Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 44 of 89
Found at i:9700841 original size:26 final size:26
Alignment explanation
Indices: 9700795--9700876 Score: 57
Period size: 27 Copynumber: 3.2 Consensus size: 26
9700785 TTTGTTTTTC
9700795 AAAAAAA-AAACAAAACAAAAAAA--C
1 AAAAAAACAAA-AAAACAAAAAAAGCC
*
9700819 AAAAAAAGGCAAAAAAGCCAAAAAAA--C
1 AAAAAAA--CAAAAAA-ACAAAAAAAGCC
* *
9700846 AAAAAAACAAAAAAAGCCAAAAAATCC
1 AAAAAAACAAAAAAA-CAAAAAAAGCC
9700873 AAAA
1 AAAA
9700877 TTTCAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
24 7 0.15
25 14 0.29
26 3 0.06
27 24 0.50
ACGTcount: A:0.79, C:0.15, G:0.05, T:0.01
Consensus pattern (26 bp):
AAAAAAACAAAAAAACAAAAAAAGCC
Found at i:9700867 original size:9 final size:9
Alignment explanation
Indices: 9700810--9700876 Score: 64
Period size: 9 Copynumber: 7.6 Consensus size: 9
9700800 AAAAACAAAA
*
9700810 CAAAAAAAC
1 CAAAAAAGC
* *
9700819 AAAAAAAGG
1 CAAAAAAGC
9700828 CAAAAAAGC
1 CAAAAAAGC
*
9700837 CAAAAAA-A
1 CAAAAAAGC
*
9700845 CAAAAAAAC
1 CAAAAAAGC
*
9700854 AAAAAAAGC
1 CAAAAAAGC
*
9700863 CAAAAAATC
1 CAAAAAAGC
9700872 CAAAA
1 CAAAA
9700877 TTTCAAAAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
8 7 0.15
9 39 0.85
ACGTcount: A:0.76, C:0.16, G:0.06, T:0.01
Consensus pattern (9 bp):
CAAAAAAGC
Found at i:9700886 original size:26 final size:25
Alignment explanation
Indices: 9700794--9700869 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
9700784 ATTTGTTTTT
* *
9700794 CAAAAAAA-AAACAAAACAAAAAAACA
1 CAAAAAAACAAA-AAAGCCAAAAAA-A
*
9700820 -AAAAAAGGCAAAAAAGCCAAAAAAA
1 CAAAAAA-ACAAAAAAGCCAAAAAAA
9700845 CAAAAAAACAAAAAAAGCCAAAAAA
1 CAAAAAAAC-AAAAAAGCCAAAAAA
9700870 TCCAAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
25 8 0.19
26 31 0.74
27 3 0.07
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.00
Consensus pattern (25 bp):
CAAAAAAACAAAAAAGCCAAAAAAA
Found at i:9700886 original size:35 final size:35
Alignment explanation
Indices: 9700806--9700876 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
9700796 AAAAAAAAAC
*
9700806 AAAACAAAAAAACAAAAAAAGGCAAAAAAGCCAAA
1 AAAACAAAAAAACAAAAAAAGCCAAAAAAGCCAAA
*
9700841 AAAACAAAAAAACAAAAAAAGCCAAAAAATCCAAA
1 AAAACAAAAAAACAAAAAAAGCCAAAAAAGCCAAA
9700876 A
1 A
9700877 TTTCAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.77, C:0.15, G:0.06, T:0.01
Consensus pattern (35 bp):
AAAACAAAAAAACAAAAAAAGCCAAAAAAGCCAAA
Found at i:9703498 original size:9 final size:9
Alignment explanation
Indices: 9703484--9703510 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9703474 TAATAACTCG
9703484 GATATTTCT
1 GATATTTCT
9703493 GATATTTCT
1 GATATTTCT
9703502 GATATTTCT
1 GATATTTCT
9703511 ACCCATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (9 bp):
GATATTTCT
Found at i:9725212 original size:18 final size:18
Alignment explanation
Indices: 9725189--9725233 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
9725179 ATCAAACCGT
9725189 AGAAATTTTGCCTTGTTG
1 AGAAATTTTGCCTTGTTG
9725207 AGAAATTTTGCCTTGTTG
1 AGAAATTTTGCCTTGTTG
9725225 AGAAATTTT
1 AGAAATTTT
9725234 CTTCCCTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (18 bp):
AGAAATTTTGCCTTGTTG
Found at i:9727947 original size:85 final size:84
Alignment explanation
Indices: 9727819--9727980 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 84
9727809 ACTCTCCGAT
* * * *
9727819 ACACAATGTGTGCCATCTTCATTTCTGACGGGGGCTTCAATGACACGCAATGTAA-GTCATACAT
1 ACACAATGTGTGCCATCTTAATTTATGACGGAGGCTTCAATGACACGCAATG-AACGTCATAAAT
*
9727883 GCATGTCATAAATTTATGAC
65 GCACGTCATAAATTTATGAC
* * *
9727903 ACACAAATGTGTGTCATCTTAATTTATGACGGAGGCTTCAATGACGCTCAATGAACGTCATAAAT
1 ACAC-AATGTGTGCCATCTTAATTTATGACGGAGGCTTCAATGACACGCAATGAACGTCATAAAT
*
9727968 GCGCGTCATAAAT
65 GCACGTCATAAAT
9727981 GTGTGTCATA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 6 0.09
85 61 0.91
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (84 bp):
ACACAATGTGTGCCATCTTAATTTATGACGGAGGCTTCAATGACACGCAATGAACGTCATAAATG
CACGTCATAAATTTATGAC
Found at i:9727974 original size:13 final size:13
Alignment explanation
Indices: 9727958--9728003 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
9727948 GCTCAATGAA
*
9727958 CGTCATAAATGCG
1 CGTCATAAATGTG
9727971 CGTCATAAATGTG
1 CGTCATAAATGTG
*
9727984 TGTCATAAATGTG
1 CGTCATAAATGTG
9727997 CGTCATA
1 CGTCATA
9728004 GATTTATTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (13 bp):
CGTCATAAATGTG
Found at i:9727981 original size:26 final size:26
Alignment explanation
Indices: 9727952--9728003 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9727942 AATGACGCTC
9727952 AATGAACGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
*** *
9727978 AATGTGTGTCATAAATGTGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
9728004 GATTTATTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (26 bp):
AATGAACGTCATAAATGCGCGTCATA
Found at i:9730581 original size:21 final size:22
Alignment explanation
Indices: 9730537--9730582 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
9730527 AAATCTTTTC
* *
9730537 TTTATTTTTAATTTAATTCGCT
1 TTTATTATTAATTTAATTAGCT
*
9730559 TTTATTATT-ATTTAATTATCT
1 TTTATTATTAATTTAATTAGCT
9730580 TTT
1 TTT
9730583 TTACCAAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATTATTAATTTAATTAGCT
Found at i:9731541 original size:172 final size:172
Alignment explanation
Indices: 9731255--9731583 Score: 631
Period size: 172 Copynumber: 1.9 Consensus size: 172
9731245 ATTGAACAGG
*
9731255 CCCTTAATAACTTCGAAATATCTCTCTCAATCTATGCACTTATTTTTCAATATCAAAACAATTTT
1 CCCTTAATAACTTCGAAATATCTCTCTCAATATATGCACTTATTTTTCAATATCAAAACAATTTT
9731320 CAAAATCAAAGATTGACCTTGGTCAAGAGGTTATTGTGATTAAATGTGTGGGAGGAAGGATCGGC
66 CAAAATCAAAGATTGACCTTGGTCAAGAGGTTATTGTGATTAAATGTGTGGGAGGAAGGATCGGC
9731385 TTATTAAAAAAACATTCGACTTCCTGGACCCTAAACCCTAAA
131 TTATTAAAAAAACATTCGACTTCCTGGACCCTAAACCCTAAA
*
9731427 CCCTTAATAACTTCGAAATATCTCTCTCAATATCTGCACTTATTTTTCAATATCAAAACAATTTT
1 CCCTTAATAACTTCGAAATATCTCTCTCAATATATGCACTTATTTTTCAATATCAAAACAATTTT
9731492 CAAAATCAAAGATTGACCTTGGTCAAGAGGTTATTGTGATTAAATGTGTGGGAGGAAGGATCGGC
66 CAAAATCAAAGATTGACCTTGGTCAAGAGGTTATTGTGATTAAATGTGTGGGAGGAAGGATCGGC
*
9731557 TTATTGAAAAAACATTCGACTTCCTGG
131 TTATTAAAAAAACATTCGACTTCCTGG
9731584 GAACACACTT
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 154 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (172 bp):
CCCTTAATAACTTCGAAATATCTCTCTCAATATATGCACTTATTTTTCAATATCAAAACAATTTT
CAAAATCAAAGATTGACCTTGGTCAAGAGGTTATTGTGATTAAATGTGTGGGAGGAAGGATCGGC
TTATTAAAAAAACATTCGACTTCCTGGACCCTAAACCCTAAA
Found at i:9738336 original size:2 final size:2
Alignment explanation
Indices: 9738329--9738414 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
9738319 ACTTACATAC
9738329 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9738371 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9738413 AT
1 AT
9738415 TTAAAAAATT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9740886 original size:19 final size:18
Alignment explanation
Indices: 9740847--9740891 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
9740837 ACTTTTGATA
* *
9740847 TTTATTATAAAGTTTATT
1 TTTATTTTAAAGTTAATT
9740865 TTTATTTTAAAGTCTAATT
1 TTTATTTTAAAGT-TAATT
9740884 TTTATTTT
1 TTTATTTT
9740892 TTGAAATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATTTTAAAGTTAATT
Found at i:9742084 original size:189 final size:186
Alignment explanation
Indices: 9741750--9742123 Score: 462
Period size: 189 Copynumber: 2.0 Consensus size: 186
9741740 GTGAAACTAT
* *
9741750 GCATAATCATCATTCATAATATTATTAGGTGACGATATATTATGTCACTAAAAATGTGACAATAT
1 GCATAAACATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAATGTGACAATAT
* * * * ** * * *
9741815 TTTTTTCGTCACTTATAAGTTGATTTTAATGCATTATTTATGACAATATAAATTATTAATAACGA
66 CTCTTTAGTCACATATAAGTTGATTTTAATGCATTATCCATGACAATATAAATAATCAATAACAA
**
9741880 AATCTTATTTAATTTAGTGACGTAATCAATTGTCATAGAATATAAATTATAAAGTGAA
131 AATCTTACATAATTTAGTGAC--AATCAATTGTCATAGAATATAAATTATAAAGTGAA
* * *
9741938 GCATAAACGTCATTCATAATATTATTAGGTAAC-ATTTATATTATGTCACTAAAATTTTGACAAT
1 GCATAAACATCATTCATAATATTATTAGGTAACGA--TATATTATGTCACTAAAAATGTGACAAT
* * * * *
9742002 ATCTCTTTAGTCACATATAGGTTGATTTTAATGTATTATCCGTGACGATATAAATAATCAATAAT
64 ATCTCTTTAGTCACATATAAGTTGATTTTAATGCATTATCCATGACAATATAAATAATCAATAAC
* * * * * *
9742067 AAAATTTTACATAATTTAGTGACAATTAGTTGTCATTGAATATTAATTATATAGTGA
129 AAAATCTTACATAATTTAGTGACAATCAATTGTCATAGAATATAAATTATAAAGTGA
9742124 TGTTATATAT
Statistics
Matches: 157, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
187 30 0.19
188 30 0.19
189 97 0.62
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (186 bp):
GCATAAACATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAATGTGACAATAT
CTCTTTAGTCACATATAAGTTGATTTTAATGCATTATCCATGACAATATAAATAATCAATAACAA
AATCTTACATAATTTAGTGACAATCAATTGTCATAGAATATAAATTATAAAGTGAA
Found at i:9743116 original size:5 final size:5
Alignment explanation
Indices: 9743107--9743156 Score: 73
Period size: 5 Copynumber: 10.0 Consensus size: 5
9743097 ATTCTTTAAC
* * *
9743107 ATTAT TTTAT TTTAT TTTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
9743157 TTGTTTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
ATTAT
Found at i:9754254 original size:24 final size:24
Alignment explanation
Indices: 9754214--9754277 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 24
9754204 TGATTGAGTG
9754214 ATACTAAATAC-AGGAGTACACA-AT
1 ATACT-AATACGA-GAGTACACAGAT
*
9754238 GGTACTAATACGAGAGTACACAGAT
1 -ATACTAATACGAGAGTACACAGAT
9754263 ATACTAATACGAGAG
1 ATACTAATACGAGAG
9754278 ATCAATCGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 28 0.80
25 7 0.20
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (24 bp):
ATACTAATACGAGAGTACACAGAT
Found at i:9777146 original size:2 final size:2
Alignment explanation
Indices: 9777139--9777208 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
9777129 GCTTGTCAAG
9777139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9777181 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
9777209 GTGACCTCTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9779795 original size:56 final size:56
Alignment explanation
Indices: 9779707--9779832 Score: 216
Period size: 56 Copynumber: 2.2 Consensus size: 56
9779697 TAAGCTTCTC
*
9779707 GAAGCTAGCATCTTCATTTCAATGATGCAATCAAAGAATTTGGTTTTATAAAAAAT
1 GAAGCTAGAATCTTCATTTCAATGATGCAATCAAAGAATTTGGTTTTATAAAAAAT
* * *
9779763 GAAGCTAGAATCTTCGTTTCAATGATGTAATCAAAGAATTTGGTTTTATCAAAAAT
