Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold354
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: 1591162
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 188200 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:795975 original size:64 final size:64
Alignment explanation
Indices: 795856--795975 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
795846 GCTGCGATGC
* * * *
795856 TACTGATGGCTTTGTCCTGATCATAGTACCGTTACTAATGGCCTTGTGCCGATCATAGTACCAT
1 TACTGATGGCTTTGTACTGATCATAGTACCATTACTAATGGCCTTGTACCAATCATAGTACCAT
*
795920 TACTGATGGCTTTGTACTGATCATA-TGACCATTACTGATGG-CTATGTACCAATCAT
1 TACTGATGGCTTTGTACTGATCATAGT-ACCATTACTAATGGCCT-TGTACCAATCAT
795976 TTCATTGTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
63 3 0.06
64 46 0.94
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (64 bp):
TACTGATGGCTTTGTACTGATCATAGTACCATTACTAATGGCCTTGTACCAATCATAGTACCAT
Found at i:796137 original size:26 final size:26
Alignment explanation
Indices: 796108--796160 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
796098 GGCTCTTAGC
* * *
796108 CATTCTGACTACTGGCAGCTCTGCTG
1 CATTATGACTACTGGCAACTATGCTG
* *
796134 CATTATTACTATTGGCAACTATGCTG
1 CATTATGACTACTGGCAACTATGCTG
796160 C
1 C
796161 GATATTGTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (26 bp):
CATTATGACTACTGGCAACTATGCTG
Found at i:796719 original size:50 final size:50
Alignment explanation
Indices: 796660--796760 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
796650 GGTTTTCAAA
796660 AGGTAATCTTTTTCAAAGACACCATGTTTTCGCAATAAATGAGATTTTGG
1 AGGTAATCTTTTTCAAAGACACCATGTTTTCGCAATAAATGAGATTTTGG
796710 AGGTAATCTTTTTCAAAGACACCATGTTTTCGCAATAAATGAGATTTTGG
1 AGGTAATCTTTTTCAAAGACACCATGTTTTCGCAATAAATGAGATTTTGG
796760 A
1 A
796761 AAATTTAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (50 bp):
AGGTAATCTTTTTCAAAGACACCATGTTTTCGCAATAAATGAGATTTTGG
Found at i:797475 original size:114 final size:115
Alignment explanation
Indices: 797337--797567 Score: 455
Period size: 114 Copynumber: 2.0 Consensus size: 115
797327 TATATTAAAT
797337 TTAATCTATTATTTATCGTAATAAATATTATATTAATTTAATAGTAAAGTGATTAAATTTAATCA
1 TTAATCTATTATTTATCGTAATAAATATTATATTAATTTAATAGTAAAGTGATTAAATTTAATCA
797402 TAGTTGAACTCTGTAAACTCTTCATATCTAAAGAGAGCCTTGGGTCATTA
66 TAGTTGAACTCTGTAAACTCTTCATATCTAAAGAGAGCCTTGGGTCATTA
797452 TTAATCTATTA-TTATCGTAATAAATATTATATTAATTTAATAGTAAAGTGATTAAATTTAATCA
1 TTAATCTATTATTTATCGTAATAAATATTATATTAATTTAATAGTAAAGTGATTAAATTTAATCA
797516 TAGTTGAACTCTGTAAACTCTTCATATCTAAAGAGAGCCTTGGGTCATTA
66 TAGTTGAACTCTGTAAACTCTTCATATCTAAAGAGAGCCTTGGGTCATTA
797566 TT
1 TT
797568 TTACATAGAC
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 105 0.91
115 11 0.09
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.41
Consensus pattern (115 bp):
TTAATCTATTATTTATCGTAATAAATATTATATTAATTTAATAGTAAAGTGATTAAATTTAATCA
TAGTTGAACTCTGTAAACTCTTCATATCTAAAGAGAGCCTTGGGTCATTA
Found at i:798118 original size:62 final size:63
Alignment explanation
Indices: 798001--798138 Score: 167
Period size: 62 Copynumber: 2.2 Consensus size: 63
797991 CACCACAATA
* *
798001 TGGCCAAGCCACTCAATATAGCAGACAAGCTGCAGATTGTGGTCAAACAACTCAATAACGTTG
1 TGGCCAAGCCACTCAATATAGCAGACAAGCTGCAGATTCTGATCAAACAACTCAATAACGTTG
* * * * *
798064 -GGCTAAGCCACTCAATATTGCAGACAAGCTGCACG-TTCTAGAT-AAGCCATTCAATAACGTTG
1 TGGCCAAGCCACTCAATATAGCAGACAAGCTGCA-GATTCT-GATCAAACAACTCAATAACGTTG
798126 TGGCCAA-CCACTC
1 TGGCCAAGCCACTC
798139 TGATGCAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
62 56 0.88
63 8 0.12
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (63 bp):
TGGCCAAGCCACTCAATATAGCAGACAAGCTGCAGATTCTGATCAAACAACTCAATAACGTTG
Found at i:799712 original size:21 final size:20
Alignment explanation
Indices: 799686--799745 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 20
799676 CACAAGCAAT
799686 TGAATAACGTTGTAGCCAAGC
1 TGAATAA-GTTGTAGCCAAGC
* *
799707 TGAAT-A-TTGCAGACAAGC
1 TGAATAAGTTGTAGCCAAGC
* *
799725 TGCATAATGTTGTGGCCAAGC
1 TGAATAA-GTTGTAGCCAAGC
799746 CACTGAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 14 0.47
19 1 0.03
20 1 0.03
21 14 0.47
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (20 bp):
TGAATAAGTTGTAGCCAAGC
Found at i:799865 original size:33 final size:33
Alignment explanation
Indices: 799822--799894 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
799812 GGGCAAGCTT
* *
799822 AACATACGAATCAGATTTATAGTCAACACAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
*
799855 AACATGCGAATCAAATTTATAGTCAACATAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
799888 AACATGC
1 AACATGC
799895 TTAATGTAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (33 bp):
AACATGCGAATCAAATTTATAGTCAACACAGTC
Found at i:801765 original size:27 final size:27
Alignment explanation
Indices: 801734--802014 Score: 321
Period size: 27 Copynumber: 10.4 Consensus size: 27
801724 CCCCAAAATA
*
801734 GGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
801761 GGTAAAATGACCAAAATACCTCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
801788 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* * *
801815 GGTAAAATGA-TAGAAATACACCCACAG
1 GGTAAAATGACCA-AAATACCCCCATAG
* **
801842 AGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
801869 GGTAAAATGACCAAAATACCCCCATAA
1 GGTAAAATGACCAAAATACCCCCATAG
* * *
801896 GGTAAAATGATCGAAATACCCTCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
** *
801923 GGTAAAATGGTCAAAATATCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* ** *
801950 GGTAAAAGGACTGAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* * *
801977 AGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* *
802004 GATGAAATGAC
1 GGTAAAATGAC
802015 TATTATACCC
Statistics
Matches: 212, Mismatches: 40, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
27 211 1.00
28 1 0.00
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCCCATAG
Found at i:803927 original size:101 final size:102
Alignment explanation
Indices: 803807--803990 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
803797 AAAGTGATGG
*
803807 TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCAGAAT-G-ATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACC-GAATGGCATAGGTCACATGTGTAGT
*
803870 ACTTTGTGCAGGCTACTATGCGTACTAGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACTAGATAGTTTCGA
* * * * * *
803908 TCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTATCGGATGGCATTGTTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCGAATGGCATAGGTCACATGTGTAGTA
803973 CTATGTGCAGGCTACTAT
66 CTATGTGCAGGCTACTAT
803991 ATGAACCGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 3 0.04
101 37 0.51
102 33 0.45
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCGAATGGCATAGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACTAGATAGTTTCGA
Found at i:803929 original size:51 final size:51
Alignment explanation
Indices: 803807--803990 Score: 144
Period size: 51 Copynumber: 3.6 Consensus size: 51
803797 AAAGTGATGG
* * * * * * * *
803807 TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCAGA-ATG-ATAGG
1 TCACATGTGTAGTATTATGTGCAGGCTACTATGCGTATCAGATA-GCATTGA
* *
803857 TCGCATGTGTAGTACTT-TGTGCAGGCTACTATGCGTA-CTAGATAG-TTTCGA
1 TCACATGTGTAGTA-TTATGTGCAGGCTACTATGCGTATC-AGATAGCATT-GA
* * * * * *
803908 TCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTATCGGATGGCATTGT
1 TCACATGTGTAGTATTATGTGCAGGCTACTATGCGTATCAGATAGCATTGA
*
803959 TCACATGTGTAGTACTATGTGCAGGCTACTAT
1 TCACATGTGTAGTATTATGTGCAGGCTACTAT
803991 ATGAACCGAA
Statistics
Matches: 107, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
49 1 0.01
50 36 0.34
51 67 0.63
52 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (51 bp):
TCACATGTGTAGTATTATGTGCAGGCTACTATGCGTATCAGATAGCATTGA
Found at i:804008 original size:51 final size:51
Alignment explanation
Indices: 803908--804008 Score: 112
Period size: 51 Copynumber: 2.0 Consensus size: 51
803898 ATAGTTTCGA
* * * * * * **
803908 TCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTATCGGATGGCATTGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACATGAACCGAACAGCATTGT
* *
803959 TCACATGTGTAGTACTATGTGCAGGCTACTATATGAACCGAACATCATTG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACATGAACCGAACAGCATTG
804009 ATTAGTAAGG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACATGAACCGAACAGCATTGT
Found at i:804051 original size:45 final size:45
Alignment explanation
Indices: 803995--804089 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
803985 TACTATATGA
* *
803995 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
* *
804040 ACCGGACATCATTGATTAATAAGGTGGTTGTTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
804085 ACCGA
1 ACCGA
804090 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:819750 original size:28 final size:28
Alignment explanation
Indices: 819703--819790 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
819693 TATTGCACTG
* * * *
819703 CACTGTTACTATATTGGGCTAAGGTCCA
1 CACTGTTACTGTACTAGGCTAAGGCCCA
819731 CACTGATT-CTGTACTAGGCTAAGGCCCA
1 CACTG-TTACTGTACTAGGCTAAGGCCCA
* *
819759 CACTGTTACTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTACTAGGCTAAGGCCCA
819787 CACT
1 CACT
819791 ATACTGTCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 2 0.04
28 48 0.92
29 2 0.04
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (28 bp):
CACTGTTACTGTACTAGGCTAAGGCCCA
Found at i:823849 original size:50 final size:50
Alignment explanation
Indices: 823795--823918 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
823785 TATTGAGGTT
* * * *
823795 ATGAGCGGTCCCACATAAGACCATGTCTGGGACATGGCATTGTCACCGAG
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGAAATGGCATGGGCACCGAG
* * *
823845 ATGAGAGGTCCCCCATAAGACTATGTCTGGGAAATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGAAATGGCATGGGCACCGAG
** **
823895 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCACATAAGACCAT
823919 ATCTTGGATA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCATGTCTGGGAAATGGCATGGGCACCGAG
Found at i:824361 original size:20 final size:20
Alignment explanation
Indices: 824336--824374 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
824326 TACTTTCTTC
824336 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
824356 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
