Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 8 of 24
Found at i:1089233 original size:17 final size:17
Alignment explanation
Indices: 1089211--1089264 Score: 99
Period size: 17 Copynumber: 3.2 Consensus size: 17
1089201 GGTTTTGCAA
1089211 TTTTCAAAATAAAAATC
1 TTTTCAAAATAAAAATC
*
1089228 TTTTCAAAATAGAAATC
1 TTTTCAAAATAAAAATC
1089245 TTTTCAAAATAAAAATC
1 TTTTCAAAATAAAAATC
1089262 TTT
1 TTT
1089265 CGCGGGCCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (17 bp):
TTTTCAAAATAAAAATC
Found at i:1089982 original size:155 final size:151
Alignment explanation
Indices: 1089790--1090254 Score: 491
Period size: 155 Copynumber: 3.0 Consensus size: 151
1089780 AACCCTAAAA
* * * * ** *
1089790 GACTTAAAAAGATCATAGATGGGATAAACCTATCCTAAATGCCCACTTTTAGCATAAAAACGGAC
1 GACTTAAAAAGATTATAAAAGGGATGAACCTATCCTAAATATCTAC-TTTAGCATAAAAACGGAC
* * * * *
1089855 CTAACGACAACCTAGGAGTTAGTTTTAAAAAATTACGAAAATGCCTCTAGAGGATACCCTTAATG
65 CTAACGACGACCTAGGAGTTGGTTTTAAAAAATTACGAAAATGCC-CTAG-GGATACCTTTGACG
1089920 TAAAAGTACCTAATACCCCTAAGG
128 TAAAAGTACCTAATACCCCTAAGG
* * *
1089944 GACTTAAAAATGATTATAAAAGGGATGAACCTATCCTAAATATCTACCTTCGACATAAAAACGAA
1 GACTTAAAAA-GATTATAAAAGGGATGAACCTATCCTAAATATCTACTTTAG-CATAAAAACGGA
* * *
1090009 CCTAACGATGACCTAGGAGTTGGTTTTAGAAAATTATGAAAATAGCCCTAGGGGATACCTTTGAC
64 CCTAACGACGACCTAGGAGTTGGTTTTAAAAAATTACGAAAAT-GCCCTA-GGGATACCTTTGAC
* * **
1090074 GTAAAAGTACTTAATATCCCTAAAA
127 GTAAAAGTACCTAATACCCCTAAGG
* * * * ** *
1090099 GATTTAAAAAAGATTTTAAAAGGGATGAACATGTCCTAAATATCTACCTTCGGCATAAATACGGA
1 GACTT-AAAAAGATTATAAAAGGGATGAACCTATCCTAAATATCTA-CTTTAGCATAAAAACGGA
* * * * *
1090164 CCCAACGACGACCTAGGAGTTGGATCTAAAAAA-TACAAAAATACCCCTAGGAGATACCTTTGAC
64 CCTAACGACGACCTAGGAGTTGGTTTTAAAAAATTACGAAAAT-GCCCTAGG-GATACCTTTGAC
* * *
1090228 ATAGAAGTACCTGATACCCCTAAGG
127 GTAAAAGTACCTAATACCCCTAAGG
1090253 GA
1 GA
1090255 TTTGAAAACA
Statistics
Matches: 258, Mismatches: 46, Indels: 14
0.81 0.14 0.04
Matches are distributed among these distances:
153 2 0.01
154 58 0.22
155 186 0.72
156 12 0.05
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (151 bp):
GACTTAAAAAGATTATAAAAGGGATGAACCTATCCTAAATATCTACTTTAGCATAAAAACGGACC
TAACGACGACCTAGGAGTTGGTTTTAAAAAATTACGAAAATGCCCTAGGGATACCTTTGACGTAA
AAGTACCTAATACCCCTAAGG
Found at i:1090707 original size:168 final size:165
Alignment explanation
Indices: 1090410--1090733 Score: 379
Period size: 168 Copynumber: 1.9 Consensus size: 165
1090400 TTTTTCTTGG
* * *
1090410 TTATGAAAGTGTTGATTTAATTTAATTTTATTTGTTTTCAAAAAATACCATTTCGTACCTTAATG
1 TTATGAAAGTATTAATTTAATTTAATTTTATTTATTTTCAAAAAATACCATTTCGTACCTTAATG
* ** * *
1090475 GAAACCTGAAAAGATACAAAAAGTTTTTGAAATTTTTATATCCTTATAGACCCCAATAGGAATA-
66 AAAACCTGAAAAGATACAAAAAGTTTTTGAAATTTTTATATCCCCACAGAACCCAATAGGAATAT
1090539 TAAAAGAT-TAAGAAAAATGATTAGTATTTATTTCAA
131 TAAAA-ATATAAG-AAAATGATTAGTATTTATTTCAA
* *
1090575 TTATGAAAGTATTAATTTAATTTAGTTTATTTATTTATTTTCAGAAAATACCATTTCGTACCTTA
1 TTATGAAAGTATTAATTTAATTTA--AT-TTTATTTATTTTCAAAAAATACCATTTCGTACCTTA
* ** * * *
1090640 ATGAAAATCTGAAAAGATATGAAAAGTTTTT-AAATATTTCTATA-CCCCACGGATACCC-GTGG
63 ATGAAAACCTGAAAAGATACAAAAAGTTTTTGAAAT-TTT-TATATCCCCACAGA-ACCCAATAG
* *
1090702 GAATATTAGAAATATATGAAAATGATTAGTAT
125 GAATATTAAAAATATAAGAAAATGATTAGTAT
1090734 GAAGATATTT
Statistics
Matches: 133, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
165 22 0.17
167 5 0.04
168 92 0.69
169 14 0.11
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (165 bp):
TTATGAAAGTATTAATTTAATTTAATTTTATTTATTTTCAAAAAATACCATTTCGTACCTTAATG
AAAACCTGAAAAGATACAAAAAGTTTTTGAAATTTTTATATCCCCACAGAACCCAATAGGAATAT
TAAAAATATAAGAAAATGATTAGTATTTATTTCAA
Found at i:1091239 original size:168 final size:167
Alignment explanation
Indices: 1090945--1091288 Score: 424
Period size: 168 Copynumber: 2.1 Consensus size: 167
1090935 TTTTGCAAAA
* * * * ** *
1090945 TAGTTCCTAAACTTTTTAAATTTGTATTTTCATCCTTAATCACATAAAAATAAACTATCAAGACA
1 TAGTCCCTAAACTTTTCAAATTTGCATTTTAATCCCAAATAACATAAAAATAAACTATCAAGACA
* * * * * * * *
1091010 TGAAATTAGTTCGAAATCAGTAGCCAAACATGGAAAAAATCCATATCAACATTCTGCCAAGCATG
66 TGAAATAACTTAGAAATCAGCAACCAAACATGGAAAAAAGCCATATCAACATTCGGCCAAGCATA
* * *
1091075 GATTATTTAAAGAAAAGTTTTTAGGTTTTTTTACAATT
131 GATCATTCAAAGAAAA-TTTTTAGGGTTTTTTACAATT
1091113 TAGTCCCTAAACTTTTCAAATTTGCATTTTAATCCCAAATAACATAAAAATACAA-TATCAAGAC
1 TAGTCCCTAAACTTTTCAAATTTGCATTTTAATCCCAAATAACATAAAAATA-AACTATCAAGAC
* * *
1091177 ATGAAATCAACTTAG-AATTAGCAACCAAACATGGCAAAAAGCC-TCATCAATATTCGGCCAAGC
65 ATGAAAT-AACTTAGAAATCAGCAACCAAACATGGAAAAAAGCCAT-ATCAACATTCGGCCAAGC
* *
1091240 ATAGATCATTCAAAGAAAATTTTTTGGGTTTTTTGCAATT
128 ATAGATCATTCAAAGAAAATTTTTAGGGTTTTTTACAATT
1091280 TAGTCCCTA
1 TAGTCCCTA
1091289 TGTTTTCAAA
Statistics
Matches: 150, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
167 28 0.19
168 116 0.77
169 6 0.04
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.33
Consensus pattern (167 bp):
TAGTCCCTAAACTTTTCAAATTTGCATTTTAATCCCAAATAACATAAAAATAAACTATCAAGACA
TGAAATAACTTAGAAATCAGCAACCAAACATGGAAAAAAGCCATATCAACATTCGGCCAAGCATA
GATCATTCAAAGAAAATTTTTAGGGTTTTTTACAATT
Found at i:1092330 original size:167 final size:166
Alignment explanation
Indices: 1092107--1092463 Score: 412
Period size: 167 Copynumber: 2.1 Consensus size: 166
1092097 GTTTAAAAAC
* * ** * * **
1092107 AATATTAGATGAATTTTAAAAATTTTAAATCAAGAAAAATTCATCCAAAAATATTTACGGAGTAG
1 AATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATTCACCCAAAAATATTTACAAAGTAG
* * * * *
1092172 AAAAGTCAGT-TTCTCGGAAACAAAAGAATTTTGAA-TAAAAAATTCAAAACTCATGAAAATAAA
66 AAAACTCAGTATT-TCAGAAA-AAAAGAAATTTCAAGGAAAAAATTCAAAACTCATGAAAATAAA
* * * *
1092235 TTAATTTTTTAAAACTGATTTAATATAAATTAAATAAT
129 TGAATTTTTGAAAACTGAATTAATATAAATCAAATAAT
* * * * *
1092273 GATATTTGATCAATTTTAAAAATTAAAAACCAAGAAATATCTCCCCCGAAAATATTTACAAAGTA
1 AATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAAT-TCACCCAAAAATATTTACAAAGTA
* * ** * * *
1092338 GAAAACTCTGTATTTCAGAAATAGGGAAATTTCAAGGAAAAATTTTAAAACTCATGAAAATGAAT
65 GAAAACTCAGTATTTCAGAAAAAAAGAAATTTCAAGGAAAAAATTCAAAACTCATGAAAATAAAT
1092403 GAATTTTTGAAAACTGAATTAATATAAATCAAATAAT
130 GAATTTTTGAAAACTGAATTAATATAAATCAAATAAT
1092440 AATATTTGATAAATTTTAAAAATT
1 AATATTTGATAAATTTTAAAAATT
1092464 TTAAACTGAT
Statistics
Matches: 158, Mismatches: 30, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
166 42 0.27
167 114 0.72
168 2 0.01
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.32
Consensus pattern (166 bp):
AATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATTCACCCAAAAATATTTACAAAGTAG
AAAACTCAGTATTTCAGAAAAAAAGAAATTTCAAGGAAAAAATTCAAAACTCATGAAAATAAATG
AATTTTTGAAAACTGAATTAATATAAATCAAATAAT
Found at i:1096493 original size:129 final size:130
Alignment explanation
Indices: 1096351--1096667 Score: 343
Period size: 129 Copynumber: 2.4 Consensus size: 130
1096341 GAGATAACAA
* * * *
1096351 CGGGGCTGAAGTATCCCCAATTATGGAAAATTGGTGTTCTGGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTCTAGAAATAAAATCGGGGTTGAAGTAT
** *
1096416 CCCCTCGAAAATAACAGGATTGGAGTATCCCTGATTAT-AAAAATCGATATTTT-GAAAATGAAA
66 CCCCTCGAAAATAACAGGATTGGAGTATCCCCAATTATGAAAAATCGATATTTTAG-AAATAAAA
1096479 T
130 T
* * * * * *
1096480 CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGATTC-AGAAATAAGACCGGGGTTGAAGTA
1 CGGGGTTGGAGTATCCCCAATTATGGAAAATTGGTG-TTCTAGAAATAAAATCGGGGTTGAAGTA
* * ** * * * * *
1096544 TCCCCTTGGAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTAGAAATAAAA
65 TCCCCTCGAAAATAACAGGATTGGAGTATCCCCAATTATGAAAAATCGATATTTTAGAAATAAAA
1096609 T
130 T
* * * * * *
1096610 CGGAGTTGGAGTATCCCCGATTATGGAAAATTGGTATTTTAGAAGTAAAATCGAGGTT
1 CGGGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTCTAGAAATAAAATCGGGGTT
1096668 ATCCCCGATG
Statistics
Matches: 150, Mismatches: 34, Indels: 7
0.79 0.18 0.04
Matches are distributed among these distances:
129 83 0.55
130 66 0.44
131 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTCTAGAAATAAAATCGGGGTTGAAGTAT
CCCCTCGAAAATAACAGGATTGGAGTATCCCCAATTATGAAAAATCGATATTTTAGAAATAAAAT
Found at i:1096575 original size:79 final size:79
Alignment explanation
Indices: 1096481--1096627 Score: 222
Period size: 79 Copynumber: 1.9 Consensus size: 79
1096471 AAATGAAATC
* *
1096481 GGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGATTCAGAAATAAGACCGGGGTTGAAGTATC
1 GGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGATTCAGAAATAAAACCGGAGTTGAAGTATC
1096546 CCCTTGGAAATAAT
66 CCCTTGGAAATAAT
* * * * * *
1096560 GGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGAGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGATTCAGAAATAAAACCGGAGTTGAAGTATC
1096625 CCC
66 CCC
1096628 GATTATGGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 60 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.27
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGATTCAGAAATAAAACCGGAGTTGAAGTATC
CCCTTGGAAATAAT
Found at i:1096625 original size:51 final size:51
Alignment explanation
Indices: 1096563--1096662 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
1096553 AAATAATGGG
* *
1096563 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTATGAAAAATTGGTATTTTAGAAATAAAATCGGA
* * *
1096614 GTTGGAGTATCCCCGATTATGGAAAATTGGTATTTTAGAAGTAAAATCG
1 GTTGGAGTATCCCCAATTATGAAAAATTGGTATTTTAGAAATAAAATCG
1096663 AGGTTATCCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTATGAAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:1099275 original size:13 final size:13
Alignment explanation
Indices: 1099259--1099289 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1099249 ATACAATGAG
1099259 CAATGTATCGATA
1 CAATGTATCGATA
1099272 CAATGTATCGATA
1 CAATGTATCGATA
*
1099285 TAATG
1 CAATG
1099290 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1099282 original size:33 final size:33
Alignment explanation
Indices: 1099240--1099309 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
1099230 AAAATGCCTG
1099240 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
* *
1099273 AATGTATCGATATAATGAGCAATGTATTGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
1099306 AATG
1 AATG
1099310 CAAAATGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:1099383 original size:20 final size:20
Alignment explanation
Indices: 1099353--1099409 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
1099343 ATATATCGAT
*
1099353 ACAACGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
1099373 GCAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