1 GAAGCTAGAATCTTCATTTCAATGATGCAATCAAAGAATTTGGTTTTATAAAAAAT
9779819 GAAGCTAGAATCTT
1 GAAGCTAGAATCTT
9779833 TGAGCAGTTC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (56 bp):
GAAGCTAGAATCTTCATTTCAATGATGCAATCAAAGAATTTGGTTTTATAAAAAAT
Found at i:9779828 original size:28 final size:28
Alignment explanation
Indices: 9779741--9779829 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
9779731 ATGCAATCAA
*
9779741 AGAATTTGGTTTTATAAAAAATGAAGCT
1 AGAATTTGGTTTTATCAAAAATGAAGCT
* ** * *
9779769 AGAATCTTCG--TT-TCAATGATGTAATCAA
1 AGAAT-TTGGTTTTATCAAAAATG-AAGC-T
9779797 AGAATTTGGTTTTATCAAAAATGAAGCT
1 AGAATTTGGTTTTATCAAAAATGAAGCT
9779825 AGAAT
1 AGAAT
9779830 CTTTGAGCAG
Statistics
Matches: 44, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
26 6 0.14
27 8 0.18
28 15 0.34
29 8 0.18
30 7 0.16
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (28 bp):
AGAATTTGGTTTTATCAAAAATGAAGCT
Found at i:9784535 original size:81 final size:81
Alignment explanation
Indices: 9784398--9784730 Score: 494
Period size: 81 Copynumber: 4.1 Consensus size: 81
9784388 AATTGTTTTA
*
9784398 GAGTAATAGATTAATGGCCTAGATT-TGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATG
1 GAGTAAAAGATTAATGGCCTAG-TTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATG
*
9784462 AAAGCTTAAATACCTTT
65 AAAGGTTAAATACCTTT
* * * * *
9784479 GAGTAAAACATTAATGGCTTAGCTGTGCATTTGACAGAAAGGTGTCAATTAAGCCAGTTAGATGA
1 GAGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGA
* *
9784544 AAAGTTAAATACCTAT
66 AAGGTTAAATACCTTT
* *
9784560 GAGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAATGTGTTAATTATGTCAGTTAGATGA
1 GAGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGA
*
9784625 AAGGTTAACTA-CTTT
66 AAGGTTAAATACCTTT
*
9784640 GAGTAAAAGATTAATGGCCTAGTTGTGCATTTGATAG-AATAGTGTCAATTATGCCAGTTAGATG
1 GAGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAT-GTGTCAATTATGCCAGTTAGATG
9784704 AAAGGTTAAATACCTTT
65 AAAGGTTAAATACCTTT
9784721 -AGGTAAAAGA
1 GA-GTAAAAGA
9784731 CTAAAAACTT
Statistics
Matches: 225, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
79 3 0.01
80 73 0.32
81 149 0.66
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.32
Consensus pattern (81 bp):
GAGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGA
AAGGTTAAATACCTTT
Found at i:9784729 original size:161 final size:163
Alignment explanation
Indices: 9784394--9784730 Score: 513
Period size: 161 Copynumber: 2.1 Consensus size: 163
9784384 TATTAATTGT
*
9784394 TTTAGAGTAATAGATTAATGGCCTAGATTTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAG
1 TTTAGAGTAAAAGATTAATGGCCTAGATTTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAG
*
9784459 ATGAAAGCTTAAATACCTTTGAGTAAAACATTAATGGCTTAGCTGTGCATTTGACAGAAAGGTGT
66 ATGAAAGCTTAAATACCTTTGAGTAAAACATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGT
9784524 CAATTAAGCCAGTTAGATGAAAAGTTAAATACC
131 CAATTAAGCCAGTTAGATGAAAAGTTAAATACC
* * *
9784557 TAT-GAGTAAAAGATTAATGGCCTAG-TTGTGCATTTGACAGAAATGTGTTAATTATGTCAGTTA
1 TTTAGAGTAAAAGATTAATGGCCTAGATT-TGCATTTGACAGAAATGTGTCAATTATGCCAGTTA
* * * * *
9784620 GATGAAAGGTTAACTA-CTTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGATAGAATA-GT
65 GATGAAAGCTTAAATACCTTTGAGTAAAACATTAATGGCCTAGCTGTGCATTTGACAGAA-AGGT
* *
9784683 GTCAATTATGCCAGTTAGATGAAAGGTTAAATACC
129 GTCAATTAAGCCAGTTAGATGAAAAGTTAAATACC
9784718 TTTAG-GTAAAAGA
1 TTTAGAGTAAAAGA
9784731 CTAAAAACTT
Statistics
Matches: 158, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
161 86 0.54
162 70 0.44
163 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.32
Consensus pattern (163 bp):
TTTAGAGTAAAAGATTAATGGCCTAGATTTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAG
ATGAAAGCTTAAATACCTTTGAGTAAAACATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGT
CAATTAAGCCAGTTAGATGAAAAGTTAAATACC
Found at i:9787453 original size:32 final size:31
Alignment explanation
Indices: 9787417--9787492 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
9787407 CGGGGCCGTG
*
9787417 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
9787449 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
9787480 GAGCCTACCTAAG
1 GGGCCTACCTAAG
9787493 TGTCACATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:9787476 original size:63 final size:63
Alignment explanation
Indices: 9787370--9787492 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
9787360 ACCTAAGGGA
* * ** *
9787370 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
9787433 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
9787493 TGTCACATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:9789003 original size:18 final size:18
Alignment explanation
Indices: 9788980--9789014 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9788970 TTCCATCCGG
*
9788980 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
9788998 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
9789015 GTCCTTTCGA
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:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:9790317 original size:8 final size:8
Alignment explanation
Indices: 9790304--9790367 Score: 64
Period size: 8 Copynumber: 8.2 Consensus size: 8
9790294 TAGTCAACGA
9790304 TCAACGGG
1 TCAACGGG
9790312 TCAAC-GG
1 TCAACGGG
9790319 TCAACGGG
1 TCAACGGG
9790327 TCAACGGG
1 TCAACGGG
9790335 T---CGGG
1 TCAACGGG
*
9790340 TCAACGAG
1 TCAACGGG
*
9790348 TCGAGTCGGG
1 TC-A-ACGGG
9790358 TCAACGGG
1 TCAACGGG
9790366 TC
1 TC
9790368 GGGTAAACGG
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
5 5 0.11
7 7 0.15
8 27 0.59
9 2 0.04
10 5 0.11
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.16
Consensus pattern (8 bp):
TCAACGGG
Found at i:9790333 original size:15 final size:15
Alignment explanation
Indices: 9790296--9790333 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
9790286 GTCAACAGTA
*
9790296 GTCAACGATCAACGG
1 GTCAACGGTCAACGG
9790311 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
9790326 GTCAACGG
1 GTCAACGG
9790334 GTCGGGTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.29, C:0.26, G:0.32, T:0.13
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:9790341 original size:13 final size:13
Alignment explanation
Indices: 9790323--9790385 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
9790313 CAACGGTCAA
9790323 CGGGTCAACGGGT
1 CGGGTCAACGGGT
9790336 CGGGTCAACGAGTCGAGT
1 CGGGTCAAC--G--G-GT
9790354 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
9790367 CGGGTAAACGGGT
1 CGGGTCAACGGGT
9790380 CGGGTC
1 CGGGTC
9790386 GGGTAAATGG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.65
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.26
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:9790357 original size:18 final size:18
Alignment explanation
Indices: 9790334--9790368 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9790324 GGGTCAACGG
9790334 GTCGGGTCAACGAGTCGA
1 GTCGGGTCAACGAGTCGA
*
9790352 GTCGGGTCAACGGGTCG
1 GTCGGGTCAACGAGTCG
9790369 GGTAAACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGAGTCGA
Found at i:9790361 original size:31 final size:30
Alignment explanation
Indices: 9790308--9790403 Score: 106
Period size: 31 Copynumber: 3.2 Consensus size: 30
9790298 CAACGATCAA
*
9790308 CGGGTCAACGGTC-A-ACGGGTCAACGGGT
1 CGGGTCAACGGTCGAGTCGGGTCAACGGGT
9790336 CGGGTCAACGAGTCGAGTCGGGTCAACGGGT
1 CGGGTCAACG-GTCGAGTCGGGTCAACGGGT
* * * *
9790367 CGGGTAAACGGGTCGGGTCGGGTAAATGGGT
1 CGGGTCAAC-GGTCGAGTCGGGTCAACGGGT
*
9790398 TGGGTC
1 CGGGTC
9790404 GGGTTGTGAC
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
28 10 0.18
29 3 0.05
30 1 0.02
31 42 0.74
32 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.44, T:0.18
Consensus pattern (30 bp):
CGGGTCAACGGTCGAGTCGGGTCAACGGGT
Found at i:9790383 original size:18 final size:18
Alignment explanation
Indices: 9790362--9790407 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
9790352 GTCGGGTCAA
9790362 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
9790380 CGGGTCGGGTAAATGGGT
1 CGGGTCGGGTAAACGGGT
*
9790398 TGGGTCGGGT
1 CGGGTCGGGT
9790408 TGTGACCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.52, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:9792530 original size:32 final size:31
Alignment explanation
Indices: 9792494--9792569 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
9792484 CGGGGCCGTG
*
9792494 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
9792526 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
9792557 GAGCCTACCTAAG
1 GGGCCTACCTAAG
9792570 TGTCACATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:9792553 original size:63 final size:63
Alignment explanation
Indices: 9792447--9792569 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
9792437 ACCTAAGGGA
* * ** *
9792447 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
9792510 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
9792570 TGTCACATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:9794079 original size:18 final size:18
Alignment explanation
Indices: 9794056--9794090 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9794046 TTCCATCCGG
*
9794056 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
9794074 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
9794091 GTCCTTTCGA
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:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:9795383 original size:7 final size:7
Alignment explanation
Indices: 9795371--9795408 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
9795361 GTCAACAGTA
9795371 GTCAACG
1 GTCAACG
9795378 GTCAACGG
1 GTCAAC-G
9795386 GTCAACG
1 GTCAACG
9795393 GTCAACGG
1 GTCAAC-G
9795401 GTCAACG
1 GTCAACG
9795408 G
1 G
9795409 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (7 bp):
GTCAACG
Found at i:9795390 original size:8 final size:8
Alignment explanation
Indices: 9795371--9795442 Score: 73
Period size: 8 Copynumber: 9.4 Consensus size: 8
9795361 GTCAACAGTA
9795371 GTCAAC-G
1 GTCAACGG
9795378 GTCAACGG
1 GTCAACGG
9795386 GTCAAC-G
1 GTCAACGG
9795393 GTCAACGG
1 GTCAACGG
9795401 GTCAACGG
1 GTCAACGG
9795409 GT---CGG
1 GTCAACGG
*
9795414 GTCAACGA
1 GTCAACGG
*
9795422 GTCGAGTCGG
1 GTC-A-ACGG
9795432 GTCAACGG
1 GTCAACGG
9795440 GTC
1 GTC
9795443 GGGTAAACGG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
5 5 0.09
7 13 0.24
8 29 0.54
9 2 0.04
10 5 0.09
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:9795391 original size:15 final size:15
