Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 76 of 204
Found at i:23769053 original size:43 final size:43
Alignment explanation
Indices: 23768959--23769270 Score: 432
Period size: 43 Copynumber: 7.3 Consensus size: 43
23768949 TTTTAGAAAT
23768959 AAACGCCGCTAAAGAACC-AGACCTTTAGCGGCG-TTTTCCCAC
1 AAACGCCGCTAAAG-ACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
23769001 AAACGCCGCTAAAGACCAAGACCTTTAGCTGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
23769044 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTCCCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
23769087 AAACGCCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
23769130 AAACGCCACTAAAAACCAAGACCTTTAGCGGCACTTTTTCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
23769173 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * ** *
23769216 AAACGCCGCTATAGATCAA-ACCTTTAACGGCGCTTCTAGCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
23769258 AAACGCCGCTAAA
1 AAACGCCGCTAAA
23769271 AACATAACCT
Statistics
Matches: 241, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
41 3 0.01
42 59 0.24
43 179 0.74
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:23773780 original size:82 final size:82
Alignment explanation
Indices: 23773673--23773828 Score: 249
Period size: 82 Copynumber: 1.9 Consensus size: 82
23773663 CTTAACCCCA
* * *
23773673 AACCACTAACCTCTAAACCTTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATCATAA
1 AACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
23773738 ACCCTAACCCGATCCCT
66 ACCCTAACCCGATCCCT
* * * *
23773755 AACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAACCCTAA
1 AACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
23773820 ACCCTAACC
66 ACCCTAACC
23773829 TAACACTAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (82 bp):
AACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
ACCCTAACCCGATCCCT
Found at i:23773851 original size:82 final size:82
Alignment explanation
Indices: 23773680--23773853 Score: 215
Period size: 82 Copynumber: 2.1 Consensus size: 82
23773670 CCAAACCACT
* *
23773680 AACCTCTAAACCTTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAA
1 AACC-CTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAA
* * *
23773745 CCCGATCCCTAACCCCTA
65 CCCGAACACTAACCCATA
* * * *
23773763 ACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCCTAA-
1 AACCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAAC
* * *
23773827 CCTAACACTAAATCTATA
66 CCGAACACT-AACCCATA
23773845 AACCCTAAA
1 AACCCTAAA
23773854 TCCCTAACTC
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 6 0.08
82 68 0.88
83 3 0.04
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.26
Consensus pattern (82 bp):
AACCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAAC
CCGAACACTAACCCATA
Found at i:23773874 original size:14 final size:14
Alignment explanation
Indices: 23773845--23773923 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
23773835 TAAATCTATA
*
23773845 AACCCTAAATCCCT
1 AACCCTTAATCCCT
* *
23773859 AACTCTTAATCTCT
1 AACCCTTAATCCCT
*
23773873 AACCCTTAACCCCT
1 AACCCTTAATCCCT
*
23773887 AACCCCTAA-CCCAT
1 AACCCTTAATCCC-T
* *
23773901 AAACCTTAAATCAC-
1 AACCCTT-AATCCCT
23773915 AACCCTTAA
1 AACCCTTAA
23773924 ATCAGAATCC
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
13 5 0.10
14 42 0.82
15 2 0.04
16 2 0.04
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCCTTAATCCCT
Found at i:23774396 original size:41 final size:41
Alignment explanation
Indices: 23774339--23774677 Score: 538
Period size: 41 Copynumber: 8.2 Consensus size: 41
23774329 AATGTTCAAT
23774339 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
*
23774380 TAAAGATCTAAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * *
23774421 TAAAGATCTGAGCATTAGCGGCGCTTTTTTAAAAACGTCGC
1 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
*
23774462 TAAAGATCTGAGTATTAGCGGCGCTTTCTCAAAAACG-CGAC
1 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCG-C
* * *
23774503 TAAAGATCTGAGCATTAGCGTCGCTTTTTTAAAAACGCCGC
1 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
23774544 TAAAGATCTGAGCATTAGCGGCTCTTTCTCAAAAATGCCGC
1 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
23774585 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
*
23774626 TAAAGATCTGAGCATTAGCGGCGCTTTTTTTC-AAAACGCCGC
1 TAAAGATCTGAGCATTAGCGGCGC--TTTCTCAAAAACGCCGC
23774668 TAAAGATCTG
1 TAAAGATCTG
23774678 TAAGGTTCAA
Statistics
Matches: 274, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
40 2 0.01
41 245 0.89
42 22 0.08
43 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (41 bp):
TAAAGATCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:23774760 original size:40 final size:40
Alignment explanation
Indices: 23774710--23774844 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 40
23774700 GGGCTTAGAC
* *
23774710 TTTTT-GCGGCGTTTTTCCAAAAAACGCCGCTAATGAT-AA
1 TTTTTAGCGGCG-TTTTCCAAAAAACGCCGCTAATGCTCGA
* * *
23774749 TTTTTAGCGGCGCTTTCCTAGAAACGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATGCTCGA
* * * ** *
23774789 TCTTTAGTGGCGTTTTACGTAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATGCTCGA
*
23774829 TTTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
23774845 TTGTCCAAAC
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
39 26 0.32
40 54 0.68
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATGCTCGA
Found at i:23780891 original size:137 final size:138
Alignment explanation
Indices: 23780626--23780894 Score: 321
Period size: 137 Copynumber: 2.0 Consensus size: 138
23780616 GACATGTCAT
* ** ** * *
23780626 TAGGATTACCATGTTTCGGGTGCTAGTCTTGAATGTCCTACCGGTGGCTGATTTTCGGCATGTGT
1 TAGGATTACCATGTATCGGGTGCTAGTCTTGAATGTCCTACCAATGGCTGAGGTCCAGCATGTGT
* * **
23780691 TGCGAATACTTAACAGCCTGTGTGAGCAACACCGTGTAGCTACGTTCCGACCGGTAGCTTGTGTG
66 TGCGAATACTCAACAGCCTGTGTGAGCAACACCGTGTAGCTACATTCCGACCGACAGCTTGTGTG
23780756 AGAAAACC
131 AGAAAACC
*
23780764 TAGG-TTACTATGTATCGGGTGCTAGTCTTGAATGTCCTACCAATGGCTGAGGTCCAGCAT-TAG
1 TAGGATTACCATGTATCGGGTGCTAGTCTTGAATGTCCTACCAATGGCTGAGGTCCAGCATGT-G
* * * * * *
23780827 TTGC-AGATACTCGATAGCTTGTGTGAGCAGCATCGTGTAGCTTACATTCTGACCGACAGC-TGT
65 TTGCGA-ATACTCAACAGCCTGTGTGAGCAACACCGTGTAGC-TACATTCCGACCGACAGCTTGT
23780890 GTGAG
128 GTGAG
23780895 CAGTCCCATT
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
136 2 0.02
137 90 0.82
138 18 0.16
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (138 bp):
TAGGATTACCATGTATCGGGTGCTAGTCTTGAATGTCCTACCAATGGCTGAGGTCCAGCATGTGT
TGCGAATACTCAACAGCCTGTGTGAGCAACACCGTGTAGCTACATTCCGACCGACAGCTTGTGTG
AGAAAACC
Found at i:23785891 original size:27 final size:27
Alignment explanation
Indices: 23785861--23785919 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
23785851 ATAAATTATG
* * *
23785861 TATAATTATTAAATATT-AAAAATATAA
1 TATAATTA-AAAAAATTAAAAAAAATAA
*
23785888 TATATTTAAAAAAATTAAAAAAAATAA
1 TATAATTAAAAAAATTAAAAAAAATAA
23785915 TATAA
1 TATAA
23785920 GCAAACTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
TATAATTAAAAAAATTAAAAAAAATAA
Found at i:23786502 original size:35 final size:35
Alignment explanation
Indices: 23786451--23786521 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
23786441 ATATACAACA
23786451 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
1 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
*
23786486 AAATTGATTATCTATGTTAAATTTTATAAATTAAT
1 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
23786521 A
1 A
23786522 TCTATTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (35 bp):
AAATCGATTATCTATGTTAAATTTTATAAATTAAT
Found at i:23786506 original size:26 final size:25
Alignment explanation
Indices: 23786477--23786530 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
23786467 TTAAATTTTA
*
23786477 TAAA-TTAATAAATTGATTATCTATGT
1 TAAATTTAATAAATT-AATATCTAT-T
*
23786503 TAAATTTTATAAATTAATATCTATT
1 TAAATTTAATAAATTAATATCTATT
23786528 TAA
1 TAA
23786531 TCATTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.16
26 12 0.48
27 9 0.36
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (25 bp):
TAAATTTAATAAATTAATATCTATT
Found at i:23795536 original size:12 final size:12
Alignment explanation
Indices: 23795519--23795545 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23795509 ACAGATTAAA
23795519 ATGGTTCAAAAG
1 ATGGTTCAAAAG
23795531 ATGGTTCAAAAG
1 ATGGTTCAAAAG
23795543 ATG
1 ATG
23795546 AGGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26
Consensus pattern (12 bp):
ATGGTTCAAAAG
Found at i:23798668 original size:11 final size:10
Alignment explanation
Indices: 23798655--23798705 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
23798645 AAAAACCATA
23798655 AAAATATTAT
1 AAAATATTAT
23798665 AAAATA-TAT
1 AAAATATTAT
23798674 AGAAATA-TA-
1 A-AAATATTAT
*
23798683 AAAATTTTAT
1 AAAATATTAT
*
23798693 AAAATTTTAT
1 AAAATATTAT
23798703 AAA
1 AAA
23798706 GTCGTAAGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
8 4 0.11
9 7 0.19
10 26 0.70
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (10 bp):
AAAATATTAT
Found at i:23798701 original size:58 final size:58
Alignment explanation
Indices: 23798596--23798705 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 58
23798586 TAAAAATTAG
* *
23798596 AAAAATATATATAAAAATCATAAAAAATAAAAAAATTGCAAATTTTTATAAAAACCAT
1 AAAAATATATATAAAAATCATAAAAAATAAAAAAATTACAAAATTTTATAAAAACCAT
* ** *
23798654 AAAAATAT-TATAAAATAT-ATAGAAATATAAAAATTTTATAAAATTTTATAAA
1 AAAAATATATATAAAA-ATCATA-AAAAATAAAAAAATTACAAAATTTTATAAA
23798706 GTCGTAAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
57 10 0.23
58 34 0.77
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (58 bp):
AAAAATATATATAAAAATCATAAAAAATAAAAAAATTACAAAATTTTATAAAAACCAT
Found at i:23803980 original size:20 final size:20
Alignment explanation
Indices: 23803942--23804014 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
23803932 CATACAAAGG
* **
23803942 CACCATAGTGCAATTAGAGA
1 CACCAAAGTGCAAACAGAGA
* * * *
23803962 CACGAAAGTGTATACAGAGG
1 CACCAAAGTGCAAACAGAGA
*
23803982 CACCAAAGTGCAAACAGAGT
1 CACCAAAGTGCAAACAGAGA
23804002 CACCAAAGTGCAA
1 CACCAAAGTGCAA
23804015 GTCCCGTACA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.14
Consensus pattern (20 bp):
CACCAAAGTGCAAACAGAGA
Found at i:23804010 original size:40 final size:40
Alignment explanation
Indices: 23803933--23804011 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
23803923 ATCAAATGCC
* ** *
23803933 ATACAAAGGCACCATAGTGCAATTAGAGACACGAAAGTGT
1 ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTGT
* *
23803973 ATACAGAGGCACCAAAGTGCAAACAGAGTCACCAAAGTG
1 ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTG
23804012 CAAGTCCCGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (40 bp):
ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTGT
Found at i:23804521 original size:20 final size:20
Alignment explanation
Indices: 23804496--23804544 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
23804486 AACATTTAAA
23804496 TTTACATTTTGA-CCTAAACT
1 TTTACATTTT-ACCCTAAACT
*
23804516 TTTACACATTTACCCTAAACT
1 TTTACA-TTTTACCCTAAACT
23804537 TTTACATT
1 TTTACATT
23804545 GTATCCAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTACATTTTACCCTAAACT
Found at i:23811627 original size:32 final size:32
Alignment explanation
Indices: 23811591--23811657 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
23811581 TGGTCTTACG
*
23811591 CCATATACCATCGTCATAGCAAGTACTTTATA
1 CCATATACCATCATCATAGCAAGTACTTTATA
*
23811623 CCATATACCGTCATCATAGCAAGTACTTTATA
1 CCATATACCATCATCATAGCAAGTACTTTATA
23811655 CCA
1 CCA
23811658 GACTATCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (32 bp):
CCATATACCATCATCATAGCAAGTACTTTATA
Found at i:23817613 original size:20 final size:20
Alignment explanation