824375 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:824700 original size:50 final size:50
Alignment explanation
Indices: 824638--824757 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
824628 GAATGTCATA
* ** * * *
824638 TCCCAGATATGGTCTTACATAAGAGGTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
**** *
824688 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATG
1 TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
*
824738 TCCCATACATGGTCTTACAT
1 TCCCAGACATGGTCTTACAT
824758 GTGGTCTCAT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
Found at i:825752 original size:290 final size:287
Alignment explanation
Indices: 825228--826086 Score: 1311
Period size: 283 Copynumber: 3.0 Consensus size: 287
825218 AATTCCTACT
* * *
825228 CTAACATTTACTTATGAACATTAGGTATTTTTACCGATTATGTTGTTTTGCTCGTTTTCACTTAA
1 CTAACATTTACTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTGCTTGTTTTCACTTAA
* * *
825293 AATTGCCTAGAAAAAGTTGTTTAACATAATTTCAAACTTCATATTCTACCATAAAACATCAAAAT
66 AATCGCCTAGCAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCATAAAACATCAAAAT
* *
825358 AAACATATTTCACCTACGGGTATTTTTCCAAATATGAACCCTAACACGAATTAATGGTAGAATAA
131 AAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACACGAATTAATGGTAGAATAA
* *
825423 GCTAAACCGAGCTA-TGAGGGTTCCAAAAATGTAAAAAAAACATTAAAAACGGGGCTTGGACGCA
196 GCTAAACCGAGCTACT-AGGATTCCAAAAATGT--AAAAAA-ATTAAAAACGGGGCTTGGATGCA
825487 CTTACTATGAGCTTGAGAAAGTGAAAAAACC
257 CTTACTATGAGCTTGAGAAAGTGAAAAAACC
*
825518 CTAACATTTACTTATGAACATTAGGTATTTTTACTGATTATGTCATTTTGCTTGTTTTCACTTAA
1 CTAACATTTACTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTGCTTGTTTTCACTTAA
* * *
825583 AATCGCCTAGCAAAAGTTCTTTATCATAATTTCAAACTTCATAATCTACCATAAAACAACAAAAT
66 AATCGCCTAGCAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCATAAAACATCAAAAT
*
825648 AAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACATGAATTTAATGGTAGAATA
131 AAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACACGAA-TTAATGGTAGAATA
*
825713 AGCTAAACCGAGCTACTAGGATTCCAAAAATGT---AAAA--AAAAATGGGGCTTGGATGCACTT
195 AGCTAAACCGAGCTACTAGGATTCCAAAAATGTAAAAAAATTAAAAACGGGGCTTGGATGCACTT
825773 ACTATGAGCTTGAGAAAGTGAAAAAACC
260 ACTATGAGCTTGAGAAAGTGAAAAAACC
*
825801 CTAACATTTACTTATGAACATTAGTTATTTTTACTGATTATGTCGTTTTGCTTGTTTTCACTTAA
1 CTAACATTTACTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTGCTTGTTTTCACTTAA
* *
825866 AATCGCCTAGCAAAAGTTCTTTAACATAATTTCAAAATTCATATTCTACCATAGAACATCAAAAT
66 AATCGCCTAGCAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCATAAAACATCAAAAT
* *** * * *
825931 AAACACATTTCACCTATGTGTATTTTTCCAAATATGAATTGTAACAGGAATTAACGATAGAATAA
131 AAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACACGAATTAATGGTAGAATAA
* * * * **
825996 GCTAAATCGAGCTACGAGGACTCTAAAAACAT-AAAAAATT-AAAACGGGGCTTGGATGCACTTA
196 GCTAAACCGAGCTACTAGGATTCCAAAAATGTAAAAAAATTAAAAACGGGGCTTGGATGCACTTA
* *
826059 CTATGAGGTTGAGAAAGTGAAGAAACC
261 CTATGAGCTTGAGAAAGTGAAAAAACC
826086 C
1 C
826087 CAGCTATGGA
Statistics
Matches: 524, Mismatches: 39, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
282 39 0.07
283 217 0.41
284 4 0.01
285 49 0.09
286 3 0.01
290 167 0.32
291 44 0.08
292 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (287 bp):
CTAACATTTACTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTGCTTGTTTTCACTTAA
AATCGCCTAGCAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCATAAAACATCAAAAT
AAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACACGAATTAATGGTAGAATAA
GCTAAACCGAGCTACTAGGATTCCAAAAATGTAAAAAAATTAAAAACGGGGCTTGGATGCACTTA
CTATGAGCTTGAGAAAGTGAAAAAACC
Found at i:832419 original size:20 final size:20
Alignment explanation
Indices: 832394--832432 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
832384 TACTTTCTTC
832394 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
832414 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
832433 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:832760 original size:50 final size:50
Alignment explanation
Indices: 832698--832817 Score: 141
Period size: 50 Copynumber: 2.4 Consensus size: 50
832688 GAATGTCATA
* ** * * *
832698 TCCCAGATATGGTCTTACATAAGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
**** *
832748 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATG
1 TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
832798 TCCCAGACATGGTCTTACAT
1 TCCCAGACATGGTCTTACAT
832818 GTGGTCTCAT
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
Found at i:848138 original size:45 final size:45
Alignment explanation
Indices: 848089--848194 Score: 167
Period size: 45 Copynumber: 2.4 Consensus size: 45
848079 TCGGCCATGG
* *
848089 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
* * *
848134 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
848179 TGCTTCCTCAAATTCT
1 TGCTTCCTCAAATTCT
848195 NNNNNNNNNN
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
Found at i:854496 original size:45 final size:45
Alignment explanation
Indices: 854447--854859 Score: 763
Period size: 45 Copynumber: 9.2 Consensus size: 45
854437 TCGGCCATGG
* * * * *
854447 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
* *
854492 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
854537 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
854582 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
854627 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
854672 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
854717 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
854762 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
854807 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
854852 TGCTTCCT
1 TGCTTCCT
854860 TAATTTCATG
Statistics
Matches: 361, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 361 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
Found at i:857257 original size:18 final size:17
Alignment explanation
Indices: 857222--857261 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
857212 AACGAGTGAG
* *
857222 AAAAAAGAAAATGTGAA
1 AAAAAAGAAAAAGAGAA
857239 ACAAAAAGAAAAAGAGAA
1 A-AAAAAGAAAAAGAGAA
857257 AAAAA
1 AAAAA
857262 GAGATGATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAAAAGAAAAAGAGAA
Found at i:869534 original size:15 final size:16
Alignment explanation
Indices: 869516--869548 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
869506 CCTTTTCGCC
869516 TTTTTCATTTTCA-TT
1 TTTTTCATTTTCACTT
*
869531 TTTTTCTTTTTCACTT
1 TTTTTCATTTTCACTT
869547 TT
1 TT
869549 ATTTTTCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCATTTTCACTT
Found at i:869539 original size:21 final size:21
Alignment explanation
Indices: 869515--869559 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
869505 TCCTTTTCGC
*
869515 CTTTTTCA-TTTTCATTTTTTT
1 CTTTTTCACTTTT-ATTTTTCT
869536 CTTTTTCACTTTTATTTTTCT
1 CTTTTTCACTTTTATTTTTCT
869557 CTT
1 CTT
869560 CTCTTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (21 bp):
CTTTTTCACTTTTATTTTTCT
Found at i:873154 original size:142 final size:144
Alignment explanation
Indices: 872950--873235 Score: 533
Period size: 142 Copynumber: 2.0 Consensus size: 144
872940 AAATCAAATA
872950 GATAGAAAGAATGCTTAGTAATCGACACCTTAATTCACCAAACACAAGTAATTGTGACTCAAAAT
1 GATAGAAAGAATGCTTAGTAATCGACACCTTAATTCACCAAACACAAGTAATTGTGACTCAAAAT
*
873015 TATCCTAGAAAACCAATTCAATAGCAATGA-TATGGCAACGCCTCAAGTCCTACCTAGCTTGAAC
66 TATCCTAGAAAACCAATTCAATAGCAA-AATTATGGCAACGCCTCAAGTCCTACCTAGCTTGAAC
873079 AAGGAGCCGTTGGAG
130 AAGGAGCCGTTGGAG
873094 GATAGAAAG-A-GCTTAGTAATCGACACCTTAATTCACCAAACACAAGTAATTGTGACTCAAAAT
1 GATAGAAAGAATGCTTAGTAATCGACACCTTAATTCACCAAACACAAGTAATTGTGACTCAAAAT
873157 TATCCTAGAAAACCAATTCAATAGCAAAATTATGGCAACGCCTCAAGTCCTACCTAGCTTGAACA
66 TATCCTAGAAAACCAATTCAATAGCAAAATTATGGCAACGCCTCAAGTCCTACCTAGCTTGAACA
873222 AGGAGCCGTTGGAG
131 AGGAGCCGTTGGAG
873236 TTGCCCCAAG
Statistics
Matches: 140, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
141 1 0.01
142 129 0.92
143 1 0.01
144 9 0.06
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (144 bp):
GATAGAAAGAATGCTTAGTAATCGACACCTTAATTCACCAAACACAAGTAATTGTGACTCAAAAT
TATCCTAGAAAACCAATTCAATAGCAAAATTATGGCAACGCCTCAAGTCCTACCTAGCTTGAACA
AGGAGCCGTTGGAG
Found at i:874481 original size:14 final size:15
Alignment explanation
Indices: 874452--874481 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
874442 AGAGAGCGAG
874452 AAAAGAAAAAGATGA
1 AAAAGAAAAAGATGA
874467 AAAAGAAAAAG-TGA
1 AAAAGAAAAAGATGA
874481 A
1 A
874482 TGAAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAGAAAAAGATGA
Found at i:877471 original size:30 final size:30
Alignment explanation
Indices: 877418--877476 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
877408 ACTTTAATAC
* *
877418 GAGCTGAATTAACTTCCATTTCAGCTCAAT
1 GAGCTGAATTAACTTCAACTTCAGCTCAAT
877448 GAGCTCGAATTAAC-TCAACTTCAGCTCAA
1 GAGCT-GAATTAACTTCAACTTCAGCTCAA
877477 ACATTTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (30 bp):
GAGCTGAATTAACTTCAACTTCAGCTCAAT
Found at i:891815 original size:50 final size:50
Alignment explanation
Indices: 891749--891877 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 50
891739 AGGTCCCACA
***
891749 TAAGACCATGTTTGGGACATGGCATTGGCACCGAGATAAGCGGTCCTC-TG
1 TAAGACCATGTTTGGGACATGGCATTGGCACCGAGATAAGAACTCC-CATG
* *
891799 TAAGACCATGTTTGGGACATGGCATGGGCACCGATATAAGAACTCCCATG
1 TAAGACCATGTTTGGGACATGGCATTGGCACCGAGATAAGAACTCCCATG
* * *
891849 TAAGACCATATCTGGGATATGGCATTGGC
1 TAAGACCATGTTTGGGACATGGCATTGGC
891878 TGTACTGGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.01
50 68 0.99
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTTTGGGACATGGCATTGGCACCGAGATAAGAACTCCCATG
Found at i:892155 original size:20 final size:20
Alignment explanation
Indices: 892130--892168 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
892120 TTAGTTATTT
892130 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
892150 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
892169 AAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:895460 original size:9 final size:9
Alignment explanation
Indices: 895446--895473 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
895436 AGCCCCGTTG
895446 GAATTGAAA
1 GAATTGAAA
895455 GAATTGAAA
1 GAATTGAAA
895464 GAATTGAAA