Alignment explanation
Indices: 9795371--9795408 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
9795361 GTCAACAGTA
9795371 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
9795386 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
9795401 GTCAACGG
1 GTCAACGG
9795409 GTCGGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:9795416 original size:13 final size:13
Alignment explanation
Indices: 9795398--9795460 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
9795388 CAACGGTCAA
9795398 CGGGTCAACGGGT
1 CGGGTCAACGGGT
9795411 CGGGTCAACGAGTCGAGT
1 CGGGTCAAC--G--G-GT
9795429 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
9795442 CGGGTAAACGGGT
1 CGGGTCAACGGGT
9795455 CGGGTC
1 CGGGTC
9795461 GGGTAAACGG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.65
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.26
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:9795432 original size:18 final size:18
Alignment explanation
Indices: 9795409--9795443 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9795399 GGGTCAACGG
9795409 GTCGGGTCAACGAGTCGA
1 GTCGGGTCAACGAGTCGA
*
9795427 GTCGGGTCAACGGGTCG
1 GTCGGGTCAACGAGTCG
9795444 GGTAAACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGAGTCGA
Found at i:9795436 original size:31 final size:30
Alignment explanation
Indices: 9795383--9795478 Score: 115
Period size: 31 Copynumber: 3.2 Consensus size: 30
9795373 CAACGGTCAA
*
9795383 CGGGTCAACGGTC-A-ACGGGTCAACGGGT
1 CGGGTCAACGGTCGAGTCGGGTCAACGGGT
9795411 CGGGTCAACGAGTCGAGTCGGGTCAACGGGT
1 CGGGTCAACG-GTCGAGTCGGGTCAACGGGT
* * *
9795442 CGGGTAAACGGGTCGGGTCGGGTAAACGGGT
1 CGGGTCAAC-GGTCGAGTCGGGTCAACGGGT
*
9795473 TGGGTC
1 CGGGTC
9795479 GGGTTGTGAC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 10 0.17
29 3 0.05
30 1 0.02
31 43 0.74
32 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.44, T:0.17
Consensus pattern (30 bp):
CGGGTCAACGGTCGAGTCGGGTCAACGGGT
Found at i:9795458 original size:18 final size:18
Alignment explanation
Indices: 9795437--9795482 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
9795427 GTCGGGTCAA
9795437 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
9795455 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
9795473 TGGGTCGGGT
1 CGGGTCGGGT
9795483 TGTGACCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.15, G:0.52, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:9800145 original size:80 final size:80
Alignment explanation
Indices: 9799986--9800211 Score: 344
Period size: 80 Copynumber: 2.8 Consensus size: 80
9799976 AATGTAAACA
* * *
9799986 ATTAATGGCCTAGATGTACATTTGACAGAAAGGTGTTAATTATGCTAGTTAGATGAAAGGTTAAA
1 ATTAATGGCCTAGATGTGCATTTGACAGAAAAGTGTCAATTATGC-AGTTAGATGAAAGGTTAAA
9800051 TACCTTTGAGTAAAAG
65 TACCTTTGAGTAAAAG
* * *
9800067 TTTAATGGCCTAGCTGTGCATTTGACATAAAAGTGTCAATTATGCAGTTAGATGAAAGGTTAAAT
1 ATTAATGGCCTAGATGTGCATTTGACAGAAAAGTGTCAATTATGCAGTTAGATGAAAGGTTAAAT
9800132 ACCTTTGAGTAAAAG
66 ACCTTTGAGTAAAAG
* * * *
9800147 ATTAATGGCCTAGTTGTGTATTTGACAGGAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAA
1 ATTAATGGCCTAGATGTGCATTTGACAGAAAAGTGTCAATTATG-CAGTTAGATGAAAGGTTAAA
9800212 GATTAATGGC
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
80 73 0.55
81 59 0.45
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (80 bp):
ATTAATGGCCTAGATGTGCATTTGACAGAAAAGTGTCAATTATGCAGTTAGATGAAAGGTTAAAT
ACCTTTGAGTAAAAG
Found at i:9800249 original size:66 final size:66
Alignment explanation
Indices: 9800143--9800277 Score: 243
Period size: 66 Copynumber: 2.0 Consensus size: 66
9800133 CCTTTGAGTA
* * *
9800143 AAAGATTAATGGCCTAGTTGTGTATTTGACAGGAATGTGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
9800208 T
66 T
9800209 AAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
9800274 T
66 T
9800275 AAA
1 AAA
9800278 TACCTTTGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (66 bp):
AAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
T
Found at i:9802570 original size:16 final size:17
Alignment explanation
Indices: 9802535--9802585 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 17
9802525 AATTAAAAAC
*
9802535 AATATTTTTTATTATTTT
1 AATA-TTTTTAATATTTT
9802553 AA-ATTTATTAAT-TTTT
1 AATATTT-TTAATATTTT
9802569 AATATTTTTAATATTTT
1 AATATTTTTAATATTTT
9802586 TTACTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 14 0.48
17 13 0.45
18 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
AATATTTTTAATATTTT
Found at i:9802754 original size:16 final size:16
Alignment explanation
Indices: 9802733--9802767 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
9802723 TCATAATAAA
9802733 TTATTTATTTCCTTAG
1 TTATTTATTTCCTTAG
9802749 TTATTTATTTCCTTAG
1 TTATTTATTTCCTTAG
9802765 TTA
1 TTA
9802768 AGACTTGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.63
Consensus pattern (16 bp):
TTATTTATTTCCTTAG
Found at i:9803818 original size:18 final size:20
Alignment explanation
Indices: 9803782--9803818 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
9803772 TTTCTTTAGA
*
9803782 TTAATATAATTATTTTCATT
1 TTAATATAATTATTGTCATT
9803802 TTAATAT-A-TATTGTCAT
1 TTAATATAATTATTGTCAT
9803819 ATTATGGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (20 bp):
TTAATATAATTATTGTCATT
Found at i:9804250 original size:150 final size:148
Alignment explanation
Indices: 9803974--9804250 Score: 335
Period size: 150 Copynumber: 1.9 Consensus size: 148
9803964 TTGATTTTAT
* * *
9803974 TGTAGTATTCGTGACGATATAAATTATTAATAAAAATATCATATAATTTAGTGACTTAACTAACT
1 TGTAGTATTCGTGACGATATAAATTATTAATAAAAAAATCATATAATTTAATGACATAACTAACT
** *
9804039 GTCATGCAATATAAGTTATGAAATGACGTTATGCATAAGTGTCATTCATAATACTATTAGGTAAC
66 GTCATGCAATATAAGTTATGAAATGACGTTATGCATAAACGTCATTCATAATACTAATAGGTAAC
9804104 ATTATATTATGTCACTAA
131 ATTATATTATGTCACTAA
* * * * *
9804122 TGTATTATTCGTGACGATGTGAATTATTAATAAGAAAAATTTATATAATTTAATGACATAACTAG
1 TGTAGTATTCGTGACGATATAAATTATTAATAA-AAAAA-TCATATAATTTAATGACATAACTAA
* * * * * *
9804187 TTGTCATTG-AGTATCAA-TTAT-AAAGTGACGTTATGTATAAACGTCATTTATACTGCTAATAG
64 CTGTCA-TGCAATAT-AAGTTATGAAA-TGACGTTATGCATAAACGTCATTCATAATACTAATAG
9804249 GT
126 GT
9804251 GACCATGTAT
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
148 30 0.28
149 7 0.07
150 66 0.62
151 4 0.04
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (148 bp):
TGTAGTATTCGTGACGATATAAATTATTAATAAAAAAATCATATAATTTAATGACATAACTAACT
GTCATGCAATATAAGTTATGAAATGACGTTATGCATAAACGTCATTCATAATACTAATAGGTAAC
ATTATATTATGTCACTAA
Found at i:9808430 original size:81 final size:81
Alignment explanation
Indices: 9808329--9808659 Score: 477
Period size: 81 Copynumber: 4.1 Consensus size: 81
9808319 AATGTTTTAC
* * * * *
9808329 AGTAAAAGATTAATGACCTAGATGTGCATTTGACAGAAAAATGTTAATTATGCAAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
9808394 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
9808410 AGTAAACGATTAATGGCCTAGTTGTGCATTTGATAGAAAGATGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
*
9808475 AGGTTAAATACCATTG
66 AGGTTAAATACCTTTG
** *
9808491 AGTAAAAGATTAATACCCTAGTTGTGCATTTGACA-AATATG-TGTCAATTATGCCAGTTAGAAG
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAA-A-GATGTCAATTATGCCAGTTAGATG
9808554 AAAGGTTAAATACCTTTG
64 AAAGGTTAAATACCTTTG
* * * *
9808572 AGTAAAAGATGAATGGCCTAGCTGTGCATTGGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
*
9808637 AGGTTAAATAACTTTG
66 AGGTTAAATACCTTTG
*
9808653 GGTAAAA
1 AGTAAAA
9808660 TACTAAAGCC
Statistics
Matches: 224, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
80 3 0.01
81 218 0.97
82 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.30
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:9812102 original size:16 final size:16
Alignment explanation
Indices: 9812081--9812118 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9812071 ATTTTGCCTG
9812081 AAGAAAAAGAAGAATA
1 AAGAAAAAGAAGAATA
* *
9812097 AAGAAAAATAATAATA
1 AAGAAAAAGAAGAATA
9812113 AA-AAAA
1 AAGAAAA
9812119 GGAGAGTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAGAAAAAGAAGAATA
Found at i:9813243 original size:82 final size:82
Alignment explanation
Indices: 9813143--9813592 Score: 650
Period size: 82 Copynumber: 5.5 Consensus size: 82
9813133 AAAATATCTC
* * * * * *
9813143 AAAAAGAGAAACATATCAAGTCTAATCTCTCCTGAAAGAATAGTGGAACAAACCCGTCTTCCAAA
1 AAAAAGAGGAACAAATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAAA
* *
9813208 ATTAATCTGACTACCCA
66 ATTGATCTGACTACCCG
* * * *
9813225 AAAAAGAGGAACAAATCAAGTCTGATCTCCCCTAAAAGAATAGTTGAGTAGACTCGTCTTCCAAA
1 AAAAAGAGGAACAAATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAAA
* *
9813290 ATTTATCTGACTACCTG
66 ATTGATCTGACTACCCG
*
9813307 AAAAAGAGGAACAAATCAAGTCTGATCTCCCCTGAAAGAATAGTAGAGCAGACCCGTCTTCCAAA
1 AAAAAGAGGAACAAATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAAA
*
9813372 ATTGATCTGACTACTCG
66 ATTGATCTGACTACCCG
* * * * *
9813389 AAAAAGAGGAACATATCAAGTTTGATCTCCCCTGAAAGAATAATGGAGCAGACCCATCTCCCAAA
1 AAAAAGAGGAACAAATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAAA
9813454 ATTGATCTGACTACCCG
66 ATTGATCTGACTACCCG
* *
9813471 AAAAAGAGGAACATATCAAGTCTCATCTCCCCTGAAA-ACATAGTGGAGCAGACCCGTCTTCCAA
1 AAAAAGAGGAACAAATCAAGTCTGATCTCCCCTGAAAGA-ATAGTGGAGCAGACCCGTCTTCCAA
*
9813535 AATTGATCTAACTACCCG
65 AATTGATCTGACTACCCG
* *
9813553 AAAAAAAGGAACAAATCAAGTCTGATATCCCCTGAAAGAA
1 AAAAAGAGGAACAAATCAAGTCTGATCTCCCCTGAAAGAA
9813593 AGAGTTGAAC
Statistics
Matches: 329, Mismatches: 37, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
81 1 0.00
82 327 0.99
83 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (82 bp):
AAAAAGAGGAACAAATCAAGTCTGATCTCCCCTGAAAGAATAGTGGAGCAGACCCGTCTTCCAAA
ATTGATCTGACTACCCG
Found at i:9813742 original size:3 final size:3
Alignment explanation
Indices: 9813734--9813797 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
9813724 TACATATATA
* *
9813734 TAT TAT TAT TAT TA- TAT TAT TAT TAT CAT CAT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
9813779 TAT TAT TAT TA- TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
9813798 ATAATTAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 4 0.07
3 49 0.88
4 3 0.05
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:9815416 original size:20 final size:22
Alignment explanation
Indices: 9815371--9815417 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
9815361 AATAAAATAA
9815371 TATTTTTATGTTTTAAATAAATT
1 TATTTTTATGTTTT-AATAAATT
*
9815394 TATTTTTAT-TTTT-ATATATT