Indices: 23817588--23817625 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23817578 CAAATATAAA
* *
23817588 AGTCCAAATAAAATAACATC
1 AGTCCAAAAAAAAAAACATC
23817608 AGTCCAAAAAAAAAAACA
1 AGTCCAAAAAAAAAAACA
23817626 AATAACTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.18, G:0.05, T:0.13
Consensus pattern (20 bp):
AGTCCAAAAAAAAAAACATC
Found at i:23818848 original size:16 final size:17
Alignment explanation
Indices: 23818827--23818872 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
23818817 TTTTTATATG
23818827 TTATTTTAAAATTTG-T
1 TTATTTTAAAATTTGTT
*
23818843 TTATTTT-TAATTTGTT
1 TTATTTTAAAATTTGTT
23818859 TTATTTTAAAATTT
1 TTATTTTAAAATTT
23818873 CTCTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 6 0.23
16 15 0.58
17 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (17 bp):
TTATTTTAAAATTTGTT
Found at i:23818945 original size:26 final size:26
Alignment explanation
Indices: 23818906--23818993 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
23818896 TTTTTTTAAA
*
23818906 TTATTTTAACTTGCTTTGTAAATTAT
1 TTATTTTAAGTTGCTTTGTAAATTAT
* *
23818932 TTATGTTAAGTTGCTTTGTATATTATT
1 TTATTTTAAGTTGCTTTGTAAATTA-T
** * *
23818959 TTATTTTAAGTTATTTTATAAATTAA
1 TTATTTTAAGTTGCTTTGTAAATTAT
23818985 TTATTTTAA
1 TTATTTTAA
23818994 AATTATTCTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 31 0.60
27 21 0.40
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGCTTTGTAAATTAT
Found at i:23818996 original size:15 final size:17
Alignment explanation
Indices: 23818964--23818998 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
23818954 TTATTTTATT
23818964 TTAAGTTATTTTATAAA
1 TTAAGTTATTTTATAAA
23818981 TTAA-TTATTTTA-AAA
1 TTAAGTTATTTTATAAA
23818996 TTA
1 TTA
23818999 TTCTATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTAAGTTATTTTATAAA
Found at i:23819595 original size:17 final size:18
Alignment explanation
Indices: 23819562--23819600 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
23819552 TGCTCTTAAG
*
23819562 TGTATTGTATTGCTTATT
1 TGTATTGTATTGATTATT
23819580 TGTATT-TATTGATTATT
1 TGTATTGTATTGATTATT
23819597 TGTA
1 TGTA
23819601 GCTCATTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.21, C:0.03, G:0.15, T:0.62
Consensus pattern (18 bp):
TGTATTGTATTGATTATT
Found at i:23823799 original size:25 final size:27
Alignment explanation
Indices: 23823774--23823827 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
23823764 GCATTTATTT
23823774 TGAGCAAATATTCTTTCATTCTTTTTATA
1 TGAGCAAATATTCTTTCATTC-TTTT-TA
* *
23823803 TGAGTAATTATTCTTTCATTCTTTT
1 TGAGCAAATATTCTTTCATTCTTTT
23823828 GGATATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.24, C:0.13, G:0.07, T:0.56
Consensus pattern (27 bp):
TGAGCAAATATTCTTTCATTCTTTTTA
Found at i:23827052 original size:139 final size:138
Alignment explanation
Indices: 23826887--23827372 Score: 586
Period size: 139 Copynumber: 3.5 Consensus size: 138
23826877 ATATCAAACT
* * * *
23826887 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAAT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATCCTATCTCCCTGAAGTTGCAGT
* * *
23826952 GGAGCGGATTAAAATGACAAATCCTATACCTCTAAAGTTACAGTAGGTCGGATCAAATTCACCAA
66 GGAGCGGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACCAA
23827017 CGCCAAATC
131 -GCCAAATC
* * *
23827026 TTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACTAATCCTATCTCTCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATCCTATCTCCCTGAAGTTGCAGT
* * *
23827091 GAAGCTGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGTTCGGATCAAATTCACCAA
66 GGAGCGGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACCAA
23827156 TGCC-AATCC
131 -GCCAAAT-C
* * * * * **
23827165 TTATCTCACTGAAGTTGCAGTGGAGTAGATTAAAGCTACTAATCCTATCTCCCTGAAATTTTAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATCCTATCTCCCTGAAGTTGCAGT
* * *
23827230 GGAGCGGATTAAAA-CAATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAA-TCTACC
66 GGAGCGGATTAAAATGAA-AAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTC-ACC
* *
23827293 ATA-ACAAGTC
129 A-AGCCAAATC
* * * * * * *
23827303 TTATATCCTTGAAGTTACAGTGGAGCAGATTGAAGCCACC-AGCCTTATCTCCCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATCC-TATCTCCCTGAAGTTGCAG
23827367 TGGAGC
65 TGGAGC
23827373 AGGTTGGAGA
Statistics
Matches: 299, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
137 3 0.01
138 63 0.21
139 232 0.78
140 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (138 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATCCTATCTCCCTGAAGTTGCAGT
GGAGCGGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACCAA
GCCAAATC
Found at i:23827090 original size:44 final size:44
Alignment explanation
Indices: 23827022--23827465 Score: 184
Period size: 44 Copynumber: 9.8 Consensus size: 44
23827012 ACCAACGCCA
* *
23827022 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * ** **
23827066 AATCCTATCTCTCTGAAGTTGCAGTGAAGCTGATT-AAAATGAAA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACT
* * * * * * *
23827110 AATCCTATAC-CTCTGAAGTTGCAGTAGTTCGGATCAAATTCACCA-ATGCC
1 AATCCTAT-CTCCCTGAAGTTGC---AG-T-GGAGCAGATTGA--AGCTACT
* * *
23827160 AATCCTTATCTCACTGAAGTTGCAGTGGAGTAGATTAAAGCTACT
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* ** * * * *
23827205 AATCCTATCTCCCTGAAATTTTAGTGGAGCGGATTAAAAC-AAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * * *
23827248 GAATCCTATAC-CTCTGAAGTTGCAGTAGG-TCGGATTAAATCTACCAT
1 -AATCCTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCTA-C-T
* * * * *
23827295 AACAAGTCTTATATCCTTGAAGTTACAGTGGAGCAGATTGAAGCCAC-
1 ---AA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * * * * * *
23827342 CAGCCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGGAGATACC
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * *
23827387 AATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * *
23827431 AATCCTA-CTTCCCTGAGGATGCAATGGAGTAGATT
1 AATCCTATC-TCCCTGAAGTTGCAGTGGAGCAGATT
23827466 AAAACAATGA
Statistics
Matches: 294, Mismatches: 79, Indels: 54
0.69 0.19 0.13
Matches are distributed among these distances:
43 6 0.02
44 198 0.67
45 14 0.05
46 8 0.03
47 4 0.01
48 3 0.01
49 11 0.04
50 33 0.11
51 16 0.05
52 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
Found at i:23828633 original size:21 final size:21
Alignment explanation
Indices: 23828592--23828637 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23828582 TTTGGTTCGT
*
23828592 TTTTTTAATTCCATTTTTTTA
1 TTTTTTAATTCCATTTGTTTA
*
23828613 TTTTTTAATT-TATCTTGTTTA
1 TTTTTTAATTCCAT-TTGTTTA
23828634 TTTT
1 TTTT
23828638 GAATATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTAATTCCATTTGTTTA
Found at i:23828991 original size:17 final size:17
Alignment explanation
Indices: 23828954--23828991 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
23828944 TTTTTATATG
* *
23828954 TTATTTTAAAATTTGTT
1 TTATTTTAAAATTTCTC
23828971 TTATTTTAAAATTTCTC
1 TTATTTTAAAATTTCTC
23828988 TTAT
1 TTAT
23828992 ATATATTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (17 bp):
TTATTTTAAAATTTCTC
Found at i:23829047 original size:26 final size:26
Alignment explanation
Indices: 23829018--23829105 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
23829008 TTTTATATGA
*
23829018 TTATTTTAACTTGCTTTGTAAATTAT
1 TTATTTTAAGTTGCTTTGTAAATTAT
* * *
23829044 TTATGTTGAGTTGCTTTGTATATTATT
1 TTATTTTAAGTTGCTTTGTAAATTA-T
** * *
23829071 TTATTTTAAGTTATTTTATAAATTAA
1 TTATTTTAAGTTGCTTTGTAAATTAT
23829097 TTATTTTAA
1 TTATTTTAA
23829106 AATTATCCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 30 0.60
27 20 0.40
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGCTTTGTAAATTAT
Found at i:23829108 original size:15 final size:17
Alignment explanation
Indices: 23829076--23829110 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
23829066 TTATTTTATT
23829076 TTAAGTTATTTTATAAA
1 TTAAGTTATTTTATAAA
23829093 TTAA-TTATTTTA-AAA
1 TTAAGTTATTTTATAAA
23829108 TTA
1 TTA
23829111 TCCTATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTAAGTTATTTTATAAA
Found at i:23829271 original size:12 final size:12
Alignment explanation
Indices: 23829254--23829352 Score: 64
Period size: 12 Copynumber: 8.3 Consensus size: 12
23829244 TTTCAAATTT
23829254 TTATATATATTA
1 TTATATATATTA
23829266 TTATATATATTA
1 TTATATATATTA
*
23829278 TTATTTATATTA
1 TTATATATATTA
**
23829290 AAAT-TATCATT-
1 TTATATAT-ATTA
* *
23829301 TCATATGTATTA
1 TTATATATATTA
* *
23829313 CTTATTTAGATTA
1 -TTATATATATTA
23829326 --ATATATATTA
1 TTATATATATTA
23829336 TT-TAGTATATTA
1 TTATA-TATATTA
23829348 CTTAT
1 -TTAT
23829353 TTGATTTTCT
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
10 8 0.12
11 10 0.15
12 37 0.56
13 10 0.15
14 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (12 bp):
TTATATATATTA
Found at i:23829274 original size:14 final size:14
Alignment explanation
Indices: 23829253--23829287 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
23829243 ATTTCAAATT
23829253 TTTATATA-TATTA
1 TTTATATATTATTA
23829266 TTATATATATTATTA
1 TT-TATATATTATTA
23829281 TTTATAT
1 TTTATAT
23829288 TAAAATTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 11 0.55
15 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTATATATTATTA
Found at i:23829720 original size:17 final size:18
Alignment explanation
Indices: 23829682--23829725 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
23829672 ATTATTACTC
* *
23829682 TTATGTGTATTGTATTGC
1 TTATTTGTATTGTATTGA
23829700 TTATTTGTATT-TATTGA
1 TTATTTGTATTGTATTGA
23829717 TTATTTGTA
1 TTATTTGTA
23829726 GTTCATTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.61
Consensus pattern (18 bp):
TTATTTGTATTGTATTGA
Found at i:23832408 original size:25 final size:25
Alignment explanation
Indices: 23832375--23832444 Score: 140
Period size: 25 Copynumber: 2.8 Consensus size: 25
23832365 TGGAGGGATT
23832375 TTTATTTAATATTAATATAATTATA
1 TTTATTTAATATTAATATAATTATA
23832400 TTTATTTAATATTAATATAATTATA
1 TTTATTTAATATTAATATAATTATA
23832425 TTTATTTAATATTAATATAA
1 TTTATTTAATATTAATATAA
23832445 ATATTACTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTATTTAATATTAATATAATTATA
Found at i:23832415 original size:31 final size:32
Alignment explanation
Indices: 23832380--23832456 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 32
23832370 GGATTTTTAT
23832380 TTAATATTAATATAATTATATTT-AT-TTAATA
1 TTAATATTAATATAATT-TATTTAATATTAATA
23832411 TTAATA-TAAT-TATATTTATTTAATATTAATA
1 TTAATATTAATATA-ATTTATTTAATATTAATA
* *
23832442 TAAATATTACTATAA
1 TTAATATTAATATAA
23832457 AATTTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
29 7 0.18
30 9 0.23
31 17 0.44
32 4 0.10
33 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (32 bp):
TTAATATTAATATAATTTATTTAATATTAATA
Found at i:23832449 original size:19 final size:19
Alignment explanation
Indices: 23832402--23832463 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 19
23832392 TAATTATATT
23832402 TATTTAATATTAATATAATTA
1 TATTTAATATTAATATAA--A
*
23832423 TATTT-AT-TTAATATTAA
1 TATTTAATATTAATATAAA
* *
23832440 TA-TAAATATTACTATAAA
1 TATTTAATATTAATATAAA
23832458 -ATTTAA
1 TATTTAA
23832464 ATTTATTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
16 1 0.03
17 6 0.18
18 11 0.33
19 8 0.24
20 2 0.06
21 5 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTAATATTAATATAAA
Found at i:23833742 original size:20 final size:21
Alignment explanation
Indices: 23833705--23833747 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
23833695 ATCTTCAATG
*
23833705 ATTTTCAATTAAAAATAATAA
1 ATTTTCAATTAAAAATAAAAA
**
23833726 ATTTT-AATTAATTATAAAAA
1 ATTTTCAATTAAAAATAAAAA
23833746 AT
1 AT
23833748 ACTTAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTTCAATTAAAAATAAAAA
Found at i:23835928 original size:3 final size:3
Alignment explanation
Indices: 23835913--23835967 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
23835903 AATTAAAAAG
* *