1 GAATTGAAA
895473 G
1 G
895474 CTCAGTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (9 bp):
GAATTGAAA
Found at i:900322 original size:50 final size:50
Alignment explanation
Indices: 900268--900409 Score: 167
Period size: 50 Copynumber: 2.8 Consensus size: 50
900258 ATTGACGTTT
900268 TGAGAGGTCCCACGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGA
1 TGAGAGGTCCCACGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGA
* * * * * * *
900318 TGAGAGGTCCCCCATAAGATTATGTATGAGACATGGCATGGGCACCGATA
1 TGAGAGGTCCCACGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGA
** * * * *
900368 TGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 TGAGAGGTCCCACGTAAGATCATGTCTGGGACATGGCATTGG
900410 TAGTACAAGA
Statistics
Matches: 73, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
TGAGAGGTCCCACGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGA
Found at i:906519 original size:40 final size:39
Alignment explanation
Indices: 906469--906581 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 39
906459 CAAGATTACC
* *
906469 AAAGTCCAAATAGGGTCACATATGTGCATTCAGGGGTACT
1 AAAGTACAAATAGGG-CACATATGTGCATTCAGGGGTACG
* * *
906509 AAAGTACAAATAGGGGCACTTATGTGGATTTAGGGGTACG
1 AAAGTACAAATA-GGGCACATATGTGCATTCAGGGGTACG
* *
906549 AAAGTACAAACAGGAGCACAAATGTGCATTCAG
1 AAAGTACAAATAGG-GCACATATGTGCATTCAG
906582 CAATAATTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
39 2 0.03
40 56 0.92
41 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (39 bp):
AAAGTACAAATAGGGCACATATGTGCATTCAGGGGTACG
Found at i:907933 original size:54 final size:54
Alignment explanation
Indices: 907870--907975 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 54
907860 CTTATTCAAA
* * * * *
907870 TGCCCCACACGCATGTGTGCCAGGTCATGTCCTAGGTCGTGTAACTCACTGAGT
1 TGCCACACACACACGTGAGCCAGGCCATGTCCTAGGTCGTGTAACTCACTGAGT
* * * *
907924 TGCCACACACACACGTGAGCCAGGCCATGTGCTTGGTTGTGTATCTCACTGA
1 TGCCACACACACACGTGAGCCAGGCCATGTCCTAGGTCGTGTAACTCACTGA
907976 CTTGAGCAGT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.25
Consensus pattern (54 bp):
TGCCACACACACACGTGAGCCAGGCCATGTCCTAGGTCGTGTAACTCACTGAGT
Found at i:908702 original size:40 final size:40
Alignment explanation
Indices: 908648--908821 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
908638 GATTCAAGAT
* *
908648 TACCAAAGTACAAATAGGGGCATGTATGTGCATTCAGGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGG
* * * *
908688 TACCGAAGTGCAAATAGTGGCACGCATGTGCATTCAAGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGG
* * * *
908728 TACTGAAGTACAAATCGGGGTACGTATGTGCATTTAGGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGG
* * *
908768 TACTGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGG
* * *
908808 CATCGAAGAACAAA
1 TACCGAAGTACAAA
908822 CAAGGGTGTA
Statistics
Matches: 111, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.21
Consensus pattern (40 bp):
TACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGG
Found at i:908750 original size:20 final size:20
Alignment explanation
Indices: 908725--908787 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
908715 GTGCATTCAA
*
908725 GGGTACTGAAGTACAAATCG
1 GGGTACTGAAGTACAAATAG
* * **
908745 GGGTAC-GTATGTGCATTTAG
1 GGGTACTG-AAGTACAAATAG
*
908765 GGGTACTGAAGTACAAACAG
1 GGGTACTGAAGTACAAATAG
908785 GGG
1 GGG
908788 CACGTATGTG
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGTACTGAAGTACAAATAG
Found at i:909410 original size:33 final size:34
Alignment explanation
Indices: 909367--909432 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
909357 AGAGAACATG
* *
909367 CAGTAACAGTGTGGGCCTGAGCCCTATTCAATAT
1 CAGTAACAGTGTGGGCCTGAGCCCAATACAATAT
*
909401 CAGT-ACAGTGTGGGCCTTAGCCCAATACAATA
1 CAGTAACAGTGTGGGCCTGAGCCCAATACAATA
909433 ACATTGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (34 bp):
CAGTAACAGTGTGGGCCTGAGCCCAATACAATAT
Found at i:909568 original size:26 final size:26
Alignment explanation
Indices: 909536--909606 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
909526 ACACACCAAT
*
909536 ATAGCAGCAAAGCTGCCAGTACTAGC
1 ATAGCAGCAAAGCTGCCAGTACTAGA
* * *
909562 ATCGCAGCAGAGCTGCCAGTAGTAGA
1 ATAGCAGCAAAGCTGCCAGTACTAGA
909588 ATAGCAGCAAAGCTGCCAG
1 ATAGCAGCAAAGCTGCCAG
909607 AAACAATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.34, C:0.25, G:0.27, T:0.14
Consensus pattern (26 bp):
ATAGCAGCAAAGCTGCCAGTACTAGA
Found at i:909798 original size:27 final size:27
Alignment explanation
Indices: 909768--910513 Score: 695
Period size: 27 Copynumber: 27.6 Consensus size: 27
909758 CAGATTCTAG
* * *
909768 GGGTATATCAGTCATTTTACCCTACGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
** *
909795 GGGTATTTCAATCATTTTACCCTAC-A
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
909821 GGGGTATTTCGGTCATTTTACCCTTCGG
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* *
909849 GGGTATTTCGGTCATTTTACCCTTTTGG
1 GGGTATTTCGGTCATTTTACCC-TTCGA
* * * * *
909877 GGGTATTTTGATCATTTT-CCATTTGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* **
909903 GGGTATTTCAGTCATTTTACCCTTTTA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
909930 GGGGTATTTCGATCATTTTACCCTTAGG
1 -GGGTATTTCGGTCATTTTACCCTTCGA
*
909958 GGGTATTTTGGTCATTTTA-CC--CG-
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
909981 GGGTATTTCGGTTATTTTACCCTTTTGG
1 GGGTATTTCGGTCATTTTACCC-TTCGA
* * * * *
910009 GGGTATTTTGATCATTTT-CCATTTGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* **
910035 GGGTATTTCAGTCATTTTACCCTTTTA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
910062 GGGGTATTTCGATCATTTTACCCTTAGG
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* * *
910090 GGGTATTTTGGTCATTTTACCCTTTTGG
1 GGGTATTTCGGTCATTTTACCC-TTCGA
*
910118 GGGTATTTTGGTCATTTTACCCTTC-A
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
910144 GGGGTATTTCAGTCATTTTAACCTTCAA
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* *
910172 GGGTATTTCGATCATTTTACCCTACGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
910199 GGGTATTTCAGTTATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
910226 GGGTATTTCAGTCATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
910253 GGGTATTTCGGTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
** * * *
910280 GGGTATTTCAATCAGTTTACCCTTTTGG
1 GGGTATTTCGGTCATTTTACCC-TTCGA
* * *
910308 GGGTATTTTGATCATTTTACCATTC-A
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
910334 GGGGTATTTCGATCATTTTACCCTTCCGA
1 -GGGTATTTCGGTCATTTTACCCTT-CGA
*
910363 -GGTATTTCGGTCATTTTACCCTTTTGA
1 GGGTATTTCGGTCATTTTACCC-TTCGA
** *
910390 GGGTATTTCATTTATTTTACCCTTC-A
1 GGGTATTTCGGTCATTTTACCCTTCGA
* **
910416 GGGGTATTTCGGTCATTTTTCCCTTTTA
1 -GGGTATTTCGGTCATTTTACCCTTCGA
910444 GGGGTATTTCGGTCATTTTACCCTTCGA
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* *
910472 GGGTATTTCGATCATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
910499 GGGTATTTCGGTCAT
1 GGGTATTTCGGTCAT
910514 CTGCCCAAGC
Statistics
Matches: 603, Mismatches: 93, Indels: 46
0.81 0.13 0.06
Matches are distributed among these distances:
23 17 0.03
24 3 0.00
26 44 0.07
27 364 0.60
28 174 0.29
29 1 0.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTTCGA
Found at i:914694 original size:20 final size:18
Alignment explanation
Indices: 914652--914699 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
914642 TCCTTTTCAC
914652 TCTTT-TTTTTCACATTT
1 TCTTTCTTTTTCACATTT
*
914669 TCTTTCTTTTTCTCATTTT
1 TCTTTCTTTTTCACA-TTT
914688 TCTTTTCTTTTT
1 TC-TTTCTTTTT
914700 TGTTTTCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 8 0.30
19 5 0.19
20 9 0.33
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (18 bp):
TCTTTCTTTTTCACATTT
Found at i:916814 original size:15 final size:16
Alignment explanation
Indices: 916778--916816 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
916768 GAATCACAAT
916778 TTTTTTTTAAATTCAC
1 TTTTTTTTAAATTCAC
**
916794 GATTTTTT-AATTCAC
1 TTTTTTTTAAATTCAC
916809 TTTTTTTT
1 TTTTTTTT
916817 TATTTTGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTTTTAAATTCAC
Found at i:916815 original size:16 final size:16
Alignment explanation
Indices: 916777--916818 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
916767 TGAATCACAA
916777 TTTTTTTTTAAATTCAC
1 TTTTTTTTT-AATTCAC
**
916794 -GATTTTTTAATTCAC
1 TTTTTTTTTAATTCAC
916809 TTTTTTTTTA
1 TTTTTTTTTA
916819 TTTTGTATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTTTTTAATTCAC
Found at i:937999 original size:14 final size:13
Alignment explanation
Indices: 937980--938025 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
937970 ATAGGTACGT
937980 AAAAAAAAGTTCG
1 AAAAAAAAGTTCG
* *
937993 AAAAAAAATTTTG
1 AAAAAAAAGTTCG
938006 AAAAAAAA-TTC-
1 AAAAAAAAGTTCG
938017 AAAAGAAAA
1 AAAA-AAAA
938026 AAAAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 4 0.14
12 6 0.21
13 19 0.66
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (13 bp):
AAAAAAAAGTTCG
Found at i:938024 original size:16 final size:15
Alignment explanation
Indices: 938005--938044 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 15
937995 AAAAAATTTT
938005 GAAAAAAAATTCAAAA
1 GAAAAAAAATT-AAAA
938021 GAAAAAAAAATTAAAA
1 G-AAAAAAAATTAAAA
938037 GAAAAAAA
1 GAAAAAAA
938045 TTGTATACGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.30
16 6 0.26
17 10 0.43
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (15 bp):
GAAAAAAAATTAAAA
Found at i:938026 original size:17 final size:16
Alignment explanation
Indices: 938006--938044 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
937996 AAAAATTTTG
938006 AAAAAAAATTCAAAAGA
1 AAAAAAAATT-AAAAGA
938023 AAAAAAAATTAAAAGA
1 AAAAAAAATTAAAAGA
938039 AAAAAA
1 AAAAAA
938045 TTGTATACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (16 bp):
AAAAAAAATTAAAAGA
Found at i:951166 original size:38 final size:38
Alignment explanation
Indices: 951115--951192 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
951105 TCTTGTGTGT
951115 TACGCATATGAAACTAGTGTGGAAAGTTAATGAAATAG
1 TACGCATATGAAACTAGTGTGGAAAGTTAATGAAATAG
*
951153 TACGCATATGAAACTGGTGTGGAAAGTTAATGAAATAG
1 TACGCATATGAAACTAGTGTGGAAAGTTAATGAAATAG
951191 TA
1 TA
951193 AGTTCATACT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (38 bp):
TACGCATATGAAACTAGTGTGGAAAGTTAATGAAATAG
Found at i:951314 original size:20 final size:20
