Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 95 of 185
Found at i:29885481 original size:100 final size:101
Alignment explanation
Indices: 29885308--29885589 Score: 451
Period size: 100 Copynumber: 2.8 Consensus size: 101
29885298 GATCATAACA
*
29885308 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCATATCGGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCATATCGGTGCCCATGCCATGT
29885373 CCCAGACATGGTCTTAC-GGGGACCTCTCATCTCGG
66 CCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
*
29885408 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCATATCAGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCATATCGGTGCCCATGCCATGT
*
29885473 CCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
66 CCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
** * * * **
29885509 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAACACCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCATATCGGTGCCCATGCCATGT
*
29885573 CCTAGACATGGTCTTAC
66 CCCAGACATGGTCTTAC
29885590 ATGGGATCTC
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
100 115 0.68
101 54 0.32
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.27
Consensus pattern (101 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCATATCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
Found at i:29885533 original size:50 final size:50
Alignment explanation
Indices: 29885308--29885600 Score: 372
Period size: 50 Copynumber: 5.8 Consensus size: 50
29885298 GATCATAACA
* ** * *
29885308 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
29885359 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** * * *
29885408 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * ** *
29885459 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
29885509 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
29885559 TGCCAACACCATGTCCTAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29885601 TTACCCAAAT
Statistics
Matches: 207, Mismatches: 33, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
49 38 0.18
50 99 0.48
51 70 0.34
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:29885573 original size:151 final size:151
Alignment explanation
Indices: 29885315--29885596 Score: 440
Period size: 151 Copynumber: 1.9 Consensus size: 151
29885305 ACATGCCAAA
* ** * * *
29885315 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCATATCGGTGCCCATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
*
29885380 ATGGTCTTACGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
66 ATGGTCTTACGGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACATGGTCTTACATGGGA
29885445 TGTTTTCATATCAGTGCCCAT
131 TGTTTTCATATCAGTGCCCAT
* * *
29885466 GCCATGTCCCAGACATGGTCTTACGGGGGA-CCTCTCATCTTGGTGCCAACGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* *
29885530 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACCATGTCCTAGACATGGTCTTACATGGG
66 ATGGTCTTAC-GGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACATGGTCTTACATGGG
29885595 AT
130 AT
29885597 CTCTTTACCC
Statistics
Matches: 118, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
150 37 0.31
151 81 0.69
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.27
Consensus pattern (151 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
ATGGTCTTACGGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACATGGTCTTACATGGGA
TGTTTTCATATCAGTGCCCAT
Found at i:29902625 original size:37 final size:37
Alignment explanation
Indices: 29902584--29902657 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
29902574 TGTTGTCATG
29902584 ATTAGTCTTCAATCACATCCTCAATTACAATAACAAT
1 ATTAGTCTTCAATCACATCCTCAATTACAATAACAAT
*
29902621 ATTAGTCTTCAATCACATCTTCAATTACAATAACAAT
1 ATTAGTCTTCAATCACATCCTCAATTACAATAACAAT
29902658 CACAATCTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.34
Consensus pattern (37 bp):
ATTAGTCTTCAATCACATCCTCAATTACAATAACAAT
Found at i:29910365 original size:19 final size:21
Alignment explanation
Indices: 29910332--29910379 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
29910322 AGGAAGACAC
29910332 AAAAAGA-AATCAAAAA-AG-
1 AAAAAGAGAATCAAAAAGAGT
*
29910350 AAAAAGAGAATGAAAAAGAGT
1 AAAAAGAGAATCAAAAAGAGT
29910371 AAAAAGAGA
1 AAAAAGAGA
29910380 TTGAGAGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 2 0.08
21 9 0.35
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (21 bp):
AAAAAGAGAATCAAAAAGAGT
Found at i:29919542 original size:70 final size:70
Alignment explanation
Indices: 29919394--29920064 Score: 530
Period size: 70 Copynumber: 9.6 Consensus size: 70
29919384 CAGTTAGTGC
** * * * * **
29919394 GAGCTCAAGCTCTTAGCTGTGATTTTAAGGCTCACAGTTTCAATGC-GCAACCTCCAAAATAGTT
1 GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACTGCAACCTCCAAAATAGTT
*
29919458 AGCAC
66 AGCAT
* * *
29919463 GAGCTCAAGCTTCCAACTGTGGTCTTAAGGCTCGCAGGTTCAACACTGCAACCTCTAAAATAGTT
1 GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACTGCAACCTCCAAAATAGTT
**
29919528 AGTGT
66 AGCAT
* ** ** * * * *
29919533 TAGCTCAAGCTCTTAGTTGTGATTTTAAGGCTCGTAGGTTCAACA-TCGTAGCCTCCAAAATAGT
1 GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACT-GCAACCTCCAAAATAGT
29919597 TAGCAT
65 TAGCAT
* * * * * * * *
29919603 GAGCTCGAGCTCCTAACTGTGATATTAAGGCTCGCAAGTTCACCACCGTAGCCTCCAAAATAGTT
1 GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACTGCAACCTCCAAAATAGTT
**
29919668 AGCGC
66 AGCAT
* * * * * * *
29919673 GAGCTCAAGCTCCCAACTGTGATCTTAAAGCTCACAGGTTCAACATTGTAGCCTCTAAAATAGCT
1 GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACTGCAACCTCCAAAATAGTT
29919738 AGCAT
66 AGCAT
* * * * *
29919743 GAGATCAAGCTCCCAACTGTGATCTTAAGGCTCGTATGTTCAACA-T-CACAGCCTCTAAAACAG
1 GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACTGCA-A-CCTCCAAAATAG
29919806 TTAGCAT
64 TTAGCAT
* * * * * * *
29919813 GAGCTCAAACTCCCAATTGTGATCTTAAGGCTTGCAGGTTTAACA-TCGCAACCTCCTAAACAAT
1 GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACT-GCAACCTCCAAAATAGT
29919877 TAGCGA-
65 TAGC-AT
* * * * * **
29919883 AAGCTCAAGCTCCCAGCTGTGATCTTAATGCTCGTAAGTTCAATGCTGC-ACCTCCAAAATAGTT
1 GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACTGCAACCTCCAAAATAGTT
* **
29919947 AACGC
66 AGCAT
* * * * * ** * * * *
29919952 GAGGTCAAACTCTCAACTGTGATCTTAAGGCCCACAATTTCAACACTGGAGCCTCCTAAACAGTT
1 GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACTGCAACCTCCAAAATAGTT
29920017 AGC-T
66 AGCAT
* * * * *
29920021 AGAGCTTAAACTCCCAGCTGTGATCTTAAGGCTCACAGGCTCAA
1 -GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAA
29920065 AAACTCCACC
Statistics
Matches: 476, Mismatches: 114, Indels: 23
0.78 0.19 0.04
Matches are distributed among these distances:
68 1 0.00
69 88 0.18
70 382 0.80
71 3 0.01
72 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (70 bp):
GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACTGCAACCTCCAAAATAGTT
AGCAT
Found at i:29919644 original size:140 final size:140
Alignment explanation
Indices: 29919385--29920054 Score: 591
Period size: 140 Copynumber: 4.8 Consensus size: 140
29919375 CCTTCAAAGC
* ** * * *
29919385 AGTTAGTGCGAGCTCAAGCTCTTAGCTGTGATTTTAAGGCTCACAGTTTC-A-ATGCGCAACCTC
1 AGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCACAGGTTCAACAT-CGCAACCTC
* * * *
29919448 CAAAATAGTTAGCACGAGCTCAAGCTTCCAACTGTGGTCTTAAGGCTCGCAGGTTCAACACTGCA
65 CAAAATAGTTAGCATGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAAGTTCAACACTGCA
*
29919513 ACCTCTAAAAT
130 ACCTCCAAAAT
* ** ** ** * ** * *
29919524 AGTTAGTGTTAGCTCAAGCTCTTAGTTGTGATTTTAAGGCTCGTAGGTTCAACATCGTAGCCTCC
1 AGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCACAGGTTCAACATCGCAACCTCC
* * * * * * *
29919589 AAAATAGTTAGCATGAGCTCGAGCTCCTAACTGTGATATTAAGGCTCGCAAGTTCACCACCGTAG
66 AAAATAGTTAGCATGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAAGTTCAACACTGCAA
29919654 CCTCCAAAAT
131 CCTCCAAAAT
* * * * *
29919664 AGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAAGCTCACAGGTTCAACATTGTAGCCTCT
1 AGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCACAGGTTCAACATCGCAACCTCC
* * * *
29919729 AAAATAGCTAGCATGAGATCAAGCTCCCAACTGTGATCTTAAGGCTCGTATGTTCAACA-T-CAC
66 AAAATAGTTAGCATGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAAGTTCAACACTGCA-
* *
29919792 AGCCTCTAAAAC
130 A-CCTCCAAAAT
** * * ** *
29919804 AGTTAGCATGAGCTCAAACTCCCAATTGTGATCTTAAGGCTTGCAGGTTTAACATCGCAACCTCC
1 AGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCACAGGTTCAACATCGCAACCTCC
* * * * * * * **
29919869 TAAACAATTAGCGA-AAGCTCAAGCTCCCAGCTGTGATCTTAATGCTCGTAAGTTCAATGCTGC-
66 AAAATAGTTAGC-ATGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAAGTTCAACACTGCA
29919932 ACCTCCAAAAT
130 ACCTCCAAAAT
* * * * * ** * *
29919943 AGTTAACGCGAGGTCAAACTCTCAACTGTGATCTTAAGGCCCACAATTTCAACA-CTGGAGCCTC
1 AGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCACAGGTTCAACATC-GCAACCTC
* * * * *
29920007 CTAAACAGTTAGC-TAGAGCTTAAACTCCCAGCTGTGATCTTAAGGCTC
65 CAAAATAGTTAGCAT-GAGCTCAAGCTCCCAACTGTGATCTTAAGGCTC
29920055 ACAGGCTCAA
Statistics
Matches: 431, Mismatches: 90, Indels: 20
0.80 0.17 0.04
Matches are distributed among these distances:
138 2 0.00
139 141 0.33
140 283 0.66
141 4 0.01
142 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (140 bp):
AGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCACAGGTTCAACATCGCAACCTCC
AAAATAGTTAGCATGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAAGTTCAACACTGCAA
CCTCCAAAAT
Found at i:29919810 original size:210 final size:210
Alignment explanation
Indices: 29919439--29920054 Score: 599
Period size: 210 Copynumber: 2.9 Consensus size: 210
29919429 AGTTTCAATG
* * * * *
29919439 CGCAACCTCCAAAATAGTTAGCACGAGCTCAAGCTTCCAACTGTGGTCTTAAGGCTCGCAGGTTC
1 CGCAACCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAAGCTCACAGGTTC
* ** * * ** ** *
29919504 AACACTGCAACCTCTAAAATAGTTAGTGTTAGCTCAAGCTCTTAGTTGTGATTTTAAGGCTCGTA
66 AACACTGCAACCTCTAAAATAGCTAGCATGAGATCAAGCTCCCAACTGTGATCTTAAGGCTCGTA
** * * * *
29919569 GGTTCAACATCGTAGCCTCCAAAATAGTTAGCATGAGCTCGAGCTCCTAACTGTGATATTAAGGC
131 GGTTCAACATCACAGCCTCCAAAACAGTTAGCATGAGCTCAAACTCCCAACTGTGATATTAAGGC
*
29919634 TCGCAAGTTCACCAC
196 TCGCAAGTTCAACAC
* *
29919649 CGTAGCCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAAGCTCACAGGTTC
1 CGCAACCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAAGCTCACAGGTTC
* * *
29919714 AACATTGTAGCCTCTAAAATAGCTAGCATGAGATCAAGCTCCCAACTGTGATCTTAAGGCTCGTA
66 AACACTGCAACCTCTAAAATAGCTAGCATGAGATCAAGCTCCCAACTGTGATCTTAAGGCTCGTA
* * * *
29919779 TGTTCAACATCACAGCCTCTAAAACAGTTAGCATGAGCTCAAACTCCCAATTGTGATCTTAAGGC
131 GGTTCAACATCACAGCCTCCAAAACAGTTAGCATGAGCTCAAACTCCCAACTGTGATATTAAGGC
* * * *
29919844 TTGCAGGTTTAACAT
196 TCGCAAGTTCAACAC
* * * ** * * ** *
29919859 CGCAACCTCCTAAACAATTAGCGAAAGCTCAAGCTCCCAGCTGTGATCTTAATGCTCGTAAGTTC
