA
GTCCCTGTCATTTTCAATTTGTTTTAATTTAATCCTCAAAGCAACTTCTGCTTAATTACAAAATT
AGCCCAAGAATTTTTCAAGATTTACAAATTAA
Found at i:9000865 original size:59 final size:59
Alignment explanation
Indices: 9000428--9000835 Score: 606
Period size: 59 Copynumber: 6.9 Consensus size: 59
9000418 CTCGAAACTT
* * *
9000428 CCAAAAATTACCGTTTTATCCC-CGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* *
9000487 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* * * *
9000546 TCAAAACTTACCGTTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
*
9000605 CCAAAAATTACCATTTTACCC-CTGAACTTGCCAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCTC-GAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* *
9000664 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCTATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* **
9000723 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* * *
9000782 TCGAAAATTACCATTTTACCCTCGAACCTTCCAAAA-TCTCATTTTTAACCCCAA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTC-CATTTTTAACCCCAA
9000836 ATTTTCCCAA
Statistics
Matches: 318, Mismatches: 27, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.02
59 311 0.98
60 1 0.00
ACGTcount: A:0.32, C:0.31, G:0.03, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:9004404 original size:36 final size:36
Alignment explanation
Indices: 9004357--9004429 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
9004347 ACTAGCACAA
*
9004357 CGAATAAAAGTTGATCTAGTGCTTCATAATCTTGCC
1 CGAATAAAAGTTGATCTAGTGCTTCATAAACTTGCC
9004393 CGAATAAAAGTTGATCTAGTGCTTCATAAACTTGCC
1 CGAATAAAAGTTGATCTAGTGCTTCATAAACTTGCC
9004429 C
1 C
9004430 TTTCGGAAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (36 bp):
CGAATAAAAGTTGATCTAGTGCTTCATAAACTTGCC
Found at i:9004710 original size:24 final size:25
Alignment explanation
Indices: 9004683--9004737 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
9004673 TTTACAATAG
*
9004683 ATAAAATATAATTTTATTA-TTTTA
1 ATAAAATATAATTTTATAATTTTTA
* *
9004707 ATAAATTATATTTTTATAATTTTTA
1 ATAAAATATAATTTTATAATTTTTA
9004732 A-AAAAT
1 ATAAAAT
9004738 TAAATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATAAAATATAATTTTATAATTTTTA
Found at i:9004737 original size:25 final size:24
Alignment explanation
Indices: 9004685--9004743 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
9004675 TACAATAGAT
*
9004685 AAAA-TATAATTTTATTATTTTAA
1 AAAATTATAATTTTATAATTTTAA
* *
9004708 TAAATTATATTTTTATAATTTTTAA
1 AAAATTATAATTTTATAA-TTTTAA
9004733 AAAATTA-AATT
1 AAAATTATAATT
9004744 AATTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.10
24 14 0.48
25 12 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AAAATTATAATTTTATAATTTTAA
Found at i:9004770 original size:29 final size:29
Alignment explanation
Indices: 9004708--9004785 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
9004698 ATTATTTTAA
* * *
9004708 TAAATTATATTTTTATAATTTTTAAAAAAT
1 TAAATTA-ATTTTTTTTATTTTTAAAAAAG
* *
9004738 TAAATTAATTTTTTTTATTTTTAGAGAAG
1 TAAATTAATTTTTTTTATTTTTAAAAAAG
9004767 TAAAATATAATTTTATTTT
1 T-AAAT-TAATTTT-TTTT
9004786 TACTAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 18 0.45
30 11 0.28
31 7 0.17
32 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (29 bp):
TAAATTAATTTTTTTTATTTTTAAAAAAG
Found at i:9007426 original size:30 final size:30
Alignment explanation
Indices: 9007393--9007681 Score: 306
Period size: 30 Copynumber: 9.8 Consensus size: 30
9007383 AGAAATTTTA
*
9007393 TTTTGACCCTCGAACTTCTCCAAAATTACAT
1 TTTTGACCCTCGAACTTC-CAAAAATTACAT
* *
9007424 TTTT-ACCCT-GAAACTTCTAAAAATTCCAT
1 TTTTGACCCTCG-AACTTCCAAAAATTACAT
***
9007453 TTTTGACCCAAAAACTTCCAAAAATTACAT
1 TTTTGACCCTCGAACTTCCAAAAATTACAT
*
9007483 TTTTG-CCCTCGAACTTCCAAAAAATT-CAAC
1 TTTTGACCCTCGAACTTCC-AAAAATTAC-AT
* *
9007513 TTTTGACCCTTGAACTTCCAAAAATTTCAT
1 TTTTGACCCTCGAACTTCCAAAAATTACAT
* * *
9007543 TTTTGACCTTCAAACTTCCCAAAATTACAT
1 TTTTGACCCTCGAACTTCCAAAAATTACAT
* ** *
9007573 TTTT-ACCCT-AAACTTTTAAAAATTCCAT
1 TTTTGACCCTCGAACTTCCAAAAATTACAT
**
9007601 TTTTGACCCTAAAACTTCCAAAAATTACAT
1 TTTTGACCCTCGAACTTCCAAAAATTACAT
*
9007631 TTTT-ACCCTCGAACTTCCAAAAATTCCAT
1 TTTTGACCCTCGAACTTCCAAAAATTACAT
*
9007660 TTTTGACCC-CGAACTTTCAAAA
1 TTTTGACCCTCGAACTTCCAAAA
9007682 TTCAATTTTT
Statistics
Matches: 218, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
28 19 0.09
29 72 0.33
30 110 0.50
31 17 0.08
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.35
Consensus pattern (30 bp):
TTTTGACCCTCGAACTTCCAAAAATTACAT
Found at i:9007746 original size:86 final size:87
Alignment explanation
Indices: 9007393--9007749 Score: 287
Period size: 90 Copynumber: 4.0 Consensus size: 87
9007383 AGAAATTTTA