Alignment explanation
Indices: 951271--951312 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
951261 TAAAGAAAGT
951271 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
951291 AAATGCAAAT-GAAAGTAA-G
1 AAATGC-AATGGAAAGTAATG
951310 AAA
1 AAA
951313 ATTTGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:952098 original size:59 final size:60
Alignment explanation
Indices: 952005--952124 Score: 233
Period size: 59 Copynumber: 2.0 Consensus size: 60
951995 GCGACGGGTG
952005 AGGCTAAGAAAAAGGGGATAAGATCAGAATTAATTTTGAATTGTGGGAGGTTATTATCCC
1 AGGCTAAGAAAAAGGGGATAAGATCAGAATTAATTTTGAATTGTGGGAGGTTATTATCCC
952065 AGGCTAAG-AAAAGGGGATAAGATCAGAATTAATTTTGAATTGTGGGAGGTTATTATCCC
1 AGGCTAAGAAAAAGGGGATAAGATCAGAATTAATTTTGAATTGTGGGAGGTTATTATCCC
952124 A
1 A
952125 TAAATAGAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 52 0.87
60 8 0.13
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (60 bp):
AGGCTAAGAAAAAGGGGATAAGATCAGAATTAATTTTGAATTGTGGGAGGTTATTATCCC
Found at i:967456 original size:35 final size:35
Alignment explanation
Indices: 967417--967483 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
967407 GTATGTTTTG
967417 AAATGACCAAAATTGGTAT-G-TGTTAATGTATCTTT
1 AAATGACCAAAA-TGGTATGGTTGTT-ATGTATCTTT
* *
967452 AAATGGCTAAAATGGTATGGTTGTTATGTATC
1 AAATGACCAAAATGGTATGGTTGTTATGTATC
967484 AATTATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 6 0.21
35 18 0.64
36 4 0.14
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (35 bp):
AAATGACCAAAATGGTATGGTTGTTATGTATCTTT
Found at i:971787 original size:102 final size:101
Alignment explanation
Indices: 971487--971785 Score: 471
Period size: 102 Copynumber: 3.0 Consensus size: 101
971477 GAATATAAAG
971487 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGG-T--T-GTGCTGATTCCACCATATTTTA
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAGTGCTGATTCCACCATATTTTA
*
971548 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
66 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
*
971584 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCT-AGTGCTGATTCCACCATATTTT
*
971649 AAATGTGAAGGGGGTTGCTCAGTGCTGATTCCCCCGA
65 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
* * *
971686 GGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGTGGTTGCTGAGTGCTAATTCCACCATATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCT-AGTGCTGATTCCACCATAT-TT
* *
971751 TGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
64 TAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCC
971786 GAATCACTGG
Statistics
Matches: 185, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
97 37 0.20
98 1 0.01
100 1 0.01
102 112 0.61
103 34 0.18
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (101 bp):
GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAGTGCTGATTCCACCATATTTTA
AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
Found at i:972725 original size:49 final size:49
Alignment explanation
Indices: 972659--972801 Score: 214
Period size: 49 Copynumber: 2.9 Consensus size: 49
972649 GTGAACATGC
* * *
972659 GATTATGTGATTCCGTGTAAGACCATAGCTGGGTTATGGCATCGATATGT
1 GATT-TGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATCT
*
972709 GATTTGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATCT
1 GATTTGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATCT
* * *
972758 GATTTGTGATTACTTGTAAGACCATAGTTGGACTATGGCATCGA
1 GATTTGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA
972802 GAAAATGAAG
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 81 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (49 bp):
GATTTGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATCT
Found at i:974394 original size:13 final size:11
Alignment explanation
Indices: 974373--974489 Score: 67
Period size: 13 Copynumber: 9.5 Consensus size: 11
974363 GAATTAGAAG
974373 ATGAATAAAAT
1 ATGAATAAAAT
974384 ATGTCAATAAAAT
1 ATG--AATAAAAT
974397 ATGAATAAAAT
1 ATGAATAAAAT
974408 ATGAAATTAAATATT
1 ATG-AA-TAAA-A-T
974423 ATTGAATAAAAT
1 A-TGAATAAAAT
* *
974435 -TGAATTAGAAG
1 ATGAA-TAAAAT
*
974446 ATGAAATTAAAT
1 ATG-AATAAAAT
974458 ATGAAATTAAATATT
1 ATG-AA-TAAA-A-T
974473 ATTGAATAAAAT
1 A-TGAATAAAAT
974485 -TGAAT
1 ATGAAT
974490 TGTGGGAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 29
0.71 0.05 0.24
Matches are distributed among these distances:
10 9 0.10
11 18 0.21
12 15 0.17
13 22 0.26
14 10 0.12
15 8 0.09
16 4 0.05
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.33
Consensus pattern (11 bp):
ATGAATAAAAT
Found at i:974421 original size:12 final size:12
Alignment explanation
Indices: 974393--974471 Score: 65
Period size: 12 Copynumber: 6.5 Consensus size: 12
974383 TATGTCAATA
*
974393 AAATATG-AATA
1 AAATATGAAATT
974404 AAATATGAAATT
1 AAATATGAAATT
* *
974416 AAATATTATTGAATA
1 AAATATGA---AATT
974431 AAAT-TG-AATT
1 AAATATGAAATT
*
974441 AGAAGATGAAATT
1 A-AATATGAAATT
974454 AAATATGAAATT
1 AAATATGAAATT
974466 AAATAT
1 AAATAT
974472 TATTGAATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
10 4 0.07
11 9 0.17
12 28 0.52
13 5 0.09
14 1 0.02
15 7 0.13
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (12 bp):
AAATATGAAATT
Found at i:974450 original size:38 final size:39
Alignment explanation
Indices: 974359--974459 Score: 124
Period size: 38 Copynumber: 2.7 Consensus size: 39
974349 TATTTGAGGG
974359 AATTGAATTAGAAGATG-AA-TAAA-A-TATGTCAATAA
1 AATTGAATTAGAAGATGAAATTAAATATTATGTCAATAA
* * *
974394 AATATGAA-TAAAATATGAAATTAAATATTAT-TGAATAA
1 AAT-TGAATTAGAAGATGAAATTAAATATTATGTCAATAA
974432 AATTGAATTAGAAGATGAAATTAAATAT
1 AATTGAATTAGAAGATGAAATTAAATAT
974460 GAAATTAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
35 10 0.18
36 6 0.11
37 8 0.15
38 28 0.51
39 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.12, T:0.32
Consensus pattern (39 bp):
AATTGAATTAGAAGATGAAATTAAATATTATGTCAATAA
Found at i:985848 original size:18 final size:17
Alignment explanation
Indices: 985792--985849 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
985782 GGACTTAAAT
*
985792 TTTTAATAATTTTATTT
1 TTTTAATAATTTTATTA
*
985809 TATTTAAT-ATTTTATAAAA
1 T-TTTAATAATTTTAT--TA
985828 TTTTAATAAATTTTATTA
1 TTTTAAT-AATTTTATTA
985846 TTTT
1 TTTT
985850 TAAAGACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
17 8 0.24
18 17 0.52
19 1 0.03
20 7 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTAATAATTTTATTA
Found at i:989383 original size:18 final size:18
Alignment explanation
Indices: 989362--989412 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
989352 AGGGAGAGGA
989362 GGAGACAAAGGCAATAAG
1 GGAGACAAAGGCAATAAG
*
989380 GGAGGGAAAAAGGCAATAAG
1 GGA--GACAAAGGCAATAAG
*
989400 GGGGACAAAGGCA
1 GGAGACAAAGGCA
989413 CCAAAAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 12 0.43
20 16 0.57
ACGTcount: A:0.47, C:0.10, G:0.39, T:0.04
Consensus pattern (18 bp):
GGAGACAAAGGCAATAAG
Found at i:997644 original size:16 final size:17
Alignment explanation
Indices: 997613--997646 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
997603 CAATTTAGTC
*
997613 CAAAATTTATACTTTTG
1 CAAAATTTATAATTTTG
997630 CAAAA-TTATAATTTTG
1 CAAAATTTATAATTTTG
997646 C
1 C
997647 CCCTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
CAAAATTTATAATTTTG
Found at i:1003725 original size:26 final size:26
Alignment explanation
Indices: 1003694--1003762 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
1003684 ATTCTGACCT
1003694 ACAGCTCGTGTGAGCAAGCCCACTCC
1 ACAGCTCGTGTGAGCAAGCCCACTCC
*
1003720 ACAGCTCTTGTGAGCAAGCCCACTCC
1 ACAGCTCGTGTGAGCAAGCCCACTCC
1003746 ACAGCTCGTGTGAGCAA
1 ACAGCTCGTGTGAGCAA
1003763 TGATGTAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.25, C:0.35, G:0.23, T:0.17
Consensus pattern (26 bp):
ACAGCTCGTGTGAGCAAGCCCACTCC
Found at i:1007745 original size:20 final size:20
Alignment explanation
Indices: 1007720--1007765 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
1007710 AACATAGAGG
**
1007720 TATCGATTTTAAAACTCGAT
1 TATCGATTACAAAACTCGAT
*
1007740 TATCGA-TACCAAACTCGAT
1 TATCGATTACAAAACTCGAT
1007759 TATCGAT
1 TATCGAT
1007766 ACCTCTGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (20 bp):
TATCGATTACAAAACTCGAT
Found at i:1007755 original size:19 final size:19
Alignment explanation
Indices: 1007731--1007768 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1007721 ATCGATTTTA
1007731 AAACTCGATTATCGATACC
1 AAACTCGATTATCGATACC
1007750 AAACTCGATTATCGATACC
1 AAACTCGATTATCGATACC
1007769 TCTGCTCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (19 bp):
AAACTCGATTATCGATACC
Found at i:1009282 original size:16 final size:16
Alignment explanation
Indices: 1009263--1009303 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
1009253 TGGAGAAAAG
1009263 AGAGAATGATGAATGA
1 AGAGAATGATGAATGA
1009279 AGAGAATGATGAATGA
1 AGAGAATGATGAATGA
*
1009295 TGAGAATGA
1 AGAGAATGA
1009304 ATGAGGAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.32, T:0.20
Consensus pattern (16 bp):
AGAGAATGATGAATGA
Found at i:1033549 original size:47 final size:49
Alignment explanation
Indices: 1033464--1033577 Score: 135
Period size: 47 Copynumber: 2.3 Consensus size: 49
1033454 ACCACTAATT
* * * *
1033464 TGCATATAAACTACCACTGATAATACTTTTTGGACAAGCCA-ACAC-ATA
1 TGCAGATAAACTACCACTGATAAGACTTTGTGAACAAGCCACA-ACGATA
* *
1033512 TGCAGATATACTACCACTGA-AAGACTTTGTGAACAAGCCACAACTGATT
1 TGCAGATAAACTACCACTGATAAGACTTTGTGAACAAGCCACAAC-GATA
1033561 TGCAGATAAACTACCAC
1 TGCAGATAAACTACCAC
1033578 ATACTTCCAC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
47 19 0.34
48 19 0.34
49 18 0.32
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.25
Consensus pattern (49 bp):
TGCAGATAAACTACCACTGATAAGACTTTGTGAACAAGCCACAACGATA
Found at i:1033574 original size:49 final size:49
Alignment explanation
Indices: 1033449--1033577 Score: 147
Period size: 48 Copynumber: 2.6 Consensus size: 49
1033439 ATTTTTGGAT
* * * * *
1033449 AAGCCACCACTAATTTGCATATAAACTACCACTGATAATACTTTTTGGAC
1 AAGCCACAACT-ATTTGCAGATAAACTACCACTGATAAGACTTTGTGAAC
* *
1033499 AAGCCA-ACAC-ATATGCAGATATACTACCACTGA-AAGACTTTGTGAAC
1 AAGCCACA-ACTATTTGCAGATAAACTACCACTGATAAGACTTTGTGAAC
1033546 AAGCCACAACTGATTTGCAGATAAACTACCAC
1 AAGCCACAACT-ATTTGCAGATAAACTACCAC
1033578 ATACTTCCAC
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