1 CGCAACCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAAGCTCACAGGTTC
** * * * ** * * * * **
29919924 AATGCTGC-ACCTCCAAAATAGTTAACGCGAGGTCAAACTCTCAACTGTGATCTTAAGGCCCACA
66 AACACTGCAACCTCTAAAATAGCTAGCATGAGATCAAGCTCCCAACTGTGATCTTAAGGCTCGTA
** ** * * * *
29919988 ATTTCAACA-CTGGAGCCTCCTAAACAGTTAGC-TAGAGCTTAAACTCCCAGCTGTGATCTTAAG
131 GGTTCAACATC-ACAGCCTCCAAAACAGTTAGCAT-GAGCTCAAACTCCCAACTGTGATATTAAG
29920051 GCTC
194 GCTC
29920055 ACAGGCTCAA
Statistics
Matches: 331, Mismatches: 73, Indels: 5
0.81 0.18 0.01
Matches are distributed among these distances:
208 2 0.01
209 97 0.29
210 232 0.70
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (210 bp):
CGCAACCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAACTGTGATCTTAAAGCTCACAGGTTC
AACACTGCAACCTCTAAAATAGCTAGCATGAGATCAAGCTCCCAACTGTGATCTTAAGGCTCGTA
GGTTCAACATCACAGCCTCCAAAACAGTTAGCATGAGCTCAAACTCCCAACTGTGATATTAAGGC
TCGCAAGTTCAACAC
Found at i:29921926 original size:8 final size:8
Alignment explanation
Indices: 29921915--29921939 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
29921905 TTTTTCATAA
29921915 TTTCACTT
1 TTTCACTT
29921923 TTTCACTT
1 TTTCACTT
29921931 TTTCACTT
1 TTTCACTT
29921939 T
1 T
29921940 CAATCACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTCACTT
Found at i:29922027 original size:23 final size:22
Alignment explanation
Indices: 29921984--29922027 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
29921974 TTTCAAGTCA
29921984 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
29922007 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
29922028 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:29922258 original size:51 final size:51
Alignment explanation
Indices: 29922201--29922340 Score: 176
Period size: 50 Copynumber: 2.8 Consensus size: 51
29922191 TTGGTTCACA
*
29922201 TAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACAAG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACAAG
* * * * * *
29922252 TAGTAGCCTGCACATAGTACTACACATGCGATC-T-ATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTATCCGATACAAG
* *
29922302 TAGTAGCCTGCACATACTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
29922341 TTCACTTTCA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
49 1 0.01
50 40 0.53
51 33 0.44
52 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACAAG
Found at i:29926505 original size:39 final size:39
Alignment explanation
Indices: 29926456--29926947 Score: 696
Period size: 39 Copynumber: 12.6 Consensus size: 39
29926446 CATATTCACT
** *
29926456 TTTAAGCATATATCACTTTACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
29926495 TTTAAACATATATCACAATACTTATATAATCACATAACG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
29926534 TTTAAGCATATTTCACAATACTCATATAATCACATAAAA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
29926573 TTTAAGCATATATAACAGTACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
29926612 TTTAAACAAATATCACAATACTCATATAATCACATAACG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
29926651 TTTAAGCATATTTCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
29926690 TTTAAGCATATATCACAGTACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * **
29926729 TTTAAGCATATATCATAGTACTCATATAATCACATAATG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
29926768 TTTAAGCATATATCACATTGCTCATATAATCACATAACG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
29926807 TTGAAGTATATATCACAATACTCATATAATCACATAACG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * **
29926846 CTTAAGCATATATCACAATACTCATATAATCACAAAATG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
29926885 TTTAAGCATATATCACAATACTCATATAATTACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
29926924 TTAAAACATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
29926948 AAAACATATT
Statistics
Matches: 404, Mismatches: 49, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 404 1.00
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:29930659 original size:39 final size:39
Alignment explanation
Indices: 29930616--29930698 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
29930606 CATATTCACT
* * *
29930616 TTTAAGCATGTATCACATTACAT-ATATAATTACATAACA
1 TTTAAGCATATATCACAATAC-TCATATAATCACATAACA
**
29930655 TTTAAGTGTATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
29930694 TTTAA
1 TTTAA
29930699 ACATTTATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 1 0.03
39 37 0.97
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:29933240 original size:47 final size:47
Alignment explanation
Indices: 29933141--29933241 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
29933131 TGTGAACTCA
* * *** ***
29933141 TCATCGAACATCATAAGAAAAGATTGTACTCTTCATAGGCATGTTTTT
1 TCATC-AACATCATAAGAAAAGATTGTACTCTTCATAAGAAAAATAAC
*
29933189 TCATCAACATCATAAGAAAAGATTGTACTCTTCATAATAAAAATAAC
1 TCATCAACATCATAAGAAAAGATTGTACTCTTCATAAGAAAAATAAC
29933236 TCATCA
1 TCATCA
29933242 TTGATGTACA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
47 39 0.89
48 5 0.11
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (47 bp):
TCATCAACATCATAAGAAAAGATTGTACTCTTCATAAGAAAAATAAC
Found at i:29936806 original size:126 final size:121
Alignment explanation
Indices: 29936625--29936883 Score: 374
Period size: 126 Copynumber: 2.1 Consensus size: 121
29936615 ACTAATTCCC
29936625 AACCTTTAATCTACAATATAATACTCAATTCATAGTATCAAATTTTTGACATGTTTTATAGCTAT
1 AACCTTTAATCTACAATATAATACTCAATTCATAGTATCAAATTTTTGACATGTTTTATAGCTAT
* * * * * * *
29936690 TTTTTGAAAATTCATTGAAACCTTAATAAATTTTTAACGAAAATTCAACGTAAGTTTAGA
66 TTTCTAAAAACTCATTAAAACCTAAAGAAATTTTTAACAAAAATTC-A---AAGTTTAGA
* * *
29936750 AACCTCTTAATCTACAATATAATACTCAATTCATAGTATCGACTTTTTGACATGTTTTATGGCTA
1 AACCT-TTAATCTACAATATAATACTCAATTCATAGTATCAAATTTTTGACATGTTTTATAGCTA
29936815 TTTTCTAAAAACTCATTAAAACCTAAAGAAATTTTTAACAAAAATTCAAAGTTTAGA
65 TTTTCTAAAAACTCATTAAAACCTAAAGAAATTTTTAACAAAAATTCAAAGTTTAGA
29936872 AACCTATTAATC
1 AACCT-TTAATC
29936884 ATGTGAAAAC
Statistics
Matches: 122, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 20 0.16
125 6 0.05
126 96 0.79
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (121 bp):
AACCTTTAATCTACAATATAATACTCAATTCATAGTATCAAATTTTTGACATGTTTTATAGCTAT
TTTCTAAAAACTCATTAAAACCTAAAGAAATTTTTAACAAAAATTCAAAGTTTAGA
Found at i:29942129 original size:18 final size:19
Alignment explanation
Indices: 29942083--29942129 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
29942073 GTTCCCTAAG
*
29942083 TTAATTCAATTTATTCAAT
1 TTAATTCAATTAATTCAAT
* *
29942102 TTAAAT-AATTAATTTAAT
1 TTAATTCAATTAATTCAAT
29942120 TT-ATTCAATT
1 TTAATTCAATT
29942130 TTCAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.09
18 16 0.70
19 5 0.22
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATTCAATTAATTCAAT
Found at i:29945814 original size:28 final size:28
Alignment explanation
Indices: 29945783--29945912 Score: 113
Period size: 28 Copynumber: 4.7 Consensus size: 28
29945773 AGGGCATCCC
29945783 TTTCA-AATATCGCCACAAAGGCTGA-TCT
1 TTTCATAAT-TCGCCACAAAGGCT-ATTCT
* *
29945811 TTTCATACTTTGCCACAAAGGCTATTCT
1 TTTCATAATTCGCCACAAAGGCTATTCT
* ** * *
29945839 TTTCATACTTTTCCACAAAGGTTATTAT
1 TTTCATAATTCGCCACAAAGGCTATTCT
* * *
29945867 TTTCATACTCCGCCACAAAGGCT-TTCA
1 TTTCATAATTCGCCACAAAGGCTATTCT
* *
29945894 TTTCATGATTTGCCACAAA
1 TTTCATAATTCGCCACAAA
29945913 AGCATCATTT
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
27 18 0.21
28 65 0.76
29 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (28 bp):
TTTCATAATTCGCCACAAAGGCTATTCT
Found at i:29948371 original size:25 final size:24
Alignment explanation
Indices: 29948345--29948436 Score: 85
Period size: 25 Copynumber: 3.7 Consensus size: 24
29948335 TTCGACCCAT
*
29948345 AGCTCATGTGAGCATATCGATTTAT
1 AGCTCATGTGAGCATA-CGATTTAC
* * *
29948370 AGCTCGTGAGAGCATACTGATATAC
1 AGCTCATGTGAGCATAC-GATTTAC
* * *
29948395 AACTCAAGTGAGCATACCGATTCAC
1 AGCTCATGTGAGCATA-CGATTTAC
*
29948420 AGCTCATATGAGCATAC
1 AGCTCATGTGAGCATAC
29948437 ATGTACATGA
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
24 2 0.04
25 49 0.94
26 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (24 bp):
AGCTCATGTGAGCATACGATTTAC
Found at i:29950324 original size:42 final size:43
Alignment explanation
Indices: 29950221--29950326 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 43
29950211 GGCTGAAAGC
*
29950221 GCACTTTGTAGAACACATTTTCACTGACACGAGAGTAACAACAT
1 GCAC-TTGTAGAACACATTTTCACTGACACGAGACTAACAACAT
* ** * **
29950265 GCAC-TGTAGGATGCATTTTCACTGACACGATACTGAA-AATGT
1 GCACTTGTAGAACACATTTTCACTGACACGAGACT-AACAACAT
29950307 GC-CTTGTAGAACACATTTTC
1 GCACTTGTAGAACACATTTTC
29950327 CTTTCTCTCT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.02
42 43 0.86
43 2 0.04
44 4 0.08
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (43 bp):
GCACTTGTAGAACACATTTTCACTGACACGAGACTAACAACAT
Found at i:29956396 original size:20 final size:20
Alignment explanation
Indices: 29956363--29956401 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29956353 AATAATTGCT
29956363 TGATGATTATATTTGAATGA
1 TGATGATTATATTTGAATGA
*
29956383 TGATAGATTA-ATTTTAATG
1 TGAT-GATTATATTTGAATG
29956402 TTATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
TGATGATTATATTTGAATGA
Found at i:29964419 original size:39 final size:36
Alignment explanation
Indices: 29964370--29964475 Score: 108
Period size: 39 Copynumber: 2.8 Consensus size: 36
29964360 TCTTTTCTTG
*
29964370 CTCACACTCTTTTTCTTTTTCAATCTCATTTTGCTTTCT
1 CTCACTCTCTTTTTCTTTTTCAAT-TCATTTT--TTTCT
* *
29964409 CTCACTCTCTTTTTCTTTTTAAATT--TATTTTTCT
1 CTCACTCTCTTTTTCTTTTTCAATTCATTTTTTTCT
*
29964443 CTCATCTCTCTTTTTCTTCTCTCAATTTCATTT
1 CTCA-CTCTCTTTTTCTT-TTTCAA-TTCATTT
29964476 AGGATTCACT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
34 9 0.16
35 13 0.23
36 7 0.12
37 2 0.04
38 1 0.02
39 24 0.43
ACGTcount: A:0.13, C:0.26, G:0.01, T:0.59
Consensus pattern (36 bp):
CTCACTCTCTTTTTCTTTTTCAATTCATTTTTTTCT
Found at i:29970511 original size:15 final size:16
Alignment explanation
Indices: 29970481--29970511 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29970471 AAGTGACAAG
29970481 AAACAAATCGTGCAGT
1 AAACAAATCGTGCAGT
29970497 AAACAAATC-TGCAGT
1 AAACAAATCGTGCAGT
29970512 TAATAGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (16 bp):
AAACAAATCGTGCAGT
Found at i:29972842 original size:19 final size:19
Alignment explanation
Indices: 29972818--29972856 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
29972808 CTTGTGTGAT
29972818 AGGTGATAGAGATAGACCC
1 AGGTGATAGAGATAGACCC
*
29972837 AGGTGATAGAGGTAGACCC
1 AGGTGATAGAGATAGACCC
29972856 A
1 A
29972857 TTACAGAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.33, T:0.15