** * *
9007393 TTTTGACCCTCGAACTTCTCCAAAATT-ACATTTTT-ACCCTGAAACTTCTAAAAATTCCATTTT
1 TTTTGACCC-CGAACTT-T-CAAAATTCA-ATTTTTGACCCCAAAACTTCCAAAAATTACATTTT
*** **
9007456 TGACCCAAAAACTTCCAAAAATTACAT
62 T-ACCCTCGAACTTCCAAAAATCCCAT
* * *** *
9007483 TTTTG-CCCTCGAACTTCCAAAAAATTCAACTTTTGACCCTTGAACTTCCAAAAATTTCATTTTT
1 TTTTGACCC-CGAACTTTC--AAAATTCAATTTTTGACCCCAAAACTTCCAAAAATTACATTTTT
* * * **
9007547 GACCTTCAAACTTCCCAAAATTACAT
63 -ACCCTCGAACTTCCAAAAATCCCAT
** * * *
9007573 TTTT-ACCCTAAACTTTTAAAAATTCCATTTTTGACCCTAAAACTTCCAAAAATTACATTTTTAC
1 TTTTGACCCCGAAC-TTTCAAAATTCAATTTTTGACCCCAAAACTTCCAAAAATTACATTTTTAC
*
9007637 CCTCGAACTTCCAAAAATTCCAT
65 CCTCGAACTTCCAAAAATCCCAT
* **
9007660 TTTTGACCCCGAACTTTCAAAATTCAATTTTTTACCCCAAAAC-TCCTGAAATTACCA-TTTTAC
1 TTTTGACCCCGAACTTTCAAAATTCAATTTTTGACCCCAAAACTTCCAAAAATTA-CATTTTTAC
*
9007723 CCTCGGA-TGTCCAAAAATCCCAT
65 CCTCGAACT-TCCAAAAATCCCAT
9007746 TTTT
1 TTTT
9007750 TATCCAGATT
Statistics
Matches: 225, Mismatches: 33, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
85 1 0.00
86 38 0.17
87 53 0.24
88 46 0.20
89 25 0.11
90 62 0.28
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (87 bp):
TTTTGACCCCGAACTTTCAAAATTCAATTTTTGACCCCAAAACTTCCAAAAATTACATTTTTACC
CTCGAACTTCCAAAAATCCCAT
Found at i:9008003 original size:146 final size:146
Alignment explanation
Indices: 9007708--9008030 Score: 377
Period size: 146 Copynumber: 2.2 Consensus size: 146
9007698 AAAACTCCTG
**
9007708 AAATTACCATTTTACCCTCGGATGTCCAAAAATCCCATTTTTTATCCAGATTTTTCTAAAAATTA
1 AAATTACCATTTTACCCTCGGACATCCAAAAATCCCATTTTTTATCCAGATTTTTCTAAAAATTA
* * * * * *
9007773 TCGTTTTACCCTTGATTATTTAAAATGTCATTTTTAACCCTAAGTTTTTCCCAAAATTACCATTT
66 CCATTTTACCCTGGATCATTTAAAATGTCATTTTTAACCCCAAGATTTTCCCAAAATTACCATTT
9007838 TGCCCCTAAAAGTCCA
131 TGCCCCTAAAAGTCCA
* * * * *
9007854 AAATTACTATTTTACCC-CTGGACATTCAAAAAGTCTCATTTTTTGTCCCGATTCTTT-TAAAAA
1 AAATTACCATTTTACCCTC-GGACATCCAAAAA-TCCCATTTTTTATCCAGATT-TTTCTAAAAA
*
9007917 TTACCATTTTACCCCTGGA-CATTTAAAATGTCATTTTTAACCCCAA-ATTTTCCTAAAATTACC
63 TTACCATTTTA-CCCTGGATCATTTAAAATGTCATTTTTAACCCCAAGATTTTCCCAAAATTACC
* * *
9007980 ATTTTG-CCCTCGATAGTCTA
127 ATTTTGCCCCT-AAAAGTCCA
* * **
9008000 AAATTATCATTTTGCCCTCGGGTATCCAAAA
1 AAATTACCATTTTACCCTCGGACATCCAAAA
9008031 GGTCCTGTTT
Statistics
Matches: 148, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
145 5 0.03
146 76 0.51
147 58 0.39
148 9 0.06
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (146 bp):
AAATTACCATTTTACCCTCGGACATCCAAAAATCCCATTTTTTATCCAGATTTTTCTAAAAATTA
CCATTTTACCCTGGATCATTTAAAATGTCATTTTTAACCCCAAGATTTTCCCAAAATTACCATTT
TGCCCCTAAAAGTCCA
Found at i:9013834 original size:50 final size:52
Alignment explanation
Indices: 9013739--9013837 Score: 175
Period size: 51 Copynumber: 1.9 Consensus size: 52
9013729 TTTTATAACA
9013739 TTTTTATATTATAAACAAAAATCAATTTTATAATTTGGAAAGAAGAAAATAT
1 TTTTTATATTATAAACAAAAATCAATTTTATAATTTGGAAAGAAGAAAATAT
*
9013791 TTTTTATATTATAAA-AAAATTCAATTTTATAATTT-GAAAGAAGAAAA
1 TTTTTATATTATAAACAAAAATCAATTTTATAATTTGGAAAGAAGAAAA
9013838 GAAGAACAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 12 0.26
51 19 0.41
52 15 0.33
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (52 bp):
TTTTTATATTATAAACAAAAATCAATTTTATAATTTGGAAAGAAGAAAATAT
Found at i:9014150 original size:94 final size:94
Alignment explanation
Indices: 9013989--9014181 Score: 377
Period size: 94 Copynumber: 2.1 Consensus size: 94
9013979 CAATCAATAC
*
9013989 GCAACGTTTTAACTAAAACTAATAGCACTGAAACGATGCGTTTCAACAAGCTTTCACACACCGTT
1 GCAACGTTTTAACTAAAACTAATAGCACTGAAACGATGCATTTCAACAAGCTTTCACACACCGTT
9014054 TTACTAAACCAAAACGACACACTTTGATA
66 TTACTAAACCAAAACGACACACTTTGATA
9014083 GCAACGTTTTAACTAAAACTAATAGCACTGAAACGATGCATTTCAACAAGCTTTCACACACCGTT
1 GCAACGTTTTAACTAAAACTAATAGCACTGAAACGATGCATTTCAACAAGCTTTCACACACCGTT
9014148 TTACTAAACCAAAACGACACACTTTGATA
66 TTACTAAACCAAAACGACACACTTTGATA
9014177 GCAAC
1 GCAAC
9014182 AAACAATTCA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 98 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (94 bp):
GCAACGTTTTAACTAAAACTAATAGCACTGAAACGATGCATTTCAACAAGCTTTCACACACCGTT
TTACTAAACCAAAACGACACACTTTGATA
Found at i:9034384 original size:14 final size:15
Alignment explanation
Indices: 9034352--9034391 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
9034342 ATTAAAATTA
*
9034352 AAATAAATATAAAAG
1 AAATAAATAAAAAAG
9034367 -AAT-AATAAAAAAG
1 AAATAAATAAAAAAG
9034380 AAATAAATAAAA
1 AAATAAATAAAA
9034392 TAAAAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 9 0.41
14 6 0.27
15 7 0.32
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (15 bp):
AAATAAATAAAAAAG
Found at i:9035645 original size:21 final size:22
Alignment explanation