1099393 ATAATGTATCGATACAA
1 ACAATGTATCGATACAA
1099410 ATTATGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:1100193 original size:42 final size:45
Alignment explanation
Indices: 1100139--1100274 Score: 140
Period size: 45 Copynumber: 3.1 Consensus size: 45
1100129 CGAGGACAAT
* *
1100139 GGAAAAAAGGAAAATGAAATGTGTCCTGCTCCTTGAGGATAAAA-
1 GGAAAGAAGGAAAATGAAATGTGTCCTGCTCTTTGAGGATAAAAG
* *
1100183 GG-AAG-AGGAAAAT-AAA-GTGCATCCTACTCTTTGAGGACAAAAG
1 GGAAAGAAGGAAAATGAAATGTG--TCCTGCTCTTTGAGGATAAAAG
* * *
1100226 GGAAAAGAAGG-GAATGAAGTGTGTCCTGCTCTTTGAGGATAAGAG
1 GG-AAAGAAGGAAAATGAAATGTGTCCTGCTCTTTGAGGATAAAAG
1100271 GGAA
1 GGAA
1100275 TAAAGTGCAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
40 3 0.04
41 3 0.04
42 26 0.35
43 4 0.05
44 4 0.05
45 27 0.36
46 5 0.07
47 3 0.04
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.20
Consensus pattern (45 bp):
GGAAAGAAGGAAAATGAAATGTGTCCTGCTCTTTGAGGATAAAAG
Found at i:1100263 original size:87 final size:78
Alignment explanation
Indices: 1100052--1100300 Score: 222
Period size: 87 Copynumber: 3.1 Consensus size: 78
1100042 GTCTTGCTCC
* ** * * * *
1100052 TTGAGGACAAAGGAAAAAAGGAAAGGGAAATGT-T-CTACTTCTTGAGGACAA-AGTGAA-AAAG
1 TTGAGGACAAGGGAAAAAAGGAAAATGAAATGTGTCCTGCTCCTTGAGGATAAGAGGGAATAAAG
* *
1100113 AGTATGTCCTACT-T
66 TGCA--TCCTACTCT
*
1100127 TTCGAGGACAATGGAAAAAAGGAAAATGAAATGTGTCCTGCTCCTTGAGGATAAAAGGAAGAGGA
1 TT-GAGGACAAGGGAAAAAAGGAAAATGAAATGTGTCCTGCTCCTTGAGGAT--AA-G-AG-GG-
1100192 AAATAAAGTGCATCCTACTCT
59 -AATAAAGTGCATCCTACTCT
* * *
1100213 TTGAGGACAAAAGGGAAAAGAAGG-GAATGAAGTGTGTCCTGCTCTTTGAGGATAAGAGGGAATA
1 TTGAGGAC--AAGGGAAAA-AAGGAAAATGAAATGTGTCCTGCTCCTTGAGGATAAGAGGGAATA
1100277 AAGTGCATCCTACTCT
63 AAGTGCATCCTACTCT
1100293 TTGAGGAC
1 TTGAGGAC
1100301 TAGGAGGTGC
Statistics
Matches: 145, Mismatches: 13, Indels: 27
0.78 0.07 0.15
Matches are distributed among these distances:
75 2 0.01
76 28 0.19
77 1 0.01
78 12 0.08
80 30 0.21
82 2 0.01
83 4 0.03
84 2 0.01
85 15 0.10
86 5 0.03
87 40 0.28
88 4 0.03
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (78 bp):
TTGAGGACAAGGGAAAAAAGGAAAATGAAATGTGTCCTGCTCCTTGAGGATAAGAGGGAATAAAG
TGCATCCTACTCT
Found at i:1100292 original size:80 final size:83
Alignment explanation
Indices: 1100119--1100300 Score: 225
Period size: 87 Copynumber: 2.2 Consensus size: 83
1100109 AAAGAGTATG
*
1100119 TCCTACT-TTTCGAGGACAATGGAAAAAAGGAAAATGAAATGTGTCCTGCTCCTTGAGGATAAAA
1 TCCTACTCTTT-GAGGACAAGGGAAAAAAGGAAAATGAAATGTGTCCTGCTCCTTGAGGAT-AAA
1100183 GGAAGAGGAAAATAAAGTGCA
64 GGAAGAGG-AAATAAAGTGCA
* * *
1100204 TCCTACTCTTTGAGGACAAAAGGGAAAAGAAGG-GAATGAAGTGTGTCCTGCTCTTTGAGGAT-A
1 TCCTACTCTTTGAGGAC--AAGGGAAAA-AAGGAAAATGAAATGTGTCCTGCTCCTTGAGGATAA
1100267 A-G-AG-GG-AATAAAGTGCA
63 AGGAAGAGGAAATAAAGTGCA
1100284 TCCTACTCTTTGAGGAC
1 TCCTACTCTTTGAGGAC
1100301 TAGGAGGTGC
Statistics
Matches: 89, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
80 28 0.31
82 2 0.02
83 2 0.02
84 1 0.01
85 15 0.17
86 3 0.03
87 34 0.38
88 4 0.04
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.23
Consensus pattern (83 bp):
TCCTACTCTTTGAGGACAAGGGAAAAAAGGAAAATGAAATGTGTCCTGCTCCTTGAGGATAAAGG
AAGAGGAAATAAAGTGCA
Found at i:1100412 original size:61 final size:60
Alignment explanation
Indices: 1100284--1101603 Score: 1309
Period size: 55 Copynumber: 22.2 Consensus size: 60
1100274 ATAAAGTGCA
* * *
1100284 TCCTACTCTTTGAGGACT-AGGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
* * *
1100345 CCCTGCTCTTTGAGGACT-AAAGGTGCCACCAAATTGTGT-GGCTTTAAAAAGAAAAAAAGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAAGGCG
* * *
1100406 TCCTGCTCTTTGACGACTGGAAGGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * *
1100467 TCCTGCTCTTTAAGGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-G--AAAAGGCG
* *
1100529 TCTTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAAGGCG
* * * *
1100591 TCATGCTCTTTGAGGACTG-AAGAGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAG-GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
*
1100652 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG---AAAAGGCG
* * * * ** * *
1100715 TCCTACTCTTTGAGGACTGGAGGGTGCCACCAACTTGTGTGGCCTTGGAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* **
1100775 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
*
1100836 TCCTACTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG---A--CG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
1100890 TCCTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT----G-AAAGACA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
1100945 TCCTCCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGTCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
* * *
1101006 TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTATGTGGGCTTT---AG--AAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
1101060 TCCTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT----G-AATGGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
1101115 TCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
1101170 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGAGCTTT-----AAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
1101225 TCTTGCTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTGT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
1101280 TCCTGCTCTTTGAAGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * * * * *
1101341 TCCTACTCTTTGAGGAGTAAAAAAGTGCCACCAACTTGTGTGTAGGCTTTGAAAGGCAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTG--GGCTTT-AAAAGAAAAGGCG
* *
1101405 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * *
1101466 TCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * * * * *
1101527 TCATGTTCTTTGAGGACTG-AAGATGCCACCAGCTTGTGTGAGCTTTAAAAAGAAAAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAAGGCG
*
1101589 TCTTGCTCTTTGAGG
1 TCCTGCTCTTTGAGG
1101604 GCTAGAAGGG
Statistics
Matches: 1091, Mismatches: 120, Indels: 95
0.84 0.09 0.07
Matches are distributed among these distances:
51 1 0.00
53 1 0.00
54 48 0.04
55 269 0.25
56 11 0.01
57 1 0.00
59 12 0.01
60 214 0.20
61 253 0.23
62 132 0.12
63 90 0.08
64 59 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:1107901 original size:78 final size:77
Alignment explanation
Indices: 1107779--1108076 Score: 304
Period size: 79 Copynumber: 3.8 Consensus size: 77
1107769 ACAACGGGGC
* * *
1107779 TGGAGTATCCCCGATTATGGAAAAT-TGGTGTTTCAGAAATAAATCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATCT-GTATTTTAGAAATAAATCGGGGTTGGAGTATCCCCTC
1107843 GGAAATAACAGGGT
65 GGAAATAAC-GGGT
* **
1107857 TAGAGTATCCGTGATTAT-AAAAATCTGTATTTT-GAAAATGAAATCGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTATGAAAAATCTGTATTTTAG-AAAT-AAATCGGGGTTGGAGTATCCCCT
*
1107920 CGAAAATAACGGAGT
64 CGGAAATAACGG-GT
* ** *
1107935 TGGAGTATCCCCGATTATGAAAAATC-G-ATGATTCAGAAATAAGGCCGGGGTTGAAGTATCCCC
1 TGGAGTATCCCCGATTATGAAAAATCTGTAT--TTTAGAAATAA-ATCGGGGTTGGAGTATCCCC
*
1107998 AT-AGAAATAACGGGGT
63 -TCGGAAATAAC-GGGT
* * *
1108014 TGGAGTATCCCCAATTATGAAAAAT-TGGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCC
1 TGGAGTATCCCCGATTATGAAAAATCT-GTATTTTAGAAAT-AAATCGGGGTTGGAGTATCCCC
1108077 GATTGTGGAA
Statistics
Matches: 182, Mismatches: 23, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
76 1 0.01
77 18 0.10
78 68 0.37
79 87 0.48
80 7 0.04
81 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (77 bp):
TGGAGTATCCCCGATTATGAAAAATCTGTATTTTAGAAATAAATCGGGGTTGGAGTATCCCCTCG
GAAATAACGGGT
Found at i:1108072 original size:51 final size:51
Alignment explanation
Indices: 1108010--1108127 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
1108000 AGAAATAACG
*
1108010 GGGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTTAGAAATAAAATC-
1 GGGTTGGAGTATCCCCAATTATGAAAAATTGGTATTTTAGAAATAAAATCA
* * * *
1108060 GGAGTTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAGTAAAATCA
1 GG-GTTGGAGTATCCCCAATTATGAAAAATTGGTATTTTAGAAATAAAATCA
1108112 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1108128 TCGGAAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
50 2 0.03
51 57 0.93
52 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAATTATGAAAAATTGGTATTTTAGAAATAAAATCA
Found at i:1108222 original size:108 final size:108
Alignment explanation
Indices: 1108110--1108374 Score: 413
Period size: 108 Copynumber: 2.5 Consensus size: 108
1108100 GAAGTAAAAT
*
1108110 CAGGGTTGGAGTATCCCCTCGGAAATAATGGGACTAGAGTATCTCCGATGAAATAACGGGGTTAG
1 CAGGGTTGGAGTATCCCCTCGGAAATAATGGGACTAGAGTATCCCCGATGAAATAACGGGGTTAG
*
1108175 AGTACCCCCGATTATGAAAAAATAATATGTTTAGATATAAAGC
66 AGTACCCCCAATTATGAAAAAATAATATGTTTAGATATAAAGC
*
1108218 CAGGGTTAGAGTATCCCCTCGGAAATAATGGGACTAGAGTATCCCCGATGAAATAACGGGGTTAG
1 CAGGGTTGGAGTATCCCCTCGGAAATAATGGGACTAGAGTATCCCCGATGAAATAACGGGGTTAG
* * * *
1108283 ATTATCCTCAATTATGAAAAAATAATATTTTTAGATATAAAGC
66 AGTACCCCCAATTATGAAAAAATAATATGTTTAGATATAAAGC
* * * ** *
1108326 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGAT
1 CAGGGTTGGAGTATCCCCTCGGAAATAATGGGACTAGAGTATCCCCGAT
1108375 TAAGAAAAAT
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 143 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (108 bp):
CAGGGTTGGAGTATCCCCTCGGAAATAATGGGACTAGAGTATCCCCGATGAAATAACGGGGTTAG
AGTACCCCCAATTATGAAAAAATAATATGTTTAGATATAAAGC
Found at i:1108283 original size:28 final size:28
Alignment explanation
Indices: 1108220--1108289 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
1108210 TATAAAGCCA
** *
1108220 GGGTTAGAGTATCCCCTCGGAAATAATG
1 GGGTTAGAGTATCCCCGAGGAAATAACG
** *
1108248 GGACTAGAGTATCCCCGATGAAATAACG
1 GGGTTAGAGTATCCCCGAGGAAATAACG
*
1108276 GGGTTAGATTATCC
1 GGGTTAGAGTATCC
1108290 TCAATTATGA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (28 bp):
GGGTTAGAGTATCCCCGAGGAAATAACG
Found at i:1108338 original size:80 final size:78
Alignment explanation
Indices: 1108254--1108426 Score: 193
Period size: 80 Copynumber: 2.2 Consensus size: 78
1108244 AATGGGACTA
* * * * *
1108254 GAGTATCCCCGATGAAATAACGGGGTTAGATTATCCTCAATTATGAAAAAATAATATTTTTAGAT
1 GAGTATCCCCGA-GAAATAACGGGGTTAGAGTATCCCCAATTAAGAAAAAATAA-AGTTTTAGAA
1108319 ATAAAGCCGGGGTTG
64 ATAAAGCCGGGGTTG
* * * * * * *
1108334 GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTAAGAAAAATTGACGTTTTGGAAA
1 GAGTATCCCC-GAGAAATAACGGGGTTAGAGTATCCCCAATTAAGAAAAAATAAAGTTTTAGAAA
**
1108399 TGGAGCCGGGGTTG
65 TAAAGCCGGGGTTG
1108413 GAGTATCCCCGAGA
1 GAGTATCCCCGAGA