47 19 0.29
48 21 0.32
49 18 0.27
50 8 0.12
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (49 bp):
AAGCCACAACTATTTGCAGATAAACTACCACTGATAAGACTTTGTGAAC
Found at i:1042911 original size:27 final size:27
Alignment explanation
Indices: 1042852--1043182 Score: 423
Period size: 27 Copynumber: 12.3 Consensus size: 27
1042842 GAGTATAACA
* *
1042852 GTCATTTTACCCTATTGGGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
*
1042880 ATCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
**
1042907 GTCATTTTACCCTTTAAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
1042934 ATCATTTTACCTTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* **
1042961 GTCATTTTACCTTTCGAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
1042988 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * **
1043015 ATCAGTTTACCCTTCGAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
1043042 GTCATTTTA-CCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
1043068 GTCATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
1043095 ATCATTTTACCCTTCGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
1043122 GTTATTTTACCCTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
1043149 GTCATTTTACCCTTC-AGGATATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
1043175 TTCATTTT
1 GTCATTTT
1043183 GCCCACGAAT
Statistics
Matches: 265, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 40 0.15
27 213 0.80
28 12 0.05
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:1042968 original size:81 final size:81
Alignment explanation
Indices: 1042853--1043182 Score: 470
Period size: 81 Copynumber: 4.1 Consensus size: 81
1042843 AGTATAACAG
* *
1042853 TCATTTTACCCTATTGGGGGTATTTC-GATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
1 TCATTTTACCCT-TCGAGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
**
1042917 CCTTTAAGGGTATTTCGA
64 CCTTCGAGGGTATTTCGA
* * **
1042935 TCATTTTACCTTTCGAGGGTATTTCAGTCATTTTACCTTTCGAGGGTATTTTAGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCC
1043000 TTCGAGGGTATTTCGA
66 TTCGAGGGTATTTCGA
* *
1043016 TCAGTTTACCCTTCGAGGGTATTTTAGTCATTTTA-CCTTCGAGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCC
*
1043080 TTCGGGGGTATTTCGA
66 TTCGAGGGTATTTCGA
* * *
1043096 TCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCC
*
1043161 TTC-AGGATATTTC-A
66 TTCGAGGGTATTTCGA
1043175 TTCATTTT
1 -TCATTTT
1043183 GCCCACGAAT
Statistics
Matches: 223, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
79 1 0.00
80 87 0.39
81 123 0.55
82 12 0.05
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (81 bp):
TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCC
TTCGAGGGTATTTCGA
Found at i:1045063 original size:79 final size:79
Alignment explanation
Indices: 1044926--1045091 Score: 280
Period size: 79 Copynumber: 2.1 Consensus size: 79
1044916 ATACCATTTC
*
1044926 CTTCTCTTAGGGTCCACCACAGAGGCATTGCCTTCAGATGGTTGCCACAAAAGTCATTCTTTAGA
1 CTTCTCTTAGGGTCCACCACAGAGGCATTGCCTTCAGATGGTTGCCACAAAAGGCATTCTTTAGA
*
1044991 GTGCGCCGAAAAGG
66 GTACGCCGAAAAGG
* *
1045005 CTTCTCTTAGGGTCGACCACAGAGGCATTGCCTTCAGATGGTTGCCACAAAGGGCATTCTTTAGA
1 CTTCTCTTAGGGTCCACCACAGAGGCATTGCCTTCAGATGGTTGCCACAAAAGGCATTCTTTAGA
*
1045070 GTACGTCGAAAAGG
66 GTACGCCGAAAAGG
1045084 CTTC-CTTA
1 CTTCTCTTA
1045092 TCATAGATCG
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
78 4 0.05
79 78 0.95
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (79 bp):
CTTCTCTTAGGGTCCACCACAGAGGCATTGCCTTCAGATGGTTGCCACAAAAGGCATTCTTTAGA
GTACGCCGAAAAGG
Found at i:1045109 original size:27 final size:27
Alignment explanation
Indices: 1045079--1045192 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
1045069 AGTACGTCGA
* *
1045079 AAAGGCTTCCTTATCATAGATCGCCAC
1 AAAGGCTTCCTTTTCATAGATTGCCAC
* * * *
1045106 AAAGGCTTCCTTTTTATAGTTTTCCAT
1 AAAGGCTTCCTTTTCATAGATTGCCAC
*
1045133 AAATGCTTCCTTTTCATAGATTGCCAC
1 AAAGGCTTCCTTTTCATAGATTGCCAC
** *
1045160 AAAGGCTTTATTTTCATAGATTTCCAC
1 AAAGGCTTCCTTTTCATAGATTGCCAC
1045187 AAAGGC
1 AAAGGC
1045193 ATCATTTTTC
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (27 bp):
AAAGGCTTCCTTTTCATAGATTGCCAC
Found at i:1045150 original size:54 final size:54
Alignment explanation
Indices: 1045083--1045185 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
1045073 CGTCGAAAAG
* * *
1045083 GCTTCCTTATCATAGATCGCCACAAAGGCTTCCTTTTTATAGTTTTCCATAAAT
1 GCTTCCTTATCATAGATCGCCACAAAGGCTTCATTTTCATAGATTTCCATAAAT
* * *
1045137 GCTTCCTTTTCATAGATTGCCACAAAGGCTTTATTTTCATAGATTTCCA
1 GCTTCCTTATCATAGATCGCCACAAAGGCTTCATTTTCATAGATTTCCA
1045186 CAAAGGCATC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (54 bp):
GCTTCCTTATCATAGATCGCCACAAAGGCTTCATTTTCATAGATTTCCATAAAT
Found at i:1045713 original size:61 final size:61
Alignment explanation
Indices: 1045644--1045769 Score: 225
Period size: 61 Copynumber: 2.1 Consensus size: 61
1045634 TGCAAAGTCC
1045644 ATCAAACATTCATGCAATAGCATAATCATCATACCATACTTTTCTAGTTTCAGTTTCATAG
1 ATCAAACATTCATGCAATAGCATAATCATCATACCATACTTTTCTAGTTTCAGTTTCATAG
* * *
1045705 ATCAAACATTCATGCAATAGCATAATCATCATACCATGCTTTTCTAGTTTCGGTTTTATAG
1 ATCAAACATTCATGCAATAGCATAATCATCATACCATACTTTTCTAGTTTCAGTTTCATAG
1045766 ATCA
1 ATCA
1045770 GTCACCTTCA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (61 bp):
ATCAAACATTCATGCAATAGCATAATCATCATACCATACTTTTCTAGTTTCAGTTTCATAG
Found at i:1050934 original size:26 final size:26
Alignment explanation
Indices: 1050905--1050977 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
1050895 TGCTAATACA
* *
1050905 ACACCAGCACAAAGCCTTCTAAATGT
1 ACACCAGCACAAAGCCTACTAAATAT
* *
1050931 ACACCAGCTCGAAGCCTACTAAATAT
1 ACACCAGCACAAAGCCTACTAAATAT
*
1050957 ACACCAGCAAAAAGCCTACTA
1 ACACCAGCACAAAGCCTACTA
1050978 CGCCCTAATG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (26 bp):
ACACCAGCACAAAGCCTACTAAATAT
Found at i:1051599 original size:42 final size:42
Alignment explanation
Indices: 1051553--1051642 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
1051543 AAAATTAACT
1051553 AAAATCACTTTACAAAATAGTCCTATTTAACCATCAGGCTTA
1 AAAATCACTTTACAAAATAGTCCTATTTAACCATCAGGCTTA
1051595 AAAATCACTTTACAAAATAGTCCTATTTAACCATCAGGCTTA
1 AAAATCACTTTACAAAATAGTCCTATTTAACCATCAGGCTTA
*
1051637 ATAATC
1 AAAATC
1051643 CATCATAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (42 bp):
AAAATCACTTTACAAAATAGTCCTATTTAACCATCAGGCTTA
Found at i:1072241 original size:20 final size:20
Alignment explanation
Indices: 1072216--1072255 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1072206 ACCCCCTTTA
1072216 TTAACATAAA-AATTTAAATT
1 TTAACA-AAATAATTTAAATT
1072236 TTAACAAAATAATTTAAATT
1 TTAACAAAATAATTTAAATT
1072256 AGAAAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAACAAAATAATTTAAATT
Found at i:1078191 original size:101 final size:102
Alignment explanation
Indices: 1078076--1078260 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
1078066 AAAGTGATGG
* *
1078076 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACCTGTACCAGATAGTGAT-GGTCACATGTGTAGT
*
1078139 ACTATGTGTAGGCTACTATGCGTACCGAATAGCTTTGA
65 ACTATGTGCAGGCTACTATGCGTACCGAATAGCTTTGA
* *
1078177 TCACGTGTGTAGTACTATGTGTAGGCTACTACCTGTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACCTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
1078242 CTATGTGCAGGTTACTATG
66 CTATGTGCAGGCTACTATG
1078261 TGAACCAGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 39 0.51
102 33 0.43
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACCTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGAATAGCTTTGA
Found at i:1078196 original size:51 final size:50
Alignment explanation
Indices: 1078076--1078258 Score: 183
Period size: 51 Copynumber: 3.6 Consensus size: 50
1078066 AAAGTGATGG
* * *
1078076 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGCGTACCAGAATGATAGA
* * * * *
1078126 TCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACC-GAATAGCTTTGA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGCGTACCAGAAT-G-ATAGA
* *
1078177 TCACGTGTGTAGTACTATGTGTAGGCTACTAC-CTGTATCAGATAGTGAT-GG
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGC-GTACCAGA-A-TGATAGA
* * *
1078228 TCACATGTGTAGTACTATGTGCAGGTTACTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTA
1078259 TGTGAACCAG
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.04
50 36 0.33
51 64 0.58
52 3 0.03
53 2 0.02
54 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGCGTACCAGAATGATAGA
Found at i:1081737 original size:16 final size:17
Alignment explanation
Indices: 1081710--1081745 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1081700 AGAGAGTTGA
1081710 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
1081727 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
1081743 GAG
1 GAG
1081746 GGATGATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.53, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:1084894 original size:45 final size:45
Alignment explanation
Indices: 1084813--1085032 Score: 243
Period size: 45 Copynumber: 5.0 Consensus size: 45
1084803 AACCGTTACA
* * * *
1084813 CGGTGG-ATCAACACATAGC-ACCACCCTTATAATCAATTATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATC
* **
1084856 CGGTGGAATCAGCACATAACAACCACCTTTATTTTCAATGACT-T-
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGA-TATC
* * * *
1084900 TGGTGGAGTCAGCACATAGCAACCACCTTTATAATCAAAGGTA-C
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATC
* *
1084944 CTGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
1 C-GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATC
** *
1084990 CAATGGAATCAACACATAGCAACCACCTTTATAATCAATGATA
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATA
1085033 CTCAGTACAC
Statistics
Matches: 150, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
43 7 0.05
44 45 0.30
45 95 0.63
46 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATC
Found at i:1084983 original size:89 final size:89
Alignment explanation
Indices: 1084813--1085035 Score: 256
Period size: 89 Copynumber: 2.5 Consensus size: 89
1084803 AACCGTTACA
* ** *
1084813 CGGTGGATCAACACATAGC-ACCACCCTTATAATCAATTATATTCGGTGGAATCAGCACATAACA
1 CGGTGGATCAACACATAGCAACCACCTTTATAATCAAAGATACTCGGTGGAATCAGCACATAACA
** *
1084877 ACCACCTTTATTTTCAAT-G-ACTT
66 ACCACCTTTATAATCAATGGTAC-C