Indices: 9035615--9035657 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9035605 ACAATGCTTT
9035615 CTTTGTCTTCCTTCTCTTCTTC
1 CTTTGTCTTCCTTCTCTTCTTC
* *
9035637 CTTT-TCTTCTTTTTCTTCTTC
1 CTTTGTCTTCCTTCTCTTCTTC
9035658 TCTTGCTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (22 bp):
CTTTGTCTTCCTTCTCTTCTTC
Found at i:9043499 original size:13 final size:15
Alignment explanation
Indices: 9043474--9043506 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9043464 ATTAAAGAAC
9043474 ATAAAATAAAAGG-A
1 ATAAAATAAAAGGAA
9043488 ATAAAA-AAAAGGAA
1 ATAAAATAAAAGGAA
9043502 ATAAA
1 ATAAA
9043507 TAAGGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
ATAAAATAAAAGGAA
Found at i:9044183 original size:16 final size:15
Alignment explanation
Indices: 9044162--9044195 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9044152 CCTCGATTTT
9044162 AAATTTTTATGAAAAC
1 AAATTTTT-TGAAAAC
9044178 AAA-TTTTTGAAAAC
1 AAATTTTTTGAAAAC
9044192 AAAT
1 AAAT
9044196 ATGCGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.59
15 4 0.24
16 3 0.18
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (15 bp):
AAATTTTTTGAAAAC
Found at i:9044190 original size:14 final size:15
Alignment explanation
Indices: 9044166--9044195 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9044156 GATTTTAAAT
9044166 TTTTATGAAAACAAA
1 TTTTATGAAAACAAA
9044181 TTTT-TGAAAACAAA
1 TTTTATGAAAACAAA
9044195 T
1 T
9044196 ATGCGATTTT
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:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (15 bp):
TTTTATGAAAACAAA
Found at i:9044572 original size:58 final size:59
Alignment explanation
Indices: 9044444--9044639 Score: 288
Period size: 59 Copynumber: 3.3 Consensus size: 59
9044434 TGAAGTTTAG
* * * ** * *
9044444 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAAT-GAGATTTTCAAAAATTCAT
1 GGGTAAAATGGTAATTTTAGGTAAAATCGAGGTTAAAAATGGA-ATTTTGGAAAGTTCAA
*
9044503 GGGTAAAATGGTAATTTTGGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT-AA
1 GGGTAAAATGGTAATTTTAGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAA
*
9044561 GGGTAAAATGGTAATTTTAGGTAAATTCGAGGTTAAAAATGGAATTTTGGAAAGTTCAA
1 GGGTAAAATGGTAATTTTAGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAA
9044620 GGGTAAAATGGTAATTTTAG
1 GGGTAAAATGGTAATTTTAG
9044640 AAAGTTTTGG
Statistics
Matches: 126, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
58 55 0.44
59 69 0.55
60 2 0.02
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.32
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTAGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAA
Found at i:9044635 original size:29 final size:29
Alignment explanation
Indices: 9044498--9044764 Score: 165
Period size: 30 Copynumber: 9.1 Consensus size: 29
9044488 TTTTCAAAAA
*
9044498 TTCATGGGTAAAATGGTAATTTTGGGTAAA-
1 TTCAAGGGTAAAATGGTAATTTT-GG-AAAG
* * *
9044528 ATCGAGGTTAAAAATGG-AATTTTGGAAAG
1 TTCAAGGGT-AAAATGGTAATTTTGGAAAG
9044557 TT-AAGGGTAAAATGGTAATTTTAGGTAAA-
1 TTCAAGGGTAAAATGGTAATTTT-GG-AAAG
* *
9044586 TTCGAGGTTAAAAATGG-AATTTTGGAAAG
1 TTCAAGGGT-AAAATGGTAATTTTGGAAAG
*
9044615 TTCAAGGGTAAAATGGTAATTTTAGAAAG
1 TTCAAGGGTAAAATGGTAATTTTGGAAAG
** * **
9044644 TT-TTGGGTCAAATTCTAATTTTGGAAAAG
1 TTCAAGGGTAAAATGGTAATTTTGG-AAAG
* * *
9044673 TTTAGGGGTTAAAAT-GTAATTTTTAGAAAG
1 TTCAAGGG-TAAAATGGTAA-TTTTGGAAAG
** *
9044703 TTTTAGGGTTAAAAT-ATAATTTTGGAAAAG
1 TTCAAGGG-TAAAATGGTAATTTTGG-AAAG
* * *
9044733 TTTAGAGGTTAAAAT-GTAATTTTTGAACAG
1 TTCA-AGGGTAAAATGGTAATTTTGGAA-AG
9044763 TT
1 TT
9044765 TTGGGACCTT
Statistics
Matches: 190, Mismatches: 31, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
27 7 0.04
28 39 0.21
29 42 0.22
30 75 0.39
31 27 0.14
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (29 bp):
TTCAAGGGTAAAATGGTAATTTTGGAAAG
Found at i:9044743 original size:60 final size:59
Alignment explanation
Indices: 9044603--9044769 Score: 225
Period size: 60 Copynumber: 2.8 Consensus size: 59
9044593 TTAAAAATGG
* * * *
9044603 AATTTTGG-AAAGTTCA-AGGGTAAAATGGTAA-TTTTAGAAAGTTTTGGGTCAAATTCT
1 AATTTTGGAAAAGTTTAGAGGTTAAAAT-GTAATTTTTAGAAAGTTTTGGGTCAAAATAT
* *
9044660 AATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTTAGAAAGTTTTAGGGTTAAAATAT
1 AATTTTGGAAAAGTTTAGAGGTTAAAATGTAATTTTTAGAAAGTTTT-GGGTCAAAATAT
9044720 AATTTTGGAAAAGTTTAGAGGTTAAAATGTAATTTTT-GAACAGTTTTGGG
1 AATTTTGGAAAAGTTTAGAGGTTAAAATGTAATTTTTAGAA-AGTTTTGGG
9044770 ACCTTCAGAG
Statistics
Matches: 98, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
57 8 0.08
58 11 0.11
59 28 0.29
60 51 0.52
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (59 bp):
AATTTTGGAAAAGTTTAGAGGTTAAAATGTAATTTTTAGAAAGTTTTGGGTCAAAATAT