1108427 TGAAAAATCT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 3 0.04
79 29 0.38
80 44 0.57
81 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (78 bp):
GAGTATCCCCGAGAAATAACGGGGTTAGAGTATCCCCAATTAAGAAAAAATAAAGTTTTAGAAAT
AAAGCCGGGGTTG
Found at i:1116058 original size:13 final size:13
Alignment explanation
Indices: 1116040--1116065 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1116030 TACACCAAGT
1116040 ATGTATCGATACA
1 ATGTATCGATACA
1116053 ATGTATCGATACA
1 ATGTATCGATACA
1116066 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1122261 original size:13 final size:13
Alignment explanation
Indices: 1122243--1122281 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1122233 ACATTTTTCT
1122243 TTGTATCGATACA
1 TTGTATCGATACA
1122256 TTGTATCGATACA
1 TTGTATCGATACA
*
1122269 CTGTATCGATACA
1 TTGTATCGATACA
1122282 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1122744 original size:20 final size:20
Alignment explanation
Indices: 1122721--1122775 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1122711 GGCAGCACCA
1122721 CCAGGTCGCGACCGGCACTC
1 CCAGGTCGCGACCGGCACTC
1122741 CCAGGTCGCGACCGGCACTC
1 CCAGGTCGCGACCGGCACTC
*
1122761 CCAGGTCGCAACCGG
1 CCAGGTCGCGACCGG
1122776 GCAGTCCCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.16, C:0.44, G:0.31, T:0.09
Consensus pattern (20 bp):
CCAGGTCGCGACCGGCACTC
Found at i:1124878 original size:13 final size:13
Alignment explanation
Indices: 1124860--1124885 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1124850 TACACCAAGT
1124860 ATGTATCGATACA
1 ATGTATCGATACA
1124873 ATGTATCGATACA
1 ATGTATCGATACA
1124886 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1124883 original size:32 final size:33
Alignment explanation
Indices: 1124842--1124905 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1124832 TAGCTAAACT
**
1124842 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
1124874 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1124906 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1136616 original size:19 final size:19
Alignment explanation
Indices: 1136592--1136641 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1136582 ATTGATACAA
1136592 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1136611 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
1136630 TGTATCGATACA
1 TGTATCGATACA
1136642 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1142062 original size:20 final size:20
Alignment explanation
Indices: 1142037--1142076 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1142027 CGCCGTCATA
1142037 GCCTTTTTCTTTGGCTTATT
1 GCCTTTTTCTTTGGCTTATT
1142057 GCCTTTTTCTTTGGCTTATT
1 GCCTTTTTCTTTGGCTTATT
1142077 TAAATTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.05, C:0.20, G:0.15, T:0.60
Consensus pattern (20 bp):
GCCTTTTTCTTTGGCTTATT
Found at i:1143903 original size:13 final size:13
Alignment explanation
Indices: 1143885--1143920 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1143875 ACTTTTTACT
*
1143885 ATGTATCGATACA
1 ATGTATCCATACA
1143898 ATGTATCCATACA
1 ATGTATCCATACA
1143911 ATGTA-CCATA
1 ATGTATCCATA
1143921 TATCGATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (13 bp):
ATGTATCCATACA
Found at i:1144057 original size:20 final size:22
Alignment explanation
Indices: 1144034--1144076 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
1144024 CAAAGCAAAA
1144034 TGTATCGATAC-TTCT-GGGTT
1 TGTATCGATACTTTCTAGGGTT
1144054 TGTATCGATACTTTCTAGGGTT
1 TGTATCGATACTTTCTAGGGTT
1144076 T
1 T
1144077 TGACCTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.16, C:0.14, G:0.23, T:0.47
Consensus pattern (22 bp):
TGTATCGATACTTTCTAGGGTT
Found at i:1145958 original size:33 final size:32
Alignment explanation
Indices: 1145920--1146149 Score: 229
Period size: 33 Copynumber: 7.2 Consensus size: 32
1145910 ACTCTTCCCA
* *
1145920 AAGTCCATGACTCACTGGCATCATTTTTCTTCC
1 AAGTCCACGACTCAATGGCATC-TTTTTCTTCC
*
1145953 AAGTCCACAACTCAATGGCATCCTTTTTCTTCC
1 AAGTCCACGACTCAATGGCAT-CTTTTTCTTCC
* *
1145986 AAGTCCACAACTCAATGGCATC-TCTT-TTCC
1 AAGTCCACGACTCAATGGCATCTTTTTCTTCC
* *
1146016 AAGTCCATGACTCAATGGCATCCTTTTTCTTTC
1 AAGTCCACGACTCAATGGCAT-CTTTTTCTTCC
* *
1146049 AAGTCCACGACTTAGTGGCATC-TTTT-TTCC
1 AAGTCCACGACTCAATGGCATCTTTTTCTTCC
* ** *
1146079 AAGTCTACGACTCAGGGGCATCCTTTTTCTTCG
1 AAGTCCACGACTCAATGGCAT-CTTTTTCTTCC
* * * *
1146112 AAATCCATGACTCAGTGGCATC-TCTTC-TCC
1 AAGTCCACGACTCAATGGCATCTTTTTCTTCC
1146142 AAGTCCAC
1 AAGTCCAC
1146150 CATTTTTCTT
Statistics
Matches: 166, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
30 52 0.31
31 13 0.08
32 10 0.06
33 90 0.54
34 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.33
Consensus pattern (32 bp):
AAGTCCACGACTCAATGGCATCTTTTTCTTCC
Found at i:1146020 original size:96 final size:94
Alignment explanation
Indices: 1145920--1146149 Score: 254
Period size: 96 Copynumber: 2.4 Consensus size: 94
1145910 ACTCTTCCCA
*
1145920 AAGTCCATGACTCACTGGCATCATTTTTCTTCCAAGTCCACAACTCAATGGCATCCTTTTTCTTC
1 AAGTCCATGACTCAATGGCATC-TTTTTCTTCCAAGTCCACAACTCAATGGCAT-C-TTTT-TTC
*
1145985 CAAGTCCACAACTCAATGGCAT-CTCTTTTC-C-
62 CAAGTCCACAACTCAAGGGCATCCT-TTTTCTCG
* * * *
1146016 AAGTCCATGACTCAATGGCATCCTTTTTCTTTCAAGTCCACGACTTAGTGGCATCTTTTTTCCAA
1 AAGTCCATGACTCAATGGCAT-CTTTTTCTTCCAAGTCCACAACTCAATGGCATCTTTTTTCCAA
* * *
1146081 GTCTACGACTCAGGGGCATCCTTTTTCTTCG
65 GTCCACAACTCAAGGGCATCCTTTTTC-TCG
* * *
1146112 AAATCCATGACTCAGTGGCATC-TCTTC-TCCAAGTCCAC
1 AAGTCCATGACTCAATGGCATCTTTTTCTTCCAAGTCCAC
1146150 CATTTTTCTT
Statistics
Matches: 116, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
93 36 0.31
94 10 0.09
95 3 0.03
96 66 0.57
97 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.33
Consensus pattern (94 bp):
AAGTCCATGACTCAATGGCATCTTTTTCTTCCAAGTCCACAACTCAATGGCATCTTTTTTCCAAG
TCCACAACTCAAGGGCATCCTTTTTCTCG
Found at i:1146037 original size:63 final size:63
Alignment explanation
Indices: 1145920--1146149 Score: 280
Period size: 63 Copynumber: 3.6 Consensus size: 63
1145910 ACTCTTCCCA
* * * *
1145920 AAGTCCATGACTCACTGGCATCATTTTTCTTCCAAGTCCACAACTCAATGGCATCCTTTTTCTTC
1 AAGTCCACGACTCAGTGGCATC--TCTT-TTCCAAGTCCACGACTCAATGGCATCCTTTTTCTTC
1145985 C
63 C
* * * *
1145986 AAGTCCACAACTCAATGGCATCTCTTTTCCAAGTCCATGACTCAATGGCATCCTTTTTCTTTC
1 AAGTCCACGACTCAGTGGCATCTCTTTTCCAAGTCCACGACTCAATGGCATCCTTTTTCTTCC
* * * ** *
1146049 AAGTCCACGACTTAGTGGCATCTTTTTTCCAAGTCTACGACTCAGGGGCATCCTTTTTCTTCG
1 AAGTCCACGACTCAGTGGCATCTCTTTTCCAAGTCCACGACTCAATGGCATCCTTTTTCTTCC
* * *
1146112 AAATCCATGACTCAGTGGCATCTCTTCTCCAAGTCCAC
1 AAGTCCACGACTCAGTGGCATCTCTTTTCCAAGTCCAC
1146150 CATTTTTCTT
Statistics
Matches: 141, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
63 119 0.84
64 3 0.02
66 19 0.13
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.33
Consensus pattern (63 bp):
AAGTCCACGACTCAGTGGCATCTCTTTTCCAAGTCCACGACTCAATGGCATCCTTTTTCTTCC
Found at i:1146371 original size:102 final size:102
Alignment explanation
Indices: 1146207--1146476 Score: 314
Period size: 102 Copynumber: 2.6 Consensus size: 102
1146197 ACAACTCTGC
* * *
1146207 GACACCTTTTTCTTTTCAAAGCCCATAACTTTAGGGCATCTTTTTTTCCTTTTAAGTTCACAACT
1 GACACCTTTTTCTTTTCAAAGCCCACAACTCTAGGGCATC-TTTTTTCCTTTTAAGTCCACAACT
*** * *
1146272 TTGTGGCA-TCTTTTTC-TTTCAAAGCCCAAAACTCTAT
65 CCATGGCACT-TTTTTCTTTTCAAAGACCAAAACTCCAT
* * * * *
1146309 GGCACTTTTTTTCTTTTCAAAGCCTGA-AACTCTGGGGCATCCTTTTTCCTTTTAAGTCCACAAC
1 GACAC-CTTTTTCTTTTCAAAGCC-CACAACTCTAGGGCATCTTTTTTCCTTTTAAGTCCACAAC
* *
1146373 TCCATGGCACTTTTTTCTTTTCAAAGACCACAACTCCGT
64 TCCATGGCACTTTTTTCTTTTCAAAGACCAAAACTCCAT
* * *
1146412 GACACCTTTTTCTTTTCAGAGCCCACAACTCCAAGGCAT-TTTTTTCCTTTTAAGTCCACAACTC
1 GACACCTTTTTCTTTTCAAAGCCCACAACTCTAGGGCATCTTTTTTCCTTTTAAGTCCACAACTC
1146476 C
66 C
1146477 GTGGTACCCT
Statistics
Matches: 141, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
101 26 0.18
102 63 0.45
103 51 0.36
104 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.39
Consensus pattern (102 bp):
GACACCTTTTTCTTTTCAAAGCCCACAACTCTAGGGCATCTTTTTTCCTTTTAAGTCCACAACTC
CATGGCACTTTTTTCTTTTCAAAGACCAAAACTCCAT
Found at i:1146404 original size:34 final size:34
Alignment explanation
Indices: 1146213--1146555 Score: 178
Period size: 34 Copynumber: 10.3 Consensus size: 34
1146203 CTGCGACACC
* ** *
1146213 TTTTTCTTTTCAAAGCCCATAACTTTAGGGCATCTT
1 TTTTTCTTTTCAAAGCCCACAACTCCATGGCA-C-T
** ***
1146249 TTTTTCCTTTT--AAGTTCACAACTTTGTGGCA-T
1 TTTTT-CTTTTCAAAGCCCACAACTCCATGGCACT
* *
1146281 CTTTTTC-TTTCAAAGCCCAAAACTCTATGGCACTT
1 -TTTTTCTTTTCAAAGCCCACAACTCCATGGCAC-T
* ***
1146316 TTTTTCTTTTCAAAGCCTGA-AACTCTGGGGCATCCT
1 TTTTTCTTTTCAAAGCC-CACAACTCCATGGCA--CT
* *
1146352 TTTTCCTTTT--AAGTCCACAACTCCATGGCACT
1 TTTTTCTTTTCAAAGCCCACAACTCCATGGCACT
* * * *
1146384 TTTTTCTTTTCAAAGACCACAACTCCGTGACACC
1 TTTTTCTTTTCAAAGCCCACAACTCCATGGCACT
* * *
1146418 TTTTTCTTTTCAGAGCCCACAACTCCAAGGCATT
1 TTTTTCTTTTCAAAGCCCACAACTCCATGGCACT
* * *
1146452 TTTTTCCTTTT--AAGTCCACAACTCCGTGGTAC-
1 TTTTT-CTTTTCAAAGCCCACAACTCCATGGCACT
* * **
1146484 ----CCTTTT--AAGTCCACAACTCTGTGGCACCT
1 TTTTTCTTTTCAAAGCCCACAACTCCATGGCA-CT
* *
1146513 TTTTTCTTTTCAAAGCCCAAAACTCCATGGCACC
1 TTTTTCTTTTCAAAGCCCACAACTCCATGGCACT
*
1146547 ATTTTCTTT
1 TTTTTCTTT
1146556 AAGTCCATAA
Statistics
Matches: 238, Mismatches: 47, Indels: 46
0.72 0.14 0.14
Matches are distributed among these distances:
27 23 0.10
28 1 0.00
31 3 0.01
32 13 0.05
33 41 0.17
34 78 0.33
35 57 0.24
36 16 0.07
37 6 0.03
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (34 bp):
TTTTTCTTTTCAAAGCCCACAACTCCATGGCACT
Found at i:1146487 original size:27 final size:27
Alignment explanation
Indices: 1146457--1146516 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
1146447 GCATTTTTTT
*
1146457 CCTTTTAAGTCCACAACTCCGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
1146484 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
1146511 CTTTTT
1 CCTTTT
1146517 TCTTTTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:1146488 original size:68 final size:68
Alignment explanation
Indices: 1146185--1146489 Score: 231
Period size: 68 Copynumber: 4.5 Consensus size: 68
1146175 TCCGTGGCAC
* * ** *
1146185 CCTTTTAAATCCACAACT-C-TGCGACACCTTTTTCTTTTCAAAGCCCATAACTTTAGGGCATCT
1 CCTTTTAAGTCCACAACTCCGTG-GAC-CCTTTTTCTTTTCAAAGCCCACAACTCCATGGCA-CT
1146248 TTTTTT
63 TTTTTT
* ** * * *
1146254 CCTTTTAAGTTCACAACTTTGTGG-CATCTTTTTC-TTTCAAAGCCCAAAACTCTATGGCACTTT