23835913 ATA ATA ATG ATA ATA ATA ATA TTA ATA ATA AT- ATGA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA
23835959 ATAA ATA AT
1 AT-A ATA AT
23835968 CTAGAGTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 2 0.05
3 34 0.77
4 8 0.18
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:23835930 original size:12 final size:11
Alignment explanation
Indices: 23835913--23835967 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 11
23835903 AATTAAAAAG
23835913 ATAATAATGATA
1 ATAATAAT-ATA
23835925 ATAATAATATTA
1 ATAATAATA-TA
23835937 ATAATAATATGA
1 ATAATAATAT-A
23835949 ATAATAA-ATA
1 ATAATAATATA
23835959 ATAAATAAT
1 AT-AATAAT
23835968 CTAGAGTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 3 0.08
11 9 0.23
12 27 0.69
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
ATAATAATATA
Found at i:23836000 original size:18 final size:18
Alignment explanation
Indices: 23835979--23836013 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23835969 TAGAGTTTGA
*
23835979 AAATATATAAAAAGATAC
1 AAATAAATAAAAAGATAC
*
23835997 AAATAAATAAAACGATA
1 AAATAAATAAAAAGATA
23836014 TAATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (18 bp):
AAATAAATAAAAAGATAC
Found at i:23839268 original size:52 final size:52
Alignment explanation
Indices: 23839177--23839421 Score: 144
Period size: 51 Copynumber: 4.5 Consensus size: 52
23839167 TTTCATATAT
* * * ** *
23839177 TGGTGCCGGTCATTGACAGGCCAGCACCT-AAAATTTTTTTTTCCCGTAAAGG
1 TGGTGCCAGCCATTGACAGGCCACCA-CTAAAAAAATATTTTTCCCGTAAAGG
*** *
23839229 TGGTGCCAGCCATTGACAGGCCACCACT-AAAAAA-ATTTTTCTTTTTAAATTTTTTTGTATA
1 TGGTGCCAGCCATTGACAGGCCACCACTAAAAAAATATTTTTC-CCGTAAA-------G---G
* *
23839290 TTGGTG-CAGGCCATTGACAGGCCAGCACTTGAAAAAAA-AATTTTCCCGTAAAGG
1 T-GGTGCCAG-CCATTGACAGGCCACCAC-T-AAAAAAATATTTTTCCCGTAAAGG
* * **
23839344 TGGTGCCGGCCATTGACAGGCCACCAC-AAAAAAAAATTTCCCCCGTAAAGG
1 TGGTGCCAGCCATTGACAGGCCACCACTAAAAAAATATTTTTCCCGTAAAGG
23839395 TGGTGCC-GACCATTGACAGGCCACCAC
1 TGGTGCCAG-CCATTGACAGGCCACCAC
23839422 AATTTTTTTT
Statistics
Matches: 153, Mismatches: 21, Indels: 39
0.72 0.10 0.18
Matches are distributed among these distances:
50 14 0.09
51 48 0.31
52 23 0.15
53 21 0.14
54 3 0.02
57 1 0.01
58 1 0.01
61 4 0.03
62 21 0.14
63 1 0.01
64 4 0.03
65 12 0.08
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (52 bp):
TGGTGCCAGCCATTGACAGGCCACCACTAAAAAAATATTTTTCCCGTAAAGG
Found at i:23839314 original size:114 final size:115
Alignment explanation
Indices: 23839113--23839377 Score: 374
Period size: 115 Copynumber: 2.3 Consensus size: 115
23839103 ACTATGTTAT
* * *
23839113 AGGTGGTGCCAGCTATTGACAGGCCACCAC-CAAAAATTTTTTTTTTTAAAATTTTTTCATATAT
1 AGGTGGTGCCAGCCATTGACAGGCCACCACAAAAAAATTTTTCTTTTTAAAATTTTTTCATATAT
* * *****
23839177 TGGTGCCGGTCATTGACAGGCCAGCACCT-AAAATTTTTTTTTCCCGTAA
66 TGGTGCAGGCCATTGACAGGCCAGCACCTGAAAAAAAAATTTTCCCGTAA
**
23839226 AGGTGGTGCCAGCCATTGACAGGCCACCACTAAAAAAATTTTTCTTTTT-AAATTTTTTTGTATA
1 AGGTGGTGCCAGCCATTGACAGGCCACCAC-AAAAAAATTTTTCTTTTTAAAATTTTTTCATATA
*
23839290 TTGGTGCAGGCCATTGACAGGCCAGCACTTGAAAAAAAAATTTTCCCGTAA
65 TTGGTGCAGGCCATTGACAGGCCAGCACCTGAAAAAAAAATTTTCCCGTAA
*
23839341 AGGTGGTGCCGGCCATTGACAGGCCACCACAAAAAAA
1 AGGTGGTGCCAGCCATTGACAGGCCACCACAAAAAAA
23839378 AATTTCCCCC
Statistics
Matches: 135, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 29 0.21
114 47 0.35
115 59 0.44
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (115 bp):
AGGTGGTGCCAGCCATTGACAGGCCACCACAAAAAAATTTTTCTTTTTAAAATTTTTTCATATAT
TGGTGCAGGCCATTGACAGGCCAGCACCTGAAAAAAAAATTTTCCCGTAA
Found at i:23839355 original size:53 final size:51
Alignment explanation
Indices: 23839291--23839423 Score: 196
Period size: 51 Copynumber: 2.6 Consensus size: 51
23839281 TTTTGTATAT
* * *
23839291 TGGTGCAGGCCATTGACAGGCCAGCACTTGAAAAAAAAATTT-TCCCGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCACCAC---AAAAAAAAATTTCCCCCGTAAAGG
23839344 TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAAATTTCCCCCGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAAATTTCCCCCGTAAAGG
*
23839395 TGGTGCCGACCATTGACAGGCCACCACAA
1 TGGTGCCGGCCATTGACAGGCCACCACAA
23839424 TTTTTTTTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 12 0.16
51 38 0.51
53 25 0.33
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.17
Consensus pattern (51 bp):
TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAAATTTCCCCCGTAAAGG
Found at i:23839668 original size:114 final size:111
Alignment explanation
Indices: 23839463--23840066 Score: 640
Period size: 111 Copynumber: 5.4 Consensus size: 111
23839453 TGTCGACCTG
* * *
23839463 TTTTTTTCTCGTAAAGGTGGTGTC-AGCCATTCACAGGCCACCACCAAAAAAAAAATATTTTTTT
1 TTTTTTTCCCGTAAAGGTGGTGTCGA-CCATTGACAGGCCACCACC---AAAAAAATTTTTTTTT
* * *
23839527 -AATTTTTTCGTATACTGGTGTCGGCCATTGACAGACCAGCACTAGAAATT
62 AAATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCAGAAA-T
* * *
23839577 TTTTTTTTCCGTAAAGGTGGCGTCGACCATAGACAGGCCACCACCAAAAAAATTTATTTTTTAAA
1 TTTTTTTCCCGTAAAGGTGGTGTCGACCATTGACAGGCCACCACCAAAAAAATTT-TTTTTT-AA
* * * * *
23839642 ATTTTTTCGTATATTGGTGCCAGCCATTGACAGACTAGCACCCGAAAT
64 ATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCAGAAAT
* * * *
23839690 TTTTTTT-CCGTAAAGGTGGTGCCGGCCATTGACAGGCCACCACTAAAAAAAATTGTTTTATT-A
1 TTTTTTTCCCGTAAAGGTGGTGTCGACCATTGACAGGCCACCAC-CAAAAAAATT-TTTTTTTAA
* * *
23839753 ATTTTTTCGTATACTGGTGCCGGGCATTGACAGGCCAGCACCCAAAAAAAA
64 ATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCA-CC--AGAAAT
* * *
23839804 ATTTTTTCCCTGTAAAGGTGGTGCCGACCATTGACAGGCCACCA-C----TAATTTTTTTTTAAA
1 TTTTTTTCCC-GTAAAGGTGGTGTCGACCATTGACAGGCCACCACCAAAAAAATTTTTTTTTAAA
* * *
23839864 TTTTTTCGTATACTAGTGCCAGCCATTGACAGGCCAGCACCTGAAAATT
65 TTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCAG-AAA-T
* * * *
23839913 TTTTTTTCCCTGTAAAAGTGGTGTCGGCCATTGACAGGCCACCGCC---AAAATTTTTTTTTTAA
1 TTTTTTTCCC-GTAAAGGTGGTGTCGACCATTGACAGGCCACCACCAAAAAAATTTTTTTTTAAA
* *
23839975 TTTTTTCGTATACTGGTGCCGGCCATTAACAGGCCAGCACCCGAAAT
65 TTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCAGAAAT
* * *
23840022 TTTTTTTCCCATAAAGGTGGTG-CTGGCCATTGACAGGCCAGCACC
1 TTTTTTTCCCGTAAAGGTGGTGTC-GACCATTGACAGGCCACCACC
23840067 CGAAAATTTT
Statistics
Matches: 421, Mismatches: 52, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
107 1 0.00
108 32 0.08
109 58 0.14
110 46 0.11
111 97 0.23
112 40 0.10
113 22 0.05
114 90 0.21
115 3 0.01
116 32 0.08
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (111 bp):
TTTTTTTCCCGTAAAGGTGGTGTCGACCATTGACAGGCCACCACCAAAAAAATTTTTTTTTAAAT
TTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCAGAAAT
Found at i:23839988 original size:221 final size:219
Alignment explanation
Indices: 23839463--23840075 Score: 673
Period size: 221 Copynumber: 2.7 Consensus size: 219
23839453 TGTCGACCTG
* * * * * *
23839463 TTTTTTTCTCGTAAAGGTGGTGTCAGCCATTCACAGGCCACCACCAAAAAAAAAATATTTTTTTA
1 TTTTTTTC-CGTAAAAGTGGTGCCGGCCATTGACAGGCCACCA-C---AAAAAATTGTTTTTTTA
* * * * *
23839528 ATTTTTTCGTATACTGGTGTCGGCCATTGACAGACCAGCA-CTAGAAATTTTTTTTTTCCGTAAA
61 ATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCA-AAAATTTTTTTTCCCGTAAA
* * * *
23839592 GGTGGCGTCGACCATAGACAGGCCACCACCAAAAAAATTTATTTTTTAAAATTTTTTCGTATATT
125 GGTGGTGCCGACCATTGACAGGCCACCACC---AAAATTTATTTTTTAAAATTTTTTCGTATACT
* *
23839657 GGTGCCAGCCATTGACAGACTAGCACCCGAAAT
187 AGTGCCAGCCATTGACAGACCAGCACCCGAAAT
* *
23839690 TTTTTTTCCGTAAAGGTGGTGCCGGCCATTGACAGGCCACCACTAAAAAAAATTGTTTTATTAAT
1 TTTTTTTCCGTAAAAGTGGTGCCGGCCATTGACAGGCCACCAC---AAAAAATTGTTTTTTTAAT
* **
23839755 TTTTTCGTATACTGGTGCCGGGCATTGACAGGCCAGCACCCAAAAAAAAATTTTTTCCCTGTAAA
63 TTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCC--AAAAATTTTTTTTCCC-GTAAA
*
23839820 GGTGGTGCCGACCATTGACAGGCCACCA-C-TAATTT-TTTTTT-AAATTTTTTCGTATACTAGT
125 GGTGGTGCCGACCATTGACAGGCCACCACCAAAATTTATTTTTTAAAATTTTTTCGTATACTAGT
* *
23839881 GCCAGCCATTGACAGGCCAGCACCTGAAAATT
190 GCCAGCCATTGACAGACCAGCACCCG-AAA-T
* * * *
23839913 TTTTTTTCCCTGTAAAAGTGGTGTCGGCCATTGACAGGCCACCGC-CAAAATTTTTTTTTTAATT
1 TTTTTTT-CC-GTAAAAGTGGTGCCGGCCATTGACAGGCCACCACAAAAAATTGTTTTTTTAATT
* * *
23839977 TTTTCGTATACTGGTGCCGGCCATTAACAGGCCAGCACCC-GAAATTTTTTTTCCCATAAAGGTG
64 TTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTCCCGTAAAGGTG
* * *
23840041 GTGCTGGCCATTGACAGGCCAGCACCCGAAAATTT
129 GTGCCGACCATTGACAGGCCACCA-CC-AAAATTT
23840076 TCTTTTCTCG
Statistics
Matches: 334, Mismatches: 40, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
217 29 0.09
218 12 0.04
219 1 0.00
221 100 0.30
222 9 0.03
223 13 0.04
224 2 0.01
225 85 0.25
226 32 0.10
227 20 0.06
228 31 0.09
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (219 bp):
TTTTTTTCCGTAAAAGTGGTGCCGGCCATTGACAGGCCACCACAAAAAATTGTTTTTTTAATTTT
TTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTCCCGTAAAGGTGGT
GCCGACCATTGACAGGCCACCACCAAAATTTATTTTTTAAAATTTTTTCGTATACTAGTGCCAGC
CATTGACAGACCAGCACCCGAAAT
Found at i:23840050 original size:51 final size:51
Alignment explanation
Indices: 23839988--23840130 Score: 209
Period size: 53 Copynumber: 2.8 Consensus size: 51
23839978 TTTCGTATAC
23839988 TGGTGCCGGCCATTAACAGGCCAGCACCCGAAATTTTTTTTCCCATAAAGG
1 TGGTGCCGGCCATTAACAGGCCAGCACCCGAAATTTTTTTTCCCATAAAGG
* * * *
23840039 TGGTGCTGGCCATTGACAGGCCAGCACCCGAAAATTTTCTTTTCTCGTAAAGG
1 TGGTGCCGGCCATTAACAGGCCAGCACCCG-AAATTTT-TTTTCCCATAAAGG
*
23840092 TGGTGCCGGCCATTAACTGGCCAGCA-CC-AAATTTTTTTT
1 TGGTGCCGGCCATTAACAGGCCAGCACCCGAAATTTTTTTT
23840131 TCTTTTTGTT
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
49 4 0.05
50 7 0.08
51 28 0.34
52 9 0.11
53 35 0.42
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (51 bp):
TGGTGCCGGCCATTAACAGGCCAGCACCCGAAATTTTTTTTCCCATAAAGG
Found at i:23840103 original size:53 final size:52
Alignment explanation
Indices: 23839988--23840132 Score: 197
Period size: 51 Copynumber: 2.8 Consensus size: 52
23839978 TTTCGTATAC
* *
23839988 TGGTGCCGGCCATTAACAGGCCAGCACCCG-AAATTTTTTTTCCCATAAAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCGAAAATTTTTTTTCCCGTAAAGG
* *
23840039 TGGTGCTGGCCATTGACAGGCCAGCACCCGAAAATTTTCTTTTCTCGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCGAAAATTTT-TTTTCCCGTAAAGG
* * *
23840092 TGGTGCCGGCCATTAACTGGCCAGCA-CC-AAATTTTTTTTTC
1 TGGTGCCGGCCATTGACAGGCCAGCACCCGAAAATTTTTTTTC
23840133 TTTTTGTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
50 5 0.06
51 35 0.42
52 9 0.11
53 35 0.42
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (52 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCCGAAAATTTTTTTTCCCGTAAAGG
Found at i:23843761 original size:91 final size:91
Alignment explanation
Indices: 23843598--23843802 Score: 279
Period size: 91 Copynumber: 2.3 Consensus size: 91
23843588 AACCCGGACA
* * * * *
23843598 CTAT-AGTTTGTGGATGAACCACTAGTGTTTGTTGGTTAATATATTGCCAGTAGGTTGTGAATGC
1 CTATAAGTTTGTGGATGAACCACCAATGTTTGTAGGTTAATACACTGCCAGTAGGTTGTGAATGC
* *
23843662 ACATCGTATTTGCATATAAAAGTTGT
66 ACAACGTATTTGCAGATAAAAGTTGT
** *
23843688 CTATAAGTTTGTGGATGAACTGCCAATGTTTGTAGGTTAATACACTGCTAGTAGGTTGTGAATGC
1 CTATAAGTTTGTGGATGAACCACCAATGTTTGTAGGTTAATACACTGCCAGTAGGTTGTGAATGC
23843753 ACAACGTATTTGCAGATAAAAGTTGT
66 ACAACGTATTTGCAGATAAAAGTTGT
* *
23843779 -TACTAAATTTGTGGATAAACCACC
1 CTA-TAAGTTTGTGGATGAACCACC
23843803 TCTTTTCAAT
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
90 6 0.06
91 93 0.94
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (91 bp):
CTATAAGTTTGTGGATGAACCACCAATGTTTGTAGGTTAATACACTGCCAGTAGGTTGTGAATGC
ACAACGTATTTGCAGATAAAAGTTGT
Found at i:23843915 original size:38 final size:39
Alignment explanation
Indices: 23843873--23843971 Score: 130
Period size: 38 Copynumber: 2.6 Consensus size: 39
23843863 TAAATAGTAA
*
23843873 ACATGCTTAACATGTATTCGGTTT-AACAGTAACAATAG
1 ACATGCTTAACATGTATTCGGTTTCAACAATAACAATAG
* *
23843911 ACATGCTTATCATGTATTC-ATTTCAACAATAACAATAG
1 ACATGCTTAACATGTATTCGGTTTCAACAATAACAATAG