Found at i:9045868 original size:23 final size:22
Alignment explanation
Indices: 9045838--9045883 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
9045828 CAATAACTTC
*
9045838 ATTATTATTGCTATTATATAATT
1 ATTATTATTACTATTATA-AATT
*
9045861 ATTATTATTATTATTATAAATT
1 ATTATTATTACTATTATAAATT
9045883 A
1 A
9045884 ATGCTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTATTATTACTATTATAAATT
Found at i:9046563 original size:17 final size:17
Alignment explanation
Indices: 9046541--9046634 Score: 106
Period size: 17 Copynumber: 5.6 Consensus size: 17
9046531 TTATATTTTA
*
9046541 TTAAATTTATAA-TAATT
1 TTAAATTTA-AATTAAAT
9046558 TTAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
**
9046575 CCAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
9046592 TTAAATTT-AA-TAAAT
1 TTAAATTTAAATTAAAT
9046607 TTAAATTTAAATTTAAA-
1 TTAAATTTAAA-TTAAAT
*
9046624 ATAAATTTAAA
1 TTAAATTTAAA
9046635 ATGGTTTGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.19
16 6 0.09
17 44 0.66
18 4 0.06
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAATTTAAATTAAAT
Found at i:9046568 original size:6 final size:6
Alignment explanation
Indices: 9046557--9046634 Score: 87
Period size: 6 Copynumber: 14.0 Consensus size: 6
9046547 TTATAATAAT
**
9046557 TTTAAA TTTAAA -TTAAA TCCAAA TTTAAA -TTAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
9046602 --TAAA TTTAAA TTTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
9046635 ATGGTTTGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
3 1 0.02
4 2 0.03
5 16 0.27
6 41 0.68
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:9046572 original size:11 final size:12
Alignment explanation
Indices: 9046557--9046634 Score: 87
Period size: 11 Copynumber: 7.0 Consensus size: 12
9046547 TTATAATAAT
9046557 TTTAAATTTAAA
1 TTTAAATTTAAA
**
9046569 -TTAAATCCAAA
1 TTTAAATTTAAA
9046580 TTTAAA-TTAAA
1 TTTAAATTTAAA
9046591 TTTAAATTT-AA
1 TTTAAATTTAAA
9046602 --TAAATTTAAA
1 TTTAAATTTAAA
9046612 TTTAAATTTAAA
1 TTTAAATTTAAA
*
9046624 -ATAAATTTAAA
1 TTTAAATTTAAA
9046635 ATGGTTTGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
9 7 0.12
10 2 0.04
11 30 0.54
12 17 0.30
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:9046635 original size:11 final size:11
Alignment explanation
Indices: 9046542--9046636 Score: 59
Period size: 11 Copynumber: 8.1 Consensus size: 11
9046532 TATATTTTAT
*
9046542 TAAATTTATAA
1 TAAATTTAAAA
* *
9046553 TAATTTTAAATT
1 TAAATTTAAA-A
9046565 TAAA-TT-AAA
1 TAAATTTAAAA
*
9046574 TCCAAATTTAAAT
1 T--AAATTTAAAA
9046587 TAAATTTAAATTTAA
1 TAAATTT-AA---AA
*
9046602 TAAATTTAAATT
1 TAAATTTAAA-A
9046614 TAAATTTAAAA
1 TAAATTTAAAA
9046625 TAAATTTAAAA
1 TAAATTTAAAA
9046636 T
1 T
9046637 GGTTTGGTTG
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
9 1 0.02
10 2 0.03
11 32 0.49
12 17 0.26
13 3 0.05
14 2 0.03
15 8 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:9046703 original size:31 final size:31
Alignment explanation
Indices: 9046668--9046734 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
9046658 ATTGGGCTTC
9046668 AACAGCTGCCCCTCTTTGCTCATTGTTGTGT
1 AACAGCTGCCCCTCTTTGCTCATTGTTGTGT
*
9046699 AACAGCTGCCCCTCTTTGCTCGTTGTTGTGT
1 AACAGCTGCCCCTCTTTGCTCATTGTTGTGT
9046730 AACAG
1 AACAG
9046735 GAATAGAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.15, C:0.28, G:0.21, T:0.36
Consensus pattern (31 bp):
AACAGCTGCCCCTCTTTGCTCATTGTTGTGT
Found at i:9047036 original size:92 final size:92
Alignment explanation
Indices: 9046921--9047422 Score: 914
Period size: 92 Copynumber: 5.5 Consensus size: 92
9046911 ATGTCTAGGT
* *
9046921 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGATTCGTTATCCGACTTTACTATAACTTC
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTC
9046986 AAGAGGATAAGAATTGACGTTTGAAAC
66 AAGAGGATAAGAATTGACGTTTGAAAC
*
9047013 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTT
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTC
9047078 AAGAGGATAAGAATTGACGTTTGAAAC
66 AAGAGGATAAGAATTGACGTTTGAAAC
* *
9047105 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTGGTTATCCAACTTTACCATAACTTC
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTC
*
9047170 AAGAGGATAAGAATTGACGTTTGAAGC
66 AAGAGGATAAGAATTGACGTTTGAAAC
* *
9047197 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTGGTTATCCAACTTTACCATAACTTC
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTC
*
9047262 AAGAGGATAAGAATTGACGTTTGAAGC
66 AAGAGGATAAGAATTGACGTTTGAAAC
*
9047289 TTCATCTTGCTCTTACTATAACTTTAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTC
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTC
9047354 AAGAGGATAAGAATTGACGTTTGAAAC
66 AAGAGGATAAGAATTGACGTTTGAAAC