1 CCTTTTAAGTCCACAACTCCGTGGAC-CCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACTTT
1146317 TTTT
65 TTTT
* * * *
1146321 -CTTTTCAAAG-CCTGA-AACTCTGGGGCATCCTTTTTCCTTTT--AAGTCCACAACTCCATGGC
1 CCTTTT--AAGTCC--ACAACTCCGTGG-ACCCTTTTT-CTTTTCAAAGCCCACAACTCCATGGC
1146381 AC-TTTTTT
60 ACTTTTTTT
* * *
1146389 -CTTTTCAAAGACCACAACTCCGT-GACACCTTTTTCTTTTCAGAGCCCACAACTCCAAGGCA-T
1 CCTTTT--AAGTCCACAACTCCGTGGAC-CCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACT
1146451 TTTTTT
63 TTTTTT
1146457 CCTTTTAAGTCCACAACTCCGTGGTACCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGG-ACCCTTTT
1146490 AAGTCCACAA
Statistics
Matches: 195, Mismatches: 22, Indels: 39
0.76 0.09 0.15
Matches are distributed among these distances:
66 11 0.06
67 33 0.17
68 85 0.44
69 59 0.30
70 2 0.01
71 5 0.03
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (68 bp):
CCTTTTAAGTCCACAACTCCGTGGACCCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACTTTT
TTT
Found at i:1146595 original size:33 final size:33
Alignment explanation
Indices: 1146352--1147396 Score: 417
Period size: 32 Copynumber: 32.9 Consensus size: 33
1146342 GGGGCATCCT
*
1146352 TTTTCCTTTTAAGTCCACAACTCCATGGCA-CT
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* * * *
1146384 TTTTTCTTTTCAAAGACCACAACTCCGTGACA-CC
1 TTTTCCTTTT--AAGTCCACAACTCCATGGCACCC
* * * ***
1146418 TTTTTCTTTTCAGAGCCCACAACTCCAAGGCATTT
1 TTTTCCTTTT-A-AGTCCACAACTCCATGGCACCC
* *
1146453 TTTTCCTTTTAAGTCCACAACTCCGTGGTA--C
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
** *
1146484 ----CCTTTTAAGTCCACAACTCTGTGGCACCT
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* * * *
1146513 TTTTTCTTTTCAAAGCCCAAAACTCCATGGCACCA
1 TTTTCCTTTT--AAGTCCACAACTCCATGGCACCC
* *
1146548 TTTT-C-TTTAAGTCCATAAGTCCATGGCACCC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* *
1146579 TTTTCCTTTTAAGTCCACAACTCCGTAGCA--C
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
1146610 ----CCTTTTAAGTCCACAACT-C-TGTG-ACTCC
1 TTTTCCTTTTAAGTCCACAACTCCATG-GCAC-CC
** * * * *
1146638 TTTTTTTTATTACAGTCCATAACTTCGTGACA-CC
1 TTTTCCTT-TTA-AGTCCACAACTCCATGGCACCC
* * ** **
1146672 TTTTCCTTTTAAGTCAATAACTCTGTGG-TGCC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* * * * *
1146704 TTTTCTTTTTTAGGTCTACAACTCCGTGACA-CC
1 TTTTC-CTTTTAAGTCCACAACTCCATGGCACCC
* *
1146737 TTTT-TTTTTAAGTCCACAACTCTATGGCA--C
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
*** *
1146767 ----CCTTTTAAGTCCACAACTTTGTGGCA-CT
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
** * * *** *
1146795 TTTTTTTTTTAAGTTCGCAACTTTGTGACA-CC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* * * ** **
1146827 TTTTTCTTTTAAGTCAATAACTCTGTGG-TGCC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* * ** *
1146859 TTTACTTTTTTTGGTCCATAACTCCATGGCA-CC
1 TTTTC-CTTTTAAGTCCACAACTCCATGGCACCC
* **
1146892 TTTTTCTTTTAAGTCCACAACTCTGTGGCA--C
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
1146923 ----CCTTTTAAGTCCACAACTCCATGGCA-CC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* ** *
1146951 TTCTTCTTTTTAAGTCCACAACTCTGTGGC-GCC
1 TT-TTCCTTTTAAGTCCACAACTCCATGGCACCC
* * * * ***
1146984 TTTTCTTTTTTAAGTCTATAACTCTATAATA-CC
1 TTTTC-CTTTTAAGTCCACAACTCCATGGCACCC
* **
1147017 TTTTTCTTTTAAGTCCACAACTCTGTGGCA--C
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
*
1147048 ----CCTTTTAAGTCCACAACTCCGTGGCA-CC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* * * * *
1147076 TTTTCTTTTTTAAGTCCATAACTTCGTGGCA-CA
1 TTTTC-CTTTTAAGTCCACAACTCCATGGCACCC
* * *
1147109 TTTTCCTTTTAAGTCCATAACTCCTTGACA-CC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* ***
1147141 TCTT--TTTTAAGTCCACAACTTTGTGGCA-CC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* * *** *
1147171 TTTTTCTTTTAAGTTCACAACTTTGTTGCA-CC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* * *
1147203 TTTTTCTTTTAAGTCCACAACTCCGTGGC-GCC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* *
1147235 TTTT-TTTTTAAGTCCAAAAACTCCATGGCA-CC
1 TTTTCCTTTTAAGTCC-ACAACTCCATGGCACCC
* * **
1147267 TTTTCCTTTTAAGTCTACAACTTCAT-GCGGCC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
* * * * *
1147299 TTTTCTTTTTTAAGTCCATAACTCCGTGGCATCT
1 TTTTC-CTTTTAAGTCCACAACTCCATGGCACCC
* * *
1147333 TTTTCCTTTTAAGTCCATAAGTCCATGGCATCCT
1 TTTTCCTTTTAAGTCCACAACTCCATGGCA-CCC
* *
1147367 TTTTCCTTTTAAGTCTACAACTCCGTGGCA
1 TTTTCCTTTTAAGTCCACAACTCCATGGCA
1147397 TCTTTTTTCT
Statistics
Matches: 787, Mismatches: 162, Indels: 126
0.73 0.15 0.12
Matches are distributed among these distances:
25 2 0.00
26 2 0.00
27 111 0.14
28 3 0.00
30 25 0.03
31 58 0.07
32 233 0.30
33 219 0.28
34 99 0.13
35 32 0.04
36 3 0.00
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.40
Consensus pattern (33 bp):
TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
Found at i:1146683 original size:126 final size:125
Alignment explanation
Indices: 1146356--1146694 Score: 387
Period size: 126 Copynumber: 2.7 Consensus size: 125
1146346 CATCCTTTTT
** * *
1146356 CCTTTTAAGTCCACAACTCCATGGCACTTTTTTCTTTTCAAAGACCACAACTCCGTGACACCTTT
1 CCTTTTAAGTCCACAACTCTGTGGCCCTTTTTTCTTTTCAAAGACCAAAACTCCGTGACACC-TT
* * *** * *
1146421 TTCTTTTCAGAGCCCACAACTCCAAGGCATTTTTTTCCTTTTAAGTCCACAACTCCGTGGTAC
65 TTCTTTT-A-AGTCCATAACTCCAAGGCACCCTTTTCCTTTTAAGTCCACAACTCCGTAGCAC
* * *
1146484 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTTTCTTTTCAAAGCCCAAAACTCCATGGCACCAT
1 CCTTTTAAGTCCACAACTCTGTGGC-CCTTTTTTCTTTTCAAAGACCAAAACTCCGTGACACC-T
* *
1146549 TTTC-TTTAAGTCCATAAGTCCATGGCACCCTTTTCCTTTTAAGTCCACAACTCCGTAGCAC
64 TTTCTTTTAAGTCCATAACTCCAAGGCACCCTTTTCCTTTTAAGTCCACAACTCCGTAGCAC
* * * * *
1146610 CCTTTTAAGTCCACAACTCTGTGACTCCTTTTTT-TTATT-ACAGTCCATAACTTCGTGACACCT
1 CCTTTTAAGTCCACAACTCTGTGGC-CCTTTTTTCTT-TTCAAAGACCAAAACTCCGTGACACCT
*
1146673 TTTCCTTTTAAGTCAATAACTC
64 TTT-CTTTTAAGTCCATAACTC
1146695 TGTGGTGCCT
Statistics
Matches: 180, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
124 4 0.02
125 20 0.11
126 92 0.51
127 1 0.01
128 26 0.14
129 37 0.21
ACGTcount: A:0.24, C:0.30, G:0.10, T:0.36
Consensus pattern (125 bp):
CCTTTTAAGTCCACAACTCTGTGGCCCTTTTTTCTTTTCAAAGACCAAAACTCCGTGACACCTTT
TCTTTTAAGTCCATAACTCCAAGGCACCCTTTTCCTTTTAAGTCCACAACTCCGTAGCAC
Found at i:1146780 original size:27 final size:27
Alignment explanation
Indices: 1146742--1146793 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1146732 ACACCTTTTT
1146742 TTTTAAGTCCACAACTCTATGGCACCC
1 TTTTAAGTCCACAACTCTATGGCACCC
* *
1146769 TTTTAAGTCCACAACTTTGTGGCAC
1 TTTTAAGTCCACAACTCTATGGCAC
1146794 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCTATGGCACCC
Found at i:1146799 original size:27 final size:27
Alignment explanation
Indices: 1146740--1146799 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
1146730 TGACACCTTT
1146740 TTTTTTAAGTCCACAACTCTATGGCAC
1 TTTTTTAAGTCCACAACTCTATGGCAC
** * *
1146767 CCTTTTAAGTCCACAACTTTGTGGCAC
1 TTTTTTAAGTCCACAACTCTATGGCAC
1146794 TTTTTT
1 TTTTTT
1146800 TTTTTAAGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.42
Consensus pattern (27 bp):
TTTTTTAAGTCCACAACTCTATGGCAC
Found at i:1146854 original size:155 final size:156
Alignment explanation
Indices: 1146553--1147231 Score: 578
Period size: 157 Copynumber: 4.3 Consensus size: 156
1146543 CACCATTTTC
* * * * * * *
1146553 TTTAAGTCCATAAGTCCATGGCACCCTTTTCCTTTTAAGTCCACAACTCCGTAGCACCCTTTTAA
1 TTTAGGTCCACAACTCCATGACA-CCTTTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAA
* * * * * *
1146618 GTCCACAACTCTGTGACTCCTTTTTTTTATTACAGTCCATAACTTCGTGACACCTTTTCCTTTTA
65 GTCCACAACTCTGTGGC-ACTTTTTTTTTTTA-AGTCCACAACTTTGTGACACCTTTTTCTTTTA
*
1146683 AGTCAATAACTCTGTGGTGCCTTTTCTTT
128 AGTCAATAACTCTGTGGTGCCTTTACTTT
* * *
1146712 TTTAGGTCTACAACTCCGTGACACCTTTTT-TTTTAAGTCCACAACTCTATGGCACCCTTTTAAG
1 TTTAGGTCCACAACTCCATGACACCTTTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAG
* * *
1146776 TCCACAACTTTGTGGCACTTTTTTTTTTTAAGTTCGCAACTTTGTGACACCTTTTTCTTTTAAGT
66 TCCACAACTCTGTGGCACTTTTTTTTTTTAAGTCCACAACTTTGTGACACCTTTTTCTTTTAAGT
1146841 CAATAACTCTGTGGTGCCTTTACTTT
131 CAATAACTCTGTGGTGCCTTTACTTT
* * *
1146867 TTTTGGTCCATAACTCCATGGCACCTTTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAG
1 TTTAGGTCCACAACTCCATGACACCTTTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAG
** * * * * * *
1146932 TCCACAACTCCATGGCACCTTCTTCTTTTTAAGTCCACAACTCTGTGGCGCCTTTTCTTTTTTAA
66 TCCACAACTCTGTGGCA-CTTTTTTTTTTTAAGTCCACAACTTTGTGACACCTTTT-TCTTTTAA
* * ** *
1146997 GTCTATAACTCTATAATACCTTT--TTCT
129 GTCAATAACTCTGTGGTGCCTTTACTT-T
* ** * *
1147024 TTTAAGTCCACAACTCTGTGGCACC-----CTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTT
1 TTTAGGTCCACAACTCCATGACACCTTTTTCTTTTAAGTCCACAACTCTGTGGCACC----C--T
* * ** * * *
1147084 TTTAAGTCCATAACT-TCGTGGCACATTTTCCTTTTAAGTCCATAACTCCT-TGACACC-TCTT-
60 TTTAAGTCCACAACTCT-GTGGCACTTTTTTTTTTTAAGTCCACAACT-TTGTGACACCTTTTTC
* * * **
1147145 TTTTAAGTCCACAACTTTGTGGCACCTTT--TTCT
123 TTTTAAGTCAATAACTCTGTGGTGCCTTTACTT-T
* * *** *
1147178 TTTAAGTTCACAACTTTGTTG-CACCTTTTTCTTTTAAGTCCACAACTCCGTGGC
1 TTTAGGTCCACAAC-TCCATGACACCTTTTTCTTTTAAGTCCACAACTCTGTGGC
1147232 GCCTTTTTTT
Statistics
Matches: 433, Mismatches: 69, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
152 26 0.06
154 43 0.10
155 84 0.19
156 64 0.15
157 122 0.28
158 53 0.12
159 41 0.09
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.41
Consensus pattern (156 bp):
TTTAGGTCCACAACTCCATGACACCTTTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAG
TCCACAACTCTGTGGCACTTTTTTTTTTTAAGTCCACAACTTTGTGACACCTTTTTCTTTTAAGT
CAATAACTCTGTGGTGCCTTTACTTT
Found at i:1147018 original size:125 final size:124
Alignment explanation
Indices: 1146676--1147349 Score: 532
Period size: 125 Copynumber: 5.4 Consensus size: 124
1146666 GACACCTTTT
* * * ** * * * * * *
1146676 CCTTTTAAGTCAATAACTCTGTGGTGCCTTTTCTTTTTTAGGTCTACAACTCCGTGACACC-TTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT-TCTTTTAAGTCCACAACTCTGTGGCGCCTTTT
* * *
1146740 -TTTTTTAAGTCCACAACTCTATGGCACC-----CTTTTAAGTCCACAACTTTGTGGCAC
65 CTTTTTTAAGTCCATAACTCTATGACACCTTTTTCTTTTAAGTCCACAACTCTGTGGCAC
** * * ** * * * *
1146794 TTTTTTTTTTTAAGTTCGCAACTTTGTGACACCTTTTTCTTTTAAGTCAATAACTCTGTGGTGCC
1 -----CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCTGTGGCGCC
* ** * *
1146859 TTTACTTTTTTTGGTCCATAACTCCATGGCACCTTTTTCTTTTAAGTCCACAACTCTGTGGCAC
61 TTTTCTTTTTTAAGTCCATAACTCTATGACACCTTTTTCTTTTAAGTCCACAACTCTGTGGCAC
* *