Consensus pattern (19 bp):
AGGTGATAGAGATAGACCC
Found at i:29989775 original size:25 final size:25
Alignment explanation
Indices: 29989727--29989797 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
29989717 CCAGTAAGTT
* * *
29989727 TCCTGAAACTATTTTTGATGGTATA
1 TCCTGAAACTATTATAGATAGTATA
*
29989752 TCCTGAAACTATTATAGGTAGTATA
1 TCCTGAAACTATTATAGATAGTATA
* * *
29989777 TACTGAGACTACTATAGATAG
1 TCCTGAAACTATTATAGATAG
29989798 ACTGTACTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (25 bp):
TCCTGAAACTATTATAGATAGTATA
Found at i:29995860 original size:17 final size:18
Alignment explanation
Indices: 29995833--29995873 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
29995823 AAGGCCATTT
29995833 TGGGTCGTGTGGG-CCACA
1 TGGG-CGTGTGGGCCCACA
29995851 TGGGCGTGTGGGCCCACA
1 TGGGCGTGTGGGCCCACA
29995869 TGGGC
1 TGGGC
29995874 ATGCAACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.10, C:0.24, G:0.46, T:0.20
Consensus pattern (18 bp):
TGGGCGTGTGGGCCCACA
Found at i:29998409 original size:14 final size:14
Alignment explanation
Indices: 29998390--29998416 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29998380 GCTACCATTT
29998390 TACTATTTTGTTGC
1 TACTATTTTGTTGC
29998404 TACTATTTTGTTG
1 TACTATTTTGTTG
29998417 TTATTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.59
Consensus pattern (14 bp):
TACTATTTTGTTGC
Found at i:29999001 original size:31 final size:31
Alignment explanation
Indices: 29998944--29999014 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
29998934 AAGTCCACTC
* *
29998944 ATTTTT-TTTAATTTTTAAATATATTTATATT
1 ATTTTTATTTAATATTTAAATAAATTTATA-T
29998975 ATTTTTATTTAATATTT-AATAAATTTATAT
1 ATTTTTATTTAATATTTAAATAAATTTATAT
29999005 A-TTTTATTTA
1 ATTTTTATTTA
29999015 TTAAAATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 9 0.24
30 2 0.05
31 17 0.46
32 9 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
ATTTTTATTTAATATTTAAATAAATTTATAT
Found at i:29999012 original size:35 final size:31
Alignment explanation
Indices: 29998944--29999013 Score: 77
Period size: 35 Copynumber: 2.1 Consensus size: 31
29998934 AAGTCCACTC
*
29998944 ATTTTTTTTAATTTTTAAATATATTTATATT
1 ATTTTTTTTAATTTTTAAATATATATATATT
* *
29998975 ATTTTTATTTAATATTTAATAAATTTATATATTTT
1 ATTTTT-TTTAAT-TTT--TAAATATATATATATT
29999010 ATTT
1 ATTT
29999014 ATTAAAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 6 0.19
32 6 0.19
33 3 0.09
35 17 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
ATTTTTTTTAATTTTTAAATATATATATATT
Found at i:29999919 original size:87 final size:88
Alignment explanation
Indices: 29999760--30000011 Score: 265
Period size: 88 Copynumber: 2.8 Consensus size: 88
29999750 TTTAGAGTTG
* *
29999760 AAATGGTAATTTTTCTTTTCACCTTTATACTTAAAATCAGTATTTTTTTTTTCAATTGAACGCTG
1 AAATGGTAATTTTCCTTTTCACCTTTATAATTAAAATCAGTATTTTTTTTTTCAATTGAACGCTG
29999825 AACTTGTACTTAATTTGAAATTC
66 AACTTGTACTTAATTTGAAATTC
* * * * *
29999848 AAATGGTTATTTTCCTTTTCACCTTTATAATTGAAATTAGT-TTTTTTTTTTCAGTTGAAC-TTC
1 AAATGGTAATTTTCCTTTTCACCTTTATAATTAAAATCAGTATTTTTTTTTTCAATTGAACGCT-
* *
29999911 GAACTTGTACTTAATTTGGAGTTGAAAATG
65 GAACTTGTACTTAA--T----TTGAAATTC
* * * *
29999941 AAATGGTAATTTTCCTTTTTCACCTTTACACTTGAAATCAATACATATTTTTTTTTCAATTGAAC
1 AAATGGTAATTTTCC-TTTTCACCTTTATAATTAAAATCAGT--AT-TTTTTTTTTCAATTGAAC
*
30000006 TCTGAA
62 GCTGAA
30000012 TTTAAATTTA
Statistics
Matches: 135, Mismatches: 16, Indels: 16
0.81 0.10 0.10
Matches are distributed among these distances:
86 1 0.01
87 32 0.24
88 36 0.27
89 1 0.01
93 21 0.16
94 22 0.16
97 1 0.01
98 20 0.15
99 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.47
Consensus pattern (88 bp):
AAATGGTAATTTTCCTTTTCACCTTTATAATTAAAATCAGTATTTTTTTTTTCAATTGAACGCTG
AACTTGTACTTAATTTGAAATTC
Found at i:30000662 original size:41 final size:41
Alignment explanation
Indices: 30000576--30000737 Score: 218
Period size: 41 Copynumber: 4.0 Consensus size: 41
30000566 AGCACCGCAA
* * *
30000576 GCGCCGCTAATGCTCTGGGCTTTAGCGGC-TTTTTTAAAAG
1 GCGCCGCTAATACTCTGGGCTTTAGCGGCGTTTTTGAAAAT
* * **
30000616 GCGCCGCTAATGCTCTAGTATTTAGCGGCGTTTTTGAAAAT
1 GCGCCGCTAATACTCTGGGCTTTAGCGGCGTTTTTGAAAAT
*
30000657 GCGCCGCTAGTACTCTGGGCTTTAGCGGCGTTTTTGAAAAT
1 GCGCCGCTAATACTCTGGGCTTTAGCGGCGTTTTTGAAAAT
* * *
30000698 GCGCCGCTAATACTCTGGGCTTTAGAGACATTTTTGAAAA
1 GCGCCGCTAATACTCTGGGCTTTAGCGGCGTTTTTGAAAA
30000738 GTGCTGCTAA
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 26 0.24
41 81 0.76
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (41 bp):
GCGCCGCTAATACTCTGGGCTTTAGCGGCGTTTTTGAAAAT
Found at i:30001146 original size:14 final size:14
Alignment explanation
Indices: 30001127--30001246 Score: 75
Period size: 14 Copynumber: 8.4 Consensus size: 14
30001117 TATCACTATA
*
30001127 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
30001141 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
30001155 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
*
30001169 GTTTAGGTGTTACCAT-
1 GTTTAGG-GTT--TATG
*
30001185 -TTTAAGGTTTATG
1 GTTTAGGGTTTATG
* *
30001198 GATTATGGGATTATGG
1 GTTTA-GGGTTTAT-G
30001214 GTTTATGGG-TTATG
1 GTTTA-GGGTTTATG
* *
30001228 ATTTATGGTTTATG
1 GTTTAGGGTTTATG
30001242 GTTTA
1 GTTTA
30001247 AAGACTAGGA
Statistics
Matches: 81, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
12 2 0.02
13 2 0.02
14 49 0.60
15 18 0.22
16 9 0.11
17 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:30001243 original size:7 final size:7
Alignment explanation
Indices: 30001127--30001246 Score: 64
Period size: 7 Copynumber: 16.7 Consensus size: 7
30001117 TATCACTATA
*
30001127 GTTTAGG
1 GTTTATG
*
30001134 GTTTTTG
1 GTTTATG
*
30001141 GTTTAGG
1 GTTTATG
*
30001148 GTATATG
1 GTTTATG
30001155 GTTTA-G
1 GTTTATG
*
30001161 AGTTTAAG
1 -GTTTATG
30001169 GTTTA-G
1 GTTTATG
**
30001175 GTGTTACCA
1 GT-TTA-TG
* *
30001184 TTTTAAG
1 GTTTATG
30001191 GTTTATG
1 GTTTATG
*
30001198 GATTATGG
1 GTTTAT-G
*
30001206 GATTATGG
1 GTTTAT-G
30001214 GTTTATG
1 GTTTATG
*
30001221 GGTTATG
1 GTTTATG
*
30001228 ATTTATG
1 GTTTATG
30001235 GTTTATG
1 GTTTATG
30001242 GTTTA
1 GTTTA
30001247 AAGACTAGGA
Statistics
Matches: 88, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
6 4 0.05
7 65 0.74
8 18 0.20
9 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (7 bp):
GTTTATG
Found at i:30001418 original size:7 final size:7
Alignment explanation
Indices: 30001410--30001447 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
30001400 TAAGGTTTAT
30001410 GGATTATG
1 GGATTA-G
*
30001418 GGTTTAG
1 GGATTAG
30001425 GGATTAG
1 GGATTAG
30001432 GGATTAG
1 GGATTAG
30001439 GGATTAG
1 GGATTAG
30001446 GG
1 GG
30001448 GTTAAGGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.32
Consensus pattern (7 bp):
GGATTAG
Found at i:30001421 original size:15 final size:14
Alignment explanation
Indices: 30001398--30001447 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
30001388 GAGTTACTAT
* *
30001398 ATTAAGGTTTATGG
1 ATTAGGGTTTAGGG
30001412 ATTATGGGTTTAGGG
1 ATTA-GGGTTTAGGG
*
30001427 ATTAGGGATTAGGG
1 ATTAGGGTTTAGGG
30001441 ATTAGGG
1 ATTAGGG
30001448 GTTAAGGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.36
Consensus pattern (14 bp):
ATTAGGGTTTAGGG
Found at i:30018594 original size:26 final size:26
Alignment explanation
Indices: 30018558--30018614 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
30018548 AATTAAGATT
30018558 AACATCATTACAGGTAAGATAAAACC
1 AACATCATTACAGGTAAGATAAAACC
30018584 AACATCATTACAGGTAAGATAAAACC
1 AACATCATTACAGGTAAGATAAAACC
30018610 AACAT
1 AACAT
30018615 TTTTCCGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.19
Consensus pattern (26 bp):
AACATCATTACAGGTAAGATAAAACC
Found at i:30019111 original size:24 final size:22
Alignment explanation
Indices: 30019080--30019199 Score: 89
Period size: 22 Copynumber: 5.2 Consensus size: 22
30019070 AAAATAATCA
*
30019080 AAAAAAATTTTGAATTACAGGGAC
1 AAAAAAA--TTGAATTATAGGGAC
* *
30019104 AAAAAAATTGATTTATAGGGAT
1 AAAAAAATTGAATTATAGGGAC
* **
30019126 AAACAAATCAAATTATAGGGAC
1 AAAAAAATTGAATTATAGGGAC
* * *
30019148 AAAAAAACGTTAAATTACAAGGAC
1 AAAAAAA--TTGAATTATAGGGAC
*
30019172 ATAAAAAGGTTGAATTATAGGGA-
1 A-AAAAA-ATTGAATTATAGGGAC
30019195 AAAAA
1 AAAAA
30019200 TCGACTTACA
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
22 39 0.51
23 1 0.01
24 31 0.41
25 5 0.07
ACGTcount: A:0.54, C:0.07, G:0.17, T:0.23
Consensus pattern (22 bp):
AAAAAAATTGAATTATAGGGAC
Found at i:30019114 original size:22 final size:22
Alignment explanation
Indices: 30019080--30019310 Score: 84
Period size: 22 Copynumber: 10.4 Consensus size: 22
30019070 AAAATAATCA
30019080 AAAAAAATTTTGAATTACAGGGAC
1 AAAAAAA--TTGAATTACAGGGAC
* * *
30019104 AAAAAAATTGATTTATAGGGAT
1 AAAAAAATTGAATTACAGGGAC
* ** *
30019126 AAACAAATCAAATTATAGGGAC
1 AAAAAAATTGAATTACAGGGAC
* *
30019148 AAAAAAACGTTAAATTACAAGGAC
1 AAAAAAA--TTGAATTACAGGGAC
* *
30019172 ATAAAAAGGTTGAATTATAGGG--
1 A-AAAAA-ATTGAATTACAGGGAC
* *
30019194 -AAAAAATCGACTTACA-GGA-
1 AAAAAAATTGAATTACAGGGAC
* *
30019213 AAAAAAA--GAACTAC-GCGAAC
1 AAAAAAATTGAATTACAG-GGAC
** *
30019233 TAAAAATTTTGAATTATAGGGAC
1 -AAAAAAATTGAATTACAGGGAC
* * *
30019256 -AAAAAGTTCAATTTACAGTGAC
1 AAAAAAATTGAA-TTACAGGGAC
* * *
30019278 AAAAAAAAGTCGAATTACAAGGAG
1 -AAAAAAA-TTGAATTACAGGGAC
30019302 AAAAAAATT
1 AAAAAAATT
30019311 TTGACTTATA
Statistics
Matches: 150, Mismatches: 40, Indels: 36
0.66 0.18 0.16
Matches are distributed among these distances:
18 7 0.05
19 9 0.06
20 11 0.07
21 13 0.09
22 44 0.29
23 15 0.10
24 43 0.29
25 8 0.05
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.22
Consensus pattern (22 bp):
AAAAAAATTGAATTACAGGGAC
Found at i:30019343 original size:70 final size:71
Alignment explanation
Indices: 30019234--30019371 Score: 156
Period size: 70 Copynumber: 2.0 Consensus size: 71
30019224 TACGCGAACT
** ** * *
30019234 AAAAATTTTGAATTATAGGGACAAAAAGTTCAATTTACAGTG-ACAAAAAA-AAGTCGAATTACA
1 AAAAATTTTGAATTATAGGGACAAAAAGAACAAACTACAG-GAACAAAAAAGAAATAGAATTACA
30019297 AGGAGAA
65 AGGAGAA
* * *
30019304 AAAAATTTTGACTTATAGGGAGAACAAA-AACAAACTACAGGAACAAAAAAGAAATAGAATTATA
1 AAAAATTTTGAATTATAGGGACAA-AAAGAACAAACTACAGGAACAAAAAAGAAATAGAATTACA
30019368 AGGA
65 AGGA
30019372 TCGAAAATTC
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
69 1 0.02
70 38 0.68
71 17 0.30
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (71 bp):
AAAAATTTTGAATTATAGGGACAAAAAGAACAAACTACAGGAACAAAAAAGAAATAGAATTACAA
GGAGAA
Found at i:30022277 original size:31 final size:29
Alignment explanation
Indices: 30022234--30022301 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
30022224 TTTTATAAAT
* *
30022234 AATTAATATTTAT-TAATTAAAAATATTTAC
1 AATTTATATTTATAT-ATT-AAAATATTAAC