9047381 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCG
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCG
9047423 ATATTTTTGA
Statistics
Matches: 398, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 398 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (92 bp):
TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTC
AAGAGGATAAGAATTGACGTTTGAAAC
Found at i:9059348 original size:30 final size:29
Alignment explanation
Indices: 9059313--9059444 Score: 96
Period size: 29 Copynumber: 4.5 Consensus size: 29
9059303 AGTTCGGGGG
9059313 TAAAATGGTAATTTTGGGTAAAATCAGAGT
1 TAAAATGGTAATTTT-GGTAAAATCAGAGT
* *
9059343 TAAAATGG-AATTTTAG-AAAGTTCAGGAG-
1 TAAAATGGTAATTTTGGTAAA-ATCA-GAGT
9059371 TAAAATGGTAATTTTCGGTAAAATCA-AGGT
1 TAAAATGGTAATTTT-GGTAAAATCAGA-GT
* * * * *
9059401 TAAAAAAGG-AATTTTGG-AAAGTTTAGGGG
1 T-AAAATGGTAATTTTGGTAAA-ATCAGAGT
9059430 TAAAATGGTAATTTT
1 TAAAATGGTAATTTT
9059445 AGAAAGTTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
27 3 0.04
28 22 0.27
29 28 0.35
30 19 0.23
31 9 0.11
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (29 bp):
TAAAATGGTAATTTTGGTAAAATCAGAGT
Found at i:9059356 original size:58 final size:58
Alignment explanation
Indices: 9059165--9059444 Score: 314
Period size: 59 Copynumber: 4.7 Consensus size: 58
9059155 AATTGGGTCA
* * * *
9059165 AAAAATGGAAATTTTTTAGAAGTTCAGGGGTAAAATGGTAAATTTTGGTGAAATCGAGGTT
1 AAAAATGG-AA-TTTTGAAAAGTTCAGGGGTAAAATGGT-AATTTTGGTAAAATCAAGGTT
** * * * * *
9059226 AAAAATGGGGTTTTCAAAAATTCATGGGTAAAATAGTAATTTTTGGTGAAATCAAGGTT
1 AAAAATGGAATTTTGAAAAGTTCAGGGGTAAAATGGTAA-TTTTGGTAAAATCAAGGTT
* *
9059285 AAAAATGGGATTTTGAAAAGTTCGGGGGTAAAATGGTAATTTTGGGTAAAATC-AGAGTT
1 AAAAATGGAATTTTGAAAAGTTCAGGGGTAAAATGGTAATTTT-GGTAAAATCAAG-GTT
*
9059344 -AAAATGGAATTTT-AGAAAGTTCAGGAGTAAAATGGTAATTTTCGGTAAAATCAAGGTT
1 AAAAATGGAATTTTGA-AAAGTTCAGGGGTAAAATGGTAATTTT-GGTAAAATCAAGGTT
* * *
9059402 AAAAAAGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTT
1 AAAAATGGAATTTTGAAAAGTTCAGGGGTAAAATGGTAATTTT
9059445 AGAAAGTTTT
Statistics
Matches: 189, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
57 1 0.01
58 57 0.30
59 123 0.65
61 8 0.04
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (58 bp):
AAAAATGGAATTTTGAAAAGTTCAGGGGTAAAATGGTAATTTTGGTAAAATCAAGGTT
Found at i:9059395 original size:117 final size:117
Alignment explanation
Indices: 9059184--9059444 Score: 341
Period size: 117 Copynumber: 2.2 Consensus size: 117
9059174 AATTTTTTAG
* **
9059184 AAGTTCAGGGGTAAAATGGTAAATTTTGGTGAAATCGAGGTTAAAAATGGGGTTTTCAAAAATTC
1 AAGTTCAGGGGTAAAATGGT-AATTTTGGTAAAATCGAGGTTAAAAATGGAATTTTCAAAAATTC
* * * *
9059249 ATGGGTAAAATAGTAATTTTTGGTGAAATCAAGGTTAAAAATGGGATTTTGAA
65 ATGGGTAAAATAGTAATTTTCGGTAAAATCAAGGTTAAAAAAGGAATTTTGAA
* *
9059302 AAGTTCGGGGGTAAAATGGTAATTTTGGGTAAAATC-AGAGTT-AAAATGGAATTTT-AGAAAGT
1 AAGTTCAGGGGTAAAATGGTAATTTT-GGTAAAATCGAG-GTTAAAAATGGAATTTTCA-AAAAT
* *
9059364 TCA-GGAGTAAAATGGTAATTTTCGGTAAAATCAAGGTTAAAAAAGGAATTTTGGA
63 TCATGG-GTAAAATAGTAATTTTCGGTAAAATCAAGGTTAAAAAAGGAATTTTGAA
*
9059419 AAGTTTAGGGGTAAAATGGTAATTTT
1 AAGTTCAGGGGTAAAATGGTAATTTT
9059445 AGAAAGTTTT
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
116 3 0.02
117 93 0.74
118 30 0.24
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.32
Consensus pattern (117 bp):
AAGTTCAGGGGTAAAATGGTAATTTTGGTAAAATCGAGGTTAAAAATGGAATTTTCAAAAATTCA
TGGGTAAAATAGTAATTTTCGGTAAAATCAAGGTTAAAAAAGGAATTTTGAA
Found at i:9059491 original size:30 final size:30
Alignment explanation
Indices: 9059410--9059623 Score: 219
Period size: 30 Copynumber: 7.2 Consensus size: 30
9059400 TTAAAAAAGG
9059410 AATTTTGG-AAAGTTTAGGGG-TAAAATGGT
1 AATTTTGGAAAAGTTTAGGGGTTAAAAT-GT
* * *
9059439 AATTTTAG-AAAGTTTTA-AGGTTAAAATCT
1 AATTTTGGAAAAG-TTTAGGGGTTAAAATGT
*
9059468 AATTTTGGAAAAATTTAGGGGTTAAAATGT
1 AATTTTGGAAAAGTTTAGGGGTTAAAATGT
* *
9059498 AATTTT-TAGAAAGTTTTA-GGGTTAAAATAT
1 AATTTTGGA-AAAG-TTTAGGGGTTAAAATGT
*
9059528 AATTTTGGAAAAGTTTAGGGGTCAAAATGT
1 AATTTTGGAAAAGTTTAGGGGTTAAAATGT
* *
9059558 AATTTT-TAAGAAGTTTTA-GGGTTAAAATAT
1 AATTTTGGAA-AAG-TTTAGGGGTTAAAATGT
* *
9059588 AATTTTGGAAAAGTTTGGGGGTCAAAATGT
1 AATTTTGGAAAAGTTTAGGGGTTAAAATGT
9059618 AATTTT
1 AATTTT
9059624 TGAATAGTAC
Statistics
Matches: 153, Mismatches: 20, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
29 35 0.23
30 107 0.70
31 11 0.07
ACGTcount: A:0.38, C:0.01, G:0.22, T:0.39
Consensus pattern (30 bp):
AATTTTGGAAAAGTTTAGGGGTTAAAATGT
Found at i:9059521 original size:60 final size:60
Alignment explanation
Indices: 9059410--9059624 Score: 339
Period size: 60 Copynumber: 3.6 Consensus size: 60
9059400 TTAAAAAAGG
* *
9059410 AATTTTGG-AAAGTTTAGGGGT-AAAATGGTAA-TTTTAGAAAGTTTTAAGGTTAAAATCT