1 TATTTTTATGTTTTAATAAATT
9815414 TATT
1 TATT
9815418 GTATCTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
22 4 0.17
23 9 0.39
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TATTTTTATGTTTTAATAAATT
Found at i:9817782 original size:16 final size:15
Alignment explanation
Indices: 9817732--9817778 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
9817722 AATTTGAATG
9817732 AATTAAATT-ATTT-
1 AATTAAATTAATTTA
*
9817745 -ATTAACATTATTTTA
1 AATTAA-ATTAATTTA
9817760 AATTAAATTAATTTA
1 AATTAAATTAATTTA
9817775 AATT
1 AATT
9817779 TAAAGTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 5 0.18
13 3 0.11
14 3 0.11
15 12 0.43
16 5 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTAAATTAATTTA
Found at i:9821337 original size:15 final size:15
Alignment explanation
Indices: 9821300--9821336 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
9821290 TGTAAAACCA
*
9821300 TTAATTTTGAATGGT
1 TTAATTTTGAATGCT
9821315 TTAATTTTGAA-GCT
1 TTAATTTTGAATGCT
9821329 TTAATTTT
1 TTAATTTT
9821337 TTTATTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.57
Consensus pattern (15 bp):
TTAATTTTGAATGCT
Found at i:9821354 original size:17 final size:18
Alignment explanation
Indices: 9821329--9821362 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9821319 TTTTGAAGCT
*
9821329 TTAATTTTTTTATTAATA
1 TTAATTTTTATATTAATA
9821347 TTAA-TTTTATATTAAT
1 TTAATTTTTATATTAAT
9821363 GAAAAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTAATTTTTATATTAATA
Found at i:9824152 original size:21 final size:21
Alignment explanation
Indices: 9824126--9824175 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
9824116 TCCCTTAAGG
*
9824126 GGAATGGGAACGAGTTTCAAT
1 GGAATGGAAACGAGTTTCAAT
9824147 GGAATGGAAACGAGTTTCAAT
1 GGAATGGAAACGAGTTTCAAT
9824168 GGAATGGA
1 GGAATGGA
9824176 CTTTGTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.22
Consensus pattern (21 bp):
GGAATGGAAACGAGTTTCAAT
Found at i:9826141 original size:24 final size:25
Alignment explanation
Indices: 9826101--9826189 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 25
9826091 TGCTAGAAGC
9826101 ACACAAATGT-CTAAATACAG-GAGT
1 ACACAAATGTACT-AATACAGAGAGT
* *
9826125 ACAC-AATGGTACTAATA-TGATAGT
1 ACACAAAT-GTACTAATACAGAGAGT
9826149 ACACAAATGTACTAATAC-GAGAGCT
1 ACACAAATGTACTAATACAGAGAG-T
*
9826174 -CACAAATGCACTAATA
1 ACACAAATGTACTAATA
9826190 AAAGATTGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
23 4 0.07
24 45 0.82
25 6 0.11
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (25 bp):
ACACAAATGTACTAATACAGAGAGT
Found at i:9826871 original size:9 final size:9
Alignment explanation
Indices: 9826859--9826893 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
9826849 TCTCAACAGT
9826859 TTCAAAATA
1 TTCAAAATA
9826868 TTCAAAATA
1 TTCAAAATA
9826877 TTCAAAATA
1 TTCAAAATA
9826886 TTCAAAAT
1 TTCAAAAT
9826894 GGTCCCTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (9 bp):
TTCAAAATA
Found at i:9831149 original size:95 final size:95
Alignment explanation
Indices: 9831001--9831182 Score: 265
Period size: 95 Copynumber: 1.9 Consensus size: 95
9830991 CAATACTAAC
* * * * * *
9831001 AGAAAAGTATCGATGCCTTAGAATCCATAATGTAGAAATTGTATCAATACTGAAAGGGGGTATCG
1 AGAAAAGTATCGATACCATAGAATCCATAATGCAGAAATGGTATCAATACTGAAAGAGAGTATCG
*
9831066 GTACCATAGTATAGAAGTATCGGTACTAGG
66 GTACCATAATATAGAAGTATCGGTACTAGG
* * * *
9831096 AGAAAGGTATCGATACCATGGATTCCATAATGCAGAAATGGTATCGATACTGAAAGAGAGTATCG
1 AGAAAAGTATCGATACCATAGAATCCATAATGCAGAAATGGTATCAATACTGAAAGAGAGTATCG
9831161 GTACCATAATATAGAAGTATCG
66 GTACCATAATATAGAAGTATCG
9831183 ATACCATGGT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 76 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (95 bp):
AGAAAAGTATCGATACCATAGAATCCATAATGCAGAAATGGTATCAATACTGAAAGAGAGTATCG
GTACCATAATATAGAAGTATCGGTACTAGG
Found at i:9831740 original size:81 final size:81
Alignment explanation
Indices: 9831604--9832099 Score: 755
Period size: 81 Copynumber: 6.1 Consensus size: 81
9831594 GTTCTTAAAA
* *
9831604 TAAAAGATTAATTGCCTAGCTGTGCATTTGGCAA-AAAGGTGTCAATATTGTAAGTTAGATGAAA
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGG-AAGAAAGGTGCCAATATTGCAAGTTAGATGAAA
* *
9831668 GTCTAAATGTCTTTGAG
65 GGCTAAATGCCTTTGAG
* *
9831685 TAAAAGATTAATTACCTAGCTATGCATTTGGAAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGGAAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
*
9831750 GCTAAATGTCTTTGAG
66 GCTAAATGCCTTTGAG
**
9831766 TAAAAGATTAATTGCCTAGCTGTGCATTT-GACATTAAGGTGCCAATATTGCAAGTTAGATGAAA
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGGA-AGAAAGGTGCCAATATTGCAAGTTAGATGAAA
**
9831830 GGCTAAACACCTTTGAG
65 GGCTAAATGCCTTTGAG
* * *
9831847 TAAAAGATTAATTGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCAAGTTAGACGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGGAAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
9831912 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* * * *
9831928 TAAAAGATTAATTGCCTAGTTGTGCATTTGGTAGAAAGGTGCCAATATTGCAAGTTAGACGAAAT
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGGAAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
9831993 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* * * *
9832009 TAAAAGATTAATTGCCTA-TTGTGCATTTGGCAGAAAGGTACCAGTATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGGAAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
9832073 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
9832089 TAAAAGATTAA
1 TAAAAGATTAA
9832100 ATGATTAACA
Statistics
Matches: 384, Mismatches: 28, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
80 72 0.19
81 311 0.81
82 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGCTGTGCATTTGGAAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
GCTAAATGCCTTTGAG
Found at i:9837680 original size:21 final size:18
Alignment explanation
Indices: 9837651--9837702 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 18
9837641 CAGATATACG
*
9837651 GTATTGATACTAATGTAATTA
1 GTATCGATACTAATGT-A--A
*
9837672 GTATCGATACTGATGTAA
1 GTATCGATACTAATGTAA
9837690 GTATCGATACTAA
1 GTATCGATACTAA
9837703 GACAAAGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 13 0.46
20 1 0.04
21 14 0.50
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (18 bp):
GTATCGATACTAATGTAA
Found at i:9837836 original size:94 final size:95
Alignment explanation
Indices: 9837688--9837888 Score: 255
Period size: 94 Copynumber: 2.1 Consensus size: 95
9837678 ATACTGATGT
* *
9837688 AAGTATCGATACTAAGACAAAGATATCGATACCTTAGAATCCAAAATGTAGAAATGGTATCGATA
1 AAGTATCGATACTAAGACAAAGATATCGATACCATAGAATCCAAAATGTAGAAATGGTAACGATA
* *
9837753 TTGAAA-AGAGTAT-TGATACCATAGTATAG
66 GTGAAAGAGAGTATCAG-TACCATAGTATAG
* * * * * * *
9837782 AAGTATCGATACTAGGAGAAAGGTATTGATACCATGGATTCCAGAATGCT-GAAATGGTAACGAT
1 AAGTATCGATACTAAGACAAAGATATCGATACCATAGAATCCAAAATG-TAGAAATGGTAACGAT
*
9837846 AGTGAAAGAGAGTATCAGTACCATAGTATAT
65 AGTGAAAGAGAGTATCAGTACCATAGTATAG
9837877 AAGTATCGATAC
1 AAGTATCGATAC
9837889 CATGGTATGG
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
94 59 0.64
95 32 0.35
96 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (95 bp):
AAGTATCGATACTAAGACAAAGATATCGATACCATAGAATCCAAAATGTAGAAATGGTAACGATA
GTGAAAGAGAGTATCAGTACCATAGTATAG
Found at i:9838441 original size:81 final size:81
Alignment explanation
Indices: 9838306--9838721 Score: 654
Period size: 81 Copynumber: 5.1 Consensus size: 81
9838296 GTTCTTAAAA
* * * *
9838306 TAAAATATTAATTGCGTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTACAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
9838371 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* *
9838387 TAAAAGATTAATTGCCTAGCTGCGCATTTGGCATAAAGGTGCCAATATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
9838452 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* * *
9838468 TAAAAGATTAATTGCCTAGCTGTGCATTTGGTAGAAAGGTTCTAATATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
*
9838533 GCTAAATGCTTTTGAG
66 GCTAAATGCCTTTGAG
* *
9838549 TAAAAGATTAATTGCCTAGTTGTGTATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
*
9838614 GCTAAATACCTTTGAG
66 GCTAAATGCCTTTGAG
* * * * *
9838630 TAAAAGATTAATTGCCTAGCTGCGCATTTGGTAGAAATGT-CTCAATATTGCAAATTCGATGAAA
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGGCAGAAAGGTGC-CAATATTGCAAGTTAGATGAAA
9838694 GGCTAAATGCCTTTGAG
65 GGCTAAATGCCTTTGAG
9838711 TAAAAGATTAA
1 TAAAAGATTAA
9838722 ATGATTAACA
Statistics
Matches: 307, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 1 0.00
81 306 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
GCTAAATGCCTTTGAG
Found at i:9839705 original size:53 final size:53
Alignment explanation
Indices: 9839648--9839839 Score: 242
Period size: 53 Copynumber: 3.6 Consensus size: 53
9839638 ATCTTTTATT
* * *
9839648 TGTCGAAATGATAATTCACAAACTCATTATGAATTCCATGGATGCACACATAG
1 TGTCAAAATGGTAATTCATAAACTCATTATGAATTCCATGGATGCACACATAG
* * * * *
9839701 TGTCGAAATGGTAATTCATAAACTCAATATGAATTCCATGGTTGAACATATAG
1 TGTCAAAATGGTAATTCATAAACTCATTATGAATTCCATGGATGCACACATAG
* * *
9839754 TGCCAAAATGGTAATTCATAAACTCATTATGAATAT-CATGGGTCCACACATAG
1 TGTCAAAATGGTAATTCATAAACTCATTATGAAT-TCCATGGATGCACACATAG
* * *
9839807 TGTCAAAATGGTAATTTAAAAAATCATTATGAA
1 TGTCAAAATGGTAATTCATAAACTCATTATGAA
9839840 CACATAGTAG
Statistics
Matches: 121, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
53 120 0.99
54 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (53 bp):
TGTCAAAATGGTAATTCATAAACTCATTATGAATTCCATGGATGCACACATAG
Found at i:9847832 original size:17 final size:17
Alignment explanation
Indices: 9847810--9847844 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9847800 CTGAAGTTCT
9847810 TTGTGATGTGGTGCCCA
1 TTGTGATGTGGTGCCCA
9847827 TTGTGATGTGGTGCCCA
1 TTGTGATGTGGTGCCCA
9847844 T
1 T
9847845 GAGTGCAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.34, T:0.37
Consensus pattern (17 bp):
TTGTGATGTGGTGCCCA
Found at i:9852585 original size:3 final size:3
Alignment explanation
Indices: 9852577--9852611 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9852567 AACATTTTAA
9852577 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9852612 AACGTTTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9853206 original size:53 final size:53
Alignment explanation
Indices: 9853123--9853327 Score: 250
Period size: 53 Copynumber: 3.9 Consensus size: 53
9853113 TTAAGTGCTG
* * * *
9853123 AAATGGTAATTAACAAACTCATTATGAATTCCATGGACGCACACATAATGTCA