* * * *
1084900 TGGTGGAGTCAGCACATAGCAACCACCTTTATAATCAAAGGTAC-CTGGTGGAATCAGCACATAG
1 CGGTGGA-TCAACACATAGCAACCACCTTTATAATCAAAGATACTC-GGTGGAATCAGCACATAA
1084964 CAACCACCTTTATAATCAATGGTACC
64 CAACCACCTTTATAATCAATGGTACC
** *
1084990 CAATGGAATCAACACATAGCAACCACCTTTATAATCAATGATACTC
1 CGGTGG-ATCAACACATAGCAACCACCTTTATAATCAAAGATACTC
1085036 AGTACACGTA
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
87 6 0.05
88 12 0.11
89 53 0.47
90 37 0.33
91 4 0.04
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (89 bp):
CGGTGGATCAACACATAGCAACCACCTTTATAATCAAAGATACTCGGTGGAATCAGCACATAACA
ACCACCTTTATAATCAATGGTACC
Found at i:1096048 original size:12 final size:12
Alignment explanation
Indices: 1096024--1096057 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1096014 ATCCTCCCTG
*
1096024 ATATC-CTCTAC
1 ATATCACTCCAC
1096035 ATATCACTCCAC
1 ATATCACTCCAC
1096047 ATATCACTCCA
1 ATATCACTCCA
1096058 ACCTCTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.32, C:0.38, G:0.00, T:0.29
Consensus pattern (12 bp):
ATATCACTCCAC
Found at i:1103159 original size:5 final size:5
Alignment explanation
Indices: 1103151--1103198 Score: 60
Period size: 5 Copynumber: 8.8 Consensus size: 5
1103141 GCGTTAGGGT
1103151 TTTTC TTTTC TTTTC TTTTTCC TTTTC TTTTC TTTTTC TTTTC ATTTT
1 TTTTC TTTTC TTTTC -TTTT-C TTTTC TTTTC -TTTTC TTTTC -TTTT
1103199 TAGTTTAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
5 21 0.54
6 17 0.44
7 1 0.03
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:1103164 original size:11 final size:11
Alignment explanation
Indices: 1103150--1103199 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
1103140 AGCGTTAGGG
1103150 TTTTTCTTTTC
1 TTTTTCTTTTC
1103161 -TTTTCTTTTTC
1 TTTTTC-TTTTC
*
1103172 CTTTTCTTTTC
1 TTTTTCTTTTC
1103183 TTTTTCTTTTC
1 TTTTTCTTTTC
1103194 ATTTTT
1 -TTTTT
1103200 AGTTTAGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
10 5 0.14
11 20 0.57
12 10 0.29
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:1103175 original size:17 final size:16
Alignment explanation
Indices: 1103150--1103198 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 16
1103140 AGCGTTAGGG
1103150 TTTTTCTTTTCTTTTC
1 TTTTTCTTTTCTTTTC
1103166 TTTTTCCTTTTCTTTTC
1 TTTTT-CTTTTCTTTTC
1103183 TTTTTCTTTTCATTTT
1 TTTTTCTTTTC-TTTT
1103199 TAGTTTAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.35
17 20 0.65
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTCTTTTC
Found at i:1103218 original size:7 final size:6
Alignment explanation
Indices: 1103150--1103192 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
1103140 AGCGTTAGGG
*
1103150 TTTTTC -TTTTC -TTTTC TTTTTC CTTTTC -TTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
1103193 CATTTTTAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
5 15 0.44
6 19 0.56
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:1106517 original size:34 final size:34
Alignment explanation
Indices: 1106474--1106542 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
1106464 CAAGTAAACC
1106474 TATTGAAATGCCAATTGTATCCTATCCTTTCTTA
1 TATTGAAATGCCAATTGTATCCTATCCTTTCTTA
1106508 TATTGAAATGCCAATTGTATCCTATCCTTTCTTA
1 TATTGAAATGCCAATTGTATCCTATCCTTTCTTA
1106542 T
1 T
1106543 TTTCATCTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (34 bp):
TATTGAAATGCCAATTGTATCCTATCCTTTCTTA
Found at i:1106696 original size:50 final size:50
Alignment explanation
Indices: 1106642--1106739 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
1106632 AATACAATCA
*
1106642 CAAGATATAATTTCATAATTTAAATAAATCCAATACATTTACAAACATCT
1 CAAGATATAATTTCATAATTTAAACAAATCCAATACATTTACAAACATCT
1106692 CAAGATATAATTTCATAATTTAAACAAATCCAATACATTTACAAACAT
1 CAAGATATAATTTCATAATTTAAACAAATCCAATACATTTACAAACAT
1106740 AACTACAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (50 bp):
CAAGATATAATTTCATAATTTAAACAAATCCAATACATTTACAAACATCT
Found at i:1128161 original size:26 final size:24
Alignment explanation
Indices: 1128114--1128173 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
1128104 AATGACAAAT
1128114 AATTAATATATTAAATTTTAGAAA
1 AATTAATATATTAAATTTTAGAAA
* * ** *
1128138 AATTTATATATTAATTTTTCTAGA
1 AATTAATATATTAAATTTTAGAAA
1128162 AATTAATATATT
1 AATTAATATATT
1128174 TTAAAATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (24 bp):
AATTAATATATTAAATTTTAGAAA
Found at i:1129048 original size:6 final size:6
Alignment explanation
Indices: 1129039--1129066 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1129029 TGCTATAACC
1129039 TGAAGT TGAAGT TGAAGT TGAAGT TGAA
1 TGAAGT TGAAGT TGAAGT TGAAGT TGAA
1129067 CCCTTGTTTT
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:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (6 bp):
TGAAGT
Found at i:1133599 original size:13 final size:13
Alignment explanation
Indices: 1133583--1133627 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
1133573 AATAGTAGGT
1133583 GATGATCAATTGA
1 GATGATCAATTGA
*
1133596 GATGAT-TATATGA
1 GATGATCAAT-TGA
*
1133609 GATAATCAATTGA
1 GATGATCAATTGA
1133622 GATGAT
1 GATGAT
1133628 TGTAGAAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.33
Consensus pattern (13 bp):
GATGATCAATTGA
Found at i:1133642 original size:26 final size:26
Alignment explanation
Indices: 1133583--1133643 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
1133573 AATAGTAGGT
1133583 GATGATCAATTGAGATGATTATATGA
1 GATGATCAATTGAGATGATTATATGA
* *
1133609 GATAATCAATTGAGATGATTGTA-GAA
1 GATGATCAATTGAGATGATTATATG-A
1133635 GATGATCAA
1 GATGATCAA
1133644 CTAGGGTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (26 bp):
GATGATCAATTGAGATGATTATATGA
Found at i:1137687 original size:51 final size:51
Alignment explanation
Indices: 1137623--1137965 Score: 274
Period size: 51 Copynumber: 6.8 Consensus size: 51
1137613 TATCAATGAA
* *
1137623 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
* * * * * * * * *
1137674 CACATGTGTAGTACTAAGAGAAGGCTACTATGTGTACCAAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTG-GT
* * *
1137725 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATTGGT
* * * * * * *
1137776 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-TATC-GATAA-ATATTGGT
* * * *
1137827 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCATAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTGGT
* * * * *
1137877 CACGTGTGTAGTACTATGTTAAGGCTACTATGTG-AACTG-TAAA-ACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATATTGGT
*
1137926 CACGTGTGTAGTACTATGTGAATGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1137966 ATGATAAAAA
Statistics
Matches: 225, Mismatches: 53, Indels: 29
0.73 0.17 0.09
Matches are distributed among these distances:
49 37 0.16
50 50 0.22
51 134 0.60
52 4 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
Found at i:1137799 original size:102 final size:101
Alignment explanation
Indices: 1137623--1137965 Score: 362
Period size: 102 Copynumber: 3.4 Consensus size: 101
1137613 TATCAATGAA
*
1137623 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAACT-ATGGTCACATGTGTAGTA
*
1137687 CTAAGAGAAGGCTACTATGTGTACCAAGAAGTTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCAAGAAG-TTTGAG
* * * * *
1137725 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAACTATGGTCACATGTGTAGTAC
*
1137790 TAAGTGAAGGCTACTATG-GATACC-GGAAAGCTTTG-G
66 TAAGTGAAGGCTACTATGTG-TACCAAG-AAG-TTTGAG
* * * * *
1137826 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCATAAAACT-TGATCACGTGTGTAGT
1 -CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAT-AAACTATGGTCACATGTGTAGT
* * * * * *
1137889 ACTATGTTAAGGCTACTATGTGAACTGTAA-AA--CTGAT
64 ACTAAGTGAAGGCTACTATGTGTAC--CAAGAAGTTTGAG
*
1137926 CACGTGTGTAGTACTATGTGAATGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1137966 ATGATAAAAA
Statistics
Matches: 202, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
99 34 0.17
100 3 0.01
101 38 0.19
102 126 0.62
103 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCAAGAAGTTTGAG
Found at i:1146488 original size:49 final size:49
Alignment explanation
Indices: 1146317--1146500 Score: 176
Period size: 51 Copynumber: 3.7 Consensus size: 49
1146307 TATCGATGAA
*
1146317 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGATAAATAATTG-T
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACT-G-T-AA-AATTGAT
* * * * * *
1146368 CACATGTGTAGTTCTAAGTGAAGGCTACTATGTGTACTG-AGAAGTTTTGAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACTGTA-AA--ATTGAT
* * * * *
1146419 CACTTGTGTAGTACTGTGTGAAAGCTACTACGTGAACTGTAAAACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACTGTAAAATTGAT
1146468 CACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGT
1146501 CTATCGAATG
Statistics
Matches: 107, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
48 2 0.02
49 34 0.32
50 3 0.03
51 66 0.62
52 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACTGTAAAATTGAT
Found at i:1147449 original size:3 final size:3
Alignment explanation
Indices: 1147430--1147475 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
1147420 GGAGTCAGGA
*
1147430 CAT CAT CCT CA- CTAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT C-AT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1147475 C
1 C
1147476 TTTTTGGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 1 0.03
3 37 0.95
4 1 0.03
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:1152338 original size:350 final size:353
Alignment explanation
Indices: 1151383--1152422 Score: 1505
Period size: 357 Copynumber: 2.9 Consensus size: 353
1151373 TCAAGTTCCC
* * * *
1151383 TTTTAAATCTGTATATGATTTCTTTCAGTCCTGTGTAGTTTTTAATTGACTATGGATGATGGAAA
1 TTTTAAATCTGTATATGATTTTTTTCAGTCCTGTGCAGTTTTTAAGTGACTATGGATGATGGCAA
* * * ** *
1151448 ATTTCTCTTCTATTTCACGTACCAAGTTTGGACCCACTATCTTTTTTTTGCTTAATTACATCCAA
66 CTTTCTCTTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTCACTCAATTACATCCAA
* *
1151513 CAGGTAGGTATCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTGAGGCTGACGTG
131 CAGGTAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGACGTG
* *
1151578 GTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGGTTATTCCAAAATCAC
196 GTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGTTTATTCCAAAATCAA
* *
1151643 TCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACCTTTTCTGATTGGCCATCAGTAGAG