1 AATTTTGGAAAAGTTTAGGGGTCAAAAT-GTAATTTTTAGAAAGTTTTAGGGTTAAAATAT
* *
9059468 AATTTTGGAAAAATTTAGGGGTTAAAATGTAATTTTTAGAAAGTTTTAGGGTTAAAATAT
1 AATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTTAGAAAGTTTTAGGGTTAAAATAT
9059528 AATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTTA-AGAAGTTTTAGGGTTAAAATAT
1 AATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTTAGA-AAGTTTTAGGGTTAAAATAT
*
9059588 AATTTTGGAAAAGTTTGGGGGTCAAAATGTAATTTTT
1 AATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTT
9059625 GAATAGTACA
Statistics
Matches: 147, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
58 8 0.05
59 17 0.12
60 122 0.83
ACGTcount: A:0.38, C:0.01, G:0.22, T:0.39
Consensus pattern (60 bp):
AATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTTAGAAAGTTTTAGGGTTAAAATAT
Found at i:9060627 original size:3 final size:3
Alignment explanation
Indices: 9060621--9060661 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
9060611 CAATAACTTC
**
9060621 ATT ATT ATT GCT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9060662 AAATTAATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:9061343 original size:17 final size:17
Alignment explanation
Indices: 9061321--9061414 Score: 106
Period size: 17 Copynumber: 5.6 Consensus size: 17
9061311 TTATATTTTA
*
9061321 TTAAATTTATAA-TAATT
1 TTAAATTTA-AATTAAAT
9061338 TTAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
**
9061355 CCAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
9061372 TTAAATTT-AA-TAAAT
1 TTAAATTTAAATTAAAT
9061387 TTAAATTTAAATTTAAA-
1 TTAAATTTAAA-TTAAAT
*
9061404 ATAAATTTAAA
1 TTAAATTTAAA
9061415 ATGGTTTGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.19
16 6 0.09
17 44 0.66
18 4 0.06
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAATTTAAATTAAAT
Found at i:9061348 original size:6 final size:6
Alignment explanation
Indices: 9061337--9061414 Score: 87
Period size: 6 Copynumber: 14.0 Consensus size: 6
9061327 TTATAATAAT
**
9061337 TTTAAA TTTAAA -TTAAA TCCAAA TTTAAA -TTAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
9061382 --TAAA TTTAAA TTTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
9061415 ATGGTTTGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
3 1 0.02
4 2 0.03
5 16 0.27
6 41 0.68
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:9061352 original size:11 final size:12
Alignment explanation
Indices: 9061337--9061414 Score: 87
Period size: 11 Copynumber: 7.0 Consensus size: 12
9061327 TTATAATAAT
9061337 TTTAAATTTAAA
1 TTTAAATTTAAA
**
9061349 -TTAAATCCAAA
1 TTTAAATTTAAA
9061360 TTTAAA-TTAAA
1 TTTAAATTTAAA
9061371 TTTAAATTT-AA
1 TTTAAATTTAAA
9061382 --TAAATTTAAA
1 TTTAAATTTAAA
9061392 TTTAAATTTAAA
1 TTTAAATTTAAA
*
9061404 -ATAAATTTAAA
1 TTTAAATTTAAA
9061415 ATGGTTTGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
9 7 0.12
10 2 0.04
11 30 0.54
12 17 0.30
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:9061415 original size:11 final size:11
Alignment explanation
Indices: 9061322--9061416 Score: 59
Period size: 11 Copynumber: 8.1 Consensus size: 11
9061312 TATATTTTAT
*
9061322 TAAATTTATAA
1 TAAATTTAAAA
* *
9061333 TAATTTTAAATT
1 TAAATTTAAA-A
9061345 TAAA-TT-AAA
1 TAAATTTAAAA
*
9061354 TCCAAATTTAAAT
1 T--AAATTTAAAA
9061367 TAAATTTAAATTTAA
1 TAAATTT-AA---AA
*
9061382 TAAATTTAAATT
1 TAAATTTAAA-A
9061394 TAAATTTAAAA
1 TAAATTTAAAA
9061405 TAAATTTAAAA
1 TAAATTTAAAA
9061416 T
1 T
9061417 GGTTTGGTTG
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
9 1 0.02
10 2 0.03
11 32 0.49
12 17 0.26
13 3 0.05
14 2 0.03
15 8 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:9070439 original size:16 final size:16
Alignment explanation
Indices: 9070420--9070451 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9070410 ATAAAATAGT
9070420 TATTTTTAAAAAAATA
1 TATTTTTAAAAAAATA
*
9070436 TATTTTTTAAAAAATA
1 TATTTTTAAAAAAATA
9070452 AAATACAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTTTTAAAAAAATA
Found at i:9070633 original size:24 final size:24
Alignment explanation
Indices: 9070587--9070633 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9070577 TTAAAAACTA
*
9070587 TTTTCACAAATAAATATTGGAATT
1 TTTTCACAAATAAATATTAGAATT
*
9070611 TTTTCATAAATAAATCA-TAGAAT
1 TTTTCACAAATAAAT-ATTAGAAT
9070634 CATGTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (24 bp):
TTTTCACAAATAAATATTAGAATT
Found at i:9078525 original size:20 final size:19
Alignment explanation
Indices: 9078481--9078526 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
9078471 GGAGATGCCT
*
9078481 AAGAAGG-AAGCAAAAGGG
1 AAGAAGGAAAGAAAAAGGG
9078499 -A-AAGGAAAGAAAAAGGAG