1146923 CCTTTTAAGTCCACAACTCCATGGCACCTTCTTCTTTTTAAGTCCACAACTCTGTGGCGCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTC-TTTTAAGTCCACAACTCTGTGGCGCCTTTT
* * *
1146988 CTTTTTTAAGTCTATAACTCTATAATACCTTTTTCTTTTAAGTCCACAACTCTGTGGCAC
65 CTTTTTTAAGTCCATAACTCTATGACACCTTTTTCTTTTAAGTCCACAACTCTGTGGCAC
* * * *
1147048 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTTAAGTCCATAACT-TCGTGGCACATTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT-TCTTTTAAGTCCACAACTCT-GTGGCGCCTTT
* * *
1147112 TC-CTTTTAAGTCCATAACTCCT-TGACACC-TCTT-TTTTAAGTCCACAACTTTGTGGCAC
64 TCTTTTTTAAGTCCATAACT-CTATGACACCTTTTTCTTTTAAGTCCACAACTCTGTGGCAC
* ** * *
1147170 CTTTTTCTTTTAAGTTCACAACTTTGTTGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCGCC
1 C-----CTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCTGTGGCGCC
* * * * * *
1147235 -TTT-TTTTTTAAGTCCAAAAACTCCATGGCACCTTTTCCTTTTAAGTCTACAACTTCATGCGGC
61 TTTTCTTTTTTAAGTCC-ATAACTCTATGACACCTTTTTCTTTTAAGTCCACAAC-TC-TGTGGC
1147298 -C
123 AC
* * *
1147299 TTTTCTTTTTTAAGTCCATAACTCCGTGGCATCTTTTTCCTTTTAAGTCCA
1 ----C-CTTTTAAGTCCACAACTCCGTGGCACCTTTTT-CTTTTAAGTCCA
1147350 TAAGTCCATG
Statistics
Matches: 441, Mismatches: 81, Indels: 51
0.77 0.14 0.09
Matches are distributed among these distances:
122 45 0.10
123 27 0.06
124 70 0.16
125 151 0.34
126 34 0.08
127 29 0.07
128 14 0.03
129 53 0.12
130 17 0.04
133 1 0.00
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (124 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCTGTGGCGCCTTTTC
TTTTTTAAGTCCATAACTCTATGACACCTTTTTCTTTTAAGTCCACAACTCTGTGGCAC
Found at i:1147409 original size:33 final size:32
Alignment explanation
Indices: 1146248--1147409 Score: 583
Period size: 33 Copynumber: 36.3 Consensus size: 32
1146238 TAGGGCATCT
* **
1146248 TTTTTTCCTTTTAAGTTCACAACTTTGTGGCA-
1 TTTTTT-CTTTTAAGTCCACAACTCCGTGGCAC
* * * **
1146280 TCTTTTTCTTTCAAAGCCCAAAACTCTATGGCAC
1 T-TTTTTCTTT-TAAGTCCACAACTCCGTGGCAC
* *
1146314 TTTTTTTCTTTTCAAAG-CCTGA-AACTCTGGGGCATCC
1 -TTTTTTCTTTT--AAGTCC--ACAACTCCGTGGCA--C
* *
1146351 TTTTTCCTTTTAAGTCCACAACTCCATGGCAC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* *
1146383 TTTTTTCTTTTCAAAGACCACAACTCCGTGACAC
1 TTTTTTCTTTT--AAGTCCACAACTCCGTGGCAC
* * ** *
1146417 CTTTTTCTTTTCAGAGCCCACAACTCCAAGGCAT
1 TTTTTTCTTTT-A-AGTCCACAACTCCGTGGCAC
*
1146451 TTTTTTCCTTTTAAGTCCACAACTCCGTGGTAC
1 TTTTTT-CTTTTAAGTCCACAACTCCGTGGCAC
* *
1146484 -----CCTTTTAAGTCCACAACTCTGTGGCACC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCA-C
* * *
1146512 TTTTTTCTTTTCAAAGCCCAAAACTCCATGGCAC
1 TTTTTTCTTTT--AAGTCCACAACTCCGTGGCAC
** * * *
1146546 CATTTTC-TTTAAGTCCATAAGTCCATGGCACC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCA-C
* * *
1146578 CTTTTCCTTTTAAGTCCACAACTCCGTAGCAC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
1146610 -----CCTTTTAAGTCCACAACTCTGTGACTCC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGC-AC
* * *
1146638 TTTTTT-TTATTACAGTCCATAACTTCGTGACAC
1 TTTTTTCTT-TTA-AGTCCACAACTCCGTGGCAC
* * * * *
1146671 CTTTTCCTTTTAAGTCAATAACTCTGTGGTGC-C
1 TTTTTTCTTTTAAGTCCACAACTCCGT-G-GCAC
* * *
1146704 TTTTCTT-TTTTAGGTCTACAACTCCGTGACAC
1 TTTT-TTCTTTTAAGTCCACAACTCCGTGGCAC
* **
1146736 CTTTTT-TTTTAAGTCCACAACTCTATGGCAC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* **
1146767 -----CCTTTTAAGTCCACAACTTTGTGGCAC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* * * ** *
1146794 TTTTTTTTTTTAAGTTCGCAACTTTGTGACAC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
1146826 CTTTTTCTTTTAAGTCAATAACTCTGTGGTGC-C
1 TTTTTTCTTTTAAGTCCACAACTCCGT-G-GCAC
* * *
1146859 TTTACTTT-TTTT-GGTCCATAACTCCATGGCAC
1 TTT--TTTCTTTTAAGTCCACAACTCCGTGGCAC
* *
1146891 CTTTTTCTTTTAAGTCCACAACTCTGTGGCAC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* *
1146923 -----CCTTTTAAGTCCACAACTCCATGGCAC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
1146950 CTTCTTCTTTTTAAGTCCACAACTCTGTGGCGCC
1 TTTTTTC-TTTTAAGTCCACAACTCCGTGGC-AC
* * ** ***
1146984 TTTTCTT-TTTTAAGTCTATAACTCTATAATAC
1 TTTT-TTCTTTTAAGTCCACAACTCCGTGGCAC
* *
1147016 CTTTTTCTTTTAAGTCCACAACTCTGTGGCAC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
*
1147048 -----CCTTTTAAGTCCACAACTCCGTGGCACC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCA-C
* *
1147076 TTTTCTT-TTTTAAGTCCATAACTTCGTGGCAC
1 TTTT-TTCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
1147108 ATTTTCCTTTTAAGTCCATAACTCCTTGACAC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* * **
1147140 -CTCTT-TTTTAAGTCCACAACTTTGTGGCAC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* * ** *
1147170 CTTTTTCTTTTAAGTTCACAACTTTGTTGCAC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* *
1147202 CTTTTTCTTTTAAGTCCACAACTCCGTGGCGC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* * *
1147234 CTTTTT-TTTTAAGTCCAAAAACTCCATGGCAC
1 TTTTTTCTTTTAAGTCC-ACAACTCCGTGGCAC
* * * * *
1147266 CTTTTCCTTTTAAGTCTACAACTTCATGCGGC-C
1 TTTTTTCTTTTAAGTCCACAAC-TC-CGTGGCAC
*
1147299 TTTTCTT-TTTTAAGTCCATAACTCCGTGGCATC
1 TTTT-TTCTTTTAAGTCCACAACTCCGTGGCA-C
* * * *
1147332 TTTTTCCTTTTAAGTCCATAAGTCCATGGCATCC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCA--C
* *
1147366 TTTTTCCTTTTAAGTCTACAACTCCGTGGCATC
1 TTTTTTCTTTTAAGTCCACAACTCCGTGGCA-C
1147399 TTTTTTCTTTT
1 TTTTTTCTTTT
1147410 TAAGCCCATA
Statistics
Matches: 872, Mismatches: 178, Indels: 159
0.72 0.15 0.13
Matches are distributed among these distances:
27 116 0.13
28 3 0.00
30 23 0.03
31 68 0.08
32 234 0.27
33 237 0.27
34 137 0.16
35 42 0.05
36 11 0.01
37 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (32 bp):
TTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:1147447 original size:31 final size:31
Alignment explanation
Indices: 1147411--1147524 Score: 111
Period size: 31 Copynumber: 3.6 Consensus size: 31
1147401 TTTTCTTTTT
*
1147411 AAGCCCATACAAGTTGGTGAAAACTTTTCTA
1 AAGCCCACACAAGTTGGTGAAAACTTTTCTA
* ** *
1147442 AAGCCCACACAAGTTAGTGGCAACCCTCTTCTA
1 AAGCCCACACAAGTTGGT-G-AAAACTTTTCTA
* ** * *
1147475 AAGCCTACACAAGTTGGTGGCAACCTTTATA
1 AAGCCCACACAAGTTGGTGAAAACTTTTCTA
*
1147506 AAGCCCACACAAGTCGGTG
1 AAGCCCACACAAGTTGGTG
1147525 GCGATCCTTC
Statistics
Matches: 65, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
31 38 0.58
32 2 0.03
33 25 0.38
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (31 bp):
AAGCCCACACAAGTTGGTGAAAACTTTTCTA
Found at i:1147487 original size:64 final size:65
Alignment explanation
Indices: 1147419--1147925 Score: 325
Period size: 64 Copynumber: 8.1 Consensus size: 65
1147409 TTAAGCCCAT
* * *
1147419 ACAAGTTGGT-GAAAACTTTTCTAAAGCCCACACAAGTTAGTGGCAACCCTCTTCTAAAGCCTAC
1 ACAAGTTGGTGGAAACCTTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTCTTCTAAAGCCAAC
* * * * * * **
1147483 ACAAGTTGGTGGCAACC-TTTATAAAGCCCACACAAGTCGGTGGCGA-TC-CTTCAAAAGCCTGC
1 ACAAGTTGGTGGAAACCTTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTCTTCTAAAGCCAAC
* * * * *
1147545 ACAAGTTAGTGGCAACCCTCTCTAAAGCCCACACAA--------C--CCTTC-TCTAAAGCCAAC
1 ACAAGTTGGTGGAAACCTTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTCTTCTAAAGCCAAC
* * * * * * *
1147599 ACAAGTCGGTGGCAACCCTTCTT-TAAAGCCCACACAAGTTGGTTGCGA-TC-CTTCAAAAGCCC
1 ACAAGTTGGTGG-AAACCTT-TTCTAAAGCCCACACAAGTTGGTGGCAACCCTCTTCTAAAGCCA
1147661 AC
64 AC
* * * * *
1147663 ACAAGTTAGTGGCAACCCTCTT-TAAAGCCCACACAAGTCGATGGCAACCC-CTTTCTAAAGCCA
1 ACAAGTTGGTGG-AAACCTTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTC-TTCTAAAGCCA
1147726 AC
64 AC
* * * *
1147728 ACAAGTTGGTGGCAA-CTTTTCTAAAGCCCATAGAAGTCGGTGGCAACCCT-TCTCTAAAGCCAA
1 ACAAGTTGGTGGAAACCTTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTCT-TCTAAAGCCAA
*
1147791 T
65 C
* * * *** * *
1147792 ACAAGTCGGTGGCAATCC-TTT-AAAAGCCCACACAAGTCAATGG-AA--ATCTTTTAAAAGCTC
1 ACAAGTTGGTGG-AAACCTTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTCTTCT-AAAGC-C
1147852 -AC
63 AAC
* * *
1147854 ACAAGTCGGTGGAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCT-TCTCTAAAGCCC
1 ACAAGTTGGTGGAAA-CCTTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTCT-TCTAAAGCCA
1147918 AC
64 AC
1147920 ACAAGT
1 ACAAGT
1147926 CAGTGGCAAC
Statistics
Matches: 344, Mismatches: 64, Indels: 68
0.72 0.13 0.14
Matches are distributed among these distances:
54 19 0.06
55 20 0.06
56 1 0.00
61 5 0.01
62 49 0.14
63 52 0.15
64 147 0.43
65 33 0.10
66 15 0.04
67 3 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (65 bp):
ACAAGTTGGTGGAAACCTTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTCTTCTAAAGCCAAC
Found at i:1147525 original size:31 final size:32
Alignment explanation
Indices: 1147436--1147948 Score: 436
Period size: 33 Copynumber: 16.4 Consensus size: 32
1147426 GGTGAAAACT
**
1147436 TTTCTAAAGCCCACACAAGTTAGTGGCAACCC
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCC
* *
1147468 TCTTCTAAAGCCTACACAAGTTGGTGGCAA-CC
1 T-TTCTAAAGCCCACACAAGTCGGTGGCAACCC
* * *
1147500 TTTATAAAGCCCACACAAGTCGGTGGCGATCC
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCC
* ** **
1147532 -TTCAAAAGCCTGCACAAGTTAGTGGCAACCC
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCC
* *
1147563 TCTCTAAAGCCCACACAA--------C--CCT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCC
* *
1147585 TCTCTAAAGCCAACACAAGTCGGTGGCAACCC
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCC
* * * * *
1147617 TTCTTTAAAGCCCACACAAGTTGGTTGCGATCC
1 TT-TCTAAAGCCCACACAAGTCGGTGGCAACCC
* **
1147650 -TTCAAAAGCCCACACAAGTTAGTGGCAACCC
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCC
*
1147681 TCTT-TAAAGCCCACACAAGTCGATGGCAACCCC
1 T-TTCTAAAGCCCACACAAGTCGGTGGCAA-CCC
* * *
1147714 TTTCTAAAGCCAACACAAGTTGGTGGCAA-CT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCC
* *
1147745 TTTCTAAAGCCCATAGAAGTCGGTGGCAACCC
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCC
* * *
1147777 TTCTCTAAAGCCAATACAAGTCGGTGGCAATCC
1 TT-TCTAAAGCCCACACAAGTCGGTGGCAACCC
* ** **
1147810 TTT-AAAAGCCCACACAAGTCAATGG-AAATC
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCC
* *
1147840 TTT-TAAAAGCTCACACAAGTCGGTGGAAACCC
1 TTTCT-AAAGCCCACACAAGTCGGTGGCAACCC
*
1147872 TTCTCTAAAGCCCACACAAGTTGGTGGCAACCC
1 TT-TCTAAAGCCCACACAAGTCGGTGGCAACCC
*
1147905 TTCTCTAAAGCCCACACAAGTCAGTGGCAACCC
1 TT-TCTAAAGCCCACACAAGTCGGTGGCAACCC
1147938 -TTCT-AAGCCCA
1 TTTCTAAAGCCCA
1147949 ATGTCATTGC
Statistics
Matches: 389, Mismatches: 68, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
22 19 0.05
24 1 0.00
30 14 0.04
31 135 0.35
32 56 0.14
33 163 0.42
34 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (32 bp):