* * *
23843949 GCATGTTTAATATGTATTCGGTT
1 ACATGCTTAACATGTATTCGGTT
23843972 CAATAGTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 3 0.06
38 46 0.90
39 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (39 bp):
ACATGCTTAACATGTATTCGGTTTCAACAATAACAATAG
Found at i:23849167 original size:58 final size:58
Alignment explanation
Indices: 23848986--23849173 Score: 175
Period size: 58 Copynumber: 3.2 Consensus size: 58
23848976 TTTGACAATT
* * * * *
23848986 TTAGGTACCAAATTGGACAGAGAAAGCTTAGGTCCCAAATTATAAAAAAGTGTCAAG-
1 TTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAATTAGAAAAAAATGTCAAGA
* * * * * * * * *
23849043 TTCAAGTGCCACATTGAACCCCAAAAAAGCTTAGCTACCAAAATAG-GAAAATTGTCAA-A
1 TT-AGGTACCAAATTGGA--CAAAAAAAGCTTAGGTACCAAATTAGAAAAAAATGTCAAGA
*
23849102 TTTAGGTACCATATTGGACAAAAAAAGCTTAGGTACCAAATTAGAAAAAAATGTCAAGA
1 -TTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAATTAGAAAAAAATGTCAAGA
*
23849161 TTAGGTACTAAAT
1 TTAGGTACCAAAT
23849174 GTTATATTCA
Statistics
Matches: 100, Mismatches: 24, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
57 25 0.25
58 32 0.32
59 22 0.22
60 21 0.21
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (58 bp):
TTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAATTAGAAAAAAATGTCAAGA
Found at i:23852065 original size:22 final size:22
Alignment explanation
Indices: 23852040--23852085 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
23852030 TTAGTAATAT
*
23852040 AATAGCAAAATGACAACAAAAC
1 AATAGCAAAATAACAACAAAAC
*
23852062 AATATCAAAATAACAACAAAAC
1 AATAGCAAAATAACAACAAAAC
23852084 AA
1 AA
23852086 CAGTGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.67, C:0.17, G:0.04, T:0.11
Consensus pattern (22 bp):
AATAGCAAAATAACAACAAAAC
Found at i:23852566 original size:25 final size:25
Alignment explanation
Indices: 23852531--23852579 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
23852521 GAATTCAGAT
* *
23852531 TTTTTTTTTTAACTTGGTACTTAAG
1 TTTTTTATTTAACTTGATACTTAAG
*
23852556 TTTTTTATTTAATTTGATACTTAA
1 TTTTTTATTTAACTTGATACTTAA
23852580 ATATAGTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.61
Consensus pattern (25 bp):
TTTTTTATTTAACTTGATACTTAAG
Found at i:23853200 original size:29 final size:28
Alignment explanation
Indices: 23853106--23853218 Score: 104
Period size: 29 Copynumber: 3.9 Consensus size: 28
23853096 TTTGACAAAT
23853106 TTAGGTACCAAATT-GAACAAAAAAAAGC
1 TTAGGTACCAAATTGGAA-AAAAAAAAGC
* * ** *
23853134 TTAGCTACCAAAATAGGAAAAATTGTCAAA-T
1 TTAGGTACC-AAATTGGAAAAA---AAAAAGC
23853165 TTAGGTACCAAATTGGACAAAAAAAAAGC
1 TTAGGTACCAAATTGGA-AAAAAAAAAGC
*
23853194 TTAGGTACCAAATTAGAAAAAAAAA
1 TTAGGTACCAAATTGGAAAAAAAAA
23853219 TGCCAAAATT
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
28 19 0.28
29 23 0.34
30 10 0.15
31 12 0.18
32 3 0.04
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.20
Consensus pattern (28 bp):
TTAGGTACCAAATTGGAAAAAAAAAAGC
Found at i:23853213 original size:59 final size:59
Alignment explanation
Indices: 23853101--23853215 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 59
23853091 TGATATTTGA
23853101 CAAATTTAGGTACCAAATTGAACAAAAAAAAGCTTAGCTACCAAAATAGGAAAAATTGT
1 CAAATTTAGGTACCAAATTGAACAAAAAAAAGCTTAGCTACCAAAATAGGAAAAATTGT
* * * *
23853160 CAAATTTAGGTACCAAATTGGACAAAAAAAAAGCTTAGGTACCAAATTAGAAAAAA
1 CAAATTTAGGTACCAAATTGAAC-AAAAAAAAGCTTAGCTACCAAAATAGGAAAAA
23853216 AAATGCCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 22 0.43
60 29 0.57
ACGTcount: A:0.52, C:0.13, G:0.14, T:0.21
Consensus pattern (59 bp):
CAAATTTAGGTACCAAATTGAACAAAAAAAAGCTTAGCTACCAAAATAGGAAAAATTGT
Found at i:23854586 original size:92 final size:92
Alignment explanation
Indices: 23854405--23854589 Score: 239
Period size: 92 Copynumber: 2.0 Consensus size: 92
23854395 GAACTTCTCG
* * *
23854405 GAACTTCTTATTAGCAAGATTATTCGGCAACTGCTGGTTGCTGCTATTCAATTGCTTTTTTTTCG
1 GAACTTCTTACTAACAAGATTATTCGGCAACTGCTGGTTGCTGCTATTCAATTGCTTTTTTTTCA
*
23854470 GCACTGCTCCGAACTTCTTCTTTTTTT
66 GCACTGATCCGAACTTCTTCTTTTTTT
* *
23854497 GAACTTCTTACTAACAAGATT-TCTTGGCAACTGTTGGTTGCTGCTATTCAATTG-TTGTTTTTC
1 GAACTTCTTACTAACAAGATTAT-TCGGCAACTGCTGGTTGCTGCTATTCAATTGCTT-TTTTT-
* * * *
23854560 TCAGTACTTATCTGAACTTCTTTTTTTTTT
63 TCAGCACTGATCCGAACTTCTTCTTTTTTT
23854590 TTTTAACTTC
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
91 3 0.04
92 53 0.66
93 24 0.30
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.47
Consensus pattern (92 bp):
GAACTTCTTACTAACAAGATTATTCGGCAACTGCTGGTTGCTGCTATTCAATTGCTTTTTTTTCA
GCACTGATCCGAACTTCTTCTTTTTTT
Found at i:23855107 original size:24 final size:24
Alignment explanation
Indices: 23855080--23855135 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
23855070 TCTTCTAGTT
*
23855080 AAACTTTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTGTTTCAATC
23855104 AAACTCTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTGTTTCAATC
23855128 AAACTCTG
1 AAACTCTG
23855136 ATTAGTCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (24 bp):
AAACTCTGTTTATTTGTTTCAATC
Found at i:23858218 original size:17 final size:17
Alignment explanation
Indices: 23858198--23858240 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
23858188 TATTTTTAAA
*
23858198 TTTTAAAGAGTTTTTAT
1 TTTTAAAAAGTTTTTAT
*
23858215 TTTTATAAAATTTTTTAT
1 TTTTA-AAAAGTTTTTAT
23858233 TTTTAAAA
1 TTTTAAAA
23858241 TTTATGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
TTTTAAAAAGTTTTTAT
Found at i:23864391 original size:122 final size:122
Alignment explanation
Indices: 23864194--23864426 Score: 326
Period size: 122 Copynumber: 1.9 Consensus size: 122
23864184 TACCTTTAGA
*
23864194 ACTTCTATCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCCCCTCTAGCACTTCTACCGATACT
1 ACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCCCCTCTAGCACTTCTACCGATACT
** **
23864259 CTGCTAGGTTCTACTGATACCAGTTGAAACCAC-CAGAGTTCTACCGCTTCCTTGAGG
66 CTAATAGGTTCTACTGATACCAAATGAAACC-CTCAGAGTTCTACCGCTTCCTTGAGG
* * * *
23864316 ACTTCTACCAAAACAAGTCAAAATAGTGGGCAAAGTTTAGCCTCC-CTTGCACTTCTACCGATAC
1 ACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCC-CCTCTAGCACTTCTACCGATAC
* * *
23864380 TCTAATGGGTTCTACTGATACTAAATGAAACCCTCTGAGTTCTACCG
65 TCTAATAGGTTCTACTGATACCAAATGAAACCCTCAGAGTTCTACCG
23864427 ATACAGGAGA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
121 1 0.01
122 94 0.97
123 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (122 bp):
ACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCCCCTCTAGCACTTCTACCGATACT
CTAATAGGTTCTACTGATACCAAATGAAACCCTCAGAGTTCTACCGCTTCCTTGAGG
Found at i:23865697 original size:56 final size:57
Alignment explanation
Indices: 23865635--23865748 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
23865625 GATTATGAGT
23865635 TGTTTAAAGAAAAA-CGAAAGAAAGAATCAAGGAGATGTCCGACCGCTTCACCCATA
1 TGTTTAAAGAAAAACCGAAAGAAAGAATCAAGGAGATGTCCGACCGCTTCACCCATA
23865691 TGTTTAAAGAAAAACCGAAAGAAAGAATCAAGGAGATGTCCGACCGCTTCACCCATA
1 TGTTTAAAGAAAAACCGAAAGAAAGAATCAAGGAGATGTCCGACCGCTTCACCCATA
23865748 T
1 T
23865749 CATCAATGGT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 14 0.25
57 43 0.75
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.18
Consensus pattern (57 bp):
TGTTTAAAGAAAAACCGAAAGAAAGAATCAAGGAGATGTCCGACCGCTTCACCCATA
Found at i:23868351 original size:40 final size:39
Alignment explanation
Indices: 23868290--23868419 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 39
23868280 ATGTTTAGCA
* *
23868290 TTAGTTTGCGATTCGAGATAGCTTCGGCTATTTATGGCAC
1 TTAGTGTGCGATT-GAAATAGCTTCGGCTATTTATGGCAC
** *
23868330 TTAGTGTGCGATTGATAATAGCTTCAACTATATATATGTCAC
1 TTAGTGTGCGATTGA-AATAGCTTCGGCTAT-T-TATGGCAC
* * * * *
23868372 TTAGTGTGAGATACTGAGATAGCTTTGGCTATGTAAGGCAC
1 TTAGTGTGCGAT--TGAAATAGCTTCGGCTATTTATGGCAC
23868413 TTAGTGT
1 TTAGTGT
23868420 ACGGGATTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
39 2 0.03
40 24 0.33
41 14 0.19
42 18 0.25
43 11 0.15
44 3 0.04
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (39 bp):
TTAGTGTGCGATTGAAATAGCTTCGGCTATTTATGGCAC
Found at i:23869120 original size:22 final size:22
Alignment explanation
Indices: 23869092--23869492 Score: 175
Period size: 22 Copynumber: 17.5 Consensus size: 22
23869082 TATGATGACA
23869092 AAATGCTGTTCGAATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
* * **
23869114 AAATGCTGTTC-ATTTTTTAGCAT
1 AAATGCTGTTCGA-ATGTT-GGTT
* *
23869137 ACTAATGTTGTCCGAATGTT-GTT
1 A--AATGCTGTTCGAATGTTGGTT
*
23869160 CAAATGCTGTCCGAATGTTGGTT
1 -AAATGCTGTTCGAATGTTGGTT
** * **
23869183 AAATGCTGTTCGTTTTTTAGCAT
1 AAATGCTGTTCGAATGTT-GGTT
* *
23869206 ACTAATGATG-TCTGAATGTTGTTT
1 A--AATGCTGTTC-GAATGTTGGTT
*
23869230 AAATGATGTTCGAATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
* *
23869252 AAATGTTGTCCGAATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
* * **
23869274 AAATGCTGTTC-ATTTTCTAGCAT
1 AAATGCTGTTCGAATGT-T-GGTT
*
23869297 ACTAATGCTGTCCGAATGTTGGTT
1 A--AATGCTGTTCGAATGTTGGTT
* * ** * **
23869321 AAATACTGTTTGTTTTTTTAGCAT
1 AAATGCTGTTCG-AATGTT-GGTT
*
23869345 ACTAATGCTGTCCGAATGTTAGG-T
1 A--AATGCTGTTCGAATGTT-GGTT
*
23869369 AAATGCTGTCCGAATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
* **
23869391 AAATGCTGTCCTTATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
* * **
23869413 AAATGCTGTTC-ATTTTTTAGCAT
1 AAATGCTGTTCGA-ATGTT-GGTT
* * *
23869436 ACTAATGTTGTCCGAATGTTGTTT
1 A--AATGCTGTTCGAATGTTGGTT
* *
23869460 AAATGATGTTCAAATGTTGGTT
1 AAATGCTGTTCGAATGTTGGTT
23869482 AAATGCTGTTC
1 AAATGCTGTTC
23869493 ATTTTTTAGC
Statistics
Matches: 281, Mismatches: 71, Indels: 54
0.69 0.17 0.13
Matches are distributed among these distances:
21 6 0.02
22 177 0.63
23 21 0.07
24 17 0.06
25 47 0.17
26 13 0.05
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (22 bp):
AAATGCTGTTCGAATGTTGGTT
Found at i:23869156 original size:11 final size:11
Alignment explanation
Indices: 23869140--23869179 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
23869130 TTAGCATACT
23869140 AATGTTGTCCG
1 AATGTTGTCCG
* *
23869151 AATGTTGTTCA
1 AATGTTGTCCG
*
23869162 AATGCTGTCCG
1 AATGTTGTCCG
23869173 AATGTTG
1 AATGTTG
23869180 GTTAAATGCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.38
Consensus pattern (11 bp):
AATGTTGTCCG
Found at i:23869203 original size:69 final size:70
Alignment explanation
Indices: 23869092--23869399 Score: 324
Period size: 69 Copynumber: 4.4 Consensus size: 70
23869082 TATGATGACA
* * *
23869092 AAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAGCATACTAATGTTGTCCGAATGTT
1 AAATGCTGTCCGAATGTTGGTTAAATGCTGTTCGTTTTTTAGCATACTAATGCTGTCCGAATGTT
23869157 -GTTC
66 AGTTC
* *
23869161 AAATGCTGTCCGAATGTTGGTTAAATGCTGTTCGTTTTTTAGCATACTAATGATGTCTGAATGTT
1 AAATGCTGTCCGAATGTTGGTTAAATGCTGTTCGTTTTTTAGCATACTAATGCTGTCCGAATGTT
*
23869226 -GTTT
66 AGTTC
* * * * ** * ** * * *
23869230 AAATGATGTTCGAATGTTGGTTAAATGTTGTCCGAATGTT-GGTTA--AATGCTGTTC-ATTTTC
1 AAATGCTGTCCGAATGTTGGTTAAATGCTGTTCGTTTTTTAGCATACTAATGCTGTCCGAATGT-
*
23869291 TAGCATAC
65 TAG--TTC
* * *
23869299 TAATGCTGTCCGAATGTTGGTTAAATACTGTTTGTTTTTTTAGCATACTAATGCTGTCCGAATGT
1 AAATGCTGTCCGAATGTTGGTTAAATGCTGTTCG-TTTTTTAGCATACTAATGCTGTCCGAATGT
*
23869364 TAGGT-
65 TAGTTC
23869369 AAATGCTGTCCGAATGTTGGTTAAATGCTGT
1 AAATGCTGTCCGAATGTTGGTTAAATGCTGT
23869400 CCTTATGTTG
Statistics
Matches: 190, Mismatches: 40, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
65 3 0.02
66 8 0.04
67 1 0.01
68 3 0.02
69 125 0.66
70 32 0.17
71 3 0.02
73 12 0.06
74 3 0.02
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (70 bp):
AAATGCTGTCCGAATGTTGGTTAAATGCTGTTCGTTTTTTAGCATACTAATGCTGTCCGAATGTT
AGTTC
Found at i:23869262 original size:91 final size:91
Alignment explanation
Indices: 23869140--23869324 Score: 282
Period size: 91 Copynumber: 2.0 Consensus size: 91
23869130 TTAGCATACT
* * *
23869140 AATGTTGTCCGAATGTTGTTCAAATGCTGTCCGAATGTTGGTTAAATGCTGTTCGTTTTTTAGCA