1 AAGAAGGAAAGAAAAAGG-G
9078517 AAGAAGGAAA
1 AAGAAGGAAA
9078527 ATGTGCCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 4 0.17
17 10 0.43
18 1 0.04
19 1 0.04
20 7 0.30
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (19 bp):
AAGAAGGAAAGAAAAAGGG
Found at i:9079584 original size:14 final size:14
Alignment explanation
Indices: 9079558--9079603 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
9079548 TTAGTCATTT
9079558 AAAAAAAGAAAAGA
1 AAAAAAAGAAAAGA
9079572 AAAAGAAAG-AAAGA
1 AAAA-AAAGAAAAGA
9079586 AAGAAATAAGAAAA-A
1 AA-AAA-AAGAAAAGA
9079601 AAA
1 AAA
9079604 TATATTGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 13 0.46
15 12 0.43
16 3 0.11
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (14 bp):
AAAAAAAGAAAAGA
Found at i:9079586 original size:19 final size:19
Alignment explanation
Indices: 9079562--9079598 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9079552 TCATTTAAAA
9079562 AAAGAAAAGAAA-AAGAAAG
1 AAAG-AAAGAAATAAGAAAG
9079581 AAAGAAAGAAATAAGAAA
1 AAAGAAAGAAATAAGAAA
9079599 AAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (19 bp):
AAAGAAAGAAATAAGAAAG
Found at i:9085465 original size:28 final size:28
Alignment explanation
Indices: 9085433--9085552 Score: 86
Period size: 28 Copynumber: 4.3 Consensus size: 28
9085423 TTCGAGCCCA
* *
9085433 AAACAGAGTAATGCTCCTTTCAAGCTAG
1 AAACAGAATAATGCTCCTTTCGAGCTAG
* * * *
9085461 AAACATAATAACGCTCATTTCGAGCCAG
1 AAACAGAATAATGCTCCTTTCGAGCTAG
*
9085489 -AACAGAATATTGCT-CTTTCTGAGCTAG
1 AAACAGAATAATGCTCCTTTC-GAGCTAG
** *
9085516 AATTAGAAT-ATCGCT-CTTTCTAAGCTAG
1 AAACAGAATAAT-GCTCCTTTC-GAGCTAG
*
9085544 AATCAGAAT
1 AAACAGAAT
9085553 GTTTATTAAG
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
26 4 0.05
27 18 0.25
28 51 0.70
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (28 bp):
AAACAGAATAATGCTCCTTTCGAGCTAG
Found at i:9085503 original size:27 final size:26
Alignment explanation
Indices: 9085418--9085535 Score: 74
Period size: 28 Copynumber: 4.3 Consensus size: 26
9085408 CAAATTTATA
* * * *
9085418 GCTCATTCGAGCCCAAAACAGAGTAAT
1 GCTCTTTCGAG-CCAGAACAGAATAAC
* * *
9085445 GCTCCTTTCAAGCTAGAAACATAATAAC
1 GCT-CTTTCGAGCCAG-AACAGAATAAC
**
9085473 GCTCATTTCGAGCCAGAACAGAATATT
1 GCTC-TTTCGAGCCAGAACAGAATAAC
* * *
9085500 GCTCTTTCTGAGCTAGAATTAGAATATC
1 GCTCTTTC-GAGCCAGAA-CAGAATAAC
9085528 GCTCTTTC
1 GCTCTTTC
9085536 TAAGCTAGAA
Statistics
Matches: 71, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
26 4 0.06
27 26 0.37
28 41 0.58
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (26 bp):
GCTCTTTCGAGCCAGAACAGAATAAC
Found at i:9085531 original size:55 final size:56
Alignment explanation
Indices: 9085418--9085535 Score: 127
Period size: 55 Copynumber: 2.2 Consensus size: 56
9085408 CAAATTTATA
* *
9085418 GCTCA-TTCGAGCCCAAAACAGAGTAATGCTCCTTTCAAGCTAGAAACATAATAAC
1 GCTCATTTCGAGCCCAAAACAGAATAATGCTCCTTTCAAGCTAGAAACAGAATAAC
* * * ** *
9085473 GCTCATTTCGAG-CCAGAACAGAATATTGCT-CTTTCTGAGCTAGAATTAGAATATC
1 GCTCATTTCGAGCCCAAAACAGAATAATGCTCCTTTC-AAGCTAGAAACAGAATAAC
9085528 GCTC-TTTC
1 GCTCATTTC
9085536 TAAGCTAGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
54 9 0.17
55 38 0.72
56 6 0.11
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (56 bp):
GCTCATTTCGAGCCCAAAACAGAATAATGCTCCTTTCAAGCTAGAAACAGAATAAC
Found at i:9088169 original size:12 final size:12
Alignment explanation
Indices: 9088135--9088175 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
9088125 CATCTCAAAC
9088135 TTTT-TCTTTTA
1 TTTTATCTTTTA
*
9088146 TTTTTTGC-TTTA
1 TTTTAT-CTTTTA
9088158 TTTTATCTTTTA
1 TTTTATCTTTTA
9088170 TTTTAT
1 TTTTAT
9088176 GCTCTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 5 0.19
12 20 0.77
13 1 0.04
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTATCTTTTA
Found at i:9094275 original size:12 final size:12
Alignment explanation
Indices: 9094251--9094296 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
9094241 TACATCTCAA
9094251 ATTTTTGCTTTT
1 ATTTTTGCTTTT
9094263 ATTTTCTGC-TTT
1 ATTTT-TGCTTTT
9094275 ATTTTAT-CTTTT
1 ATTTT-TGCTTTT
9094287 ATTTTATGCT
1 ATTTT-TGCT
9094297 CTCAAAATCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 1 0.03
12 24 0.80
13 5 0.17
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.70
Consensus pattern (12 bp):
ATTTTTGCTTTT
Found at i:9097614 original size:16 final size:16
Alignment explanation
Indices: 9097593--9097633 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
9097583 GGACTGATCC
*
9097593 AAACCCAAGATAATCT
1 AAACCCAAAATAATCT
9097609 AAACCCAAAATAATCT
1 AAACCCAAAATAATCT
*
9097625 AAATCCAAA
1 AAACCCAAA
9097634 GACAACTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.17