TTTCTAAAGCCCACACAAGTCGGTGGCAACCC
Found at i:1147583 original size:21 final size:22
Alignment explanation
Indices: 1147557--1147602 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
1147547 AAGTTAGTGG
*
1147557 CAACCC-TCTCTAAAGCCCACA
1 CAACCCTTCTCTAAAGCCAACA
1147578 CAACCCTTCTCTAAAGCCAACA
1 CAACCCTTCTCTAAAGCCAACA
1147600 CAA
1 CAA
1147603 GTCGGTGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.37, C:0.43, G:0.04, T:0.15
Consensus pattern (22 bp):
CAACCCTTCTCTAAAGCCAACA
Found at i:1147668 original size:118 final size:116
Alignment explanation
Indices: 1147462--1147698 Score: 368
Period size: 118 Copynumber: 2.0 Consensus size: 116
1147452 AAGTTAGTGG
* *
1147462 CAACCCTCTTCTAAAGCCTACACAAGTTGGTGGCAACCTTTATAAAGCCCACACAAGTCGGTGGC
1 CAACCCTCTTCTAAAGCCAACACAAGTCGGTGGCAACCTTTATAAAGCCCACACAAGTCGGTGGC
**
1147527 GATCCTTCAAAAGCCTGCACAAGTTAGTGGCAACCCTCTCTAAAGCCCACA
66 GATCCTTCAAAAGCCCACACAAGTTAGTGGCAACCCTCTCTAAAGCCCACA
* *
1147578 CAACCCT-TCTCTAAAGCCAACACAAGTCGGTGGCAACCCTTCTTTAAAGCCCACACAAGTTGGT
1 CAACCCTCT-TCTAAAGCCAACACAAGTCGGTGGCAA-CCTT-TATAAAGCCCACACAAGTCGGT
* *
1147642 TGCGATCCTTCAAAAGCCCACACAAGTTAGTGGCAACCCTCTTTAAAGCCCACA
63 GGCGATCCTTCAAAAGCCCACACAAGTTAGTGGCAACCCTCTCTAAAGCCCACA
1147696 CAA
1 CAA
1147699 GTCGATGGCA
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
115 1 0.01
116 32 0.29
117 4 0.04
118 73 0.66
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (116 bp):
CAACCCTCTTCTAAAGCCAACACAAGTCGGTGGCAACCTTTATAAAGCCCACACAAGTCGGTGGC
GATCCTTCAAAAGCCCACACAAGTTAGTGGCAACCCTCTCTAAAGCCCACA
Found at i:1148147 original size:61 final size:60
Alignment explanation
Indices: 1148073--1148457 Score: 185
Period size: 61 Copynumber: 6.8 Consensus size: 60
1148063 TCACTGGCCA
*
1148073 TGAATCAGCACATTGGCATTCTTCTCATTCTTATCATCTTTAAGTCCAATGTCGCTAGCCT
1 TGAATCAGCACATTGGCA-TCTTCTCATTCTTATCATCTTTAAGTCCAATATCGCTAGCCT
* * ** *
1148134 TGAATCAGCACATTGACAACTT-T--TTC-T-T--TC-TTAAGTCCAATATCTTTGGCCT
1 TGAATCAGCACATTGGCATCTTCTCATTCTTATCATCTTTAAGTCCAATATCGCTAGCCT
* * * * *
1148186 TGAATCA--ACA-T---AT-TTGCGCCTTCGT-T-ATCTTTAAGTCCAATGTCGCTGGCCT
1 TGAATCAGCACATTGGCATCTT-CTCATTCTTATCATCTTTAAGTCCAATATCGCTAGCCT
* * * * * * *
1148238 TGAATCAACATATTGGCA----C-C--T-TTGTCATCGTTAAGCCCAATATTGCTAACCT
1 TGAATCAGCACATTGGCATCTTCTCATTCTTATCATCTTTAAGTCCAATATCGCTAGCCT
* * * * * * * * * *
1148290 TGAATCAACATATTGGCACTTTTATCATTCTTCTCATCTTCAAGCCCGATATCACTAGCCG
1 TGAATCAGCACATTGGCA-TCTTCTCATTCTTATCATCTTTAAGTCCAATATCGCTAGCCT
* * * * ** * *
1148351 TGAATCAGCATATTGGCACCTTTATCATTCTTCA-CATCCTTAAGTCCAACGTCACTAACCT
1 TGAATCAGCACATTGGCATC-TTCTCATTCTT-ATCATCTTTAAGTCCAATATCGCTAGCCT
*
1148412 TGAATCAGCACATTGGCACTCATCTCA-TCTTCATCATCTTTAAGTC
1 TGAATCAGCACATTGGCA-TCTTCTCATTCTT-ATCATCTTTAAGTC
1148458 TAGTGTTATA
Statistics
Matches: 251, Mismatches: 45, Indels: 56
0.71 0.13 0.16
Matches are distributed among these distances:
45 2 0.01
46 1 0.00
49 4 0.02
50 6 0.02
51 4 0.02
52 89 0.35
53 3 0.01
54 3 0.01
55 2 0.01
56 1 0.00
57 3 0.01
58 2 0.01
59 1 0.00
60 10 0.04
61 119 0.47
62 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.36
Consensus pattern (60 bp):
TGAATCAGCACATTGGCATCTTCTCATTCTTATCATCTTTAAGTCCAATATCGCTAGCCT
Found at i:1148220 original size:52 final size:52
Alignment explanation
Indices: 1148106--1148308 Score: 176
Period size: 52 Copynumber: 3.9 Consensus size: 52
1148096 CTCATTCTTA
* * * * * * * * **
1148106 TCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGACAACTTTT
1 TCATCGTTAAGTCCAATATCTCTGGCCTTGAATCAACATATTGGCACCTTCG
* * * *
1148158 TCTTTC-TTAAGTCCAATATCTTTGGCCTTGAATCAACATATTTGCGCCTTCG
1 TC-ATCGTTAAGTCCAATATCTCTGGCCTTGAATCAACATATTGGCACCTTCG
* * * * *
1148210 TTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTTG
1 TCATCGTTAAGTCCAATATCTCTGGCCTTGAATCAACATATTGGCACCTTCG
* **
1148262 TCATCGTTAAGCCCAATAT-TGCTAACCTTGAATCAACATATTGGCAC
1 TCATCGTTAAGTCCAATATCT-CTGGCCTTGAATCAACATATTGGCAC
1148309 TTTTATCATT
Statistics
Matches: 120, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
51 2 0.02
52 116 0.97
53 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (52 bp):
TCATCGTTAAGTCCAATATCTCTGGCCTTGAATCAACATATTGGCACCTTCG
Found at i:1148291 original size:104 final size:104
Alignment explanation
Indices: 1148108--1148303 Score: 261
Period size: 104 Copynumber: 1.9 Consensus size: 104
1148098 CATTCTTATC
* * * *
1148108 ATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGACAACTTTTTCTTTCTTAAGTCCA
1 ATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTGACAACTTTGTCTATCTTAAGCCCA
* **
1148173 ATATCTTTGGCCTTGAATCAACATATTTGCGCCTTCGTT
66 ATATCTCTAACCTTGAATCAACATATTTGCGCCTTCGTT
* * * *
1148212 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTTGTC-ATCGTTAAGCCC
1 ATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTGACAACTTTGTCTATC-TTAAGCCC
1148276 AATAT-TGCTAACCTTGAATCAACATATT
65 AATATCT-CTAACCTTGAATCAACATATT
1148304 GGCACTTTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 3 0.04
104 76 0.96
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (104 bp):
ATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTGACAACTTTGTCTATCTTAAGCCCA
ATATCTCTAACCTTGAATCAACATATTTGCGCCTTCGTT
Found at i:1153756 original size:52 final size:52
Alignment explanation
Indices: 1153666--1153790 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
1153656 ATATGAAAAG
* * * *
1153666 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTACCGATACATCTGGGCAAAT
*
1153718 TTGCCTGCATGTATCGATACATTTTATAATGTACCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTACCGATACATCTGGGCAAAT
1153770 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1153791 AAGATCGGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTACCGATACATCTGGGCAAAT
Found at i:1153808 original size:52 final size:52
Alignment explanation
Indices: 1153666--1153810 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 52
1153656 ATATGAAAAG
* * *
1153666 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAGAT
1 TTGCCTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAAT
*** * *
1153718 TTGCCTGCATGTATCGATACATTTTATAATGTACCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
*
1153770 TTGCCTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
1153811 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 4 0.05
52 76 0.95
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
Found at i:1153817 original size:13 final size:13
Alignment explanation
Indices: 1153799--1153823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1153789 CAAAGATCGG
1153799 TGTATCGATACAA
1 TGTATCGATACAA
1153812 TGTATCGATACA
1 TGTATCGATACA
1153824 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1157421 original size:51 final size:51
Alignment explanation
Indices: 1157351--1157629 Score: 239
Period size: 51 Copynumber: 5.4 Consensus size: 51
1157341 TGAAAATAAT
* * *
1157351 GGGGTTGGAGTATCTCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* *
1157402 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* * * * ****
1157453 AGGGTTGGAGTATCCCC--TCG-GA-AATAACGGGGTTGGGTATCCCCGATGAAAT-AA--C
1 GGGGTTGAAGTATCCCCGATTGTGAGAA-ATCAATATT---T-T-----A-GAAATAAAGCC
* * *
1157508 GAGGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* *
1157559 GAGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
*
1157610 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGAAGTATCCCCGAT
1157630 GAAATAATCA
Statistics
Matches: 180, Mismatches: 30, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
47 2 0.01
48 11 0.06
49 4 0.02
51 129 0.72
52 1 0.01
54 1 0.01
55 15 0.08
57 4 0.02
58 11 0.06
59 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (51 bp):
GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:1157503 original size:27 final size:27
Alignment explanation
Indices: 1157454--1157527 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
1157444 AATAAAGTCA
***
1157454 GGGTTGGAGTATCCCCTCGGAAATAACG
1 GGGTTGG-GTATCCCCGATGAAATAACG
1157482 GGGTTGGGTATCCCCGATGAAATAACG
1 GGGTTGGGTATCCCCGATGAAATAACG
* **
1157509 AGGTTAAAGTATCCCCGAT
1 GGGTT-GGGTATCCCCGAT
1157528 TGTGAGAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (27 bp):
GGGTTGGGTATCCCCGATGAAATAACG
Found at i:1157618 original size:157 final size:159
Alignment explanation
Indices: 1157327--1157658 Score: 508
Period size: 157 Copynumber: 2.1 Consensus size: 159
1157317 AAAATCGGGA
* * * ** *
1157327 TTGGAGTATCCCTG-TGAAAATAATGGGGTTGGAGTATCTCCGATTGTGAGAAATCAATATTTTA
1 TTGGAGTATCCCCGATG-AAATAACGAGGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTA
* *
1157391 GAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTCAGG
65 GAAATAAGGCCGAGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCAGG
** * *
1157456 GTTGGAGTATCCCCTCGGAAATAA-CGGGG
130 GTTGGAGTATCCCCGAGGAAATAATCAGAG
1157485 TTGG-GTATCCCCGATGAAATAACGAGGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTAG
1 TTGGAGTATCCCCGATGAAATAACGAGGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTAG
*
1157549 AAATAAGGCCGAGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGG
66 AAATAAGGCCGAGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCAGGG
*
1157614 TTGGAGTATCCCCGATGAAATAATCAGAG
131 TTGGAGTATCCCCGAGGAAATAATCAGAG
1157643 TTGGAGTATCCCCGAT
1 TTGGAGTATCCCCGAT
1157659 TGTGAAGAAT
Statistics
Matches: 157, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
157 133 0.85
158 13 0.08
159 11 0.07
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (159 bp):
TTGGAGTATCCCCGATGAAATAACGAGGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTAG
AAATAAGGCCGAGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCAGGG
TTGGAGTATCCCCGAGGAAATAATCAGAG
Found at i:1157663 original size:80 final size:80
Alignment explanation
Indices: 1157562--1157792 Score: 297
Period size: 80 Copynumber: 2.9 Consensus size: 80
1157552 TAAGGCCGAG
* *
1157562 GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCC
1157627 GATGAAATAATCAGA
66 GATGAAATAATCAGA
* * * ** *
1157642 GTTGGAGTATCCCCGATTGTGA-AGAATTTATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGAGA-AATTAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
* **
1157706 C-TTGGAAATAATGGGA
65 CGAT-GAAATAATCAGA
* * *
1157722 -TTGGAGTATTCCCGATTATGAGAAATTAATATTTTGGAAATAAAGCCGGGGCTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCC
1157786 GATGAAA
66 GATGAAA
1157793 AATTGATGTT
Statistics