1 AATGATGTCCGAATGTTGTTCAAATGCTGTCCGAATGTTGGTTAAATGCTGTTCATTTTCTAGCA
* *
23869205 TACTAATGATGTCTGAATGTTGTTTA
66 TACTAATGATGTCCGAATGTTGGTTA
* *
23869231 AATGATGTTCGAATGTTGGTT-AAATGTTGTCCGAATGTTGGTTAAATGCTGTTCATTTTCTAGC
1 AATGATGTCCGAATGTT-GTTCAAATGCTGTCCGAATGTTGGTTAAATGCTGTTCATTTTCTAGC
*
23869295 ATACTAATGCTGTCCGAATGTTGGTTA
65 ATACTAATGATGTCCGAATGTTGGTTA
23869322 AAT
1 AAT
23869325 ACTGTTTGTT
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
91 82 0.96
92 3 0.04
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (91 bp):
AATGATGTCCGAATGTTGTTCAAATGCTGTCCGAATGTTGGTTAAATGCTGTTCATTTTCTAGCA
TACTAATGATGTCCGAATGTTGGTTA
Found at i:23869411 original size:139 final size:138
Alignment explanation
Indices: 23869162--23869463 Score: 462
Period size: 139 Copynumber: 2.2 Consensus size: 138
23869152 ATGTTGTTCA
* *
23869162 AATGCTGTCCGAATGTTGGTTAAATGCTGTTCGTTTTTTAGCATACTAATGATGTCTGAATGTTG
1 AATGCTGTCCGAATGTTGGTTAAATACTGTTCGTTTTTTAGCATACTAATGATGTCCGAATGTTG
* * *
23869227 TTTAAATGATGTTCGAATGTTGGTTAAATGTTGTCCGAATGTTGGTTAAATGCTGTTCATTTTCT
66 TGTAAATGATGTCCGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAAATGCTGTTCATTTTCT
23869292 AGCATACT
131 AGCATACT
* *
23869300 AATGCTGTCCGAATGTTGGTTAAATACTGTTTGTTTTTTTAGCATACTAATGCTGTCCGAATGTT
1 AATGCTGTCCGAATGTTGGTTAAATACTGTTCG-TTTTTTAGCATACTAATGATGTCCGAATGTT
* **
23869365 AG-GTAAATGCTGTCCGAATGTTGGTTAAATGCTGTCCTTATGTTGGTTAAATGCTGTTCATTTT
65 -GTGTAAATGATGTCCGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAAATGCTGTTCATTTT
*
23869429 TTAGCATACT
129 CTAGCATACT
* *
23869439 AATGTTGTCCGAATGTTGTTTAAAT
1 AATGCTGTCCGAATGTTGGTTAAAT
23869464 GATGTTCAAA
Statistics
Matches: 149, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
138 31 0.21
139 117 0.79
140 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (138 bp):
AATGCTGTCCGAATGTTGGTTAAATACTGTTCGTTTTTTAGCATACTAATGATGTCCGAATGTTG
TGTAAATGATGTCCGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAAATGCTGTTCATTTTCT
AGCATACT
Found at i:23869463 original size:91 final size:92
Alignment explanation
Indices: 23869300--23869490 Score: 269
Period size: 91 Copynumber: 2.1 Consensus size: 92
23869290 CTAGCATACT
**
23869300 AATGCTGTCCGAATGTTGGTTAAATACTGTTTGTTTTTTTAGCATACTAATGCTGTCCGAATGTT
1 AATGCTGTCCGAATGTTGGTTAAATACTGTTTCATTTTTTAGCATACTAATGCTGTCCGAATGTT
* *
23869365 AGGTAAATGCTGTCCGAATGTTGGTTA
66 AGGTAAATGATGTCCAAATGTTGGTTA
** * *
23869392 AATGCTGTCCTTATGTTGGTTAAATGCTG-TTCATTTTTTAGCATACTAATGTTGTCCGAATGTT
1 AATGCTGTCCGAATGTTGGTTAAATACTGTTTCATTTTTTAGCATACTAATGCTGTCCGAATGTT
* *
23869456 -GTTTAAATGATGTTCAAATGTTGGTTA
66 AG-GTAAATGATGTCCAAATGTTGGTTA
23869483 AATGCTGT
1 AATGCTGT
23869491 TCATTTTTTA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
90 1 0.01
91 61 0.69
92 26 0.30
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (92 bp):
AATGCTGTCCGAATGTTGGTTAAATACTGTTTCATTTTTTAGCATACTAATGCTGTCCGAATGTT
AGGTAAATGATGTCCAAATGTTGGTTA
Found at i:23869464 original size:69 final size:69
Alignment explanation
Indices: 23869231--23869537 Score: 289
Period size: 69 Copynumber: 4.4 Consensus size: 69
23869221 ATGTTGTTTA
* * * * *
23869231 AATGATGTTCGAATGTTGGTTAAATGTTGTCCGAATGTTGGTTAAATGCTGTTCATTTTCTAGCA
1 AATGCTGTCCGAATGTTGGTTAAATGCTGTCCTAATGTTGGTTAAATGCTGTTCATTTTTTAGCA
23869296 TACT
66 TACT
* ** ** * ** * * *
23869300 AATGCTGTCCGAATGTTGGTTAAATACTGTTTGTTTTTTTAGCATACTAATGCTGTCCGA-ATGT
1 AATGCTGTCCGAATGTTGGTTAAATGCTG-TCCTAATGTT-GGTTA--AATGCTGTTC-ATTTTT
*
23869364 TAG-GTA--
61 TAGCATACT
*
23869370 AATGCTGTCCGAATGTTGGTTAAATGCTGTCCTTATGTTGGTTAAATGCTGTTCATTTTTTAGCA
1 AATGCTGTCCGAATGTTGGTTAAATGCTGTCCTAATGTTGGTTAAATGCTGTTCATTTTTTAGCA
23869435 TACT
66 TACT
* * * * *
23869439 AATGTTGTCCGAATGTTGTTTAAATGATGTTCAAATGTTGGTTAAATGCTGTTCATTTTTTAGCA
1 AATGCTGTCCGAATGTTGGTTAAATGCTGTCCTAATGTTGGTTAAATGCTGTTCATTTTTTAGCA
*
23869504 TATT
66 TACT
* * *
23869508 AATGCTGTCCAAATTGGTGCTTAAATGCTG
1 AATGCTGTCCGAA-TGTTGGTTAAATGCTG
23869538 ATCATTTTTG
Statistics
Matches: 188, Mismatches: 40, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
65 1 0.01
66 14 0.07
67 2 0.01
68 3 0.02
69 104 0.55
70 45 0.24
71 3 0.02
72 2 0.01
73 13 0.07
74 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (69 bp):
AATGCTGTCCGAATGTTGGTTAAATGCTGTCCTAATGTTGGTTAAATGCTGTTCATTTTTTAGCA
TACT
Found at i:23869995 original size:12 final size:12
Alignment explanation
Indices: 23869980--23870007 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23869970 TTTTGATGTA
23869980 TAAATTGTTTTG
1 TAAATTGTTTTG
23869992 TAAATTGTTTTG
1 TAAATTGTTTTG
23870004 TAAA
1 TAAA
23870008 AGATGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (12 bp):
TAAATTGTTTTG
Found at i:23871397 original size:115 final size:115
Alignment explanation
Indices: 23871188--23871538 Score: 675
Period size: 115 Copynumber: 3.0 Consensus size: 115
23871178 AAATAGGCTC
23871188 AAAATAGAGTTTAAAATAAACACTAGATAGAATGATAGTATTTAGATGAATTTTGCAATAAATAT
1 AAAATA-AGTTTAAAATAAACACTAGATAGAATGATAGTATTTAGATGAATTTTGCAATAAATAT
*
23871253 TATGCAAGAAGAACACTTAAAATATATGCAATAATAAACATGTGTTAATTT
65 TATGCAAGAAGAACACTTAAAATATATGCAATAATATACATGTGTTAATTT
23871304 AAAATAAGTTTAAAATAAACACTAGATAGAATGATAGTATTTAGATGAATTTTGCAATAAATATT
1 AAAATAAGTTTAAAATAAACACTAGATAGAATGATAGTATTTAGATGAATTTTGCAATAAATATT
23871369 ATGCAAGAAGAACACTTAAAATATATGCAATAATATACATGTGTTAATTT
66 ATGCAAGAAGAACACTTAAAATATATGCAATAATATACATGTGTTAATTT
*
23871419 AAAATAAGTTTAAAATAAACACTAGATAGAATGATAGTATTTAGATGAATTTTGTAATAAATATT
1 AAAATAAGTTTAAAATAAACACTAGATAGAATGATAGTATTTAGATGAATTTTGCAATAAATATT
23871484 ATGCAAGAAGAACACTTAAAATATATGCAATAATATACATGTGTTAATTT
66 ATGCAAGAAGAACACTTAAAATATATGCAATAATATACATGTGTTAATTT
23871534 AAAAT
1 AAAAT
23871539 CAGTAATACA
Statistics
Matches: 233, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
115 227 0.97
116 6 0.03
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (115 bp):
AAAATAAGTTTAAAATAAACACTAGATAGAATGATAGTATTTAGATGAATTTTGCAATAAATATT
ATGCAAGAAGAACACTTAAAATATATGCAATAATATACATGTGTTAATTT
Found at i:23873383 original size:100 final size:100
Alignment explanation
Indices: 23873207--23873393 Score: 250
Period size: 100 Copynumber: 1.9 Consensus size: 100
23873197 AACTTTTGGA
* * *
23873207 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTTGGGCAAACAAGATTCATCG
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTGGGGCAAACAAGATTCACCG
*
23873272 TCGTAGCTTTAATCTATTCCATTGCACCATCAAGG
66 TCATAGCTTTAATCTATTCCATTGCACCATCAAGG
* ** * *
23873307 AAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTGGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTGGGGCAAACAAGATTCACCG
* * *
23873372 AT-ATGGTTTTAATCTGTTCCAT
66 -TCATAGCTTTAATCTATTCCAT
23873394 GCATCGCCTA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
100 73 0.99
101 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (100 bp):
AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTGGGGCAAACAAGATTCACCG
TCATAGCTTTAATCTATTCCATTGCACCATCAAGG
Found at i:23873554 original size:44 final size:44
Alignment explanation
Indices: 23873482--23873885 Score: 135
Period size: 44 Copynumber: 8.8 Consensus size: 44
23873472 ATCTAATGTG
* * *
23873482 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGAGAGATAAGATCCTTTATTTCA
* * * *
23873526 ATCTGCTCCACTGTAATCTCAGTGAGATAGGAT--TACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGAGAGATAAGATCCT-TTA-TTTCA
* * * *
23873570 ATCTGCTCCGCTATAATCTCA-AGGAGATAAGATTTCTGGCTTCAATATGATGCG
1 ATCTGCTCCACTGTAATCTCAGA-GAGATAAGA--TC---CTT---TAT--TTCA
* * *
23873624 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGAGAGATAAGATCCTTTATTTCA
* * * *
23873668 ATCCGCTCCACTGTAATCTCAGAGAGATAGGAT--TACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGAGAGATAAGATCCT-TTA-TTTCA
* * * *
23873712 ATCTGCTCC-CTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGATGCG
1 ATCTGCTCCACTGTAATCTCAGAGAGATAAGA--TC---CTT-TAT-T--T-CA
* * * * *
23873765 ATCTACTCTACTATAA-CTTCAAAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGAGAGATAAGATCCTTTATTTCA
** * * * * ***
23873809 ATCCACTCCACTGTAATCTCAGGGTGATAGGATTACTAGCTTT-A
1 ATCTGCTCCACTGTAATCTCAGAGAGATAAGA-TCCTTTATTTCA
* *
23873853 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
1 ATCTGCTCCACTGTAATCTCAGAGAGATAAGAT
23873886 TTCTGGCTTC
Statistics
Matches: 261, Mismatches: 62, Indels: 75
0.66 0.16 0.19
Matches are distributed among these distances:
42 2 0.01
43 24 0.09
44 147 0.56
45 11 0.04
46 4 0.02
47 1 0.00
48 2 0.01
49 6 0.02
50 3 0.01
51 1 0.00
52 5 0.02
53 12 0.05
54 42 0.16
55 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
ATCTGCTCCACTGTAATCTCAGAGAGATAAGATCCTTTATTTCA
Found at i:23873648 original size:142 final size:141
Alignment explanation
Indices: 23873470--23874037 Score: 935
Period size: 142 Copynumber: 4.0 Consensus size: 141
23873460 AGACCTGATG
* * *
23873470 CAATCTAATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCC
1 CAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
* *
23873535 ACTGTAATCTCAGTGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAAGGAGATAA
66 ACTGTAATCTCAG-GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAA
23873600 GATTTCTGGCTT
130 GATTTCTGGCTT
*
23873612 CAATATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 CAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
*
23873677 ACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCTGCTCC-CTGTAATCTTAGGGAGATAA
66 ACTGTAATCTCAG-GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAA
23873741 GATTTCTGGCTT
130 GATTTCTGGCTT
* * *
23873753 CAATCTGATGCGATCTACTCTACTATAACTTCAAAGAGATAAGATCCTTTATTTTAATCCACTCC
1 CAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
* *
23873818 ACTGTAATCTCAGGGTGATAGGATTACTAGCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAA
66 ACTGTAATCTCA-GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAA
23873883 GATTTCTGGCTT
130 GATTTCTGGCTT
*
23873895 CAATCTGATACGATCTACTCTACTGTAACTTC--AGAGATAAGATCCTTTATTTTAATCCGCTCC
1 CAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
* *
23873958 ACTGTAATCTCAAGGAGATAGGATTACTAGCTTCCATCTACTCCGCTGTAATCTCAGGGAGATAA
66 ACTGTAATCTC-AGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAA
*
23874023 GATTACTGGCTT
130 GATTTCTGGCTT
23874035 CAA
1 CAA
23874038 CCTACTCCAT
Statistics
Matches: 400, Mismatches: 23, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
140 103 0.26
141 131 0.33
142 166 0.41
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (141 bp):
CAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
ACTGTAATCTCAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAG
ATTTCTGGCTT
Found at i:23873739 original size:43 final size:44
Alignment explanation
Indices: 23873525--23874070 Score: 202
Period size: 44 Copynumber: 11.8 Consensus size: 44
23873515 CCTTTATTTT
* *
23873525 AATCTGCTCCACTGTAATCTCAGTGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTC
* * * *
23873569 AATCTGCTCCGCTATAATCTCA-AGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGA-GAGATAAGATTACTAGCTTC
* * * *
23873613 AATATGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 -A-AT-CT--G--CT-C-C-ACTGTAATC-TCAGAGAGATAAGAT--TACTAGCTTC
* *
23873667 AATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTC
* * * *
23873711 AATCTGCTCC-CTGTAATCTTAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTC
* * * * * *
23873754 AATCTGATGCGATCTACTCTACTATAACTTCAAAGAGATAAGATCCT-TTA-TTTT
1 AATC---TGC--TCCACTGTA--AT--C-TCAGAGAGATAAGAT--TACTAGCTTC
** * * * *
23873808 AATCCACTCCACTGTAATCTCAGGGTGATAGGATTACTAGCTTT
1 AATCTGCTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTC
* * * *
23873852 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTC
* * *
23873896 AATCTGATACGATCTACTCTACTGTAA-CTTC--AGAGATAAGATCCT-TTA-TTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGAGAGATAAGAT--TACTAGCTTC
* *