Consensus pattern (16 bp):
AAACCCAAAATAATCT
Found at i:9101241 original size:19 final size:19
Alignment explanation
Indices: 9101219--9101342 Score: 60
Period size: 19 Copynumber: 6.5 Consensus size: 19
9101209 TAACAAAATC
9101219 ATAAAAACTTATAAATATT
1 ATAAAAACTTATAAATATT
* * *
9101238 ATAATAAA-TTCTAAAAATA
1 ATAA-AAACTTATAAATATT
* *
9101257 AT-AAAACATATTAAA-ATA
1 ATAAAAACTTA-TAAATATT
*
9101275 ATTAAAACCTTTTATAAAT-TT
1 A-TAAAAAC--TTATAAATATT
* * *
9101296 ATACAAA-TTAAAAAAATT
1 ATAAAAACTTATAAATATT
* *
9101314 CATAAAAACATGTAAATATT
1 -ATAAAAACTTATAAATATT
9101334 ATAAAAACT
1 ATAAAAACT
9101343 AAAAAATTCT
Statistics
Matches: 76, Mismatches: 18, Indels: 22
0.66 0.16 0.19
Matches are distributed among these distances:
17 9 0.12
18 8 0.11
19 33 0.43
20 18 0.24
21 6 0.08
22 2 0.03
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (19 bp):
ATAAAAACTTATAAATATT
Found at i:9101255 original size:9 final size:9
Alignment explanation
Indices: 9101213--9101350 Score: 55
Period size: 9 Copynumber: 14.7 Consensus size: 9
9101203 AAATCATAAC
*
9101213 AAAATCATA
1 AAAATTATA
9101222 AAAACTTATA
1 AAAA-TTATA
*
9101232 AATATTATA
1 AAAATTATA
*
9101241 ATAAATTCTA
1 A-AAATTATA
*
9101251 AAAATAATA
1 AAAATTATA
*
9101260 AAACA-TATT
1 AAA-ATTATA
*
9101269 AAAATAATTA
1 AAAATTA-TA
* *
9101279 AAACCTTTTA
1 AAA-ATTATA
*
9101289 TAAATTTATA
1 -AAAATTATA
* *
9101299 CAAATTAAA
1 AAAATTATA
9101308 AAAATTCATA
1 AAAATT-ATA
* *
9101318 AAAACATGTA
1 AAAA-TTATA
*
9101328 AATATTATA
1 AAAATTATA
*
9101337 AAAACTA-A
1 AAAATTATA
9101345 AAAATT
1 AAAATT
9101351 CTAATAAATC
Statistics
Matches: 92, Mismatches: 28, Indels: 19
0.66 0.20 0.14
Matches are distributed among these distances:
8 7 0.08
9 44 0.48
10 36 0.39
11 5 0.05
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:9101347 original size:37 final size:36
Alignment explanation
Indices: 9101288--9101383 Score: 92
Period size: 37 Copynumber: 2.6 Consensus size: 36
9101278 AAAACCTTTT
* *
9101288 ATAAAT-TTATACAAATTAAAAAAATTCATAA-AAA-C
1 ATAAATATTATAAAAACT-AAAAAATTC-TAATAAATC
9101323 ATGTAAATATTATAAAAACTAAAAAATTCTAATAAATC
1 A--TAAATATTATAAAAACTAAAAAATTCTAATAAATC
*
9101361 ATCAATATT-TAAAAACATAAAAA
1 ATAAATATTATAAAAAC-TAAAAA
9101384 TCAAAATAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
35 8 0.15
36 16 0.31
37 17 0.33
38 11 0.21
ACGTcount: A:0.61, C:0.08, G:0.01, T:0.29
Consensus pattern (36 bp):
ATAAATATTATAAAAACTAAAAAATTCTAATAAATC
Found at i:9101444 original size:27 final size:25
Alignment explanation
Indices: 9101370--9101444 Score: 62
Period size: 27 Copynumber: 2.8 Consensus size: 25
9101360 CATCAATATT
9101370 TAAAAACA-TAAAAATCAAAATAAGTTC
1 TAAAAA-ATTAAAAAT--AAATAAGTTC
* * * *
9101397 TAAAAAATTAAATATATATAATTTT
1 TAAAAAATTAAAAATAAATAAGTTC
9101422 TAATAAAATTATAAAATAAATAA
1 TAA-AAAATTA-AAAATAAATAA
9101445 AAATCATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 10 0.26
26 8 0.21
27 21 0.54
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (25 bp):
TAAAAAATTAAAAATAAATAAGTTC
Found at i:9101698 original size:31 final size:33
Alignment explanation
Indices: 9101649--9101712 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 33
9101639 AGCCTATATA
* * *
9101649 TTTATTATTTTTAAAGGGTTAAA-T-TAATTTT
1 TTTATCATTTTGAAAGGGTCAAAGTGTAATTTT
*
9101680 TTTATCATTTTGAGAGGGTCAAAGTGTAATTTT
1 TTTATCATTTTGAAAGGGTCAAAGTGTAATTTT
9101713 ACCATTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 19 0.70
32 1 0.04
33 7 0.26
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.52
Consensus pattern (33 bp):
TTTATCATTTTGAAAGGGTCAAAGTGTAATTTT
Found at i:9102514 original size:29 final size:30
Alignment explanation
Indices: 9102482--9102542 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
9102472 TTATAATTTC
9102482 TATTGTTTACAA-TTTATTA-GAATTTTTTA
1 TATTGTTTACAAGTTT-TTATGAATTTTTTA
*
9102511 TATTGTTTATAAGTTTTTATGAATTTTTTA
1 TATTGTTTACAAGTTTTTATGAATTTTTTA
9102541 TA
1 TA
9102543 ATTTTATAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.61
Consensus pattern (30 bp):
TATTGTTTACAAGTTTTTATGAATTTTTTA
Found at i:9102537 original size:10 final size:10
Alignment explanation
Indices: 9102487--9102547 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
9102477 ATTTCTATTG
*
9102487 TTTACAATTT
1 TTTATAATTT
* *
9102497 ATTAGAATTT
1 TTTATAATTT
*
9102507 TTTAT-ATTG
1 TTTATAATTT
*
9102516 TTTATAAGTT
1 TTTATAATTT
9102526 TTTATGAATTT
1 TTTAT-AATTT
9102537 TTTATAATTT
1 TTTATAATTT
9102547 T
1 T
9102548 ATAAGTATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
9 8 0.20
10 24 0.59
11 9 0.22
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.62
Consensus pattern (10 bp):
TTTATAATTT
Done.