1 AAATGGTAATTCATAAACTCATTATGAATACCATGGACGCACACATAATGCCA
* * * * * * *
9853176 AAATGGTAATTCATAAACTCATTATAAATTCCATGGATGAATAAAAAATGCCA
1 AAATGGTAATTCATAAACTCATTATGAATACCATGGACGCACACATAATGCCA
** * *
9853229 AAATGGTAATTCATAAACTCATTATGAATACCATGGGTGCACACATAGTGCCG
1 AAATGGTAATTCATAAACTCATTATGAATACCATGGACGCACACATAATGCCA
*
9853282 AAATGGTAATTCAAAAACTCATTATGAATACCAT-GAGCGCACACAT
1 AAATGGTAATTCATAAACTCATTATGAATACCATGGA-CGCACACAT
9853328 GGTGCCGAAA
Statistics
Matches: 130, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
52 1 0.01
53 129 0.99
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (53 bp):
AAATGGTAATTCATAAACTCATTATGAATACCATGGACGCACACATAATGCCA
Found at i:9853316 original size:106 final size:106
Alignment explanation
Indices: 9853123--9853316 Score: 289
Period size: 106 Copynumber: 1.8 Consensus size: 106
9853113 TTAAGTGCTG
* *
9853123 AAATGGTAATTAACAAACTCATTATGAATTCCATGGACGCACACATAATGTCAAAATGGTAATTC
1 AAATGGTAATTAACAAACTCATTATGAATACCATGGACGCACACATAATGCCAAAATGGTAATTC
* *
9853188 ATAAACTCATTATAAATTCCATGGATGAATAAAAAATGCCA
66 AAAAACTCATTATAAATACCATGGATGAATAAAAAATGCCA
* * ** * *
9853229 AAATGGTAATTCATAAACTCATTATGAATACCATGGGTGCACACATAGTGCCGAAATGGTAATTC
1 AAATGGTAATTAACAAACTCATTATGAATACCATGGACGCACACATAATGCCAAAATGGTAATTC
*
9853294 AAAAACTCATTATGAATACCATG
66 AAAAACTCATTATAAATACCATG
9853317 AGCGCACACA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
106 77 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.27
Consensus pattern (106 bp):
AAATGGTAATTAACAAACTCATTATGAATACCATGGACGCACACATAATGCCAAAATGGTAATTC
AAAAACTCATTATAAATACCATGGATGAATAAAAAATGCCA
Found at i:9857922 original size:17 final size:18
Alignment explanation
Indices: 9857892--9857930 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
9857882 ATACTTAATT
*
9857892 TTAACCTTAATTTTT-TA
1 TTAACATTAATTTTTATA
*
9857909 TTAACATTATTTTTTATA
1 TTAACATTAATTTTTATA
9857927 TTAA
1 TTAA
9857931 TTATGAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAACATTAATTTTTATA
Found at i:9857930 original size:18 final size:17
Alignment explanation
Indices: 9857892--9857925 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9857882 ATACTTAATT
*
9857892 TTAACCTTAATTTTTTA
1 TTAACATTAATTTTTTA
9857909 TTAACATT-ATTTTTTA
1 TTAACATTAATTTTTTA
9857925 T
1 T
9857926 ATTAATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAACATTAATTTTTTA
Found at i:9858448 original size:140 final size:140
Alignment explanation
Indices: 9858219--9858485 Score: 412
Period size: 140 Copynumber: 1.9 Consensus size: 140
9858209 AAAGATAAAT
* * * * * *
9858219 AGCTTGGCTAACGGGTTAAATATGTTTGCTTAGTTTGGTATTCAAATTTTAAAAACATAACAATC
1 AGCTTGACTAACCGGTCAAATATGCTTGCTCAATTTGGTATTCAAATTTTAAAAACATAACAATC
*
9858284 AAAATGTATTTCAAACCTATTCAAATTTGGAAAATCATGGTTTAAAATTGTTGTAATTCGAACTG
66 AAAATGTATTTCAAACCTATTCAAATTTAGAAAATC-TGGTTTAAAATTGTTGTAATTCGAACTG
9858349 GATCAATAACC
130 GATCAATAACC
* *
9858360 AGCTTGACTAACCGGTCAAATATGCTTGCTCAATTTGGTATT-AAATTTTAAAAATATATCAATC
1 AGCTTGACTAACCGGTCAAATATGCTTGCTCAATTTGGTATTCAAATTTTAAAAACATAACAATC
*
9858424 AAAAAT-TATTTCAAGCCTATTCAAATTTAGAAAATCTGGTTTAAAATTGTTGTAATTCGAAC
66 -AAAATGTATTTCAAACCTATTCAAATTTAGAAAATCTGGTTTAAAATTGTTGTAATTCGAAC
9858486 ATTATCGATT
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
139 26 0.23
140 48 0.42
141 41 0.36
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (140 bp):
AGCTTGACTAACCGGTCAAATATGCTTGCTCAATTTGGTATTCAAATTTTAAAAACATAACAATC
AAAATGTATTTCAAACCTATTCAAATTTAGAAAATCTGGTTTAAAATTGTTGTAATTCGAACTGG
ATCAATAACC
Found at i:9859146 original size:146 final size:146
Alignment explanation
Indices: 9858891--9859160 Score: 391
Period size: 146 Copynumber: 1.8 Consensus size: 146
9858881 AGGCAAAGAG
** * *
9858891 CTATGATGTATCGTCGTTGTACCTTTTGCTCCCGTGATTCTAGCAGATGATGATTCTACCAAAAG
1 CTATGATGTATCGTCACTGTACCTTTTGCTCCCGTGATTCCAGCAGATAATGATTCTACCAAAAG
** * * *
9858956 ATCGTTTTCTTTTGGTAAATTCATTATTTGCGGGAACAACGGCAATGAAAGGTACATCACCGTGG
66 ATCACTTTCTTTTGGTAAATTCATTATCTGCGGAAACAACGGCAACGAAAGGTACATCACCGTGG
9859021 GCGAAGAGGCAAAACA
131 GCGAAGAGGCAAAACA
*
9859037 CTATGATGTA-CTGTCACTGTACCTTTTGCTCTCGTGATTCCAGCAGATAATGATTCTACCAAAA
1 CTATGATGTATC-GTCACTGTACCTTTTGCTCCCGTGATTCCAGCAGATAATGATTCTACCAAAA
* * *
9859101 GATTACTTTCTTTTGGTAGATTCATTATCTGCTGAAACCAA-GGCAACGAAAGGTACATCA
65 GATCACTTTCTTTTGGTAAATTCATTATCTGCGGAAA-CAACGGCAACGAAAGGTACATCA
9859161 ATGGTACATC
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
145 1 0.01
146 105 0.96
147 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (146 bp):
CTATGATGTATCGTCACTGTACCTTTTGCTCCCGTGATTCCAGCAGATAATGATTCTACCAAAAG
ATCACTTTCTTTTGGTAAATTCATTATCTGCGGAAACAACGGCAACGAAAGGTACATCACCGTGG
GCGAAGAGGCAAAACA
Found at i:9862144 original size:14 final size:14
Alignment explanation
Indices: 9862125--9862153 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9862115 TTATAACCAT
9862125 TTTGTTTAAGTCAG
1 TTTGTTTAAGTCAG
9862139 TTTGTTTAAGTCAG
1 TTTGTTTAAGTCAG
9862153 T
1 T
9862154 CTACAGATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (14 bp):
TTTGTTTAAGTCAG
Found at i:9873052 original size:16 final size:15
Alignment explanation
Indices: 9873022--9873060 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9873012 TATATCAGCT
*
9873022 TTTA-TTTTTATAT-
1 TTTATTTTTTAAATA
9873035 TTTATTTTTTAAATA
1 TTTATTTTTTAAATA
9873050 TTTATTTTTTA
1 TTTATTTTTTA
9873061 TCTTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 8 0.35
15 11 0.48
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTTTAAATA
Found at i:9873299 original size:5 final size:5
Alignment explanation
Indices: 9873283--9873469 Score: 80
Period size: 5 Copynumber: 38.8 Consensus size: 5
9873273 AAAATAAAAT
* *
9873283 TATAA TATTAA TATAA TA-AA TACAA -AT-A TTTATA TATAA TATAA TAT-A
1 TATAA TA-TAA TATAA TATAA TATAA TATAA TATA-A TATAA TATAA TATAA
* * * * *
9873331 TATAT TATAA -ATAT TATTCA TACT-A TATAA TACACA CAT-A TATAA
1 TATAA TATAA TATAA TA-TAA TA-TAA TATAA TATA-A TATAA TATAA
* * * *
9873376 TATAA -ATAA -ATAC TATAC TAT-A TAT-A GATAA TATAA TTTAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* *
9873422 TAT-A TATAA TAT-A TATTA TAGT-A TATAA -ATAT TATACTA TATAA
1 TATAA TATAA TATAA TATAA TA-TAA TATAA TATAA TATA--A TATAA
9873466 TATA
1 TATA
9873470 TAACGCATGT
Statistics
Matches: 141, Mismatches: 21, Indels: 40
0.70 0.10 0.20
Matches are distributed among these distances:
3 1 0.01
4 42 0.30
5 78 0.55
6 16 0.11
7 4 0.03
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:9873320 original size:2 final size:2
Alignment explanation
Indices: 9873308--9873471 Score: 79
Period size: 2 Copynumber: 86.5 Consensus size: 2
9873298 ATAAATACAA
* *
9873308 AT AT TT AT AT AT A- AT AT A- AT AT AT AT AT -T AT AA AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
9873346 AT -T CAT ACT AT AT A- AT AC AC AC AT AT AT A- AT AT AA AT AA AT
1 AT AT -AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
9873387 ACT AT ACT AT AT AT AG AT A- AT AT A- AT TT A- AT AT A- AT AT AT
1 A-T AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9873427 AT A- AT AT AT AT -T AT AGT AT AT AA AT AT -T AT ACT AT AT A- AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT
9873467 AT AT A
1 AT AT A
9873472 ACGCATGTAG
Statistics
Matches: 125, Mismatches: 16, Indels: 42
0.68 0.09 0.23
Matches are distributed among these distances:
1 15 0.12
2 99 0.79
3 11 0.09
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (2 bp):
AT
Found at i:9873333 original size:9 final size:9
Alignment explanation
Indices: 9873283--9873471 Score: 95
Period size: 9 Copynumber: 20.2 Consensus size: 9
9873273 AAAATAAAAT
9873283 TATAATATTAA
1 TATAATA-T-A
*
9873294 TATAATAAA
1 TATAATATA
*
9873303 TACAA-ATA
1 TATAATATA
*
9873311 TTTATATATAA
1 TATA-ATAT-A
9873322 TATAATATA
1 TATAATATA
*
9873331 TATATTATA
1 TATAATATA
* *
9873340 AATATTAT-
1 TATAATATA
9873348 TCATACTATATAA
1 T-ATA--ATAT-A
* *
9873361 TACACACATA
1 TATA-ATATA
9873371 TATAATATA
1 TATAATATA
*
9873380 AATAA-ATA
1 TATAATATA
*
9873388 CTATACTATA
1 -TATAATATA
9873398 TATAGATA-A
1 TATA-ATATA
*
9873407 TATAATTTAA
1 TATAATAT-A
9873417 TATAATATA
1 TATAATATA
9873426 TATAATATA
1 TATAATATA
*
9873435 TATTATAGTA
1 TATAATA-TA
9873445 TATAA-ATA
1 TATAATATA
9873453 T-T-ATACTA
1 TATAATA-TA
9873461 TATAATATA
1 TATAATATA
9873470 TA
1 TA
9873472 ACGCATGTAG
Statistics
Matches: 137, Mismatches: 23, Indels: 38
0.69 0.12 0.19
Matches are distributed among these distances:
6 1 0.01
7 2 0.01
8 15 0.11
9 67 0.49
10 32 0.23
11 17 0.12
12 2 0.01
13 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (9 bp):
TATAATATA
Found at i:9873394 original size:40 final size:39
Alignment explanation
Indices: 9873315--9873399 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 39
9873305 CAAATATTTA
* * * * *
9873315 TATATAATATAATATATATATTATAAATATTATTCATAC
1 TATATAATACAACATATATAATATAAATAATACTCATAC
9873354 TATATAATACACACATATATAATATAAATAAATACT-ATAC
1 TATATAATACA-ACATATATAATATAAAT-AATACTCATAC
9873394 TATATA
1 TATATA
9873400 TAGATAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 10 0.26
40 25 0.64
41 4 0.10
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (39 bp):
TATATAATACAACATATATAATATAAATAATACTCATAC
Found at i:9875436 original size:19 final size:19
Alignment explanation
Indices: 9875414--9875450 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9875404 ACAACAGTTC
9875414 GAAAAGAAA-AAAGGAAAAG
1 GAAAA-AAAGAAAGGAAAAG
9875433 GAAAAAAAGAAAGGAAAA
1 GAAAAAAAGAAAGGAAAA
9875451 TAGAAAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
GAAAAAAAGAAAGGAAAAG
Found at i:9877844 original size:30 final size:30
Alignment explanation
Indices: 9877810--9877877 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
9877800 AAAAAAGAAC
* * *
9877810 GAAAAATAGAAAGAGACATGTGAAGGAATG
1 GAAAAACAGAAAGAGAAATGTGAAAGAATG
9877840 GAAAAACAGAAAGAGAAATGTGAAAGAATG
1 GAAAAACAGAAAGAGAAATGTGAAAGAATG
9877870 GAAAAACA
1 GAAAAACA
9877878 AAGCAACAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.59, C:0.04, G:0.26, T:0.10
Consensus pattern (30 bp):
GAAAAACAGAAAGAGAAATGTGAAAGAATG
Found at i:9884268 original size:19 final size:19
Alignment explanation
Indices: 9884244--9884283 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
9884234 AGCTTAGTGT
*
9884244 AGGTTTAGCACTATGGTGC
1 AGGTTTAGCACTACGGTGC
9884263 AGGTTTAGCACTACGGTGC
1 AGGTTTAGCACTACGGTGC
9884282 AG
1 AG
9884284 ATATTTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.28