23873948 AATCCGCTCCACTGTAATCTCA-AGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGA-GAGATAAGATTACTAGCTTC
* * * * *
23873992 CATCTACTCCGCTGTAATCTCAGGGAGATAAGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTC
* * * * *
23874036 AACCTACTCCATTGTAA-CACCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGAGAGATAAGATT
23874071 CACAACTTCC
Statistics
Matches: 374, Mismatches: 75, Indels: 106
0.67 0.14 0.19
Matches are distributed among these distances:
42 12 0.03
43 42 0.11
44 199 0.53
45 6 0.02
46 6 0.02
47 7 0.02
48 2 0.01
49 14 0.04
51 7 0.02
52 20 0.05
53 7 0.02
54 47 0.13
55 3 0.01
56 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTC
Found at i:23874353 original size:131 final size:131
Alignment explanation
Indices: 23874115--23874786 Score: 940
Period size: 131 Copynumber: 5.2 Consensus size: 131
23874105 CACTGTAATC
* * * * * * * * *
23874115 TCAGGGAGATAAGACCTGTGGCTTAAATCTGCTTCCTTAC-ACT--TGAAGATAAGATTTGCCGT
1 TCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCAT
* * * * *
23874177 CATCGATCTGCT-CAGCTATTGCCTAGGGAGACAAGTTCTGCAATTTCCAACCTATTCCACTGCT
66 CTTCGATCTGCTCCA-CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
23874241 GG
130 GG
*
23874243 TCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCCGGGGAAGATAAGATTCGCCAT
1 TCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCAT
*
23874308 CTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
23874373 G
131 G
23874374 TCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCAT
1 TCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCAT
* * * *
23874439 CTTTGATCTGCTCCACTACTACTTAGGGAGACAAGAT-TTTCAATTTCCAACCTACTCCACTGCT
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGT-AATTTCCAACCTATTCCACTGCT
**
23874503 TA
130 GG
* * *
23874505 CCAGGGACATAGGACGTATGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCTCCAT
1 TCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCAT
* * *
23874570 CTTCGATTTGCTCCGCTACTGCTTAGAGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
23874635 G
131 G
* * *
23874636 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATGAGATTCGCCGT
1 TCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCAT
* * * *
23874701 CTTCGATCTGCTCCACTACTGCTCAGGGAAACAAGATCTATAATTTCCAACCTACTCCACTGCTG
66 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
*
23874766 A
131 G
* * *
23874767 CCAGGGGCATAGGACTTGTG
1 TCAGGGACATAGGACGTGTG
23874787 ATTTCACCGA
Statistics
Matches: 488, Mismatches: 50, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
128 35 0.07
129 1 0.00
130 2 0.00
131 446 0.91
132 4 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (131 bp):
TCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCAT
CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTG
G
Found at i:23880932 original size:21 final size:22
Alignment explanation
Indices: 23880882--23880932 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
23880872 AAATATACGC
*
23880882 TAACGAATACAAACAATCCATAG
1 TAAC-AATACAAACAATACATAG
23880905 -ATA-AATACAAACAA-ACATAG
1 TA-ACAATACAAACAATACATAG
23880925 TAACAATA
1 TAACAATA
23880933 GCCTCAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
20 6 0.25
21 16 0.67
22 1 0.04
23 1 0.04
ACGTcount: A:0.59, C:0.18, G:0.06, T:0.18
Consensus pattern (22 bp):
TAACAATACAAACAATACATAG
Found at i:23881116 original size:2 final size:2
Alignment explanation
Indices: 23881109--23881136 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23881099 TTTTAAAGAA
23881109 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23881137 GAAATAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23881395 original size:21 final size:21
Alignment explanation
Indices: 23881371--23881411 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23881361 GTAATTGAAT
* *
23881371 GAATAATAATACATGATAAAG
1 GAATAAAAATACATAATAAAG
23881392 GAATAAAAATACATAATAAA
1 GAATAAAAATACATAATAAA
23881412 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.22
Consensus pattern (21 bp):
GAATAAAAATACATAATAAAG
Found at i:23883313 original size:87 final size:87
Alignment explanation
Indices: 23883168--23883637 Score: 694
Period size: 87 Copynumber: 5.4 Consensus size: 87
23883158 CTTGTAATCT
* *
23883168 TCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAAC
* * *
23883233 CGATGGAGGTAAGGCTTTGTTT
66 CGATGGAGGCAAGGCTTCGTTC
* *
23883255 TCGATCTAG-TTCGCTGTTAATGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAA
1 TCGATCT-GCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
23883319 CCGATGGAGGCAAGGCTTTGTTC
65 CCGATGGAGGCAAGGCTTCGTTC
* * * * * * *
23883342 TTGATCTGCTTCACTGTTAATGTAGGAAGGCAAGATTTTCTATCTTTAACCAGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAAC
23883407 CGATGGAGGCAAGGCTTCGTTC
66 CGATGGAGGCAAGGCTTCGTTC
* * *
23883429 TCGATTTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTACAATCTTTAACCAGCTCCACTGCAAC
1 TCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAAC
*
23883494 TGATGGAGGCAAGGCTTCGTTC
66 CGATGGAGGCAAGGCTTCGTTC
*
23883516 TCGATCTGCTTCGCTGTTAACACAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAAC
1 TCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAAC
*
23883580 CGATGGAGGCAA-GATCTCGTTC
66 CGATGGAGGCAAGGCT-TCGTTC
* *
23883602 ACGATCTACTTCGCTGTTAACGCAGGAAGGCAAGAT
1 TCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGAT
23883638 ATGTTTCTTT
Statistics
Matches: 347, Mismatches: 33, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
85 2 0.01
86 74 0.21
87 270 0.78
88 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (87 bp):
TCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAAC
CGATGGAGGCAAGGCTTCGTTC
Found at i:23884886 original size:6 final size:7
Alignment explanation
Indices: 23884836--23884885 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
23884826 CATTAGCCTC
23884836 TTCATTT
1 TTCATTT
*
23884843 TT-ACTCT
1 TTCA-TTT
23884850 TTCATTT
1 TTCATTT
23884857 TTCATTTT
1 TTCA-TTT
23884865 TTCA-TT
1 TTCATTT
*
23884871 CTCATTT
1 TTCATTT
23884878 TTCATTT
1 TTCATTT
23884885 T
1 T
23884886 CTCTTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
6 6 0.17
7 21 0.60
8 8 0.23
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (7 bp):
TTCATTT
Found at i:23885356 original size:14 final size:14
Alignment explanation
Indices: 23885339--23885374 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23885329 TTTTTCTTCT
23885339 TTTTGTTTTTTTGA
1 TTTTGTTTTTTTGA
*
23885353 TTTTGATTTTTTGA
1 TTTTGTTTTTTTGA
23885367 TTTT-TTTT
1 TTTTGTTTT
23885375 GACTTTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 3 0.15
14 17 0.85
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.81
Consensus pattern (14 bp):
TTTTGTTTTTTTGA
Found at i:23897216 original size:112 final size:116
Alignment explanation
Indices: 23897095--23897339 Score: 259
Period size: 122 Copynumber: 2.1 Consensus size: 116
23897085 CCTGGTTCGA
* * *
23897095 TCTATCGATAC-AA-C-C-AGAGTAATACTGA-TACCTTGAGGACTTCTATCGAAACAAGTCAAA
1 TCTATCGATACAAACCACTAGAGTAATAC-CATTACCTTGAGGACTTCTACCAAAACAAGTCAAA
* * * *
23897155 ACAGTGGCCAAAGTTCAACC-CCTCCTGCACTTCAACCGATACTCTACTGGGT
65 ACAGTAGCCAAAGTTCAACCTCC-CCTGCACTTCAACCAATACTCTAATAGGT
**
23897207 TCTATCGATACCAGTTGAAACCACTAGAGTTTTACCATTACCTTGAGGACTTCTACCAAAACAAG
1 TCTATCGATA-C-----AAACCACTAGAGTAATACCATTACCTTGAGGACTTCTACCAAAACAAG
* * *
23897272 TCAAAATAGTAGCCAAAGTTCATCCTCCCCTGCACTTCTACCAATACTCTAATAGGT
60 TCAAAACAGTAGCCAAAGTTCAACCTCCCCTGCACTTCAACCAATACTCTAATAGGT
*
23897329 TCTATTGATAC
1 TCTATCGATAC
23897340 CAAATGAAAC
Statistics
Matches: 108, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
112 10 0.09
113 1 0.01
119 2 0.02
120 1 0.01
121 3 0.03
122 89 0.82
123 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (116 bp):
TCTATCGATACAAACCACTAGAGTAATACCATTACCTTGAGGACTTCTACCAAAACAAGTCAAAA
CAGTAGCCAAAGTTCAACCTCCCCTGCACTTCAACCAATACTCTAATAGGT
Found at i:23897330 original size:122 final size:122
Alignment explanation
Indices: 23897123--23897359 Score: 334
Period size: 122 Copynumber: 1.9 Consensus size: 122
23897113 GTAATACTGA
* * *
23897123 TACCTTGAGGACTTCTATCGAAACAAGTCAAAACAGTGGCCAAAGTTCAACCCCTCCTGCACTTC
1 TACCTTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAACCCCTCCTGCACTTC
* * * **
23897188 AACCGATACTCTACTGGGTTCTATCGATACCAGTTGAAACCACT-AGAGTTTTACCAT
66 AACCAATACTCTAATAGGTTCTATCGATACCAAATGAAACC-CTCAGAGTTTTACCAT
* *
23897245 TACCTTGAGGACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCATCCTCC-CCTGCACTT
1 TACCTTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAACC-CCTCCTGCACTT
* *
23897309 CTACCAATACTCTAATAGGTTCTATTGATACCAAATGAAACCCTCAGAGTT
65 CAACCAATACTCTAATAGGTTCTATCGATACCAAATGAAACCCTCAGAGTT
23897360 CTACTGATAC
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
121 2 0.02
122 97 0.96
123 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (122 bp):
TACCTTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAACCCCTCCTGCACTTC
AACCAATACTCTAATAGGTTCTATCGATACCAAATGAAACCCTCAGAGTTTTACCAT
Found at i:23898825 original size:86 final size:86
Alignment explanation
Indices: 23898677--23898846 Score: 295
Period size: 86 Copynumber: 2.0 Consensus size: 86
23898667 AGTGTTCCAA
* *
23898677 ACGAAGGAAATCTGCAAATAGCATCAGGTGTGTAAGCACCCCACTGTAACTGTAGAAAGGAAAAA
1 ACGAAGGAAATCTGCAAATAGCATCAGGTGTATAAGCAACCCACTGTAACTGTAGAAAGGAAAAA
23898742 GTCGAAAAGCTGAAATACGGC
66 GTCGAAAAGCTGAAATACGGC
* *
23898763 ACGAAGGGAATCTGCAAATAGCATCAGGTGTATAAGCAACCCACTGTAACTGTAGAACGGAAAAA
1 ACGAAGGAAATCTGCAAATAGCATCAGGTGTATAAGCAACCCACTGTAACTGTAGAAAGGAAAAA
*
23898828 GTCGAAAAGTTGAAATACG
66 GTCGAAAAGCTGAAATACG
23898847 ACGTTGAGAC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (86 bp):
ACGAAGGAAATCTGCAAATAGCATCAGGTGTATAAGCAACCCACTGTAACTGTAGAAAGGAAAAA
GTCGAAAAGCTGAAATACGGC
Found at i:23899210 original size:26 final size:27
Alignment explanation
Indices: 23899121--23899232 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
23899111 TTACACTGTT
23899121 ATGACCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * *
23899148 ATGATCGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * *
23899175 ATGATCGAAATACCCCCACA-AGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * *
23899201 ATGACCGAAATACCCTCATAGGATAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
23899228 ATGAC
1 ATGAC
23899233 TGTTATATCC
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 21 0.30
27 50 0.70
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAGA
Found at i:23899210 original size:53 final size:54
Alignment explanation
Indices: 23899121--23899232 Score: 156
Period size: 53 Copynumber: 2.1 Consensus size: 54
23899111 TTACACTGTT
* * * *
23899121 ATGACCGAAATACCCCCATAGGGTAGAATGATCGAAATACCC-CTATAGGGTAAA
1 ATGACCGAAATACCCCCACAGAGTAGAATGACCGAAATACCCTC-ATAGGATAAA
*
23899175 ATGATCGAAATACCCCCACA-AGTAGAATGACCGAAATACCCTCATAGGATAAA
1 ATGACCGAAATACCCCCACAGAGTAGAATGACCGAAATACCCTCATAGGATAAA
23899228 ATGAC
1 ATGAC
23899233 TGTTATATCC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 32 0.63
54 19 0.37
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (54 bp):
ATGACCGAAATACCCCCACAGAGTAGAATGACCGAAATACCCTCATAGGATAAA
Found at i:23901212 original size:105 final size:105
Alignment explanation
Indices: 23901024--23901215 Score: 276
Period size: 105 Copynumber: 1.8 Consensus size: 105
23901014 AGATTGTTAC
* * *
23901024 GATCTTAAATCAACTAACCTTTGTAAAATCAACTATGAACGTAGCTCATCAAGTTGTTTAAGAGT
1 GATCTTAAATCAACAAACCTTTGTAAAATCAACCATGAACGTAGCTCATCAAGCTGTTTAAGAGT
*
23901089 TGCGATCTTAAACCAGCTAACTTAAAGATGAGTAGGTTGT
66 TGCGATATTAAACCAGCTAACTTAAAGATGAGTAGGTTGT
* * * * * *
23901129 GATCTTAAATCAACAAACCTTTGTAAAATTAGCCGTGAACGTAGGTCATCATGCTGTTTAGGAGT
1 GATCTTAAATCAACAAACCTTTGTAAAATCAACCATGAACGTAGCTCATCAAGCTGTTTAAGAGT
**
23901194 TGCGATATTAAATTAGCTAACT
66 TGCGATATTAAACCAGCTAACT
23901216 CACTTCAATC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