261 TCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTCTGATTGGCCATCAGTCGAG
* *
1151708 GGTGAAATGCAATGCTAAAATTTTATTGGTCCT
326 GGTGAAA--C-AT-CT-AAATGTTATCGGTCCT
* * *
1151741 TTTTAAATCTATATATGATTTTTGTCGGTCCTGTGCA-TTTTTAAGTGACTATGGATGATGGCAA
1 TTTTAAATCTGTATATGATTTTTTTCAGTCCTGTGCAGTTTTTAAGTGACTATGGATGATGGCAA
* *
1151805 CTTTCTCCTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTCACTCAATTACATCCAG
66 CTTTCTCTTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTCACTCAATTACATCCAA
*
1151870 CAGGCAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGACGTG
131 CAGGTAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGACGTG
* * * *
1151935 GTAACTATTATTATAGGAGAATTCAACCAGAGGGACTTTCTTTTCCCAGTTTATTCCAAAATCAA
196 GTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGTTTATTCCAAAATCAA
* * * *
1152000 TCACACAGAAATGCATTATATCTTCTAAGACCTGAATAACTTTTTTTGATTGGCCATTAGTCGAG
261 TCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTCTGATTGGCCATCAGTCGAG
* *
1152065 GGTGAAAC-T-T-AGTGTTGTCGGTCCT
326 GGTGAAACATCTAAATGTTATCGGTCCT
* *
1152090 TTTTAAATCTGTATATGATTTTTTTTCAGTTCTATGCAGTTTTTAAGTGACTATGGATGATGGCA
1 TTTTAAATCTGTATATGA-TTTTTTTCAGTCCTGTGCAGTTTTTAAGTGACTATGGATGATGGCA
* ** * * *
1152155 ACTTTCTCTTCTGTTTTACAAACCAAGTTTGGACCCAC-ATATTTCTTTCACTCAATTCCATCAA
65 ACTTTCTCTTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTCACTCAATTACATCCA
* * * **
1152219 ATAGGTAGGTGTCCTACACCTTCTACCATACAAGGCTTCAAATGGAGACATCTTCAGGCTCAAAT
130 ACAGGTAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGACGT
1152284 GGTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGTTTATTCCAAAATCA
195 GGTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGTTTATTCCAAAATCA
* * * ** **
1152349 ATCACACAAAAACACATTATATCCCCTAAGACCAAAATAACTCCTTCTGATTGGCCATCAGTCGA
260 ATCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTCTGATTGGCCATCAGTCGA
1152414 GGGTGAAAC
325 GGGTGAAAC
1152423 GCAGTGCTAA
Statistics
Matches: 612, Mismatches: 68, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
349 28 0.05
350 220 0.36
351 61 0.10
353 1 0.00
355 1 0.00
357 269 0.44
358 32 0.05
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (353 bp):
TTTTAAATCTGTATATGATTTTTTTCAGTCCTGTGCAGTTTTTAAGTGACTATGGATGATGGCAA
CTTTCTCTTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTCACTCAATTACATCCAA
CAGGTAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGACGTG
GTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGTTTATTCCAAAATCAA
TCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTCTGATTGGCCATCAGTCGAG
GGTGAAACATCTAAATGTTATCGGTCCT
Found at i:1165297 original size:34 final size:34
Alignment explanation
Indices: 1165254--1165320 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
1165244 TGCAATTTGA
* *
1165254 TACTGTACTGAGATGGGCT-AAGGCCCAA-ACTGT
1 TACTGTACTGAAAAGGGCTCAA-GCCCAAGACTGT
1165287 TACTGATACTGAAAAGGGCTCAAGCCCAAGACTG
1 TACTG-TACTGAAAAGGGCTCAAGCCCAAGACTG
1165321 CTTTAACTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 5 0.17
34 18 0.62
35 6 0.21
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.21
Consensus pattern (34 bp):
TACTGTACTGAAAAGGGCTCAAGCCCAAGACTGT
Found at i:1170326 original size:12 final size:12
Alignment explanation
Indices: 1170309--1170335 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1170299 AAGAAATAAG
1170309 AGATTTACTTGA
1 AGATTTACTTGA
1170321 AGATTTACTTGA
1 AGATTTACTTGA
1170333 AGA
1 AGA
1170336 GTTGCACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (12 bp):
AGATTTACTTGA
Found at i:1175930 original size:23 final size:24
Alignment explanation
Indices: 1175874--1175936 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
1175864 GTTAAAACCA
*
1175874 CCAATAATAACATGCAGAAAATTCTG
1 CCAATAA-AA-ATGCAGAAAATGCTG
* *
1175900 CCAGTAAAAATGCAGACAA-GCTG
1 CCAATAAAAATGCAGAAAATGCTG
1175923 CCAATAAAAATGCA
1 CCAATAAAAATGCA
1175937 ATAAATTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 16 0.48
24 9 0.27
25 2 0.06
26 6 0.18
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (24 bp):
CCAATAAAAATGCAGAAAATGCTG
Found at i:1179238 original size:8 final size:8
Alignment explanation
Indices: 1179225--1179249 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1179215 AGGACAACAA
1179225 ATTATTTT
1 ATTATTTT
1179233 ATTATTTT
1 ATTATTTT
1179241 ATTATTTT
1 ATTATTTT
1179249 A
1 A
1179250 ATGTTTACAG
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTATTTT
Found at i:1180537 original size:5 final size:5
Alignment explanation
Indices: 1180529--1180605 Score: 104
Period size: 5 Copynumber: 15.4 Consensus size: 5
1180519 ATAATTTTGT
*
1180529 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTCT- GTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA
*
1180579 TTTCA TTTTA TTTCTA -TTTA TTTTA TT
1 TTTTA TTTTA TTT-TA TTTTA TTTTA TT
1180606 CTCTTTATCA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.05
5 58 0.91
6 3 0.05
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:1185296 original size:35 final size:35
Alignment explanation
Indices: 1185251--1185387 Score: 166
Period size: 35 Copynumber: 3.9 Consensus size: 35
1185241 TAGCACAGTG
* * * * * *
1185251 GCATGTTTAACATGCGAATCAGAATCAGATTTATG
1 GCATGCTTAACATGCGAATCATAAGCAGAATAATA
* *
1185286 GCATGCTTAACATGCGAATCATAGGCAGAACAATA
1 GCATGCTTAACATGCGAATCATAAGCAGAATAATA
*
1185321 GCATGCTTAACATGTGAATCATAAGCAGAATAATA
1 GCATGCTTAACATGCGAATCATAAGCAGAATAATA
* * *
1185356 ACACGCTTAACATGCGAATCATAATCAGAATA
1 GCATGCTTAACATGCGAATCATAAGCAGAATA
1185388 TTCACAATCA
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 87 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (35 bp):
GCATGCTTAACATGCGAATCATAAGCAGAATAATA
Found at i:1193091 original size:10 final size:10
Alignment explanation
Indices: 1193076--1193101 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1193066 TAATGTATTA
1193076 ATTATTGTTT
1 ATTATTGTTT
1193086 ATTATTGTTT
1 ATTATTGTTT
1193096 ATTATT
1 ATTATT
1193102 ATATTGGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (10 bp):
ATTATTGTTT
Found at i:1194054 original size:19 final size:19
Alignment explanation
Indices: 1194032--1194085 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1194022 ATTACAAAAT
*
1194032 AATTCAAAATAATTT-TTAA
1 AATTCAAAAT-ATTTATAAA
1194051 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
*
1194070 AATTCTAAA-ATTTATA
1 AATTCAAAATATTTATA
1194086 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 11 0.34
19 21 0.66
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:1194108 original size:11 final size:11
Alignment explanation
Indices: 1194092--1194116 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1194082 TATATTTTTT
1194092 AAAATTTAAAA
1 AAAATTTAAAA
1194103 AAAATTTAAAA
1 AAAATTTAAAA
1194114 AAA
1 AAA
1194117 CTAAAGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTTAAAA
Found at i:1197798 original size:15 final size:15
Alignment explanation
Indices: 1197778--1197812 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1197768 TTCTTTTAAC
1197778 GCAAATATCTAGAAT
1 GCAAATATCTAGAAT
1197793 GCAAATATCTAGAAT
1 GCAAATATCTAGAAT
1197808 GCAAA
1 GCAAA
1197813 GTTTGCAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (15 bp):
GCAAATATCTAGAAT
Found at i:1201033 original size:63 final size:62
Alignment explanation
Indices: 1200961--1201171 Score: 377
Period size: 62 Copynumber: 3.4 Consensus size: 62
1200951 TGCTTCTGTT
1200961 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTTCTTCTCC
1 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAA-TTCTTCTCC
* *
1201024 TTTCTTTCTTTGTTTTCTGTAACATACTGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCA
1 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
*
1201086 TTTCTTTCTTTGTTTTCTGTAACATATCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
1 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
*
1201148 TTTCTTTCTTTGTTTTCGGTAACA
1 TTTCTTTCTTTGTTTTCTGTAACA
1201172 GACCCAGAAG
Statistics
Matches: 142, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
62 90 0.63
63 52 0.37
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.44
Consensus pattern (62 bp):
TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
Found at i:1204781 original size:9 final size:9
Alignment explanation
Indices: 1204763--1204797 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
1204753 TCCACTCTTC
1204763 TAAA-TTTT
1 TAAATTTTT
1204771 TAAATTTTT
1 TAAATTTTT
1204780 TAAATTTTT
1 TAAATTTTT
1204789 TAAATTTTT
1 TAAATTTTT
1204798 GTTGTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAAATTTTT
Found at i:1209322 original size:18 final size:17
Alignment explanation
Indices: 1209294--1209328 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1209284 NNNNNTAAGA
*
1209294 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
1209311 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
1209329 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:1209585 original size:16 final size:16
Alignment explanation
Indices: 1209564--1209599 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1209554 GATTAGCTAT
1209564 TACACCTCTAACCCAA
1 TACACCTCTAACCCAA
*
1209580 TACACCTCTAATCCAA
1 TACACCTCTAACCCAA
1209596 TACA
1 TACA
1209600 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (16 bp):
TACACCTCTAACCCAA
Found at i:1215134 original size:28 final size:26
Alignment explanation
Indices: 1215103--1215171 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
1215093 TTTAAAAACC
1215103 ATAACAATATATAAAAATTTTAAATTTT
1 ATAA-AATATA-AAAAATTTTAAATTTT
*
1215131 ATAAAA-ATGAAAAAGTATTTAAATTTT
1 ATAAAATAT-AAAAAAT-TTTAAATTTT
*
1215158 AGAAAAT-TAAAAAA
1 ATAAAATATAAAAAA
1215172 ATTCCATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
26 12 0.34
27 19 0.54
28 4 0.11
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (26 bp):
ATAAAATATAAAAAATTTTAAATTTT
Found at i:1227324 original size:24 final size:23
Alignment explanation
Indices: 1227282--1227326 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1227272 TTTCTTATTA
*
1227282 TAGTATTTTTCGGGGTATTACAG
1 TAGTATTTTTCGGGATATTACAG
*
1227305 TAGTAATTTTTTGGGATATTAC
1 TAGT-ATTTTTCGGGATATTAC
1227327 CTGTATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (23 bp):
TAGTATTTTTCGGGATATTACAG