Consensus pattern (19 bp):
AGGTTTAGCACTACGGTGC
Found at i:9884446 original size:21 final size:21
Alignment explanation
Indices: 9884377--9884446 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
9884367 TAAGCATTCA
*
9884377 AATAAGCTTACGAGCTTATGG
1 AATAAGCTTACGAGTTTATGG
* * *
9884398 AATAA--TGACAAGTATATTGG
1 AATAAGCTTACGAGTTTA-TGG
9884418 TAAAATAAGCTTACGAGTTTATGG
1 ---AATAAGCTTACGAGTTTATGG
9884442 AATAA
1 AATAA
9884447 ATGGTAAGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
19 7 0.19
20 3 0.08
21 10 0.28
23 5 0.14
24 3 0.08
25 8 0.22
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (21 bp):
AATAAGCTTACGAGTTTATGG
Found at i:9884471 original size:45 final size:45
Alignment explanation
Indices: 9884376--9884544 Score: 232
Period size: 45 Copynumber: 3.8 Consensus size: 45
9884366 GTAAGCATTC
**
9884376 AAATAAGCTTACGAGCTTATGGAAT-AATGACAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
9884420 AAATAAGCTTACGAGTTTATGGAATAAATGGTAAGTATATTGCTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
** * *
9884465 AAATAAGCTTAATAGCTTATGGGATTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTAT-GGAATAAATGGTAAGTATATTGGTA
* *
9884511 AAATAAGCTTACAAGCTTATGGGATAAATGGTAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAA
9884545 TAGATTTTAT
Statistics
Matches: 109, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
44 24 0.22
45 45 0.41
46 40 0.37
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:9884531 original size:91 final size:89
Alignment explanation
Indices: 9884376--9884544 Score: 239
Period size: 91 Copynumber: 1.9 Consensus size: 89
9884366 GTAAGCATTC
* * *
9884376 AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATTGGTAAAATAAGCTTACGAGTTTATG
1 AAATAAGCTTAAGAGCTTATGGAATAATGACAAGTATATTGGTAAAATAAGCTTACAAGCTTATG
9884441 GAATAAATGGTAAGTATATTGCTA
66 GAATAAATGGTAAGTATATTGCTA
* * ** *
9884465 AAATAAGCTTAATAGCTTATGGGATTAAATGGTAAGTATTTTGGTAAAATAAGCTTACAAGCTTA
1 AAATAAGCTTAAGAGCTTAT-GGAAT-AATGACAAGTATATTGGTAAAATAAGCTTACAAGCTTA
*
9884530 TGGGATAAATGGTAA
64 TGGAATAAATGGTAA
9884545 TAGATTTTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
89 18 0.26
90 4 0.06
91 47 0.68
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (89 bp):
AAATAAGCTTAAGAGCTTATGGAATAATGACAAGTATATTGGTAAAATAAGCTTACAAGCTTATG
GAATAAATGGTAAGTATATTGCTA
Found at i:9886337 original size:19 final size:18
Alignment explanation
Indices: 9886315--9886360 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
9886305 CGTAAAATAT
9886315 TAAATAACAAAAAAGTAAA
1 TAAATAA-AAAAAAGTAAA
*
9886334 TAAATAAATAAAAGTAAA
1 TAAATAAAAAAAAGTAAA
9886352 -ATAATAAAA
1 TA-AATAAAA
9886361 TACGAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 16 0.67
19 7 0.29
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
TAAATAAAAAAAAGTAAA
Found at i:9887915 original size:67 final size:69
Alignment explanation
Indices: 9887776--9887927 Score: 179
Period size: 67 Copynumber: 2.2 Consensus size: 69
9887766 AAGGACTTTG
* *
9887776 TGTTTCAAGAGAAACGATTTCAAAGGTTTCTCGTGTTTCAAGAGAAACTGTCTCCATGGTGGAAA
1 TGTTTCAAGAGAAACGATTTCAAAGG-TTCTCGTGTTTCAAGAGAAACTGTCTCCAAGGTAGAAA
*
9887841 AATTT
65 AACTT
* *
9887846 TGTTTCAAGAGAAAC-ATATTCAAAGG-T-TGGTGTTTCGAGAGAAACTGTCT-CAAGAG-AGAC
1 TGTTTCAAGAGAAACGAT-TTCAAAGGTTCTCGTGTTTCAAGAGAAACTGTCTCCAAG-GTAGA-
9887906 AAAACTT
63 AAAACTT
*
9887913 TGTTTCAAGGGAAAC
1 TGTTTCAAGAGAAAC
9887928 TGTTTTAAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
66 5 0.07
67 42 0.58
68 1 0.01
69 2 0.03
70 23 0.32
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (69 bp):
TGTTTCAAGAGAAACGATTTCAAAGGTTCTCGTGTTTCAAGAGAAACTGTCTCCAAGGTAGAAAA
ACTT
Found at i:9887917 original size:37 final size:36
Alignment explanation
Indices: 9887876--9888153 Score: 191
Period size: 36 Copynumber: 8.1 Consensus size: 36
9887866 CAAAGGTTGG
*
9887876 TGTTTCGAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
9887913 TGTTTCAAGGGAAACTGTTTTAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
9887949 TGTTTCAA-AGAACACATGT-TC-----A-A-ATATTT
1 TGTTTCAAGAGAA-AC-TGTCTCAAGAGAGACAAAATT
* *
9887978 TGTTTTAAGGGAAACTGTCTCAAGAGAG--AAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
9888012 TGTTACAAGAGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
9888048 TGTTTTAAGAAAAACAGAT-T-TA-A-AG----ATTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* * *
9888077 TATTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
9888113 TGTTTCAA-AGGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGA-GAAACTGTCTCAAGAGAGACAAAATT
9888149 TGTTT
1 TGTTT
9888154 TATGGGAAAT
Statistics
Matches: 183, Mismatches: 36, Indels: 45
0.69 0.14 0.17
Matches are distributed among these distances:
28 4 0.02
29 30 0.16
30 5 0.03
31 2 0.01
32 2 0.01
33 2 0.01
34 29 0.16
35 4 0.02
36 71 0.39
37 34 0.19
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:9888047 original size:99 final size:100
Alignment explanation
Indices: 9887809--9888153 Score: 342
Period size: 99 Copynumber: 3.4 Consensus size: 100
9887799 AGGTTTCTCG
* * * * * *
9887809 TGTTTCAAGAGAAACTGTCTCCATG-GTGGA-AAAATTTTGTTTCAAGAGAAACATATTCAAAGG
1 TGTTTCAAGAGAAACTGTCT-CAAGAG-AGACAAAA-TTTGTTTAAAGAAAAACAGATTCAAAGA
* * * *
9887872 TTGGTGTTTCGAGAGAAACTGTCTCAAGAGAGACAAAACTT
63 TT-TTATTTCAAGGGAAACTGTCTCAAGAGAGA-AAAA-TT
* * * * *
9887913 TGTTTCAAGGGAAACTGTTTTAAGAGAGACAAAATTTGTTTCAAAG-AACACATG-TTCAAATAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT-AAAGAAAAACA-GATTCAAAGAT
* *
9887976 TTTGTTTTAAGGGAAACTGTCTCAAGAGAG-AAAATT
64 TTTATTTCAAGGGAAACTGTCTCAAGAGAGAAAAATT
* * * * *
9888012 TGTTACAAGAGAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGAAAAACAGATTTAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGAAAAACAGATTCAAAGATTT
*
9888077 TATTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
66 TATTTCAAGGGAAACTGTCTCAAGAGAGA-AAAATT
*
9888113 TGTTTCAA-AGGAAATTGTCTCAAGAGAGACAAAATTTGTTT
1 TGTTTCAAGA-GAAACTGTCTCAAGAGAGACAAAATTTGTTT
9888154 TATGGGAAAT
Statistics
Matches: 200, Mismatches: 32, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
98 4 0.02
99 76 0.38
100 5 0.03
101 41 0.20
102 25 0.12
103 23 0.12
104 26 0.13
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (100 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGAAAAACAGATTCAAAGATTT
TATTTCAAGGGAAACTGTCTCAAGAGAGAAAAATT
Found at i:9888059 original size:34 final size:32
Alignment explanation
Indices: 9887976--9888059 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 32
9887966 GTTCAAATAT
9887976 TTTGTTTTAAGGGAAACTGTCTCAAGAGAGAAAA
1 TTTGTTTTAA--GAAACTGTCTCAAGAGAGAAAA
** *
9888010 TTTGTTACAAGAGAAACTGTCTCAAGGGAGACGAAA
1 TTTGTT-TTA-AGAAACTGTCTCAAGAGAGA--AAA
9888046 TTTGTTTTAAGAAA
1 TTTGTTTTAAGAAA
9888060 AACAGATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
34 29 0.71
35 2 0.05
36 10 0.24
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (32 bp):
TTTGTTTTAAGAAACTGTCTCAAGAGAGAAAA
Found at i:9888162 original size:36 final size:36
Alignment explanation
Indices: 9888083--9888191 Score: 119
Period size: 36 Copynumber: 3.0 Consensus size: 36
9888073 ATTTTATTTC
* * *
9888083 AAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTC
1 AAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTT
*
9888119 AAAGGAAATTGTCTCAAGAGAGACAAAATTTGTTTT
1 AAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTT
* * ** * *
9888155 ATGGGAAATAGTCTTGAGGGAGACAAAACGTTGTTTT
1 AAGGGAAATTGTCTCAAGAGAGACAAAA-TTTGTTTT
9888192 GAGTAAATTA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
36 54 0.89
37 7 0.11
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (36 bp):
AAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTT
Found at i:9888935 original size:102 final size:102
Alignment explanation
Indices: 9888746--9888995 Score: 313
Period size: 102 Copynumber: 2.4 Consensus size: 102
9888736 CAAATCCAAT
* ** *
9888746 ATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGTTGTTTGTTGATAGTCAAC
1 ATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAAC
* * *
9888811 CGCCCCTTCGGTGTGAAGTTGAGCTTGTGTTGTCTCG
66 CGCCCATTCGCTATGAAGTTGAGCTTGTGTTGTCTCG
*
9888848 ATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACGGT-AAG
1 ATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAA-
* *
9888912 TCGCCCATTCGCTATGAATTTGAGCTTGTGTTGTCTCG
65 CCGCCCATTCGCTATGAAGTTGAGCTTGTGTTGTCTCG
*
9888950 AGTCCAATATCCTTTGCTGTGAAGTTGAAATTAACTCTGAATGAAA
1 A-TCC--T-T-C---GCTGTGAAGTTGAAATTGACTCTGAATGAAA
9888996 TTGACTCTGA
Statistics
Matches: 128, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
101 2 0.02
102 90 0.70
103 3 0.02
105 1 0.01
106 1 0.01
107 1 0.01
110 30 0.23
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (102 bp):
ATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAAC
CGCCCATTCGCTATGAAGTTGAGCTTGTGTTGTCTCG
Found at i:9889014 original size:16 final size:16
Alignment explanation
Indices: 9888975--9889015 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
9888965 GCTGTGAAGT
*
9888975 TGAAATTAACTCTGAA
1 TGAAATTGACTCTGAA
9888991 TGAAATTGACTCTGAA
1 TGAAATTGACTCTGAA
9889007 TGAAATTGA
1 TGAAATTGA
9889016 AAAATTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (16 bp):
TGAAATTGACTCTGAA
Found at i:9889097 original size:126 final size:126
Alignment explanation
Indices: 9888865--9889229 Score: 384
Period size: 126 Copynumber: 3.0 Consensus size: 126
9888855 GCTGTGAAGT
* * *
9888865 TGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACGGTAAGTCGCCCATTCGCTATGAA
1 TGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTAACAGTAAGTCGCCCATTCGCTATGAA
* * *
9888930 TTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTAACTCTGAA
66 GTTGAGCTTCTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTGAA
* * * *
9888991 TGAAATTGACTCTGAATGAAATTGAAAAATTGTTTGTTAACAGTAAGTTGCCCCTTCGCTGTGAA
1 TGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTAACAGTAAGTCGCCCATTCGCTATGAA
** * *
9889056 GTTGAGCTTCTGTTGTCTTTAGTCCAATATTCTTCG-T-T---G-TG-----AA----G-T
66 GTTGAGCTTCTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTGAA
* * * * * * *
9889101 TGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGCCGCCCCTTTGCTGTGAA
1 TGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTAACAGTAAGTCGCCCATTCGCTATGAA
* * * * *
9889166 GTTGAGCTTGTGTTGTCTCGAGTCTAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAA
66 GTTGAGCTTCTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTGAA
9889227 TGA
1 TGA
9889230 GACTGAAAAA