30022264 AATTTATATTTTATATATTAAAATATTAAC
1 AATTTATA-TTTATATATTAAAATATTAAC
*
30022294 AAGTTATA
1 AATTTATA
30022302 ATAATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 24 0.73
31 8 0.24
32 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (29 bp):
AATTTATATTTATATATTAAAATATTAAC
Found at i:30028836 original size:62 final size:59
Alignment explanation
Indices: 30028716--30028840 Score: 135
Period size: 62 Copynumber: 2.1 Consensus size: 59
30028706 ATATTTGTAC
* * * ****
30028716 AAATTGTTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAG
1 AAATTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTAAATAAGGCAATAG
*
30028775 TAAATTATTTTTATATT-TTGTCCTATTTAATAAAATAGAAGTTCTTTTAAATAAGGCAATAG
1 -AAATTATTTTTATATTGTT-T-C-ATTTAATAAAATAAAAGTTCTTTTAAATAAGGCAATAG
30028837 AAAT
1 AAAT
30028841 AATGCAATAG
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.04
60 16 0.30
61 5 0.09
62 31 0.57
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (59 bp):
AAATTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTAAATAAGGCAATAG
Found at i:30028842 original size:14 final size:14
Alignment explanation
Indices: 30028823--30028861 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
30028813 AAGTTCTTTT
*
30028823 AAATAAGGCAATAG
1 AAATAATGCAATAG
30028837 AAATAATGCAATAG
1 AAATAATGCAATAG
30028851 AAATAATGCAA
1 AAATAATGCAA
30028862 CATAATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.59, C:0.08, G:0.15, T:0.18
Consensus pattern (14 bp):
AAATAATGCAATAG
Found at i:30032125 original size:127 final size:125
Alignment explanation
Indices: 30031869--30032262 Score: 512
Period size: 126 Copynumber: 3.1 Consensus size: 125
30031859 GCCAAACAGG
** *
30031869 AACTACTGTA-AAAAAAA--GTCCACGT-GAGAGCTTTTTTCAGTAATTTTTTTGGCAGTGCATC
1 AACTACTGTAGAAAAAAAGCGTCCACGTAG-GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * **
30031930 CTGCTTGACGCGTTTTTGACATAATTTTTTCAGAATCGTCTTCTCAAAATTATTTTTTCAGG
65 CTGCTTGAAGCGTTTTTGACAT-ATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAA
* *
30031992 AACTACTGTAGAAAAAAAGCGTCCACATAGGAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCC
1 AACTACTGTAGAAAAAAAGCGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
*
30032057 TGCTTGAAGCGTTTTTGAAACTATTTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAA
66 TGCTTGAAGCGTTTTTGACA-TA-TTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAA
*
30032119 AACTACTGTAGAAAAAGAGCGTCCACGTAGGAG-TCTTTTT-AGTAATTTTGCTGACAGTGCATC
1 AACTACTGTAGAAAAAAAGCGTCCACGTAGGAGCT-TTTTTCAGTAATTTTGCTGACAGTGCATC
* * * * ** *
30032182 ATGTTTGAAGTGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAACTTTTCTAA
65 CTGCTTGAAGCGTTTTTGACA-TATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAA
*
30032244 AACTATTGTAGAAAGAAAA
1 AACTACTGTAGAAA-AAAA
30032263 ACAAAATTCT
Statistics
Matches: 239, Mismatches: 24, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
123 10 0.04
124 7 0.03
125 47 0.20
126 102 0.43
127 73 0.31
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (125 bp):
AACTACTGTAGAAAAAAAGCGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACATATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAA
Found at i:30032362 original size:34 final size:33
Alignment explanation
Indices: 30032321--30032440 Score: 132
Period size: 34 Copynumber: 3.6 Consensus size: 33
30032311 CACAAAATTA
*
30032321 TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
1 TTTTTAAAAACACTAAACCCTAATTTAATTAAT
* *
30032354 TTTCTTAAAAACTCTAAACCTTAATTTAATTAAT
1 TTT-TTAAAAACACTAAACCCTAATTTAATTAAT
* * * *
30032388 TTATTTAAAACCCCTAAAACCTAATTGAATTAAT
1 TT-TTTAAAAACACTAAACCCTAATTTAATTAAT
* **
30032422 TTTTTTAAAATTCTAAACC
1 TTTTTAAAAACACTAAACC
30032441 TTGATTTATT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
33 15 0.21
34 56 0.78
35 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.01, T:0.41
Consensus pattern (33 bp):
TTTTTAAAAACACTAAACCCTAATTTAATTAAT
Found at i:30032395 original size:68 final size:67
Alignment explanation
Indices: 30032323--30032448 Score: 171
Period size: 68 Copynumber: 1.9 Consensus size: 67
30032313 CAAAATTATT
* *
30032323 TTTAAAAAAACTAAACCCTAATTTAATTAATTTTCTTAAAAACTCTAAACCTTAATTTAATTAAT
1 TTTAAAAAAACTAAAACCTAATTGAATTAATTTT-TTAAAAACTCTAAACCTTAATTTAATTAAT
30032388 TTA
65 TTA
*** * * *
30032391 TTTAAAACCCCTAAAACCTAATTGAATTAATTTTTTTAAAATTCTAAACCTTGATTTA
1 TTTAAAAAAACTAAAACCTAATTGAATTAATTTTTTAAAAACTCTAAACCTTAATTTA
30032449 TTTTTTAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
67 21 0.42
68 29 0.58
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (67 bp):
TTTAAAAAAACTAAAACCTAATTGAATTAATTTTTTAAAAACTCTAAACCTTAATTTAATTAATT
TA
Found at i:30033669 original size:20 final size:20
Alignment explanation
Indices: 30033644--30033686 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
30033634 TTTTTTGGTA
30033644 AAATAACAAAATATAGTAAT
1 AAATAACAAAATATAGTAAT
*
30033664 AAATAACAAAATATGGTAAT
1 AAATAACAAAATATAGTAAT
30033684 AAA
1 AAA
30033687 ACATCATGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (20 bp):
AAATAACAAAATATAGTAAT
Found at i:30036868 original size:268 final size:265
Alignment explanation
Indices: 30036374--30036878 Score: 708
Period size: 268 Copynumber: 1.9 Consensus size: 265
30036364 TAAACTTGCT
* * *
30036374 TAATAAAAGTACTTGTATATCATTTTAGTCATTTTATTTTATGTTAATAATATATATGCATATAT
1 TAATAAAAGTACTTGTACATCATTTTAGTCATTTTATTTTATGTTAATAATATATATGAATAAAT
* * * * *
30036439 ATACTACTTCGCTAATGGATAGGTTATGAGTGAAGGTTTTGGAAATGTGACCAAATTGAGTAACC
66 ATACTACTCCACTAATGAATAGGTTATGAGTGAAGATTTTGGAAATGTGACCAAATTAAGTAACC
* *
30036504 GAGATAAGGTGCTTGAGTTGTCATCTCACCTCGCGTAAAAAGATTCAAGTGACGAACCAAAACCT
131 GAGATAAGGTGCTTGAGTTGTCATCTCACCTCGCATAAAAAGATCCAAGTGACGAACCAAAACCT
* * * * *
30036569 GTAAACACTCTGCTAGCCGAGTTTCCATGAGTAGGGGAAAAATAATTCGTTTAGAGACGTATCAA
196 GCAAACACTCTGCTAACCAAGTGTCCATGAGTA-AGGAAAAATAATTCGTTTAGAGACGTATCAA
30036634 ATCGAG
260 ATCGAG
* *
30036640 TAATAAAAGTACTTGTACCTCGTTTTAGTCATTTTATTTTATGTTAATAATATATATAAGAATAA
1 TAATAAAAGTACTTGTACATCATTTTAGTCATTTTATTTTATGTTAATAATATATAT--GAATAA
* * *
30036705 ATATACTACTCCATTGATGAATAGGTTATGAGTGAAGATTTTGGAAATGTGAGCAAATTAAGTAA
64 ATATACTACTCCACTAATGAATAGGTTATGAGTGAAGATTTTGGAAATGTGACCAAATTAAGTAA
* * * *
30036770 CCGAGATAAGGTTCTTGGGTTGTTC-TCTCACCTCGCATAAAAAGATCCGAGTGACGAACCGAAA
129 CCGAGATAAGGTGCTTGAGTTG-TCATCTCACCTCGCATAAAAAGATCCAAGTGACGAACCAAAA
* * *
30036834 CTTGCAAACACTCTGGTAATCAAGCTGT-CATGAGTAAGGAAAAAT
193 CCTGCAAACACTCTGCTAACCAAG-TGTCCATGAGTAAGGAAAAAT
30036879 TGAGTAACCT
Statistics
Matches: 208, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
266 54 0.26
267 8 0.04
268 142 0.68
269 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (265 bp):
TAATAAAAGTACTTGTACATCATTTTAGTCATTTTATTTTATGTTAATAATATATATGAATAAAT
ATACTACTCCACTAATGAATAGGTTATGAGTGAAGATTTTGGAAATGTGACCAAATTAAGTAACC
GAGATAAGGTGCTTGAGTTGTCATCTCACCTCGCATAAAAAGATCCAAGTGACGAACCAAAACCT
GCAAACACTCTGCTAACCAAGTGTCCATGAGTAAGGAAAAATAATTCGTTTAGAGACGTATCAAA
TCGAG
Found at i:30046645 original size:7 final size:7
Alignment explanation
Indices: 30046635--30046679 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
30046625 GTTTTTGGGT
*
30046635 TTTATGG
1 TTTAGGG
30046642 TTTAGGG
1 TTTAGGG
30046649 TTTAGGG
1 TTTAGGG
*
30046656 TTTTAGAG
1 -TTTAGGG
*
30046664 TTTGGGG
1 TTTAGGG
30046671 TTTAGGG
1 TTTAGGG
30046678 TT
1 TT
30046680 AAAAATTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:30046656 original size:22 final size:22
Alignment explanation
Indices: 30046631--30046679 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
30046621 GCTTGTTTTT
30046631 GGGTTTTATG-GTTTAGGGTTTA
1 GGGTTTTA-GAGTTTAGGGTTTA
*
30046653 GGGTTTTAGAGTTTGGGGTTTA
1 GGGTTTTAGAGTTTAGGGTTTA
30046675 GGGTT
1 GGGTT
30046680 AAAAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.12, C:0.00, G:0.41, T:0.47
Consensus pattern (22 bp):
GGGTTTTAGAGTTTAGGGTTTA
Found at i:30047771 original size:225 final size:226
Alignment explanation
Indices: 30047078--30047855 Score: 1206
Period size: 225 Copynumber: 3.4 Consensus size: 226
30047068 GAACACCTCT
* *
30047078 AGTTTAGGGTTTTTCAATTAAATTATTTAAAAAAATTTCAAAATTGGATTAGTTTTCGTGTTTAT
1 AGTTTAGGGTTTGTCAATTAAATTATTTAAAAAAAATTCAAAATTGGATTAGTTTTCGTGTTTAT
* *
30047143 TATTTTTTAAGAAAAAATCAATTAAATTATGGTTTAGGGTTACTTGAGTAATTTAATT-TAAAAA
66 TATTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAA
* ***
30047207 ATTTTAAAGATTAGATTAGGGTTAGGGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTAAGGGTTT
131 ATTTTAAAAATTAGATTAGGGTTAGGGTTAGGGTTAGGGTTTTGGTGTTTTTAAGTTAAGGGTTT
* * * *
30047272 TCATGGAAAAATTAAATAAGTTAGGGTTTAA
196 TTAAGGAAAAATCAAATAAGTTAGGGTTTAG
* * *
30047303 AGTTTAGGGTTTGTCAATTAAATTATTT-TAAAAAATTTAAAATTGGATTAGTTTTCATGTTTAT
1 AGTTTAGGGTTTGTCAATTAAATTATTTAAAAAAAATTCAAAATTGGATTAGTTTTCGTGTTTAT
*
30047367 TATTTTTTAAGAAAAAAATCAATTAAATTAGGATTTAGGGTTACTTGAGTAATTTAATTAAAAAA
66 TATTTTTTAAG-AAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAA
* * *
30047432 AA--TTAAAAATTAGATTAGGGTTAGGGTTAGTGTTTTTTAGGGTTTTTGTGTTTTTAAGTTAAT
130 AATTTTAAAAATTAGATTAGGGTTAGGGTTAG-G---GTTAGGGTTTTGGTGTTTTTAAGTTAAG
30047495 GGTTTTTAAGGAAAAATCAAATAAGTTAGGGTTTAG
191 GGTTTTTAAGGAAAAATCAAATAAGTTAGGGTTTAG
*
30047531 AGTTTAGGGTTTGTCAATTAAATTATTTAAAAAAAATTCAAAATTGGATTAGTTTTTGTGTTTAT
1 AGTTTAGGGTTTGTCAATTAAATTATTTAAAAAAAATTCAAAATTGGATTAGTTTTCGTGTTTAT
* *
30047596 TA-TTTTTAAGAAAAAATTAATTAAATTGGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAA
66 TATTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAA
*
30047660 ATTTTAAAAATTAGATTAGGGTTAGGGTTAGGGTTAGAGTTTTGGTGTTTTTAAGTTAAGGGTTT
131 ATTTTAAAAATTAGATTAGGGTTAGGGTTAGGGTTAGGGTTTTGGTGTTTTTAAGTTAAGGGTTT
30047725 TTAAGGAAAAATCAAATAAGTTAGGGTTTAG
196 TTAAGGAAAAATCAAATAAGTTAGGGTTTAG
**** *
30047756 AGTTTAGGGTTTGTCAATTAAATTATTTAAAATTTTTTTAAAATTGGATTAGTTTTCGTGTTTAT
1 AGTTTAGGGTTTGTCAATTAAATTATTTAAAAAAAATTCAAAATTGGATTAGTTTTCGTGTTTAT
* *
30047821 TATTTTTTAAGAAAATATGAATTAAATTAGGGTTT
66 TATTTTTTAAGAAAAAATCAATTAAATTAGGGTTT
30047856 TGGTGTTTTT
Statistics
Matches: 504, Mismatches: 39, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
224 68 0.13
225 193 0.38
226 35 0.07
227 52 0.10
228 94 0.19
229 62 0.12
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (226 bp):
AGTTTAGGGTTTGTCAATTAAATTATTTAAAAAAAATTCAAAATTGGATTAGTTTTCGTGTTTAT
TATTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAA
ATTTTAAAAATTAGATTAGGGTTAGGGTTAGGGTTAGGGTTTTGGTGTTTTTAAGTTAAGGGTTT
TTAAGGAAAAATCAAATAAGTTAGGGTTTAG
Found at i:30051946 original size:50 final size:50
Alignment explanation
Indices: 30051871--30052158 Score: 388
Period size: 50 Copynumber: 5.8 Consensus size: 50
30051861 ATTTGGGTAA
*
30051871 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