Found at i:1228196 original size:40 final size:40
Alignment explanation
Indices: 1228141--1228304 Score: 161
Period size: 40 Copynumber: 4.1 Consensus size: 40
1228131 CGTTTGGATA
* * * * *
1228141 AAAAACACCACTATAGATCAAGCATTAGCGGCGCTTTCTG
1 AAAAACGCCGCTATAGGTCAACCATTAGCGGAGCTTTCTG
* * * * *
1228181 GAATACGCCGCTATAGGTCAACCATTAGTGGTGCTTTTTG
1 AAAAACGCCGCTATAGGTCAACCATTAGCGGAGCTTTCTG
* *
1228221 AAAAACGTCGCTATAGGTCGACCATTAGCGGAGCTTTC--
1 AAAAACGCCGCTATAGGTCAACCATTAGCGGAGCTTTCTG
** * *
1228259 AAAAAGCGCCGCTATAGGTTGACCATTAGCGGCGCTTTTTG
1 AAAAA-CGCCGCTATAGGTCAACCATTAGCGGAGCTTTCTG
1228300 AAAAA
1 AAAAA
1228305 TGCTGCAAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
38 5 0.05
39 29 0.29
40 62 0.61
41 5 0.05
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (40 bp):
AAAAACGCCGCTATAGGTCAACCATTAGCGGAGCTTTCTG
Found at i:1228283 original size:39 final size:38
Alignment explanation
Indices: 1228185--1228296 Score: 134
Period size: 39 Copynumber: 2.9 Consensus size: 38
1228175 TTTCTGGAAT
* * * *
1228185 ACGCCGCTATAGGTCAACCATTAGTGGTGCTTTTTGAAAA
1 ACGCCGCTATAGGTCGACCATTAGCGGAGC--TTTCAAAA
*
1228225 ACGTCGCTATAGGTCGACCATTAGCGGAGCTTTCAAAA
1 ACGCCGCTATAGGTCGACCATTAGCGGAGCTTTCAAAA
* *
1228263 AGCGCCGCTATAGGTTGACCATTAGCGGCGCTTT
1 A-CGCCGCTATAGGTCGACCATTAGCGGAGCTTT
1228297 TTGAAAAATG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 8 0.13
39 29 0.46
40 26 0.41
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (38 bp):
ACGCCGCTATAGGTCGACCATTAGCGGAGCTTTCAAAA
Found at i:1228766 original size:14 final size:14
Alignment explanation
Indices: 1228717--1228817 Score: 80
Period size: 14 Copynumber: 7.1 Consensus size: 14
1228707 TTAATTATCA
*
1228717 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
1228731 TTATTGTTTAGGGT
1 TTATGGTTTAGGGT
*
1228745 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
1228759 TTAAGGTTTAAGAGT
1 TTATGGTTT-AGGGT
*
1228774 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
* *
1228788 TTATGGATTATGGT
1 TTATGGTTTAGGGT
1228802 TTATGGTTTAAGGGT
1 TTATGGTTT-AGGGT
1228817 T
1 T
1228818 GGGGTTTAAG
Statistics
Matches: 68, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
12 3 0.04
14 50 0.74
15 13 0.19
17 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:1228823 original size:21 final size:22
Alignment explanation
Indices: 1228799--1228846 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
1228789 TATGGATTAT
* *
1228799 GGTTTATGGTTTAAGGGTT-GG
1 GGTTTAAGGTTTAAAGGTTAGG
1228820 GGTTTAAGGTTTAAAGGTTAGG
1 GGTTTAAGGTTTAAAGGTTAGG
1228842 GGTTT
1 GGTTT
1228847 CTGATTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.42
Consensus pattern (22 bp):
GGTTTAAGGTTTAAAGGTTAGG
Found at i:1229006 original size:7 final size:7
Alignment explanation
Indices: 1228985--1229101 Score: 85
Period size: 7 Copynumber: 16.4 Consensus size: 7
1228975 TTATTTATCA
*
1228985 TTATAGT
1 TTATGGT
*
1228992 TTAAGGT
1 TTATGGT
1228999 TTATGGT
1 TTATGGT
*
1229006 TTAGGGT
1 TTATGGT
*
1229013 ATATGGT
1 TTATGGT
*
1229020 TTAGGGT
1 TTATGGT
*
1229027 TTAAGGT
1 TTATGGT
*
1229034 TTAAGAGT
1 TTATG-GT
1229042 TACTAT--T
1 T--TATGGT
*
1229049 TTAAGGT
1 TTATGGT
*
1229056 TTATGGA
1 TTATGGT
1229063 TTATGGGT
1 TTAT-GGT
*
1229071 TTATGGA
1 TTATGGT
1229078 TTATGGT
1 TTATGGT
*
1229085 TTATGAT
1 TTATGGT
1229092 TTATGGT
1 TTATGGT
1229099 TTA
1 TTA
1229102 AGGGTTGAGG
Statistics
Matches: 86, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
5 2 0.02
7 73 0.85
8 9 0.10
10 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:1229007 original size:14 final size:14
Alignment explanation
Indices: 1228985--1229165 Score: 98
Period size: 14 Copynumber: 12.7 Consensus size: 14
1228975 TTATTTATCA
*
1228985 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
1228999 TTATGGTTTAGGGT
1 TTATGGTTTAAGGT
* *
1229013 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
1229027 TTAAGGTTTAAGAGT
1 TTATGGTTTAAG-GT
1229042 TACTAT--TTTAAGGT
1 T--TATGGTTTAAGGT
* *
1229056 TTATGGATTATGGGT
1 TTATGGTTTA-AGGT
* *
1229071 TTATGGATTATGGT
1 TTATGGTTTAAGGT
* *
1229085 TTATGATTTATGGT
1 TTATGGTTTAAGGT
* * *
1229099 TTAAGGGTTGAGGT
1 TTATGGTTTAAGGT
* * *
1229113 TTAAGATTTAAGGG
1 TTATGGTTTAAGGT
* *
1229127 TTAGGGGTTAAGAGT
1 TTATGGTTTAAG-GT
* *
1229142 TGAGGGTTT-AGGT
1 TTATGGTTTAAGGT
1229155 TTCATGGTTTA
1 TT-ATGGTTTA
1229166 TGTTTTATGA
Statistics
Matches: 129, Mismatches: 29, Indels: 17
0.74 0.17 0.10
Matches are distributed among these distances:
12 3 0.02
13 3 0.02
14 91 0.71
15 30 0.23
17 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:1229073 original size:22 final size:22
Alignment explanation
Indices: 1229048--1229089 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1229038 GAGTTACTAT
*
1229048 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTATGGG
* *
1229070 TTTATGGATTATGGTTTATG
1 TTTAAGGATTATGGATTATG
1229090 ATTTATGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (22 bp):
TTTAAGGATTATGGATTATGGG
Found at i:1229216 original size:7 final size:7
Alignment explanation
Indices: 1228990--1229224 Score: 68
Period size: 7 Copynumber: 33.0 Consensus size: 7
1228980 TATCATTATA
*
1228990 GTTTAAG
1 GTTTAGG
*
1228997 GTTTATG
1 GTTTAGG
1229004 GTTTAGG
1 GTTTAGG
* *
1229011 GTATATG
1 GTTTAGG
1229018 GTTTAGG
1 GTTTAGG
*
1229025 GTTTAAG
1 GTTTAGG
*
1229032 GTTTAAGA
1 GTTT-AGG
1229040 GTTACTA--
1 GTT--TAGG
* *
1229047 TTTTAAG
1 GTTTAGG
*
1229054 GTTTATG
1 GTTTAGG
*
1229061 GATTATGG
1 GTTTA-GG
*
1229069 GTTTATG
1 GTTTAGG
* *
1229076 GATTATG
1 GTTTAGG
*
1229083 GTTTATG
1 GTTTAGG
* *
1229090 ATTTATG
1 GTTTAGG
1229097 GTTTAAGG
1 GTTT-AGG
*
1229105 GTTGA-G
1 GTTTAGG
*
1229111 GTTTAAG
1 GTTTAGG
*
1229118 ATTTAAGG
1 GTTT-AGG
1229126 G-TTAGGG
1 GTTTA-GG
* *
1229133 GTTAAGA
1 GTTTAGG
*
1229140 GTTGAGG
1 GTTTAGG
1229147 GTTTA-G
1 GTTTAGG
*
1229153 GTTTCATG
1 GTTT-AGG
*
1229161 GTTTATG
1 GTTTAGG
* *
1229168 TTTTATG
1 GTTTAGG
* *
1229175 ATTCAGG
1 GTTTAGG
1229182 GTTTAGG
1 GTTTAGG
* *
1229189 AGATGAGG
1 -GTTTAGG
1229197 G-TTAGG
1 GTTTAGG
1229203 AGTTTAGG
1 -GTTTAGG
1229211 GTTTAGG
1 GTTTAGG
1229218 GTTTAGG
1 GTTTAGG
1229225 TTAATTAGTT
Statistics
Matches: 172, Mismatches: 40, Indels: 32
0.70 0.16 0.13
Matches are distributed among these distances:
5 2 0.01
6 15 0.09
7 120 0.70
8 33 0.19
9 1 0.01
10 1 0.01
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:1233445 original size:43 final size:43
Alignment explanation
Indices: 1233215--1233442 Score: 314
Period size: 43 Copynumber: 5.3 Consensus size: 43
1233205 GAACGGTACT
*
1233215 TTTAGCGGTGTTTGTCATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGTTC
1233258 TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGTTC
*
1233301 TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGCTC
1 TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGTTC
* * ** * *
1233344 TGTAACGATGTTTGTACGT-AAAGCGCTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGT-CATAAAAGCGCCGCTAAAGGTCATGTTC
* * * * *
1233387 TTTAGCGGCATTTTTTATAAAAGCGCCGCTAAAGCTCATGCTC
1 TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGTTC
*
1233430 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
1233443 TTTCACATAA
Statistics
Matches: 161, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 158 0.98
44 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:1234910 original size:96 final size:94
Alignment explanation
Indices: 1234748--1235059 Score: 351
Period size: 96 Copynumber: 3.3 Consensus size: 94
1234738 GCTCTTTGCA
** * * * * * *
1234748 AAGAATATGTGAACTGTCAATGTATTATATGCGTGAATTATCTCTACAAAGTATGTACGAACTGT
1 AAGAATATGCAAACTGTCAATGTATTGTATGTGTGAACTGTCTCTGCAAAGTATGTGCGAACTGT
1234813 CATTGTATTGTATGCATGAGTTGTCTTTATG
66 CATTGTATTGTATGCATGA-TTGTCTTT-TG
* * *
1234844 AAGAATATGCAAACTGTCCATGTATTGTATGTGTGAACCGTCTCTGCAAAGTATGTGCGAATTGT
1 AAGAATATGCAAACTGTCAATGTATTGTATGTGTGAACTGTCTCTGCAAAGTATGTGCGAACTGT
*
1234909 CATTGTATTGTATGCATGATCTATC-TTTG
66 CATTGTATTGTATGCATGAT-TGTCTTTTG
* * * *
1234938 CAAAGAATATGCAAATTGTCAATGTATTGTATATGTCAACTGTCT-TAGCGAAGTATGTGCGAAC
1 --AAGAATATGCAAACTGTCAATGTATTGTATGTGTGAACTGTCTCT-GCAAAGTATGTGCGAAC
* *
1235002 TGTCACTGTATTGTATGCATGAACTGTC-TTTG
63 TGTCATTGTATTGTATGCATG-ATTGTCTTTTG
*
1235034 CACAGAATATGCAAACTGTCATTGTA
1 -A-AGAATATGCAAACTGTCAATGTA
1235060 AAGTATGAGT
Statistics
Matches: 185, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
94 2 0.01
95 5 0.03
96 177 0.96
97 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (94 bp):
AAGAATATGCAAACTGTCAATGTATTGTATGTGTGAACTGTCTCTGCAAAGTATGTGCGAACTGT
CATTGTATTGTATGCATGATTGTCTTTTG
Found at i:1235066 original size:48 final size:47
Alignment explanation
Indices: 1234740--1235059 Score: 227
Period size: 48 Copynumber: 6.7 Consensus size: 47
1234730 ATATGTGAGC
** * * * * *
1234740 TCTTTGCAAAGAATATGTGAACTGTCAATGTATTATATGCGTGAATTA
1 TCTTTGC-AAGAATATGCAAACTGTCATTGTATTGTATGCATGAACTG
* * * * **
1234788 TCTCTACAA-AGTATGTACGAACTGTCATTGTATTGTATGCATGAGTTG
1 TCTTTGCAAGAATATG--CAAACTGTCATTGTATTGTATGCATGAACTG
** *
1234836 TCTTTATG-AAGAATATGCAAACTGTCCA-TGTATTGTATGTGTGAACCG
1 TC-TT-TGCAAGAATATGCAAACTGT-CATTGTATTGTATGCATGAACTG
* * * * * * *
1234884 TCTCTGCAAAGTATGTGCGAATTGTCATTGTATTGTATGCATGATCTA
1 TCTTTGC-AAGAATATGCAAACTGTCATTGTATTGTATGCATGAACTG
* *
1234932 TCTTTGCAAAGAATATGCAAATTGTCAATGTATTGTAT--ATGTCAACTG
1 TCTTTGC-AAGAATATGCAAACTGTCATTGTATTGTATGCATG--AACTG
* * * * *
1234980 TCTTAGCGAAGTATGTGCGAACTGTCACTGTATTGTATGCATGAACTG
1 TCTTTGC-AAGAATATGCAAACTGTCATTGTATTGTATGCATGAACTG
1235028 TCTTTGCACAGAATATGCAAACTGTCATTGTA
1 TCTTTGCA-AGAATATGCAAACTGTCATTGTA
1235060 AAGTATGAGT
Statistics
Matches: 211, Mismatches: 47, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
46 10 0.05
47 6 0.03
48 181 0.86
49 5 0.02
50 9 0.04
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (47 bp):
TCTTTGCAAGAATATGCAAACTGTCATTGTATTGTATGCATGAACTG
Found at i:1243384 original size:14 final size:14
Alignment explanation
Indices: 1243346--1243388 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
1243336 CAAAATAAGC
1243346 ATTAAAATAAATTT
1 ATTAAAATAAATTT
* *
1243360 A--ATATTAAATTT
1 ATTAAAATAAATTT
1243372 ATTAAAATAAATTT
1 ATTAAAATAAATTT
1243386 ATT
1 ATT
1243389 TTTGGAATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTAAAATAAATTT
Done.