Statistics
Matches: 194, Mismatches: 29, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
110 88 0.45
111 2 0.01
112 1 0.01
115 3 0.02
116 2 0.01
120 2 0.01
121 2 0.01
124 1 0.01
125 2 0.01
126 91 0.47
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (126 bp):
TGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTAACAGTAAGTCGCCCATTCGCTATGAA
GTTGAGCTTCTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTGAA
Found at i:9889195 original size:110 final size:110
Alignment explanation
Indices: 9888991--9889283 Score: 462
Period size: 110 Copynumber: 2.7 Consensus size: 110
9888981 TAACTCTGAA
* * * * *
9888991 TGAAATTGACTCTGAATGAAATTGAAAAATTGTTTGTTAACAGTAAGTTGCCCCTTCGCTGTGAA
1 TGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTGACAGTCAGTCGCCCCTTTGCTGTGAA
**
9889056 GTTGAGCTTCTGTTGTCTTTAGTCCAATATTC-TTCGTTGTGAAGT
66 GTTGAGCTTCTGTTGTCTCGAGTCCAATA-TCATTCGTTGTGAAGT
* *
9889101 TGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGCCGCCCCTTTGCTGTGAA
1 TGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTGACAGTCAGTCGCCCCTTTGCTGTGAA
* *
9889166 GTTGAGCTTGTGTTGTCTCGAGTCTAATATCATTCGTTGTGAAGT
66 GTTGAGCTTCTGTTGTCTCGAGTCCAATATCATTCGTTGTGAAGT
*
9889211 TGAAATTGACTCTGAATGAGACTGAAAAATTGTTTGTTGACAGTCAGTCGCCCCTTTGCTGTGAA
1 TGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTGACAGTCAGTCGCCCCTTTGCTGTGAA
9889276 GTTGAGCT
66 GTTGAGCT
9889284 ACCACCATCA
Statistics
Matches: 168, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
109 2 0.01
110 166 0.99
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (110 bp):
TGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGTTGACAGTCAGTCGCCCCTTTGCTGTGAA
GTTGAGCTTCTGTTGTCTCGAGTCCAATATCATTCGTTGTGAAGT
Found at i:9890408 original size:95 final size:96
Alignment explanation
Indices: 9890201--9890463 Score: 300
Period size: 95 Copynumber: 2.7 Consensus size: 96
9890191 GGCTAGCTGA
* * * * * *
9890201 ATCCATAAAGCCAGGGCATTTAACCAATTTCTCTAGAGGGATAGCTCAAT--ATTATTATATAAG
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTTTAGAGGGACAACTC-ATGCTTTATTATAT-AG
9890264 TATAATTATCACCTTTATCAAGTTAGCTAAATATT
64 TAT-A-TATCACCTTTATCAAGTTAGCTAAATATT
* *
9890299 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCATGCTTTATTGTATAGTA
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTTTAGAGGGACAACTCATGCTTTATTATATAGTA
* * * *
9890364 TA-ATCACCTTTATC-ATTCTAGCTGACTCTT
66 TATATCACCTTTATCAAGT-TAGCTAAATATT
* * * *
9890394 ATCTATAAAGCCGGGGCCTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTTTATATGT
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTTTAGAGGGACAACTCATGCTTTATTATATA-GT
9890459 ATATA
65 ATATA
9890464 ATATTATAAT
Statistics
Matches: 144, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
94 2 0.01
95 79 0.55
96 5 0.03
97 4 0.03
98 46 0.32
99 8 0.06
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (96 bp):
ATCCATAAAGCCGGGGCATTTAACCAATTGCTTTAGAGGGACAACTCATGCTTTATTATATAGTA
TATATCACCTTTATCAAGTTAGCTAAATATT
Found at i:9898659 original size:17 final size:17
Alignment explanation
Indices: 9898619--9898665 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
9898609 TAAATTATTT
* *
9898619 ATTAACATTATTTTAAA
1 ATTAAAATTAATTTAAA
9898636 ATT-AAATTAATTTAAA
1 ATTAAAATTAATTTAAA
* *
9898652 TTTAAAATGAATTT
1 ATTAAAATTAATTT
9898666 TTCTCATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
ATTAAAATTAATTTAAA
Found at i:9906344 original size:19 final size:19
Alignment explanation
Indices: 9906320--9906362 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9906310 AGAAAAAAAG
* *
9906320 GGAAAACATAA-AGATAAA
1 GGAAAAAATAATAAATAAA
9906338 GGAAAAAATAATAAATAAA
1 GGAAAAAATAATAAATAAA
*
9906357 AGAAAA
1 GGAAAA
9906363 GAAAAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.72, C:0.02, G:0.14, T:0.12
Consensus pattern (19 bp):
GGAAAAAATAATAAATAAA
Found at i:9906556 original size:21 final size:22
Alignment explanation
Indices: 9906532--9906573 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
9906522 TTAGTAGTTG
9906532 GTATATAAATAA-AAAAAATAT
1 GTATATAAATAATAAAAAATAT
*
9906553 GTATATAAATAATAAATAATA
1 GTATATAAATAATAAAAAATA
9906574 ATAATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (22 bp):
GTATATAAATAATAAAAAATAT
Found at i:9908367 original size:33 final size:33
Alignment explanation
Indices: 9908306--9908369 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
9908296 AACTCGAAGG
* *
9908306 TTTTGTGTTTCAAGAGAAACATTTTCAAAAGTT
1 TTTTGTCTTTCAAGAGAAACATTCTCAAAAGTT
9908339 TTTTGTCTTTCAAGAGAAAC-TGTCTCAAAAG
1 TTTTGTCTTTCAAGAGAAACAT-TCTCAAAAG
9908370 AAATTGTCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (33 bp):
TTTTGTCTTTCAAGAGAAACATTCTCAAAAGTT
Found at i:9908450 original size:65 final size:64
Alignment explanation
Indices: 9908369--9908744 Score: 298
Period size: 65 Copynumber: 5.6 Consensus size: 64
9908359 TGTCTCAAAA
* * * * *
9908369 GAAATTGTCTCGAGAGAGATGAAATTTGTTTAAAGGAAAACAAATTCAAAGATTTCGTTTCAAGG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTT-GTTTCAAGG
* * *
9908434 GAAAGTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC-TATCTCGAGAGAGACAAAATTTG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAAAACATAT-TC-A-A-AG-----ATTTG
9908498 TTTCAAGG
57 TTTCAAGG
* * * *
9908506 GAAACTATCTCGAGAGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCATGA
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGA-TTTGTTTCAAGG
* * *
9908571 GAAACTGTCTCAAGAGAGGC-AAAATT-TTT-AA-GAGAAA-ATGTCTCAAGAAAGATAAAATTT
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGA-AAACATAT-TC---AAAG-----ATTT
*
9908631 GTTTTCAA-A
56 G-TTTCAAGG
* *
9908640 GAAACTGCCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAGG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGA-TTTGTTTCAAGG
* * *
9908705 AAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAA
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAG-GAAA
9908745 CTGTCTCAAG
Statistics
Matches: 250, Mismatches: 31, Indels: 59
0.74 0.09 0.17
Matches are distributed among these distances:
61 5 0.02
62 7 0.03
63 3 0.01
64 15 0.06
65 102 0.41
66 5 0.02
67 1 0.00
68 2 0.01
69 28 0.11
70 12 0.05
71 4 0.02
72 54 0.22
73 12 0.05
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (64 bp):
GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTGTTTCAAGG
Found at i:9908472 original size:36 final size:36
Alignment explanation
Indices: 9908415--9908798 Score: 308
Period size: 36 Copynumber: 11.1 Consensus size: 36
9908405 AAAACAAATT
*
9908415 CAAAGATTTCGTTTCAAGGGAAAGTGTCTCAAGAGAGA
1 CAAA-ATTT-GTTTCAAGGGAAACTGTCTCAAGAGAGA
* *
9908453 CAAAATTTGTTTCAAGGGAAACTATCTCGAGAGAGA
1 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* *
9908489 CAAAATTTGTTTCAAGGGAAACTATCTCGAGAGAGA
1 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* * *
9908525 CGAAATTTGTTTCAAGGAAAACATAT-TC-A-A-AG-
1 CAAAATTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGA
* * * *
9908557 ---ATTTTGTTTCATGAGAAACTGTCTCAAGAGAGG
1 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* * *
9908590 CAAAA-TT-TTT-AAGAGAAAATGTCTCAAGAAAGA
1 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* * * *
9908623 TAAAATTTGTTTTCAA-AGAAACTGCCTCAAGGGAGA
1 CAAAATTTG-TTTCAAGGGAAACTGTCTCAAGAGAGA
* * *
9908659 CGAAATTTGTTTCAAGGAAAACATAT-TC-A-A-AG-
1 CAAAATTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGA
* *
9908691 ---ATTTTGTTTCAAGGAAAACTGTCTCAAGAGAGA
1 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* *
9908724 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
1 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* * *
9908760 C--AATTTGTTTTAAGAGAAATTGTCTCAAGAGAGA
1 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
9908794 CAAAA
1 CAAAA
9908799 CTTTATTTTG
Statistics
Matches: 287, Mismatches: 34, Indels: 52
0.77 0.09 0.14
Matches are distributed among these distances:
28 4 0.01
29 37 0.13
30 2 0.01
31 2 0.01
32 4 0.01
33 27 0.09
34 39 0.14
35 10 0.03
36 148 0.52
37 10 0.03
38 4 0.01
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (36 bp):
CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
Found at i:9908684 original size:134 final size:134
Alignment explanation
Indices: 9908363--9908794 Score: 543
Period size: 134 Copynumber: 3.2 Consensus size: 134
9908353 AGAAACTGTC
* * * * * * *
9908363 TCAAAAGAAATTGTCTCGAGAGAGATGAAATTTGTTTAAAGGAAAACAAATTCAAAGATTTCGTT
1 TCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTT
* * * *
9908428 TCAAGGGAAAGTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCGAGAGAGACAAA
66 TCAA-GGAAACTGTCTCAAGAGAGACAAAATTT-TTT-AAGAGAAACTGTCTCAAGA-AGACAAA
9908493 ATTTG-TT
127 ATTTGTTT
* * *
9908500 TCAAGGGAAACTATCTCGAGAGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTT
1 TCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTT
* * * *
9908565 TCATGAGAAACTGTCTCAAGAGAGGCAAAA-TTTTTAAGAGAAAATGTCTCAAGAAAGATAAAAT
66 TCAAG-GAAACTGTCTCAAGAGAGACAAAATTTTTTAAGAGAAACTGTCTCAAG-AAGACAAAAT
9908629 TTGTTT
129 TTGTTT
* *
9908635 TCAA-AGAAACTGCCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTT
1 TCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTT
9908699 TCAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGAC--A
66 TCAAGG-AAACTGTCTCAAGAGAGACAAAA-TT-TTTTAAGAGAAACTGTCTCAAGA-AGACAAA
9908762 ATTTGTTT
127 ATTTGTTT
*
9908770 T-AAGAGAAATTGTCTCAAGAGAGAC
1 TCAAGAGAAACTGTCTCAAGAGAGAC
9908795 AAAACTTTAT
Statistics
Matches: 258, Mismatches: 28, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
133 1 0.00
134 108 0.42
135 38 0.15
136 5 0.02
137 106 0.41
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.28
Consensus pattern (134 bp):
TCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTT
TCAAGGAAACTGTCTCAAGAGAGACAAAATTTTTTAAGAGAAACTGTCTCAAGAAGACAAAATTT
GTTT
Found at i:9908816 original size:36 final size:35
Alignment explanation
Indices: 9908710--9908821 Score: 140
Period size: 34 Copynumber: 3.1 Consensus size: 35
9908700 CAAGGAAAAC
*
9908710 TGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAC
1 TGTCTCAAGAGAGACAAAATTTGTTTT-AGAGAAAT
9908746 TGTCTCAAGAGAGAC--AATTTGTTTTAAGAGAAAT
1 TGTCTCAAGAGAGACAAAATTTGTTTT-AGAGAAAT
*
9908780 TGTCTCAAGAGAGACAAAACTTTATTTT-GAGTAAAT
1 TGTCTCAAGAGAGACAAAA-TTTGTTTTAGAG-AAAT
9908816 TAGTCT
1 T-GTCT
9908822 TGAGCGAGAC
Statistics
Matches: 69, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
34 33 0.48
35 3 0.04
36 22 0.32
37 11 0.16
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (35 bp):