**
30051921 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
30051971 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTGGCATCGAGAT-
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
30052020 -GA---CCCATGTAAGACCATGTCTGGGACATTGCATTGGCACCGAAAGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * *
30052066 AGATGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
30052116 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30052159 TGTTATTATC
Statistics
Matches: 210, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
45 38 0.18
47 2 0.01
48 2 0.01
50 134 0.64
51 34 0.16
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:30052089 original size:95 final size:97
Alignment explanation
Indices: 30051871--30052158 Score: 355
Period size: 95 Copynumber: 2.9 Consensus size: 97
30051861 ATTTGGGTAA
* *
30051871 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAA
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT-AGA-G-CCCATGTAA
** * *
30051936 GACCATGTCTGGGACATGGTGTTGGCACCGAGATG
63 GACCATGTCTGGGACATGGCATTGGCACCGAAAGG
* * *
30051971 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTGGCATCGAGAT-GA-CCCATGTAAGAC
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAGAGCCCATGTAAGAC
*
30052034 CATGTCTGGGACATTGCATTGGCACCGAAAGG
66 CATGTCTGGGACATGGCATTGGCACCGAAAGG
* * * * *
30052066 AGATGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTA
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT-AG---AGCCCATGTA
*
30052131 AGACCATGTCTGGGACATGGCTTTGGCA
62 AGACCATGTCTGGGACATGGCATTGGCA
30052159 TGTTATTATC
Statistics
Matches: 165, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
95 81 0.49
97 1 0.01
98 2 0.01
100 47 0.28
101 34 0.21
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (97 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAGAGCCCATGTAAGAC
CATGTCTGGGACATGGCATTGGCACCGAAAGG
Found at i:30058863 original size:13 final size:13
Alignment explanation
Indices: 30058845--30058871 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30058835 TTTCCAGCAA
30058845 TTATGCATTTATT
1 TTATGCATTTATT
30058858 TTATGCATTTATT
1 TTATGCATTTATT
30058871 T
1 T
30058872 AATCTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGCATTTATT
Found at i:30059033 original size:50 final size:50
Alignment explanation
Indices: 30058974--30059257 Score: 353
Period size: 50 Copynumber: 5.8 Consensus size: 50
30058964 TGGGTAAAGA
*
30058974 GTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* *
30059024 GTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* * *
30059074 GTCCCATCTAAGACCATGTCTGGGACATGGCATTGGAACCGAGAT--GA-
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* *
30059121 --CCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGACGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
** * * * * * *
30059169 GTCCCCCGTAAGACCATGTCTGGGACGTGACATTGGTACCGAAATGAGAAC
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG-AG
* * *
30059220 ATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
30059258 TGTTATTATC
Statistics
Matches: 197, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
45 38 0.19
47 2 0.01
48 2 0.01
50 124 0.63
51 31 0.16
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
Found at i:30059162 original size:95 final size:97
Alignment explanation
Indices: 30058974--30059257 Score: 342
Period size: 95 Copynumber: 2.9 Consensus size: 97
30058964 TGGGTAAAGA
* * * *
30058974 GTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACC
1 GTCCCATCTAAGACCATGTCTGGGACATGGCATTGGAACCGAGAT-AGA-G-CCCATGTAAGACC
* *
30059039 ATGTCTGGGACATGGTGTTGGCATCGAGATGAGAG
63 ATGTCTGGGACATGGTGTTGGCACCGAGACGAGAG
30059074 GTCCCATCTAAGACCATGTCTGGGACATGGCATTGGAACCGAGAT-GA-CCCATGTAAGACCATG
1 GTCCCATCTAAGACCATGTCTGGGACATGGCATTGGAACCGAGATAGAGCCCATGTAAGACCATG
30059137 TCTGGGACATGGTGTTGGCACCGAGACGAGAG
66 TCTGGGACATGGTGTTGGCACCGAGACGAGAG
* * * * * *
30059169 GTCCC-CCGTAAGACCATGTCTGGGACGTGACATTGGTACCGAAATGAGAACATCCCATGTAAGA
1 GTCCCATC-TAAGACCATGTCTGGGACATGGCATTGGAACCGAGAT-AG---AGCCCATGTAAGA
*
30059233 CCATGTCTAGGACATGGCT-TTGGCA
61 CCATGTCTGGGACATGG-TGTTGGCA
30059258 TGTTATTATC
Statistics
Matches: 164, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
94 1 0.01
95 84 0.51
97 1 0.01
98 2 0.01
100 42 0.26
101 33 0.20
102 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (97 bp):
GTCCCATCTAAGACCATGTCTGGGACATGGCATTGGAACCGAGATAGAGCCCATGTAAGACCATG
TCTGGGACATGGTGTTGGCACCGAGACGAGAG
Found at i:30063815 original size:50 final size:50
Alignment explanation
Indices: 30063740--30064022 Score: 380
Period size: 50 Copynumber: 5.8 Consensus size: 50
30063730 GGGTAAAGAG
*
30063740 GTCCCATGTAAGACCATGTCTGGGACATGGCGCTGGCACCGAGATGAGAA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAA
* *
30063790 GTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAA
* *
30063840 GTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGAT--G-A
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAA
* *
30063887 --CCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAA
* * ** * *
30063935 GTCCC-TGTAATACCATGTCTGAGACATGGAATGGGCACCGATATGAGAA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAA
* *
30063984 CATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
30064023 TGTTATTATC
Statistics
Matches: 203, Mismatches: 23, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
45 42 0.21
47 1 0.00
48 1 0.00
49 36 0.18
50 96 0.47
51 27 0.13
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAA
Found at i:30063990 original size:145 final size:145
Alignment explanation
Indices: 30063742--30064022 Score: 429
Period size: 145 Copynumber: 1.9 Consensus size: 145
30063732 GTAAAGAGGT
30063742 CCCATGTAAGACCATGTCTGGGACATGGCGCTGGCACCGAGATGAGAAGTCCCATGTAAGACCAT
1 CCCATGTAAGACCATGTCTGGGACATGGCGCTGGCACCGAGATGAGAAGTCCCATGTAAGACCAT
* ** * ** *
30063807 GTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCA
66 GTCTGAGACATGGAATGGGCACCGAGATGAGACATCCCATGTAAGACCATGTCTGGGACATGGCA
30063872 TTGGCACCGAGATGA
131 TTGGCACCGAGATGA
* * * *
30063887 CCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCC-TGTAATACCAT
1 CCCATGTAAGACCATGTCTGGGACATGGCGCTGGCACCGAGATGAGAAGTCCCATGTAAGACCAT
*
30063951 GTCTGAGACATGGAATGGGCACCGATATGAGAACATCCCATGTAAGACCATGTCTGGGACATGGC
66 GTCTGAGACATGGAATGGGCACCGAGATGAG-ACATCCCATGTAAGACCATGTCTGGGACATGGC
*
30064016 TTTGGCA
130 ATTGGCA
30064023 TGTTATTATC
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
144 36 0.30
145 86 0.70
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (145 bp):
CCCATGTAAGACCATGTCTGGGACATGGCGCTGGCACCGAGATGAGAAGTCCCATGTAAGACCAT
GTCTGAGACATGGAATGGGCACCGAGATGAGACATCCCATGTAAGACCATGTCTGGGACATGGCA
TTGGCACCGAGATGA
Found at i:30066435 original size:12 final size:11
Alignment explanation
Indices: 30066418--30066459 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
30066408 GGATTTAAGA
30066418 GAAATTTGAGAG
1 GAAA-TTGAGAG
30066430 GAAATTGAGAG
1 GAAATTGAGAG
* *
30066441 CAAATTGAGAA
1 GAAATTGAGAG
30066452 GAAATTGA
1 GAAATTGA
30066460 AAGAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 23 0.85
12 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:30066448 original size:22 final size:22
Alignment explanation
Indices: 30066415--30066464 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
30066405 TAGGGATTTA
*
30066415 AGAGAAATTTGAGAGGAAATTG
1 AGAGAAATTTGAGAAGAAATTG
30066437 AGAGCAAA-TTGAGAAGAAATTG
1 AGAG-AAATTTGAGAAGAAATTG
*
30066459 AAAGAA
1 AGAGAA
30066465 TAATAGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 20 0.80
23 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.28, T:0.18
Consensus pattern (22 bp):
AGAGAAATTTGAGAAGAAATTG
Found at i:30066458 original size:11 final size:11
Alignment explanation
Indices: 30066417--30066464 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
30066407 GGGATTTAAG
30066417 AGAAATTTGAGA
1 AGAAA-TTGAGA
*
30066429 GGAAATTGAG-
1 AGAAATTGAGA
30066439 AGCAAATTGAGA
1 AG-AAATTGAGA
30066451 AGAAATTGA-A
1 AGAAATTGAGA
30066461 AGAA
1 AGAA
30066465 TAATAGAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 6 0.19
11 20 0.62
12 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.27, T:0.19
Consensus pattern (11 bp):
AGAAATTGAGA
Found at i:30069525 original size:6 final size:6
Alignment explanation
Indices: 30069514--30069541 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30069504 ATACGAAATG
30069514 AAATTT AAATTT AAATTT AAATTT AAAT
1 AAATTT AAATTT AAATTT AAATTT AAAT
30069542 GTTCAAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:30069555 original size:96 final size:96
Alignment explanation
Indices: 30069450--30069625 Score: 293
Period size: 96 Copynumber: 1.8 Consensus size: 96
30069440 ATCAATAAAT
* *
30069450 AAACTAATCAATGTTCAAACTTTGAACATGCTTTATTAAACCT-TCAATTTCA-TTATACGAAAT
1 AAACTAATCAATGTTCAAACTTTGAACATGCTTTAATAAA-CTATCAATAT-ATTTATACGAAAT
30069513 GAAATTTAAATTTAAATTTAAATTTAAATGTTC
64 GAAATTTAAATTTAAATTTAAATTTAAATGTTC
30069546 AAACTAATCAATGTTCAAACTTTGAACATGCTTTAATAAACTAATCAATATATTTATACGAAATG
1 AAACTAATCAATGTTCAAACTTTGAACATGCTTTAATAAACT-ATCAATATATTTATACGAAATG
30069611 AAATTTAAATTTAAA
65 AAATTTAAATTTAAA
30069626 ATGTTATAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
95 2 0.03
96 40 0.53
97 33 0.44
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (96 bp):
AAACTAATCAATGTTCAAACTTTGAACATGCTTTAATAAACTATCAATATATTTATACGAAATGA
AATTTAAATTTAAATTTAAATTTAAATGTTC
Found at i:30073010 original size:47 final size:47
Alignment explanation
Indices: 30072958--30073102 Score: 158
Period size: 47 Copynumber: 3.1 Consensus size: 47
30072948 TCATTTAAGA
*
30072958 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
30073005 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * *
30073049 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
30073096 ATATTTA
1 ATATTTA
30073103 ATAATAATTA
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.41
48 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:30073032 original size:44 final size:44
Alignment explanation
Indices: 30072982--30073124 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 44
30072972 GAATTTTATG
*
30072982 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATAATTATTAAATTATATTTAATATTAATTATTTT
* * * **
30073026 AAATTATATA-AATTCATATAAGA--AAATTTATTATCAAGAATTTTAT
1 AAATTATATATAATT-AT-TAA-ATTATATTTAATATTAATTA-TTT-T
* *
30073072 GAAATTATATATTATTATTAAATTATATTTAATAATAATTATTTT
1 -AAATTATATATAATTATTAAATTATATTTAATATTAATTATTTT
30073117 AAATTATA
1 AAATTATA
30073125 CAAATTCATA
Statistics
Matches: 77, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.42
45 8 0.10
46 8 0.10
47 23 0.30