105 75 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (105 bp):
GATCTTAAATCAACAAACCTTTGTAAAATCAACCATGAACGTAGCTCATCAAGCTGTTTAAGAGT
TGCGATATTAAACCAGCTAACTTAAAGATGAGTAGGTTGT
Found at i:23902792 original size:8 final size:8
Alignment explanation
Indices: 23902779--23902812 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
23902769 AAATTTGATT
23902779 TATATACA
1 TATATACA
*
23902787 TATATATA
1 TATATACA
23902795 TATATACA
1 TATATACA
23902803 TATATTACA
1 TATA-TACA
23902812 T
1 T
23902813 GGTAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 18 0.78
9 5 0.22
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (8 bp):
TATATACA
Found at i:23903342 original size:2 final size:2
Alignment explanation
Indices: 23903335--23903359 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23903325 AGGGCATGCT
23903335 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23903360 GTGAGATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23910617 original size:20 final size:20
Alignment explanation
Indices: 23910592--23910635 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
23910582 TTTTTCGTTT
*
23910592 AAAAAAGTAAAAAAGGAAAA
1 AAAAAAGTAAAAAAGCAAAA
*
23910612 AAAAAAGTTAAAAAGCAAAA
1 AAAAAAGTAAAAAAGCAAAA
23910632 AAAA
1 AAAA
23910636 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (20 bp):
AAAAAAGTAAAAAAGCAAAA
Found at i:23911035 original size:9 final size:9
Alignment explanation
Indices: 23911021--23911099 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
23911011 TTTTTTTAGA
23911021 AAAATATAT
1 AAAATATAT
23911030 AAAATATAT
1 AAAATATAT
*
23911039 AAAATTTATT
1 AAAATATA-T
*
23911049 CAAAT-TATT
1 AAAATATA-T
*
23911058 CAAATATTAT
1 AAAATA-TAT
*
23911068 AAAAATATAA
1 -AAAATATAT
* *
23911078 AAAATAAAG
1 AAAATATAT
*
23911087 AAAATTTAT
1 AAAATATAT
23911096 AAAA
1 AAAA
23911100 ACTAAGAATT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
9 42 0.74
10 8 0.14
11 7 0.12
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATATAT
Found at i:23911749 original size:35 final size:34
Alignment explanation
Indices: 23911702--23911777 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
23911692 CCAAAATAAC
*
23911702 AATTTTTTTTTATAAA-TTTTCAAT-ATTTTCAAT
1 AATTTTTTTTTATAAACTTCT-AATAATTTTCAAT
*
23911735 AACTTTTTATTTTATAAACTTCTAATAATTTTTAAT
1 AA-TTTTT-TTTTATAAACTTCTAATAATTTTCAAT
23911771 AATTTTT
1 AATTTTT
23911778 GTATTCTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
33 2 0.05
34 5 0.14
35 17 0.46
36 13 0.35
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (34 bp):
AATTTTTTTTTATAAACTTCTAATAATTTTCAAT
Found at i:23914878 original size:40 final size:39
Alignment explanation
Indices: 23914796--23914889 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
23914786 TTTGAACAAC
*
23914796 AAACGCCGCTAAAAATCGAGCATTAGCTGCGCTTAGCATA
1 AAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTAG-ATA
* * *
23914836 AAACGCCGCTAAAGATCTAGCATTAGCGGCGCTCTTTG-TA
1 AAACGCCGCTAAAAATCGAGCATTAGCGGCG--CTTAGATA
23914876 AAACGCCGC-AAAAA
1 AAACGCCGCTAAAAA
23914890 GTTGAACCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 4 0.09
40 39 0.83
42 4 0.09
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (39 bp):
AAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTAGATA
Found at i:23915253 original size:114 final size:114
Alignment explanation
Indices: 23915068--23915574 Score: 746
Period size: 114 Copynumber: 4.4 Consensus size: 114
23915058 GTTTATTTGT
* * * ** * *
23915068 AAGCGCCGCAGAAA-ATGTTAAACAAAACGCAGCGTACGATCTTGAGGTATACTAGAATTAGTGG
1 AAGCGCTGCA-AAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
* * * * * *
23915132 CGATTATGCAACAATGCCGCTAAAGTACAGTATTAGCAGCGCATTATAAA
65 CGATTATGAAAAAACGCCGCTAAAGCACAGCATTAGCGGCGCATTATAAA
23915182 AAGCGCTGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCTGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
23915247 GCTTATGAAACAACGCCGCTAAAGCACAGCATTAGCGGCGCCTTATAAA
66 GATTATGAAAAAACGCCGCTAAAGCACAGCATTAGCGGCGCATTATAAA
*
23915296 AAGCGCTGCAAAATATCTAAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCTGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * *
23915361 GCTTATGAAAAAACACCGCTAAAGCACAGAATTAGTGGCGCATTATAAA
66 GATTATGAAAAAACGCCGCTAAAGCACAGCATTAGCGGCGCATTATAAA
* *
23915410 AAGCGCTGCAAAATATCTTAAGCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCTGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
23915475 GATTATGAAAAAACGTCACTAAAGCACAGCATTAGCGGCGCCTTATAAA
66 GATTATGAAAAAACGCCGCTAAAGCACAGCATTAGCGGCGCATTATAAA
* *
23915524 AAACGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
1 AAGCGCTGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
23915575 GAGCCAATAG
Statistics
Matches: 358, Mismatches: 34, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
113 3 0.01
114 355 0.99
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (114 bp):
AAGCGCTGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GATTATGAAAAAACGCCGCTAAAGCACAGCATTAGCGGCGCATTATAAA
Found at i:23916301 original size:22 final size:21
Alignment explanation
Indices: 23916273--23916315 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
23916263 TGGTTGTTGT
23916273 TGTTTATGGTTTACGGGTTTAA
1 TGTTTATGGTTTA-GGGTTTAA
23916295 TGTTTATGGTTTAGGGTTTAA
1 TGTTTATGGTTTAGGGTTTAA
23916316 GATTTACAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (21 bp):
TGTTTATGGTTTAGGGTTTAA
Found at i:23916406 original size:7 final size:7
Alignment explanation
Indices: 23916394--23916463 Score: 77
Period size: 7 Copynumber: 10.0 Consensus size: 7
23916384 GTTAATTGAC
23916394 GGGTTTA
1 GGGTTTA
23916401 GGGTTTA
1 GGGTTTA
*
23916408 AGGTTTA
1 GGGTTTA
* *
23916415 TGATTTA
1 GGGTTTA
23916422 GGGTTTA
1 GGGTTTA
23916429 GGGTTTA
1 GGGTTTA
* *
23916436 AGATTTA
1 GGGTTTA
23916443 GGGTTTA
1 GGGTTTA
**
23916450 TAGTTTA
1 GGGTTTA
23916457 GGGTTTA
1 GGGTTTA
23916464 AGATTTACGG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (7 bp):
GGGTTTA
Found at i:23916414 original size:14 final size:14
Alignment explanation
Indices: 23916395--23916479 Score: 93
Period size: 14 Copynumber: 6.1 Consensus size: 14
23916385 TTAATTGACG
23916395 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
* * *
23916409 GGTTTATGATTTAG
1 GGTTTAGGGTTTAA
23916423 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
*
23916437 GATTTAGGGTTTATA
1 GGTTTAGGGTTTA-A
23916452 -GTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
* *
23916465 GATTTACGG-TTAA
1 GGTTTAGGGTTTAA
23916478 GG
1 GG
23916480 CTTATAGTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
13 6 0.10
14 51 0.88
15 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.32, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:23916421 original size:21 final size:21
Alignment explanation
Indices: 23916397--23916449 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
23916387 AATTGACGGG
*
23916397 TTTAGGGTTTAAGGTTTATGA
1 TTTAGGGTTTAAGGTTTAAGA
*
23916418 TTTAGGGTTTAGGGTTTAAGA
1 TTTAGGGTTTAAGGTTTAAGA
23916439 TTTAGGGTTTA
1 TTTAGGGTTTA
23916450 TAGTTTAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (21 bp):
TTTAGGGTTTAAGGTTTAAGA
Found at i:23916434 original size:28 final size:28
Alignment explanation
Indices: 23916394--23916470 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
23916384 GTTAATTGAC
* *
23916394 GGGTTTAGGGTTTAAGGTTTATGATTTA
1 GGGTTTAGGGTTTAAGATTTAGGATTTA
*
23916422 GGGTTTAGGGTTTAAGATTTAGGGTTTA
1 GGGTTTAGGGTTTAAGATTTAGGATTTA
**
23916450 TAGTTTAGGGTTTAAGATTTA
1 GGGTTTAGGGTTTAAGATTTA
23916471 CGGTTAAGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.45
Consensus pattern (28 bp):
GGGTTTAGGGTTTAAGATTTAGGATTTA
Found at i:23916470 original size:7 final size:7
Alignment explanation
Indices: 23916395--23916479 Score: 57
Period size: 7 Copynumber: 12.3 Consensus size: 7
23916385 TTAATTGACG
*
23916395 GGTTTAG
1 GGTTTAA
23916402 GGTTTAA
1 GGTTTAA
*
23916409 GGTTTAT
1 GGTTTAA
* *
23916416 GATTTAG
1 GGTTTAA
*
23916423 GGTTTAG
1 GGTTTAA
23916430 GGTTTAA
1 GGTTTAA
* *
23916437 GATTTAG
1 GGTTTAA
23916444 GGTTTATA
1 GGTTTA-A
*
23916452 -GTTTAG
1 GGTTTAA
23916458 GGTTTAA
1 GGTTTAA
* *
23916465 GATTTAC
1 GGTTTAA
23916472 GG-TTAA
1 GGTTTAA
23916478 GG
1 GG
23916480 CTTATAGTAT
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
6 5 0.08
7 55 0.92
ACGTcount: A:0.24, C:0.01, G:0.32, T:0.44
Consensus pattern (7 bp):
GGTTTAA
Found at i:23916876 original size:21 final size:20
Alignment explanation
Indices: 23916836--23916873 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23916826 AATATATTGA
*
23916836 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
23916856 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
23916874 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:23917415 original size:24 final size:24
Alignment explanation
Indices: 23917387--23917444 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
23917377 AAGCTCATTT
23917387 TTCCCCTCAAAATTTTCCCCAAAA
1 TTCCCCTCAAAATTTTCCCCAAAA
* * *
23917411 TTCCCCTCTAATTTTTCCCTAAAA
1 TTCCCCTCAAAATTTTCCCCAAAA
23917435 TTCCCC-CAAA
1 TTCCCCTCAAA
23917445 TCTAGAACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.33
Consensus pattern (24 bp):
TTCCCCTCAAAATTTTCCCCAAAA
Found at i:23918162 original size:12 final size:11
Alignment explanation
Indices: 23918147--23918253 Score: 51
Period size: 12 Copynumber: 10.6 Consensus size: 11
23918137 CAAAAATTAA
23918147 AAAAAGTATTTT
1 AAAAA-TATTTT
23918159 AAAAATATTTT
1 AAAAATATTTT
23918170 --AAA-A--TT
1 AAAAATATTTT
* *
23918176 AAAAA-AATTA
1 AAAAATATTTT
23918186 AAAAAGTATTTT
1 AAAAA-TATTTT
23918198 AAAAA-ATTTT
1 AAAAATATTTT
23918208 --AAA-A-TTT
1 AAAAATATTTT
**
23918215 -AAAA-ATTAA
1 AAAAATATTTT
23918224 AAAAAGTATTTT
1 AAAAA-TATTTT
*
23918236 AAAAGTATTTT
1 AAAAATATTTT
23918247 AAAAATA
1 AAAAATA
23918254 AAAAAATAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 13 0.17
9 4 0.05
10 15 0.20
11 18 0.24
12 20 0.27
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:23918192 original size:39 final size:40
Alignment explanation
Indices: 23918120--23918267 Score: 205
Period size: 39 Copynumber: 3.7 Consensus size: 40
23918110 ACCAAAAATT
23918120 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATTAAAAAAAGTATTTTAAAAA
23918164 TATTTTAAAATTAAAAAAATT-AAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
* *
23918203 -ATTTTAAAATT-TAAAAATTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
*
23918241 TATTTTAAAAATAAAAAAA-TAAAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAA
23918268 TTTATTATAT
Statistics
Matches: 97, Mismatches: 4, Indels: 11
0.87 0.04 0.10
Matches are distributed among these distances:
37 7 0.07
38 28 0.29
39 36 0.37
40 12 0.12
41 2 0.02
43 6 0.06
44 6 0.06
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:23919301 original size:28 final size:29
Alignment explanation
Indices: 23919269--23919344 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 29
23919259 TCAATCATAT
* *
23919269 CATAACTTATAT-ATAAATTTACATAAT-A
1 CATAACTTACATAAT-AACTTACATAATAA
23919297 CATAACTTACATAATAACTTACATAATAA
1 CATAACTTACATAATAACTTACATAATAA
23919326 CATAATAACTTACATAATA
1 C---ATAACTTACATAATA
23919345 TATAGCCTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 22 0.54
29 4 0.10
32 15 0.37
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (29 bp):
CATAACTTACATAATAACTTACATAATAA
Found at i:23919309 original size:9 final size:9
Alignment explanation
Indices: 23919287--23919622 Score: 157
Period size: 9 Copynumber: 39.1 Consensus size: 9
23919277 ATATATAAAT
23919287 TTACATAA-
1 TTACATAAC
23919295 -TACATAAC
1 TTACATAAC
23919303 TTACATAA-
1 TTACATAAC
* *
23919311 TAAC-TTAC
1 TTACATAAC
*
23919319 ATA-ATAAC
1 TTACATAAC
*
23919327 ATA-ATAAC
1 TTACATAAC
23919335 TTACATAA-