TGTCTCAAGAGAGACAAAATTTGTTTTAGAGAAAT
Found at i:9910199 original size:83 final size:89
Alignment explanation
Indices: 9910101--9910327 Score: 252
Period size: 95 Copynumber: 2.6 Consensus size: 89
9910091 GGCTAGTTGG
* *
9910101 ATCCATAAAGCCGGGGCGTTTTACCAATTGCTCTAGAGGAACAACTCAA-TA-TG-T-A-AAT-A
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATTGATGATAATCA
* * *
9910160 CCTTTATCAGGTTAGTTGAATCTT
66 CCTTTATCAGGCTAGTAGAATATT
* * *
9910184 ATCCATAAAGCCGGGGCATTTAACCAATTTC-CTTAGAGGGACAGCTCAAGCTTTATTGTATAGG
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTC-TAGAGGGACAACTCAA---TTATTG-AT--G
9910248 ATAATCACCTTTATCAGGCTAGTAGAATATT
59 ATAATCACCTTTATCAGGCTAGTAGAATATT
* *
9910279 ATCCATAAAGCCAGGGCGTTTAACCAATTGCTCTATAGGGACAACTCAA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAA
9910328 GCTTTATTGT
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
82 1 0.01
83 42 0.36
87 2 0.02
88 2 0.02
90 1 0.01
93 1 0.01
94 3 0.03
95 64 0.55
96 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (89 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATTGATGATAATCA
CCTTTATCAGGCTAGTAGAATATT
Found at i:9910327 original size:95 final size:95
Alignment explanation
Indices: 9910159--9910340 Score: 276
Period size: 95 Copynumber: 1.9 Consensus size: 95
9910149 ATATGTAAAT
* * * * *
9910159 ACCTTTATCAGGTTAGTTGAATCTTATCCATAAAGCCGGGGCATTTAACCAATTTCCTTAGAGGG
1 ACCTTTATCAGGCTAGTAGAATATTATCCATAAAGCCAGGGCATTTAACCAATTGCCTTAGAGGG
*
9910224 ACAGCTCAAGCTTTATTGTATAGGATAATC
66 ACAACTCAAGCTTTATTGTATAGGATAATC
* *
9910254 ACCTTTATCAGGCTAGTAGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTG-CTCTATAGG
1 ACCTTTATCAGGCTAGTAGAATATTATCCATAAAGCCAGGGCATTTAACCAATTGCCT-TAGAGG
9910318 GACAACTCAAGCTTTATTGTATA
65 GACAACTCAAGCTTTATTGTATA
9910341 TAAATAATAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 2 0.03
95 76 0.97
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (95 bp):
ACCTTTATCAGGCTAGTAGAATATTATCCATAAAGCCAGGGCATTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTATTGTATAGGATAATC
Found at i:9914407 original size:19 final size:19
Alignment explanation
Indices: 9914382--9914428 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
9914372 AAAAGGAGCA
*
9914382 AAAAGGAAAAA-CATAAAG
1 AAAAGGAAAAATAATAAAG
9914400 ATAAAGGAAAAATAATAAAG
1 A-AAAGGAAAAATAATAAAG
9914420 AAAA-GAAAA
1 AAAAGGAAAA
9914429 GAAAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 6 0.23
19 13 0.50
20 7 0.27
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.09
Consensus pattern (19 bp):
AAAAGGAAAAATAATAAAG
Found at i:9914436 original size:20 final size:20
Alignment explanation
Indices: 9914388--9914436 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
9914378 AGCAAAAAGG
* *
9914388 AAAAACATAAAGATAAAGGA
1 AAAAAAATAAAGATAAAGAA
*
9914408 AAAATAATAAAGA-AAAGAA
1 AAAAAAATAAAGATAAAGAA
9914427 AAGAAAAATA
1 AA-AAAAATA
9914437 TAAAGATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (20 bp):
AAAAAAATAAAGATAAAGAA
Found at i:9914436 original size:23 final size:24
Alignment explanation
Indices: 9914396--9914442 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
9914386 GGAAAAACAT
9914396 AAAGATAAAGGAAAAATAATAAAGA
1 AAAGATAAAGGAAAAAT-ATAAAGA
9914421 AAAGA-AAA-GAAAAATATAAAGA
1 AAAGATAAAGGAAAAATATAAAGA
9914443 TATATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.32
23 7 0.32
24 3 0.14
25 5 0.23
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (24 bp):
AAAGATAAAGGAAAAATATAAAGA
Found at i:9914451 original size:23 final size:22
Alignment explanation
Indices: 9914400--9914476 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 22
9914390 AAACATAAAG
* *
9914400 ATAAAGGAAAAATAATAAAGAAA
1 ATAAAAGAAAAAT-ATAAAGATA
*
9914423 AGAAAAGAAAAATATAAAGATA
1 ATAAAAGAAAAATATAAAGATA
* *
9914445 TATAAAAAGATAAATA-AAATGGTA
1 -AT-AAAAGAAAAATATAAA-GATA
9914469 ATAAAAGA
1 ATAAAAGA
9914477 GTAATAAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
22 14 0.31
23 17 0.38
24 14 0.31
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (22 bp):
ATAAAAGAAAAATATAAAGATA
Found at i:9914453 original size:12 final size:12
Alignment explanation
Indices: 9914425--9914463 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9914415 TAAAGAAAAG
*
9914425 AAAAGAAAAATA
1 AAAAGATAAATA
* *
9914437 TAAAGATATATA
1 AAAAGATAAATA
9914449 AAAAGATAAATA
1 AAAAGATAAATA
9914461 AAA
1 AAA
9914464 TGGTAATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (12 bp):
AAAAGATAAATA
Found at i:9914634 original size:3 final size:3
Alignment explanation
Indices: 9914628--9914672 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
9914618 TATATGTATA
9914628 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9914673 GATGATGATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9923709 original size:29 final size:29
Alignment explanation
Indices: 9923667--9923725 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
9923657 ATTTTCACCT
9923667 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
9923696 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
9923725 A
1 A
9923726 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:9927277 original size:46 final size:46
Alignment explanation
Indices: 9927224--9927332 Score: 202
Period size: 46 Copynumber: 2.4 Consensus size: 46
9927214 CATTAATTTT
9927224 GAATGGTCTAATTGTATGCAAAGTCCCCTTACTTCTGTTTTGTTTG
1 GAATGGTCTAATTGTATGCAAAGTCCCCTTACTTCTGTTTTGTTTG
9927270 GAATGGTCTAATTGTATGCAAAGTCCCCTTACTTCTGTTTTGTTTG
1 GAATGGTCTAATTGTATGCAAAGTCCCCTTACTTCTGTTTTGTTTG
9927316 GAATGGT-TAAATTGTAT
1 GAATGGTCT-AATTGTAT
9927333 ACAATCCACT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
45 1 0.02
46 61 0.98
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (46 bp):
GAATGGTCTAATTGTATGCAAAGTCCCCTTACTTCTGTTTTGTTTG
Found at i:9932322 original size:24 final size:24
Alignment explanation
Indices: 9932295--9932351 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
9932285 TACACAGTGG
* * *
9932295 TACTAATATGAGAGTACACGAATA
1 TACTAATACGAGAGCACACAAATA
* *
9932319 TACTAATACGAGAGCACTCAAATT
1 TACTAATACGAGAGCACACAAATA
9932343 TACTAATAC
1 TACTAATAC
9932352 AATATCGATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (24 bp):
TACTAATACGAGAGCACACAAATA
Found at i:9934994 original size:16 final size:16
Alignment explanation
Indices: 9934932--9934994 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
9934922 TTCTTTAACA
* *
9934932 TTATTTATTTATCTTG
1 TTATTTATTTATTTTT
*
9934948 TTATTCATTTATTTATT
1 TTATTTATTTATTT-TT
9934965 TTATATTATATTATTTTT
1 TTAT-TTAT-TTATTTTT
*
9934983 TTATTTTTTTAT
1 TTATTTATTTAT
9934995 CCATTATAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 16 0.41
17 8 0.21
18 9 0.23
19 6 0.15
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (16 bp):
TTATTTATTTATTTTT
Found at i:9939638 original size:46 final size:46
Alignment explanation
Indices: 9939588--9940023 Score: 548
Period size: 46 Copynumber: 9.5 Consensus size: 46
9939578 AAATGAAGGA
* ***
9939588 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATATT
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
* * * *
9939634 ATAAATGAAAATGCATAACGTTGCATTATCGACATGAAAGGATACA
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
** * *
9939680 ATACGTAAAAATGCATAACAATGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
* * * * *
9939726 ATAAAGGAAAATGCATAACGGTGCATTATTGGTATAAAAGGATGCC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
* *** *
9939772 ATAAATGAAAATGCATAATGATGCATTATTAACATGAAAAGATGCC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
* * *
9939818 ATAAATGAAAATGCATAACGGTGCATTATCAGTATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
* *
9939864 ATAAATGAAAATGCATAATGATGCATTATCAGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
* **
9939910 ATAAATGAAAATGCATAACAATGCATTATCAACATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
* * * *
9939956 ATAAATGAAAATGCATAACGATGCATAATCGACATGAAATGATACC
1 ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
* *
9940002 ACAAATGAAAATACATAACGAT
1 ATAAATGAAAATGCATAACGAT
9940024 ATATTAACGG
Statistics
Matches: 342, Mismatches: 48, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 342 1.00
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.23
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGATGCATTATCGGCATGAAAGGATGCC
Found at i:9941948 original size:2 final size:2
Alignment explanation
Indices: 9941941--9941975 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9941931 GATGTCAGAA
9941941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9941976 GCTTTTCTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9949054 original size:16 final size:17
Alignment explanation
Indices: 9949028--9949060 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
9949018 CAGCGACGAG
9949028 ATGATAACCCTAGGGTT
1 ATGATAACCCTAGGGTT
9949045 ATGA-AACCCTAGGGTT
1 ATGATAACCCTAGGGTT
9949061 TCCTCTGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (17 bp):
ATGATAACCCTAGGGTT
Found at i:9949347 original size:26 final size:26
Alignment explanation
Indices: 9949296--9949364 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
9949286 ATTTATTACT
* * *
9949296 TAATAATAATATAACAATAAAATTAA
1 TAATAATAGTAAAATAATAAAATTAA
*
9949322 TAA-AATTAGTAAAATAATAATATTAA
1 TAATAA-TAGTAAAATAATAAAATTAA
*
9949348 TAATAATATTAAAATAA
1 TAATAATAGTAAAATAA
9949365 AATTGGGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 2 0.06
26 32 0.89
27 2 0.06
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (26 bp):
TAATAATAGTAAAATAATAAAATTAA
Found at i:9949352 original size:9 final size:9
Alignment explanation
Indices: 9949311--9949350 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
9949301 ATAATATAAC
9949311 AATAAAATT
1 AATAAAATT
9949320 AATAAAATT
1 AATAAAATT
*
9949329 AGTAAAA-T
1 AATAAAATT
*
9949337 AATAATATT
1 AATAAAATT
9949346 AATAA
1 AATAA
9949351 TAATATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 6 0.22
9 21 0.78
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (9 bp):
AATAAAATT
Found at i:9949707 original size:19 final size:19
Alignment explanation
Indices: 9949683--9949720 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9949673 TTTTGTTGGC
9949683 ATGTAACTAAAGGCTTGAA
1 ATGTAACTAAAGGCTTGAA
9949702 ATGTAACTAAAGGCTTGAA
1 ATGTAACTAAAGGCTTGAA
9949721 TTAATCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (19 bp):
ATGTAACTAAAGGCTTGAA
Done.