48 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (44 bp):
AAATTATATATAATTATTAAATTATATTTAATATTAATTATTTT
Found at i:30073055 original size:91 final size:91
Alignment explanation
Indices: 30072943--30073226 Score: 363
Period size: 91 Copynumber: 3.0 Consensus size: 91
30072933 ATGATTTTAG
* *
30072943 TAAATTCATTTAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
30073008 TTTAATATTAATTATTTTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
* *
30073034 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
30073099 TTTAATAATAATTATTTTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
* * * * *
30073125 CAAATTCATATAAGAAAATTTATTAGTAATAATTATT-TTAAATTTTATTAAATCGTATATTTTA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATT-TTATGAAA--TTA-TATATC----A--TT-
*
30073189 ATTAAAATATATTTAATAATAATTATTTTAAATTATA
55 ATTAAATTATATTTAATAATAATTATTTTAAATTATA
30073226 T
1 T
30073227 TTTATAGTAT
Statistics
Matches: 168, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
91 120 0.71
92 2 0.01
93 3 0.02
94 4 0.02
98 1 0.01
100 2 0.01
101 36 0.21
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATAATAATTATTTTAAATTATA
Found at i:30073116 original size:47 final size:47
Alignment explanation
Indices: 30072974--30073117 Score: 140
Period size: 47 Copynumber: 3.1 Consensus size: 47
30072964 ATTATTAAGA
* *
30072974 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
* * **
30073021 A-TTT-T-AAATTATATA-AATTCATATAAGA--AAATTT-ATTATCAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTTAATAAT-AATT
*
30073065 ATTTTATGAAATTATATATTATTATTAAATTATATTTAATAATAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
30073112 ATTTTA
1 ATTTTA
30073118 AATTATACAA
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
43 6 0.08
44 20 0.27
45 8 0.11
46 8 0.11
47 26 0.35
48 7 0.09
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
Found at i:30073201 original size:16 final size:16
Alignment explanation
Indices: 30073180--30073219 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
30073170 TATTAAATCG
30073180 TATATTTTAATTAA-AA
1 TATATTTTAA-TAATAA
30073196 TATA-TTTAATAATAA
1 TATATTTTAATAATAA
30073211 T-TATTTTAA
1 TATATTTTAA
30073220 ATTATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.23
15 13 0.59
16 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATTTTAATAATAA
Found at i:30073297 original size:120 final size:120
Alignment explanation
Indices: 30073165--30073574 Score: 766
Period size: 120 Copynumber: 3.4 Consensus size: 120
30073155 AATTATTTTA
* *
30073165 AATTTTATTAAATCGTATATTTTAATTAAAATATATTTAATAATAATTATTTTAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
30073230 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
30073285 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
30073350 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
30073405 AATTTTATTAAATCATATATTTTATTTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
* *
30073470 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAAATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
30073525 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT
30073575 GTTAAAATAT
Statistics
Matches: 283, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 283 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:30073300 original size:61 final size:61
Alignment explanation
Indices: 30073235--30073545 Score: 261
Period size: 61 Copynumber: 5.2 Consensus size: 61
30073225 ATTTTATAGT
30073235 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
* * ** * * * * * * * *
30073296 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGT
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTA-A
30073355 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
* * * * *
30073416 ATCATATATT-TTA-TTTA--AAATAT-ATTTAATAATAATT-ATT-TCAAATTATATTTTA-TA
1 ATCATATATTATGATTTTAGTAAAT-TCATATAAGAAT-ATTGATTAT-TAA-GA-ATTTTATTA
*
30073473 GT
61 -A
* *
30073475 ATCATATATTATGATTTGAGTAAATTCATATAAGAAAATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
*
30073536 ATTATATATT
1 ATCATATATT
30073546 TTAATTAAAA
Statistics
Matches: 189, Mismatches: 39, Indels: 44
0.69 0.14 0.16
Matches are distributed among these distances:
56 1 0.01
57 17 0.09
58 12 0.06
59 52 0.28
60 18 0.10
61 60 0.32
62 12 0.06
63 16 0.08
64 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
Found at i:30073359 original size:59 final size:59
Alignment explanation
Indices: 30073180--30073484 Score: 244
Period size: 59 Copynumber: 5.1 Consensus size: 59
30073170 TATTAAATCG
*
30073180 TATATTTTAATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATCA
1 TATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCA
* * ** * * * * * * * *
30073239 TATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTA-AATCA
1 TATATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGTATCA
30073300 TATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCA
1 TATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCA
* * ** * * * * * * * *
30073359 TATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTA-AATCA
1 TATATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGTATCA
*
30073420 TATATTTTATTTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCA
1 TATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCA
30073479 TATATT
1 TATATT
30073485 ATGATTTGAG
Statistics
Matches: 181, Mismatches: 49, Indels: 32
0.69 0.19 0.12
Matches are distributed among these distances:
58 10 0.06
59 70 0.39
60 28 0.15
61 63 0.35
62 10 0.06
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (59 bp):
TATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCA
Found at i:30073440 original size:18 final size:17
Alignment explanation
Indices: 30073406--30073442 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
30073396 ATTATTAAGA
30073406 ATTTTATTAAATCATAT
1 ATTTTATTAAATCATAT
30073423 ATTTTATTTAAA--ATAT
1 ATTTTA-TTAAATCATAT
30073439 ATTT
1 ATTT
30073443 AATAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATCATAT
Found at i:30073554 original size:18 final size:17
Alignment explanation
Indices: 30073526--30073560 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30073516 ATTATTAAGA
*
30073526 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30073543 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30073561 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30073780 original size:44 final size:45
Alignment explanation
Indices: 30073717--30073813 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
30073707 CTATTACACC
*
30073717 TCCATTCCATTCAACCAAAC-ATAAGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAAT-AGATATACTATTACGCCTCTAT
* * *
30073761 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
*
30073806 TCTATTAC
1 TCCATTAC
30073814 GTCTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 21 0.46
45 25 0.54
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:30073812 original size:16 final size:16
Alignment explanation
Indices: 30073791--30073829 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
30073781 AATTGATTTG
30073791 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
*
30073807 CTATTACGTCTCTATT
1 CTATTACGCCTCTATT
*
30073823 CCATTAC
1 CTATTAC
30073830 TGCGAACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.44
Consensus pattern (16 bp):
CTATTACGCCTCTATT
Found at i:30073987 original size:32 final size:32
Alignment explanation
Indices: 30073951--30074012 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
30073941 GTGACAGTTA
*
30073951 AAAAAATTATTATAATAATAAATTTAACCCAC
1 AAAAAATTATTATAATAATAAATTCAACCCAC
30073983 AAAAAATTATTATAATAATAAATTCAACCC
1 AAAAAATTATTATAATAATAAATTCAACCC
30074013 TCAATTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (32 bp):
AAAAAATTATTATAATAATAAATTCAACCCAC
Found at i:30075223 original size:22 final size:22
Alignment explanation
Indices: 30075188--30075230 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30075178 AGAAAAAATA
30075188 TTAAATATGGATGATAGTAATTT
1 TTAAATATGGATGATA-TAATTT
*
30075211 TTAAA-ATTGATGATATAATT
1 TTAAATATGGATGATATAATT
30075231 GATGCGTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (22 bp):
TTAAATATGGATGATATAATTT
Found at i:30076861 original size:19 final size:20
Alignment explanation
Indices: 30076839--30076877 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
30076829 AATAATTATA
*
30076839 AAAAAGGAAT-TATAATATT
1 AAAAAGGAATATAAAATATT
*
30076858 AAAAAGTAATATAAAATATT
1 AAAAAGGAATATAAAATATT
30076878 TAATATGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (20 bp):
AAAAAGGAATATAAAATATT
Found at i:30076875 original size:20 final size:20
Alignment explanation
Indices: 30076809--30076877 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
30076799 ATTAAGTTAT
*
30076809 TAAAATATTGAAAAATTAA-A
1 TAAAATATT-AAAAAGTAATA
* *
30076829 -AATAATTATAAAAAAGGAAT-
1 TAA-AA-TATTAAAAAGTAATA
*
30076849 TATAATATTAAAAAGTAATA
1 TAAAATATTAAAAAGTAATA
30076869 TAAAATATT
1 TAAAATATT
30076878 TAATATGGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
19 14 0.38
20 19 0.51
21 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (20 bp):
TAAAATATTAAAAAGTAATA
Found at i:30079923 original size:45 final size:45
Alignment explanation
Indices: 30079810--30079981 Score: 159
Period size: 45 Copynumber: 3.8 Consensus size: 45
30079800 TTTGGATTGA
* ** * * *
30079810 GAAATAAGAAAGAAGATGGTTGAAAGATGCCATGACATTATACCC
1 GAAATGAGAAAGACCATAGTTGAAAGATACCATGGCATTATACCC
* * *
30079855 GAAACGAGAAAGACTATGGTTGAAAGATACCATGGCATTATACCC
1 GAAATGAGAAAGACCATAGTTGAAAGATACCATGGCATTATACCC
* * * * *
30079900 GAAATGAGAAAGACCATACTTGAAAGCA-ACTATGGCACTATATCA
1 GAAATGAGAAAGACCATAGTTGAAAG-ATACCATGGCATTATACCC
* * *
30079945 GAAATGTA-TAAGACCATAGTTGAAATATACTATGGCA
1 GAAATG-AGAAAGACCATAGTTGAAAGATACCATGGCA
30079982 ATACATCGAC
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.01
45 104 0.97
46 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (45 bp):
GAAATGAGAAAGACCATAGTTGAAAGATACCATGGCATTATACCC
Found at i:30080001 original size:45 final size:44
Alignment explanation
Indices: 30079900--30080026 Score: 114
Period size: 45 Copynumber: 2.8 Consensus size: 44
30079890 CATTATACCC
* * *
30079900 GAAATGAGA-AAGACCATACTTGAAAGCAACTATGGCACTATATCA
1 GAAATGA-ATAAGACCATAGTTGAAA-CAACTATGGCAATACATCA
* *
30079945 GAAATGTATAAGACCATAGTTGAAATATACTATGGCAATACATC-
1 GAAATGAATAAGACCATAGTTGAAACA-ACTATGGCAATACATCA
* * * *
30079989 GACAATGAATAAGACTACAGTTTAAAGAGACTATGGCA
1 GA-AATGAATAAGACCATAGTTGAAACA-ACTATGGCA
30080027 TCACTTTGGA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
44 4 0.06
45 64 0.94
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (44 bp):