1 TTACATAAC
* *
23919343 -TATATAGC
1 TTACATAAC
* *
23919351 CTACATAAA
1 TTACATAAC
*
23919360 TTGCATAAC
1 TTACATAAC
*
23919369 TCACATAA-
1 TTACATAAC
*
23919377 -TACACAAC
1 TTACATAAC
23919385 TTACATAAC
1 TTACATAAC
*
23919394 TTAAATAAC
1 TTACATAAC
*
23919403 TTATATAA-
1 TTACATAAC
23919411 -TACATAAC
1 TTACATAAC
*
23919419 TTACATTAATAT
1 TTACA-T-A-AC
23919431 TATACATAAC
1 T-TACATAAC
23919441 TTACATAAC
1 TTACATAAC
23919450 TTA-ATTAA-
1 TTACA-TAAC
*
23919458 TTA-AT-AT
1 TTACATAAC
23919465 TATACATAAC
1 T-TACATAAC
23919475 TTACATAAC
1 TTACATAAC
23919484 TTAC--AAC
1 TTACATAAC
23919491 TTACATAAC
1 TTACATAAC
*
23919500 TTA-ATTACAT
1 TTACA-TA-AC
*
23919510 TATACACAAC
1 T-TACATAAC
23919520 TTACATAAC
1 TTACATAAC
* *
23919529 ATACACAA-
1 TTACATAAC
23919537 -TACATAAC
1 TTACATAAC
23919545 TTACATAA-
1 TTACATAAC
* *
23919553 -TATATTAC
1 TTACATAAC
23919561 TTACATAAC
1 TTACATAAC
*
23919570 TTACATAAT
1 TTACATAAC
*
23919579 TTACGTAA-
1 TTACATAAC
23919587 -TACATAA-
1 TTACATAAC
* * *
23919594 ATATATATC
1 TTACATAAC
*
23919603 ATATCATAAC
1 TTA-CATAAC
23919613 TTACATAAC
1 TTACATAAC
23919622 T
1 T
23919623 CATATATACT
Statistics
Matches: 251, Mismatches: 44, Indels: 65
0.70 0.12 0.18
Matches are distributed among these distances:
6 1 0.00
7 51 0.20
8 30 0.12
9 141 0.56
10 15 0.06
11 5 0.02
12 4 0.02
13 4 0.02
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (9 bp):
TTACATAAC
Found at i:23919315 original size:12 final size:12
Alignment explanation
Indices: 23919298--23919344 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
23919288 TACATAATAC
23919298 ATAACTTACATA
1 ATAACTTACATA
23919310 ATAACTTACATA
1 ATAACTTACATA
23919322 AT-A---ACATA
1 ATAACTTACATA
23919330 ATAACTTACATA
1 ATAACTTACATA
23919342 ATA
1 ATA
23919345 TATAGCCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 7 0.23
9 1 0.03
11 1 0.03
12 22 0.71
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:23919330 original size:20 final size:20
Alignment explanation
Indices: 23919295--23919344 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
23919285 ATTTACATAA
*
23919295 TACATAACTTACATAATAACT
1 TACATAA-TAACATAATAACT
23919316 TACATAATAACATAATAACT
1 TACATAATAACATAATAACT
23919336 TACATAATA
1 TACATAATA
23919345 TATAGCCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (20 bp):
TACATAATAACATAATAACT
Found at i:23919435 original size:22 final size:22
Alignment explanation
Indices: 23919405--23919446 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
23919395 TAAATAACTT
23919405 ATATAATACATAACTTACATTA
1 ATATAATACATAACTTACATTA
*
23919427 ATATTATACATAACTTACAT
1 ATATAATACATAACTTACAT
23919447 AACTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAATACATAACTTACATTA
Found at i:23919575 original size:34 final size:34
Alignment explanation
Indices: 23919287--23919588 Score: 146
Period size: 34 Copynumber: 8.8 Consensus size: 34
23919277 ATATATAAAT
23919287 TTACATAA--TACATAACTTACATAATA-ACTTAC
1 TTACATAACTTACATAACTTACATAATATA-TTAC
* *
23919319 ATA-ATAACATA-ATAACTTACATAATATA-TAGC
1 TTACATAACTTACATAACTTACATAATATATTA-C
* * * * * **
23919351 CTACATAAATTGCATAACTCACATAATACACAAC
1 TTACATAACTTACATAACTTACATAATATATTAC
* * * *
23919385 TTACATAACTTAAATAACTTATATAATACATAAC
1 TTACATAACTTACATAACTTACATAATATATTAC
* *
23919419 TTACATTAATATTATACATAACTTACATAACT-TAATTAA
1 TTACA-T-A-ACT-TACATAACTTACATAA-TAT-ATTAC
* **
23919458 TTA-AT-ATTATACATAACTTACATAACT-TACAAC
1 TTACATAACT-TACATAACTTACATAA-TATATTAC
* *
23919491 TTACATAACTTA-ATTACATT--ATACACA-ACTTAC
1 TTACATAACTTACATAAC-TTACATA-ATATA-TTAC
* *
23919524 ATAACATACACAATACATAACTTACATAATATATTAC
1 -TTACATA-AC-TTACATAACTTACATAATATATTAC
* *
23919561 TTACATAACTTACATAATTTACGTAATA
1 TTACATAACTTACATAACTTACATAATA
23919589 CATAAATATA
Statistics
Matches: 207, Mismatches: 37, Indels: 50
0.70 0.13 0.17
Matches are distributed among these distances:
31 6 0.03
32 24 0.12
33 20 0.10
34 99 0.48
35 8 0.04
36 11 0.05
37 13 0.06
38 19 0.09
39 7 0.03
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (34 bp):
TTACATAACTTACATAACTTACATAATATATTAC
Found at i:23919590 original size:25 final size:25
Alignment explanation
Indices: 23919363--23919593 Score: 103
Period size: 25 Copynumber: 9.2 Consensus size: 25
23919353 ACATAAATTG
* * *
23919363 CATAACTCACATAATACACA-ACTTA
1 CATAACTTACATAATATACATA-ATA
* *
23919388 CATAACTTAAATAACT-TATATAATA
1 CATAACTTACATAA-TATACATAATA
23919413 CATAACTTACATTAATAT---T-ATA
1 CATAACTTACA-TAATATACATAATA
23919435 CATAACTTACATAACT-TA-ATTAATTA
1 CATAACTTACATAA-TATACA-TAA-TA
*
23919461 -AT-ATTATACATAACT-TACATAACTTA
1 CATAACT-TACATAA-TATACATAA--TA
*
23919487 C--AACTTACATAACTTAATTACATTATA
1 CATAACTTACATAA--T-A-TACATAATA
* * *
23919514 CACAACTTACATAACATACACAATA
1 CATAACTTACATAATATACATAATA
* *
23919539 CATAACTTACATAATATA-TTACTTA
1 CATAACTTACATAATATACATA-ATA
* *
23919564 CATAACTTACATAATTTACGTAATA
1 CATAACTTACATAATATACATAATA
23919589 CATAA
1 CATAA
23919594 ATATATATCA
Statistics
Matches: 162, Mismatches: 21, Indels: 46
0.71 0.09 0.20
Matches are distributed among these distances:
21 4 0.02
22 15 0.09
23 1 0.01
24 4 0.02
25 100 0.62
26 18 0.11
27 3 0.02
29 17 0.10
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (25 bp):
CATAACTTACATAATATACATAATA
Found at i:23924104 original size:44 final size:45
Alignment explanation
Indices: 23924073--23924174 Score: 145
Period size: 44 Copynumber: 2.3 Consensus size: 45
23924063 AAGTCATATT
*
23924073 CTATAGCGGCGTTTGTGGAAAAAATCGCCGCT-AAAGAACATGAC
1 CTATAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAAGAACATGAC
* *
23924117 CTTTAGCGGCGTTTGTGGAAAAAAACGCCGCT-AAAGAACATTAC
1 CTATAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAAGAACATGAC
* *
23924161 TTTTAGCGGCGTTT
1 CTATAGCGGCGTTT
23924175 CTTGGTATGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (45 bp):
CTATAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAAGAACATGAC
Found at i:23924272 original size:85 final size:86
Alignment explanation
Indices: 23924098--23924301 Score: 268
Period size: 85 Copynumber: 2.4 Consensus size: 86
23924088 TGGAAAAAAT
* *
23924098 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATTACTT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGAAAAAAACGCCACTAAAGAACATTACCT
* * *
23924163 TTAGCGGCGTTTCTTGGTATG
66 TTAGCGGAGTTTCTTGGGAAG
** ** * * *
23924184 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTTG-TAAAAGCGCCACTAAAGAACATTACCT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGAAAAAAACGCCACTAAAGAACATTACCT
23924248 TTAGCGGAGTTT-TTGAGGAAG
66 TTAGCGGAGTTTCTTG-GGAAG
*
23924269 CGCCGCTAAAGAACATGACCTTTAGCGGTGTTT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
23924302 ATTTTTGTAA
Statistics
Matches: 100, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 3 0.03
85 65 0.65
86 32 0.32
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (86 bp):
CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGAAAAAAACGCCACTAAAGAACATTACCT
TTAGCGGAGTTTCTTGGGAAG
Found at i:23924280 original size:42 final size:44
Alignment explanation
Indices: 23924076--23924301 Score: 221
Period size: 42 Copynumber: 5.2 Consensus size: 44
23924066 TCATATTCTA
* * * *
23924076 TAGCGGCGTTTGTGGAAAAAATCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTTGAAGAAAGCGCCGCTAAAGAACATTACCTT
* * * *
23924120 TAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATTACTTT
1 TAGCGGCGTTTGTTGAAGAAAGCGCCGCTAAAGAACATTACCTT
* * * ** *
23924164 TAGCGGCGTTTCTTG--GTATGCGCCGCTAAAGGTCATGT-TCTT
1 TAGCGGCGTTTGTTGAAGAAAGCGCCGCTAAAGAACAT-TACCTT
* *
23924206 TAGCGGCGTTTGTTGTA-AAAGCGCCACTAAAGAACATTACCTT
1 TAGCGGCGTTTGTTGAAGAAAGCGCCGCTAAAGAACATTACCTT
* * *
23924249 TAGCGGAGTTT-TTG-AGGAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTTGAAGAAAGCGCCGCTAAAGAACATTACCTT
*
23924291 TAGCGGTGTTT
1 TAGCGGCGTTT
23924302 ATTTTTGTAA
Statistics
Matches: 152, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 68 0.45
43 29 0.19
44 54 0.36
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (44 bp):
TAGCGGCGTTTGTTGAAGAAAGCGCCGCTAAAGAACATTACCTT
Found at i:23928573 original size:20 final size:20
Alignment explanation
Indices: 23928556--23928617 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
23928546 ACCGAAGTCT
*
23928556 AAACAGAAGCACCAAAGTGC
1 AAACAGAGGCACCAAAGTGC
*
23928576 AACCAGAGGCACCGAAA-TGC
1 AAACAGAGGCACC-AAAGTGC
23928596 AAACAGAGGCACCAAAGTGC
1 AAACAGAGGCACCAAAGTGC
23928616 AA
1 AA
23928618 TCCCATACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 3 0.08
20 31 0.84
21 3 0.08
ACGTcount: A:0.47, C:0.26, G:0.23, T:0.05
Consensus pattern (20 bp):
AAACAGAGGCACCAAAGTGC
Found at i:23928589 original size:40 final size:40
Alignment explanation
Indices: 23928540--23928617 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
23928530 TAGTGCCAAT
*
23928540 AGAGACACCGAAGT-CTAAACAGAAGCACCAAAGTGCAACC
1 AGAGACACCGAAATGC-AAACAGAAGCACCAAAGTGCAACC
* *
23928580 AGAGGCACCGAAATGCAAACAGAGGCACCAAAGTGCAA
1 AGAGACACCGAAATGCAAACAGAAGCACCAAAGTGCAA
23928618 TCCCATACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.45, C:0.26, G:0.23, T:0.06
Consensus pattern (40 bp):
AGAGACACCGAAATGCAAACAGAAGCACCAAAGTGCAACC
Found at i:23931970 original size:15 final size:15
Alignment explanation
Indices: 23931950--23931983 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
23931940 TTGATATCGC
23931950 GATACCCATCTTCTA
1 GATACCCATCTTCTA
23931965 GATACCCATCTTCTA
1 GATACCCATCTTCTA
23931980 GATA
1 GATA
23931984 ATGTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (15 bp):
GATACCCATCTTCTA
Found at i:23941699 original size:31 final size:31
Alignment explanation
Indices: 23941661--23941728 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
23941651 TAAGGACTTC
23941661 CAAGTTGAGTCTATATAAAGGCTATTGTAAT
1 CAAGTTGAGTCTATATAAAGGCTATTGTAAT
*
23941692 CAAGTTGAGTCTATATAAAGGTTATTGTAAT
1 CAAGTTGAGTCTATATAAAGGCTATTGTAAT
23941723 CAAGTT
1 CAAGTT
23941729 AAACACACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (31 bp):
CAAGTTGAGTCTATATAAAGGCTATTGTAAT
Found at i:23945256 original size:26 final size:26
Alignment explanation
Indices: 23945227--23945276 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
23945217 ATAAAAATCG
23945227 AGAAAAAGT-CAAAAGTAAAAACAAGA
1 AGAAAAAGTACAAAA-TAAAAACAAGA
*
23945253 AGAAAAAGTACAAAATAGAAACAA
1 AGAAAAAGTACAAAATAAAAACAA
23945277 AAGTACTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.70, C:0.08, G:0.14, T:0.08
Consensus pattern (26 bp):
AGAAAAAGTACAAAATAAAAACAAGA
Found at i:23945272 original size:19 final size:20
Alignment explanation
Indices: 23945236--23945282 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
23945226 GAGAAAAAGT
23945236 CAAAAGTA-AAAACAAGAAGA
1 CAAAAGTACAAAACAAGAA-A
*
23945256 -AAAAGTACAAAA-TAGAAA
1 CAAAAGTACAAAACAAGAAA
23945274 CAAAAGTAC
1 CAAAAGTAC
23945283 TGTGATTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 19 0.79
20 4 0.17
ACGTcount: A:0.68, C:0.11, G:0.13, T:0.09
Consensus pattern (20 bp):
CAAAAGTACAAAACAAGAAA
Found at i:23947369 original size:13 final size:13
Alignment explanation
Indices: 23947351--23947375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23947341 AGTAGATTAG
23947351 TAATTATTTCCCA
1 TAATTATTTCCCA
23947364 TAATTATTTCCC
1 TAATTATTTCCC
23947376 CAAACTGCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTATTTCCCA
Found at i:23950035 original size:28 final size:28
Alignment explanation
Indices: 23949999--23950073 Score: 132
Period size: 28 Copynumber: 2.7 Consensus size: 28
23949989 AAATATTTAA
* *
23949999 TAAATTCGCACACTTAGTGCTTTACCAT
1 TAAACTCGCACACTTAGTGCTTTACAAT
23950027 TAAACTCGCACACTTAGTGCTTTACAAT
1 TAAACTCGCACACTTAGTGCTTTACAAT
23950055 TAAACTCGCACACTTAGTG
1 TAAACTCGCACACTTAGTG
23950074 TCGAAAGTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (28 bp):
TAAACTCGCACACTTAGTGCTTTACAAT
Done.