GAAATGAATAAGACCATAGTTGAAACAACTATGGCAATACATCA
Found at i:30088127 original size:21 final size:22
Alignment explanation
Indices: 30088087--30088133 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
30088077 ATAAATATGA
*
30088087 CAATTCAAAATACATGTATAATT
1 CAATTCAAAATACATATAT-ATT
30088110 CAATT-AAAA-ACATATATATT
1 CAATTCAAAATACATATATATT
30088130 CAAT
1 CAAT
30088134 ACAATTACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 4 0.17
23 5 0.22
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (22 bp):
CAATTCAAAATACATATATATT
Found at i:30105396 original size:45 final size:45
Alignment explanation
Indices: 30105329--30105537 Score: 265
Period size: 45 Copynumber: 4.6 Consensus size: 45
30105319 TTGATTTGAG
* ** * * **
30105329 GAAAAGGAAAAAATGATTATTGAAATATATCATTTCATTATAATC
1 GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
*
30105374 GAAAAGGAAAATACCATGATTGAAAGATATCATGGCATTATAATC
1 GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
* ** ** *
30105419 TAAAAGGAAAAGACTGTGATTGAAAGATATCAAAGCATTATAATT
1 GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
*
30105464 GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATACTC
1 GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
* *
30105509 GAAAAGAAAAAGACCATGGTTGAAAGATA
1 GAAAAGGAAAAGACCATGATTGAAAGATA
30105538 CTATGACATC
Statistics
Matches: 141, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 141 1.00
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.25
Consensus pattern (45 bp):
GAAAAGGAAAAGACCATGATTGAAAGATATCATGGCATTATAATC
Found at i:30107746 original size:22 final size:23
Alignment explanation
Indices: 30107717--30107759 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
30107707 TTAGGGGTGT
30107717 TACATTTAG-TGG-TATCAAAGC
1 TACATTTAGTTGGTTATCAAAGC
30107738 TACAGTTTAGTTGGTTATCAAA
1 TACA-TTTAGTTGGTTATCAAA
30107760 CTGAATGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 3 0.16
24 7 0.37
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (23 bp):
TACATTTAGTTGGTTATCAAAGC
Found at i:30117879 original size:15 final size:16
Alignment explanation
Indices: 30117852--30117881 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30117842 GATAATAATT
30117852 AATATATATTATATAA
1 AATATATATTATATAA
30117868 AATATA-ATTATATA
1 AATATATATTATATA
30117882 TTAGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:30127828 original size:9 final size:9
Alignment explanation
Indices: 30127814--30127844 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30127804 GTTAAACGAA
30127814 TCGAGTTAT
1 TCGAGTTAT
*
30127823 TCGAGTTAA
1 TCGAGTTAT
30127832 TCGAGTTAT
1 TCGAGTTAT
30127841 TCGA
1 TCGA
30127845 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:30127914 original size:9 final size:9
Alignment explanation
Indices: 30127897--30127933 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
30127887 TGAGTTTTCG
30127897 AATTCGAAT
1 AATTCGAAT
*
30127906 AACTCGAAT
1 AATTCGAAT
30127915 AATTCGAAT
1 AATTCGAAT
30127924 AATTCGAAT
1 AATTCGAAT
30127933 A
1 A
30127934 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30128181 original size:30 final size:31
Alignment explanation
Indices: 30128147--30128206 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
30128137 AAACCTTTTA
30128147 TTTTCCCCCAAAAATTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAAATTTTACTCCCTTCCCAC
* * *
30128177 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAAATTTTACTCCCTTCCCA
30128207 TCTCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.22, C:0.40, G:0.00, T:0.38
Consensus pattern (31 bp):
TTTTCCCCCAAAAATTTTACTCCCTTCCCAC
Found at i:30128964 original size:5 final size:5
Alignment explanation
Indices: 30128954--30128980 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
30128944 AAAAATTTCA
30128954 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
30128981 CGAATGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:30129160 original size:29 final size:29
Alignment explanation
Indices: 30129115--30129171 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
30129105 CATCAATAAA
30129115 GATAACCACAAAAAACATATGTAAATTAG
1 GATAACCACAAAAAACATATGTAAATTAG
* *
30129144 GATAACTACAAAGAACATATGTAAATTA
1 GATAACCACAAAAAACATATGTAAATTA
30129172 CAGAAGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.11, T:0.23
Consensus pattern (29 bp):
GATAACCACAAAAAACATATGTAAATTAG
Found at i:30132165 original size:9 final size:9
Alignment explanation
Indices: 30132151--30132214 Score: 94
Period size: 9 Copynumber: 7.2 Consensus size: 9
30132141 TTTGGTTAAA
30132151 AATTACCCG
1 AATTACCCG
30132160 AATTACCCG
1 AATTACCCG
30132169 AATTACCCG
1 AATTACCCG
*
30132178 -ATTAACCG
1 AATTACCCG
*
30132186 AATTAACCG
1 AATTACCCG
*
30132195 AATTAACCG
1 AATTACCCG
30132204 AATTACCCG
1 AATTACCCG
30132213 AA
1 AA
30132215 AATTACCCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
8 7 0.13
9 45 0.87
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:30132644 original size:14 final size:16
Alignment explanation
Indices: 30132625--30132656 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
30132615 TAAGTCATAA
30132625 ATAATATA-AA-ATTT
1 ATAATATATAACATTT
30132639 ATAATATATAACATTT
1 ATAATATATAACATTT
30132655 AT
1 AT
30132657 TTAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATATATAACATTT
Found at i:30138286 original size:26 final size:28
Alignment explanation
Indices: 30138234--30138286 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
30138224 TTAAGAAATC
*
30138234 TATTATTATTTTTTTATTATACTTATTCA
1 TATTATTATATTTTTATTATAC-TATTCA
*
30138263 TATTATTGTATTTTT-TTATA-TATT
1 TATTATTATATTTTTATTATACTATT
30138287 TGTTCTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 4 0.18
28 5 0.23
29 13 0.59
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (28 bp):
TATTATTATATTTTTATTATACTATTCA
Found at i:30141775 original size:33 final size:34
Alignment explanation
Indices: 30141721--30141786 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
30141711 TACATGCATT
*
30141721 TATATATAGTATTTTTTTTATACAAACACTAACA
1 TATAAATAGTATTTTTTTTATACAAACACTAACA
30141755 TATAAATAGTA-TTTTTTTATACAAACACTAAC
1 TATAAATAGTATTTTTTTTATACAAACACTAAC
30141787 CAGAGGTGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 21 0.68
34 10 0.32
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (34 bp):
TATAAATAGTATTTTTTTTATACAAACACTAACA
Found at i:30142717 original size:21 final size:21
Alignment explanation
Indices: 30142691--30142736 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
30142681 ATATAGGCTA
* *
30142691 TATATATGTTTATTTAGTA-AT
1 TATATATATATATTTA-TATAT
30142712 TATATATATATATTTATATAT
1 TATATATATATATTTATATAT
30142733 TATA
1 TATA
30142737 GCAATATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
TATATATATATATTTATATAT
Found at i:30143259 original size:23 final size:24
Alignment explanation
Indices: 30143231--30143276 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
30143221 TATACGCTAT
*
30143231 ATTTTTGT-TGAATAAAATCAACA
1 ATTTTTATGTGAATAAAATCAACA
*
30143254 ATTTTTATGTGAATAATATCAAC
1 ATTTTTATGTGAATAAAATCAAC
30143277 TTTATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (24 bp):
ATTTTTATGTGAATAAAATCAACA
Found at i:30144047 original size:31 final size:29
Alignment explanation
Indices: 30144012--30144077 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
30144002 TTTGTAGTAG
*
30144012 ATAAAATTATATTTTAACCCTTTTTAAAA-TT
1 ATAAAATT-TAATTTAACCC--TTTAAAATTT
*
30144043 ATAAAAATTTAATTTAATCCTTTAAAATTT
1 AT-AAAATTTAATTTAACCCTTTAAAATTT
30144073 ATAAA
1 ATAAA
30144078 GATAAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
29 10 0.32
30 4 0.13
31 11 0.35
32 6 0.19
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (29 bp):
ATAAAATTTAATTTAACCCTTTAAAATTT
Found at i:30145955 original size:3 final size:3
Alignment explanation
Indices: 30145937--30145987 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
30145927 TCAAATATCC
* * * * *
30145937 TTA TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30145984 TTA T
1 TTA T
30145988 GTACTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:30146119 original size:3 final size:3
Alignment explanation
Indices: 30146111--30146140 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
30146101 TATTCCAATG
30146111 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30146141 GTTTATGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30162166 original size:39 final size:40
Alignment explanation
Indices: 30162121--30162292 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
30162111 GCTCCTCGTT
* * *
30162121 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
30162161 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
30162200 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
30162240 CAAAGGCCTTCGGGGCTTAACCCGGAGTTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGA-TTTAGTAACTCGCA
30162280 CAAATGCCTTCGG
1 CAAATGCCTTCGG
30162293 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 81 0.68
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:30162221 original size:40 final size:39
Alignment explanation
Indices: 30162123--30162345 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
30162113 TCCTCGTTCA
* * * *
30162123 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
30162162 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
30162201 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
30162241 AAAGGCCTTCGGGGCTTAACCCGGAGTTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGA-TTTAGTAACTCGCAC
** * * * *
30162281 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
30162322 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30162346 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 39 0.25
40 107 0.68
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:30162305 original size:80 final size:78
Alignment explanation
Indices: 30162121--30162345 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 78
30162111 GCTCCTCGTT
* * * * *
30162121 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
30162186 TTTAATAACTCGCA
65 TTTAATAACTCGCA
* * *
30162200 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
30162265 AGTTT-GTATCTCGCA
64 A-TTTAATAACTCGCA
* * * * *
30162280 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
30162344 GA
63 GA
30162346 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 70 0.57
81 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAT
TTAATAACTCGCA
Found at i:30162354 original size:41 final size:41
Alignment explanation
Indices: 30162277--30162354 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
30162267 TTTGTATCTC
* * *
30162277 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
30162318 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
30162355 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:30175178 original size:28 final size:27
Alignment explanation
Indices: 30175147--30175199 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
30175137 TTATATTATT
30175147 ATTTT-AAAATTTAAAAATATATAAAAAC
1 ATTTTAAAAATTT-AAAATATA-AAAAAC
*
30175175 ATTTTAAAAATTTTAAATATAAAAA
1 ATTTTAAAAATTTAAAATATAAAAA
30175200 TTAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 12 0.52
29 7 0.30
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
ATTTTAAAAATTTAAAATATAAAAAAC
Found at i:30177880 original size:24 final size:25
Alignment explanation
Indices: 30177851--30177898 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
30177841 TTTAAATTTT
*
30177851 TAAAAT-TTATATTTTATAATAAAC
1 TAAAATGTGATATTTTATAATAAAC
30177875 TAAAATGTGATATTTTATAATAAA
1 TAAAATGTGATATTTTATAATAAA
30177899 AAAAGTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (25 bp):
TAAAATGTGATATTTTATAATAAAC
Found at i:30180258 original size:24 final size:24
Alignment explanation
Indices: 30180226--30180301 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
30180216 GGTGCTTCCT
30180226 GTTAATTGCTCTTTGGAGCTACCC
1 GTTAATTGCTCTTTGGAGCTACCC
30180250 GTTAATTGCTCTTTGGAGCTA-CC
1 GTTAATTGCTCTTTGGAGCTACCC
* *
30180273 GTT-ATAGGCTCTTTGTGAGCTTCCC
1 GTTAAT-TGCTCTTTG-GAGCTACCC
30180298 GTTA
1 GTTA
30180302 TATTATCCGG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
22 2 0.04
23 13 0.28
24 26 0.57
25 5 0.11
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (24 bp):
GTTAATTGCTCTTTGGAGCTACCC
Found at i:30180283 original size:23 final size:24
Alignment explanation
Indices: 30180202--30180304 Score: 86
Period size: 24 Copynumber: 4.2 Consensus size: 24
30180192 GAATTTCCCA
* * * *
30180202 TTATATGGCTATTCGGTGCTTCCTG
1 TTATATGGCTCTTTGGAGCTACC-G
*
30180227 TTA-ATTGCTCTTTGGAGCTACCCG
1 TTATATGGCTCTTTGGAGCTA-CCG
*
30180251 TTA-ATTGCTCTTTGGAGCTACCG
1 TTATATGGCTCTTTGGAGCTACCG
*
30180274 TTATA-GGCTCTTTGTGAGCTTCCCG
1 TTATATGGCTCTTTG-GAGC-TACCG
30180299 TTATAT
1 TTATAT
30180305 TATCCGGATA
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
23 14 0.21
24 38 0.58
25 14 0.21
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (24 bp):
TTATATGGCTCTTTGGAGCTACCG
Found at i:30183688 original size:17 final size:17
Alignment explanation
Indices: 30183648--30183680 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30183638 TTAAATGAAT
*
30183648 TTAAATAATTTTTTCAG
1 TTAAATTATTTTTTCAG
30183665 TTAAATTATTTTTTCA
1 TTAAATTATTTTTTCA
30183681 AGTAAATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (17 bp):
TTAAATTATTTTTTCAG
Found at i:30185850 original size:24 final size:23
Alignment explanation
Indices: 30185812--30185890 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
30185802 GGGTTCACTG
** *
30185812 TAGGGGTTCGCATGTATCTGGAAA
1 TAGGGGTTCATATGTGTCTGG-AA
30185836 TAGGGGTTCATATGTGTCTAGTG-A
1 TAGGGGTTCATATGTGTCT-G-GAA
* * *
30185860 TAGGGGTCCATAGGTGTCTGGTA
1 TAGGGGTTCATATGTGTCTGGAA
30185883 TAGGGGTT
1 TAGGGGTT
30185891 TGCAGGTGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
22 1 0.02
23 9 0.20
24 34 0.74
25 1 0.02
26 1 0.02
ACGTcount: A:0.20, C:0.10, G:0.37, T:0.33
Consensus pattern (23 bp):
TAGGGGTTCATATGTGTCTGGAA
Found at i:30185889 original size:23 final size:24
Alignment explanation
Indices: 30185835--30185911 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
30185825 GTATCTGGAA
* *
30185835 ATAGGGGTTCATATGTGTCTAGTG
1 ATAGGGGTCCATAGGTGTCTAGTG
*
30185859 ATAGGGGTCCATAGGTGTCTGGT-
1 ATAGGGGTCCATAGGTGTCTAGTG
****
30185882 ATAGGGGTTTGCAGGTGTCTAGTG
1 ATAGGGGTCCATAGGTGTCTAGTG
30185906 ATAGGG
1 ATAGGG
30185912 ATTGTAACAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 18 0.41
24 26 0.59
ACGTcount: A:0.19, C:0.09, G:0.39, T:0.32
Consensus pattern (24 bp):
ATAGGGGTCCATAGGTGTCTAGTG
Found at i:30187358 original size:46 final size:46
Alignment explanation
Indices: 30187290--30187419 Score: 172
Period size: 46 Copynumber: 2.8 Consensus size: 46
30187280 AGCCTAATAG
* * * * *
30187290 ATACACCGATATGAAGCCTGCTAGGTACAAGGCCTGATACATTACA
1 ATACACCGGTATAAAACCTGCTAGGTACAAGGCCCGATACATTAAA
* *
30187336 GTACACCGGTATAAAACCTGCTAGGCACAAGGCCCGATACATTAAA
1 ATACACCGGTATAAAACCTGCTAGGTACAAGGCCCGATACATTAAA
*
30187382 ATACACCGGCATAAAACCTGCTAGGCT-CAAGGCCCGAT
1 ATACACCGGTATAAAACCTGCTAGG-TACAAGGCCCGAT
30187420 TCAATACACT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (46 bp):
ATACACCGGTATAAAACCTGCTAGGTACAAGGCCCGATACATTAAA
Found at i:30189493 original size:24 final size:24
Alignment explanation
Indices: 30189411--30189558 Score: 104
Period size: 24 Copynumber: 6.2 Consensus size: 24
30189401 TAGGGATTTA
*
30189411 CAGGTGTCTGGTGATATGG-GTTCG
1 CAGGTATCTGGTGATA-GGTGTTCG
* * * * *
30189435 CATGTGTCTAGTGGTA-GTGTTTTG
1 CAGGTATCTGGTGATAGGTG-TTCG
* * *
30189459 CATGTGTCTGGTGATAGGTGTTCA
1 CAGGTATCTGGTGATAGGTGTTCG
30189483 CAGGTATCTGGTGATAGG-GTTCG
1 CAGGTATCTGGTGATAGGTGTTCG
* * * *
30189506 CATGTGTCTAGTAATAGGTGTTCG
1 CAGGTATCTGGTGATAGGTGTTCG
* * * *
30189530 TAGGTATTTGGTGATAGGGGTTTG
1 CAGGTATCTGGTGATAGGTGTTCG
30189554 CAGGT
1 CAGGT
30189559 TACATGCTAG
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
22 1 0.01
23 19 0.20
24 73 0.76
25 3 0.03
ACGTcount: A:0.16, C:0.10, G:0.36, T:0.37
Consensus pattern (24 bp):
CAGGTATCTGGTGATAGGTGTTCG
Found at i:30189527 original size:47 final size:47
Alignment explanation
Indices: 30189458--30189548 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
30189448 GTAGTGTTTT
* *
30189458 GCATGTGTCTGGTGATAGGTGTTCACAGGTATCTGGTGATAGGGTTC
1 GCATGTGTCTAGTAATAGGTGTTCACAGGTATCTGGTGATAGGGTTC
** *
30189505 GCATGTGTCTAGTAATAGGTGTTCGTAGGTATTTGGTGATAGGG
1 GCATGTGTCTAGTAATAGGTGTTCACAGGTATCTGGTGATAGGG
30189549 GTTTGCAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.19, C:0.10, G:0.36, T:0.35
Consensus pattern (47 bp):
GCATGTGTCTAGTAATAGGTGTTCACAGGTATCTGGTGATAGGGTTC
Found at i:30189558 original size:71 final size:72
Alignment explanation
Indices: 30189400--30189558 Score: 187
Period size: 71 Copynumber: 2.2 Consensus size: 72
30189390 ACGGGCTGTT
* * ** * * *
30189400 ATAGGGATTTACAGGTGTCTGGTGATATGGGTTCGCATGTGTCTAGTGGTAGTGTTTTGCATGTG
1 ATAGGGGTTTACAGGTATCTGGTGATATGGGTTCGCATGTGTCTAGTAATAGTGTTTCGCAGGTA
30189465 TCTGGTG
66 TCTGGTG
* * *
30189472 ATAGGTGTTCACAGGTATCTGGTGATA-GGGTTCGCATGTGTCTAGTAATAG-GTGTTCGTAGGT
1 ATAGGGGTTTACAGGTATCTGGTGATATGGGTTCGCATGTGTCTAGTAATAGTGT-TTCGCAGGT
*
30189535 ATTTGGTG
65 ATCTGGTG
*
30189543 ATAGGGGTTTGCAGGT
1 ATAGGGGTTTACAGGT
30189559 TACATGCTAG
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
70 2 0.03
71 47 0.65
72 23 0.32
ACGTcount: A:0.18, C:0.09, G:0.36, T:0.37
Consensus pattern (72 bp):
ATAGGGGTTTACAGGTATCTGGTGATATGGGTTCGCATGTGTCTAGTAATAGTGTTTCGCAGGTA
TCTGGTG
Found at i:30191023 original size:29 final size:29
Alignment explanation
Indices: 30190981--30191041 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
30190971 GCCACTCAAA
*
30190981 TATGAAAAGTTACAAAATGGTCACCCAAT
1 TATGAAAAGTTACAAAATGATCACCCAAT
* *
30191010 TATGAAAAGTTACAGAATGATCACCTAAT
1 TATGAAAAGTTACAAAATGATCACCCAAT
30191039 TAT
1 TAT
30191042 TCAATTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (29 bp):
TATGAAAAGTTACAAAATGATCACCCAAT
Found at i:30193115 original size:18 final size:17
Alignment explanation
Indices: 30193094--30193127 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
30193084 AAGATTTAAT
30193094 ATTAAATTTAAATATTAG
1 ATTAAATTT-AATATTAG
30193112 ATTAAATTTAATATTA
1 ATTAAATTTAATATTA
30193128 AAGTGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTAAATTTAATATTAG
Found at i:30193754 original size:31 final size:31
Alignment explanation
Indices: 30193679--30193754 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
30193669 TAACTTTTCT
* * *
30193679 TAGTTAGATGACCAAAAAATAAATTTACTAA
1 TAGTTAGATGACTAAAAAAGAAATTGACTAA
* *
30193710 TAGTTGGATGACTAAAAAAGAAATTGGCTAA
1 TAGTTAGATGACTAAAAAAGAAATTGACTAA
*
30193741 TAGTTAGAAGACTA
1 TAGTTAGATGACTA
30193755 CTAGTGTGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (31 bp):
TAGTTAGATGACTAAAAAAGAAATTGACTAA
Found at i:30193790 original size:13 final size:14
Alignment explanation
Indices: 30193772--30193803 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30193762 GATGTACCCT
30193772 ATATTTTAT-ATTA
1 ATATTTTATAATTA
30193785 ATATTTTATAATTA
1 ATATTTTATAATTA
30193799 A-ATTT
1 ATATTT
30193804 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATTTTATAATTA
Found at i:30205672 original size:76 final size:77
Alignment explanation
Indices: 30205545--30205698 Score: 267
Period size: 76 Copynumber: 2.0 Consensus size: 77
30205535 ACCTTGCATA
30205545 ACTTAGTCTCCACAAAAAAAGACTACCTGGGGATTATACATCTTCAGCACATGCCGA-AGTCTTC
1 ACTTAGTCTCCACAAAAAAAGACTACCTGGGGATTATACATCTTCAGCACATG-CGAGAGTCTTC
30205609 TAACTGCCCGTGG
65 TAACTGCCCGTGG
*
30205622 ACTTAGTCTCCAC-AAAAAAGACTACCTGGGGATTATACATCTTCAGCACATGCTAGAGTCTTCT
1 ACTTAGTCTCCACAAAAAAAGACTACCTGGGGATTATACATCTTCAGCACATGCGAGAGTCTTCT
*
30205686 AATTGCCCGTGG
66 AACTGCCCGTGG
30205698 A
1 A
30205699 TTACCCAAAC
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
75 2 0.03
76 59 0.80
77 13 0.18
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (77 bp):
ACTTAGTCTCCACAAAAAAAGACTACCTGGGGATTATACATCTTCAGCACATGCGAGAGTCTTCT
AACTGCCCGTGG
Found at i:30207494 original size:6 final size:6
Alignment explanation
Indices: 30207483--30207524 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
30207473 GTTAGCAAAC
**
30207483 AAATAT AAATAT AAATAT AAATAT TTATATT AAATA- AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATA-T AAATAT AAATAT
30207525 TTGAACAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 5 0.17
6 21 0.70
7 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AAATAT
Found at i:30207931 original size:20 final size:20
Alignment explanation
Indices: 30207906--30207952 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
30207896 AGGAGCCTTT
30207906 AAATCAATTTGAATAAAATC
1 AAATCAATTTGAATAAAATC
*
30207926 AAATCAATTTGATTAAAATC
1 AAATCAATTTGAATAAAATC
30207946 AAATCAA
1 AAATCAA
30207953 AACGAGATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (20 bp):
AAATCAATTTGAATAAAATC
Found at i:30209394 original size:9 final size:9
Alignment explanation
Indices: 30209380--30209416 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
30209370 TATAGTTTGA
30209380 TATTCGAAT
1 TATTCGAAT
*
30209389 TATTCGGAT
1 TATTCGAAT
*
30209398 TATTCGAGT
1 TATTCGAAT
30209407 TATTCGAAT
1 TATTCGAAT
30209416 T
1 T
30209417 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Done.