Matches: 126, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
79 59 0.47
80 67 0.53
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (80 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCC
GATGAAATAATCAGA
Found at i:1157920 original size:51 final size:50
Alignment explanation
Indices: 1157774--1157980 Score: 162
Period size: 51 Copynumber: 4.2 Consensus size: 50
1157764 AAGCCGGGGC
* * * *
1157774 TGGAGTATCCCCGA-T--GAAAAATTGATGTTTTAGAAATAAAACTAGGGT
1 TGGAGTATCCCCGATTAAGAAAAATGGATGTCTTAGAAATAAAA-TCGAGT
* * * *
1157822 TGGAGTGTCCCC---TCAGAAATAATGG--G-GTTGGAAATAAAATCGGAGT
1 TGGAGTATCCCCGATTAAGAAA-AATGGATGTCTTAGAAATAAAATC-GAGT
* * * *
1157868 TGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGAAGT
1 TGGAGTATCCCCGATTAAGAAAAATGGATGTCTTAGAAATAAAATCG-AGT
* * * *
1157919 TGGAGTATCCCCGATTAAGAAAAATTGATGTCTTGGAAATGAAATCGGGAT
1 TGGAGTATCCCCGATTAAGAAAAATGGATGTCTTAGAAATAAAATCGAG-T
1157970 TGGAGTATCCC
1 TGGAGTATCCC
1157981 GAGATGAAAA
Statistics
Matches: 127, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 26 0.20
47 1 0.01
48 20 0.16
49 8 0.06
50 3 0.02
51 68 0.54
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (50 bp):
TGGAGTATCCCCGATTAAGAAAAATGGATGTCTTAGAAATAAAATCGAGT
Found at i:1157930 original size:97 final size:94
Alignment explanation
Indices: 1157755--1157930 Score: 219
Period size: 97 Copynumber: 1.8 Consensus size: 94
1157745 AATTAATATT
* * * * *
1157755 TTGGAAATAAAGCCGGGGCTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACTAGG
1 TTGGAAATAAAACCGGAGCTGGAGTATCCCCGATGAAAAATGGATGTTTTAGAAATAAAACGAGA
*
1157820 GTTGGAGTGTCCCCTCAGAAATAATGGGG
66 GTTGGAGTATCCCCTCAGAAATAATGGGG
* * * *
1157849 TTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATC
1 TTGGAAATAAAACCGGAGCTGGAGTATCCCCG---ATGAAAAATGGATGTTTTAGAAATAAAA-C
1157914 GA-AGTTGGAGTATCCCC
62 GAGAGTTGGAGTATCCCC
1157931 GATTAAGAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
94 28 0.41
97 38 0.56
98 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (94 bp):
TTGGAAATAAAACCGGAGCTGGAGTATCCCCGATGAAAAATGGATGTTTTAGAAATAAAACGAGA
GTTGGAGTATCCCCTCAGAAATAATGGGG
Found at i:1160183 original size:20 final size:19
Alignment explanation
Indices: 1160158--1160231 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
1160148 AAAATGGCTG
*
1160158 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
1160178 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
1160198 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
1160218 AATGTATCGATACA
1 AATGTATCGATACA
1160232 TCTGGGTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1160288 original size:13 final size:13
Alignment explanation
Indices: 1160270--1160319 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
1160260 ACAAAAATTG
1160270 ATGTATCGATACA
1 ATGTATCGATACA
*
1160283 ATGTATCGATATA
1 ATGTATCGATACA
*
1160296 ATGCATCGAT--A
1 ATGTATCGATACA
*
1160307 TTGTATCGATACA
1 ATGTATCGATACA
1160320 TTTCTTTGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 9 0.29
13 22 0.71
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1161198 original size:61 final size:61
Alignment explanation
Indices: 1161095--1161372 Score: 333
Period size: 61 Copynumber: 4.7 Consensus size: 61
1161085 GAACAAAGGA
* * * * * *
1161095 GAAAAGGAAAAGGCGTCTTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
1161157 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
*
1161218 GCAAAA-AGAAA-GCATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT
1 G-AAAAGA-AAAGGCATCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTT
* * **
1161279 AAAAAGAGAAGGTGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
* *
1161339 ------AAAAGGCATCCTGCTCTTTGAGGACAAAAAGGTG
1 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTG
1161373 AAAGGAGAGA
Statistics
Matches: 193, Mismatches: 17, Indels: 19
0.84 0.07 0.08
Matches are distributed among these distances:
54 22 0.11
55 6 0.03
60 33 0.17
61 120 0.62
62 12 0.06
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (61 bp):
GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:1161339 original size:60 final size:60
Alignment explanation
Indices: 1161115--1161363 Score: 334
Period size: 61 Copynumber: 4.2 Consensus size: 60
1161105 AGGCGTCTTA
* * *
1161115 CTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCCTG
1 CTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAAGGCATCCTG
*
1161176 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAA-GCATCCTG
1 CTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT--AAAAAGAAAGGCATCCTG
**
1161237 CTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTG
1 CTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAGGCATCCTG
*
1161298 CTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT----A-AAAGGCATCCTG
1 CTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGGCATCCTG
1161352 CTCTTTGAGGAC
1 CTCTTTGAGGAC
1161364 AAAAAGGTGA
Statistics
Matches: 173, Mismatches: 10, Indels: 17
0.87 0.05 0.09
Matches are distributed among these distances:
54 21 0.12
55 1 0.01
56 1 0.01
59 7 0.04
60 29 0.17
61 106 0.61
62 3 0.02
63 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (60 bp):
CTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGGCATCCTG
Found at i:1161375 original size:122 final size:118
Alignment explanation
Indices: 1161115--1162018 Score: 406
Period size: 115 Copynumber: 7.6 Consensus size: 118
1161105 AGGCGTCTTA
* *
1161115 CTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCCTGCTCT
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCTCT
1161180 TTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTG
66 TTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAAG--AGCATCCTG
* * **
1161237 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTGCTCT
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCTCT
1161302 TTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GCATCCTG
66 TTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGCATCCTG
* ** ** ** * *** **
1161352 CTCTTTGAGGAC-AAAAAGGTGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTA-AAAAGTGC--
1 CTCTTTGAGGACTGAAAA-GTGCCACCA-A-CTCGT-GTGGGCTTT-A--AAAAGAAAAG-GCAT
* * * * * * * * * ** *
1161413 CACTAACT-TGTGTGGGCTTTAAAAGGAG--A--AGGCGTCT-TGCTCTTTAAGGACTGAAGGTG
58 C-CT-GCTCTTTGAGGAC--TAGAAGGTGCCACCA-ACTTGTGTGGGCTTTAA--A---AA-GAG
*
1161472 CCA-CCAG
112 -CATCCTG
* * * * * * * ** * * *
1161479 CT-TATGTGGGCTTTGAAAGGTG--TCCTACTC-TTTGAGGACTAAAGGATGAAAGGAGAGAGCG
1 CTCTTTGAGGAC--TGAAAAGTGCCACCAACTCGTGTG-GG-CTTTA--A--AAAGAAAAG-GCA
* * * * *
1161540 TCCTACCCTTTGAGGACTGGGAA-GTGCCACCTACTTGTGTGGGCTTTGAAAGGAAAAAGCATCC
57 TCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTT--AA--AAAGAGCATCC
1161604 TG
117 TG
* * * ** *
1161606 CTCTTTGAGGACTGGAAAA-TGCCACTAACTTGTGTGGGCTTT-GAAAGAAAAGGTGTCCTACTC
1 CTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCTC
** ** * * *
1161669 TTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG-TTTTGATAG-GCGTCCTA
65 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGCATCCTG
* * * * * * * * * **
1161721 CTATTTAAGGACTCAAAGGTGCCCCCAACTTGTGTAGGCTTT-GAAAGAAAATGTGTCCTGCTCT
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCTCT
** * *
1161785 TTGA-GACTAGAAAATGCCACCAACTTGTGTGGGCTTT-GAAAG-GCATCCTA
66 TTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGCATCCTG
* * *
1161835 CTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATCCTGCTCT
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCTCT
* * *
1161894 TTGAGGACTGGACA-ATGCCACCAACTTGTGTGGGC-TTCAAAAG-GCATCCTG
66 TTGAGGACTAGA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGCATCCTG
* * *
1161945 CTCTTTGAGGATTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTC
1 CTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCTC
1162009 TTTGAGGACT
65 TTTGAGGACT
1162019 GAAAAGTGGA
Statistics
Matches: 600, Mismatches: 121, Indels: 128
0.71 0.14 0.15
Matches are distributed among these distances:
109 19 0.03
110 75 0.12
111 5 0.01
114 83 0.14
115 90 0.15
116 28 0.05
117 2 0.00
118 10 0.02
119 9 0.01
120 22 0.04
121 71 0.12
122 78 0.13
123 10 0.02
124 3 0.00
125 7 0.01
126 21 0.04
127 27 0.05
128 23 0.04
129 12 0.02
131 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (118 bp):
CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCTCT
TTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGCATCCTG
Found at i:1161448 original size:61 final size:60
Alignment explanation
Indices: 1161373--1161521 Score: 150
Period size: 61 Copynumber: 2.6 Consensus size: 60
1161363 CAAAAAGGTG
* *
1161373 AAAGGAG-AGAGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACTAACTTGTGTGGGCTTT
1 AAAGGAGAAG-GCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTT
* * * * * *
1161433 AAAAGGAGAAGGCGTCTTGCTCTTTAAGGACT-GAAGGTGCCACCAGCTTATGTGGGCTTT
1 -AAAGGAGAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTT
*
1161493 ----GA-AAGGTGTCCTACTCTTTGAGGACTAAA
1 AAAGGAGAAGGCGTCCTACTCTTTGAGGACTAAA
1161522 GGATGAAAGG
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
54 20 0.27
55 3 0.04
60 23 0.32
61 25 0.34
62 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (60 bp):
AAAGGAGAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTT
Found at i:1161517 original size:154 final size:154
Alignment explanation
Indices: 1161232--1161677 Score: 590
Period size: 154 Copynumber: 2.9 Consensus size: 154
1161222 AAAGAAAGCA
* * * *
1161232 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCT
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
* ** *
1161297 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGG
66 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGG
1161362 ACAAAAAGG-TGAAAGGAGAGAGCG
131 AC-AAAAGGATGAAAGGAGAGAGCG
* *
1161386 TCCTACTCTTTGAGGACTAAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCTT
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
* * *
1161451 GCTCTTTAAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGG
66 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGG
*
1161516 ACTAAAGGATGAAAGGAGAGAGCG
131 ACAAAAGGATGAAAGGAGAGAGCG
* ** * * * *
1161540 TCCTACCCTTTGAGGACTGGGAAGTGCCACCT-ACTTGTGTGGGCTTTGAAAGGAAAAAGCATCC
1 TCCTACTCTTTGAGGACTGAAAAGTGCCA-CTAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
** *
1161604 TGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGAAAAGGTGTCCTACTC
65 TGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTACTC
1161669 TTTGAGGAC
124 TTTGAGGAC
1161678 TAGAAAATGC
Statistics
Matches: 255, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
153 5 0.02
154 200 0.78
155 25 0.10
159 1 0.00
160 24 0.09
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (154 bp):
TCCTACTCTTTGAGGACTGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGG
ACAAAAGGATGAAAGGAGAGAGCG
Found at i:1161749 original size:55 final size:56
Alignment explanation
Indices: 1161540--1162020 Score: 351
Period size: 55 Copynumber: 8.4 Consensus size: 56
1161530 GGAGAGAGCG
* ** *
1161540 TCCTACCCTTTGAGGACTGGGAA-GTGCCACCTACTTGTGTGGGCTTTGAAAGGAAAAAGCA
1 TCCTACTCTTTGAGGACTGACAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-G-----GCA
* * * **
1161601 TCCTGCTCTTTGAGGACTGGA-AA-ATGCCACTAACTTGTGTGGGCTTTGAAAGAAAAGGTG
1 TCCTACTCTTTGAGGACT-GACAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCA
* * * *
1161661 TCCTACTCTTTGAGGACTAGA-AA-ATGCCACCAACTTGTGTGGGTTTTGATAGGCG
1 TCCTACTCTTTGAGGACT-GACAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * * * * **
1161716 TCCTACTATTTAAGGACTCA-AAGGTGCCCCCAACTTGTGTAGGCTTTGAAAGAAAATGTG
1 TCCTACTCTTTGAGGACTGACAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG-----GCA
* *
1161776 TCCTGCTCTTTGA-GACTAGA-AA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTACTCTTTGAGGACT-GACAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
*
1161830 TCCTACTCTTTGAGGATTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTACTCTTTGAGGACTGACAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* **
1161885 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTCAAAAGGCA
1 TCCTACTCTTTGAGGACT-GACAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * *
1161940 TCCTGCTCTTTGAGGATTGGA-AA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTACTCTTTGAGGACT-GACAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCA
*
1162001 TCCTGCTCTTTGAGGACTGA
1 TCCTACTCTTTGAGGACTGA
1162021 AAAGTGGAAG
Statistics
Matches: 353, Mismatches: 43, Indels: 49
0.79 0.10 0.11
Matches are distributed among these distances:
54 22 0.06
55 166 0.47
56 3 0.01
57 2 0.01
59 30 0.08
60 61 0.17
61 63 0.18
62 1 0.00
65 2 0.01
66 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (56 bp):
TCCTACTCTTTGAGGACTGACAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:1161949 original size:110 final size:111
Alignment explanation
Indices: 1161547--1162023 Score: 467
Period size: 114 Copynumber: 4.2 Consensus size: 111
1161537 GCGTCCTACC
* * * * * *
1161547 CTTTGAGGACTGGGAAGTGCCACCTACTTGTGTGGGCTTTGAAAGGAAAAAGCATCCTGCTCTTT
1 CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCATCCTACTCTTT
* * ** *
1161612 GAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGAAAAGGTGTCCTACT
60 GAGGA-TTGAAAATGCCACCAACTTGTGTGGGCTTT---AGAAAAGGCATCCTGCT
* * * * * * *
1161668 CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGTTTTGATAGGCGTCCTACTATTTAAGGAC
1 CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGAT
* * * * * **
1161733 TCAAAGGTGCCCCCAACTTGTGTAGGCTTTGAAAGAAAATGTGTCCTGCT
66 TGAAA-ATGCCACCAACTTGTGTGGGCTTT---AGAAAAGGCATCCTGCT
*
1161783 CTTTGA-GACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGAT
1 CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGAT
*
1161847 TGAAAGGTGCCACCAACTTGTGTGGGCTTT-G-AAAGGCATCCTGCT
66 TGAAA-ATGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCT
* * * *
1161892 CTTTGAGGACTGGACAATGCCACCAACTTGTGTGGGCTTCAAAAGGCATCCTGCTCTTTGAGGAT
1 CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGAT
1161957 TGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCT
66 T-GAAAATGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCATCCTGCT
1162008 CTTTGAGGACT-GAAAA
1 CTTTGAGGACTAGAAAA
1162024 GTGGAAGGAG
Statistics
Matches: 307, Mismatches: 40, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
109 17 0.06
110 78 0.25
111 4 0.01
114 82 0.27
115 66 0.21
116 25 0.08
121 35 0.11
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (111 bp):
CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGAT
TGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCT
Found at i:1163015 original size:1 final size:1
Alignment explanation
Indices: 1162995--1163071 Score: 55
Period size: 1 Copynumber: 77.0 Consensus size: 1
1162985 CTTTTCTCTC
* * * * * * ** * *
1162995 TTTTTTCTTTGTTTTATTTTTTATTTTTTATTTTTTTTGTTTTTTTTTTTGCTTTTGTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
1163060 TTTGTTTTTTTT
1 TTTTTTTTTTTT
1163072 AGAAGAGAAG
Statistics
Matches: 55, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.04, C:0.03, G:0.08, T:0.86
Consensus pattern (1 bp):
T
Found at i:1163021 original size:6 final size:6
Alignment explanation
Indices: 1163002--1163068 Score: 68
Period size: 6 Copynumber: 11.5 Consensus size: 6
1162992 CTCTTTTTTC
* * * *
1163002 TTTGTT TTAT-TT TTTATT TTT-TA TTT-TT TTTGTT TTTTTT TTTGCT
1 TTTGTT TT-TGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT
1163048 TTTGTT TTTGTT TTTGTT TTT
1 TTTGTT TTTGTT TTTGTT TTT
1163069 TTTAGAAGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
5 9 0.17
6 42 0.81
7 1 0.02
ACGTcount: A:0.04, C:0.01, G:0.09, T:0.85
Consensus pattern (6 bp):
TTTGTT
Found at i:1163034 original size:28 final size:28
Alignment explanation
Indices: 1162995--1163071 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 28
1162985 CTTTTCTCTC
*
1162995 TTTTTTCTTTGTTTTATTTTTT-ATTTT-
1 TTTTTTTTTTGTTTT-TTTTTTGATTTTG
*
1163022 TTATTTTTTTTGTTTTTTTTTTTGCTTTTG
1 TT-TTTTTTTTG-TTTTTTTTTTGATTTTG
1163052 TTTTTGTTTTTGTTTTTTTT
1 TTTTT-TTTTTGTTTTTTTT
1163072 AGAAGAGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 2 0.05
28 14 0.33
29 19 0.44
30 8 0.19
ACGTcount: A:0.04, C:0.03, G:0.08, T:0.86
Consensus pattern (28 bp):
TTTTTTTTTTGTTTTTTTTTTGATTTTG
Found at i:1163044 original size:12 final size:12
Alignment explanation
Indices: 1162995--1163069 Score: 69
Period size: 12 Copynumber: 5.8 Consensus size: 12
1162985 CTTTTCTCTC
*
1162995 TTTTTTCTTTGTT
1 TTTTTTTTTTG-T
*
1163008 TTATTTTTTATTTT
1 TT-TTTTTT-TTGT
1163022 TTATTTTTTTTGT
1 TT-TTTTTTTTGT
*
1163035 TTTTTTTTTTGC
1 TTTTTTTTTTGT
*
1163047 TTTTGTTTTTGT
1 TTTTTTTTTTGT
1163059 TTTTGTTTTTT
1 TTTT-TTTTTT
1163070 TTAGAAGAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
12 23 0.44
13 12 0.23
14 15 0.29
15 2 0.04
ACGTcount: A:0.04, C:0.03, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:1175608 original size:51 final size:51
Alignment explanation
Indices: 1175542--1175820 Score: 253
Period size: 51 Copynumber: 5.4 Consensus size: 51
1175532 TGAAAATAAT
*
1175542 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
** * *
1175593 GGGGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* * * ** ** * **
1175644 GGGGTTGGAGTATCCCC--TCG-GA-AATAACGAGGTTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTATCCCCGATTGTGAGAA-ATCAATATTTTAG-A-----AAT-AAA-GCC
*
1175700 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGTCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAG-CC
* * * *
1175752 -GAGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
1175802 GGGGTTGGAGTATCCCCGA
1 GGGGTTGGAGTATCCCCGA
1175821 AATAACGGGG
Statistics
Matches: 177, Mismatches: 36, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
47 2 0.01
48 8 0.05
49 3 0.02
50 1 0.01
51 121 0.68
52 3 0.02
53 2 0.01
54 2 0.01
55 3 0.02
56 18 0.10
58 3 0.02
59 9 0.05
60 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:1175719 original size:28 final size:28
Alignment explanation
Indices: 1175643--1175719 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
1175633 GAAATAAAGT
***
1175643 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1175671 CGAGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
1175699 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1175720 TGTGAGAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1175806 original size:158 final size:155
Alignment explanation
Indices: 1175518--1175884 Score: 612
Period size: 158 Copynumber: 2.3 Consensus size: 155
1175508 AAAATTGGGA
*
1175518 TTGGAGTATCCCCG-TGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
1 TTGGAGTATCCCCGATG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
*
1175582 GAAATAAGGCCGGGGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTCGGG
65 GAAATAAGGCCGGAGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTCGGG
1175647 GTTGGAGTATCCCCTCGGAAATAACGAGG
130 GTTGGAGTAT-CCC-C-GAAATAACGAGG
1175676 TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAG
1 TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAG
*
1175741 AAATAAGGTCC-GAGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTCGGG
66 AAATAAGG-CCGGAGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTCGGG
*
1175805 GTTGGAGTATCCCCGAAATAACGGGG
130 GTTGGAGTATCCCCGAAATAACGAGG
*
1175831 TTGGAGTATCCCCGATGAAATAATCGGAGTTGGAGTATCCCCGATTGTGGAGAA
1 TTGGAGTATCCCCGATGAAATAA-CGGGGTTGGAGTATCCCCGATTGT-GAGAA
1175885 TTGGTGTTTT
Statistics
Matches: 200, Mismatches: 5, Indels: 9
0.93 0.02 0.04
Matches are distributed among these distances:
155 34 0.17
156 24 0.12
157 8 0.04
158 130 0.65
159 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (155 bp):
TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAG
AAATAAGGCCGGAGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTCGGGG
TTGGAGTATCCCCGAAATAACGAGG
Found at i:1175832 original size:25 final size:26
Alignment explanation
Indices: 1175791--1175874 Score: 107
Period size: 25 Copynumber: 3.1 Consensus size: 26
1175781 CAATATTTTG
1175791 GAAATAAAGTCGGGGTTGGAGTATCCCC
1 GAAAT-AA-TCGGGGTTGGAGTATCCCC
1175819 GAAATAA-CGGGGTTGGAGTATCCCC
1 GAAATAATCGGGGTTGGAGTATCCCC
*
1175844 GATGAAATAATCGGAGTTGGAGTATCCCC
1 ---GAAATAATCGGGGTTGGAGTATCCCC
1175873 GA
1 GA
1175875 TTGTGGAGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
25 18 0.35
26 2 0.04
27 2 0.04
28 12 0.24
29 17 0.33
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.21
Consensus pattern (26 bp):
GAAATAATCGGGGTTGGAGTATCCCC
Found at i:1175865 original size:29 final size:29
Alignment explanation
Indices: 1175791--1175875 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 29
1175781 CAATATTTTG
1175791 GAAATAAAGTCGGGGTTGGAGTATCCCC---
1 GAAAT-AA-TCGGGGTTGGAGTATCCCCGAT
1175819 GAAATAA-CGGGGTTGGAGTATCCCCGAT
1 GAAATAATCGGGGTTGGAGTATCCCCGAT
*
1175847 GAAATAATCGGAGTTGGAGTATCCCCGAT
1 GAAATAATCGGGGTTGGAGTATCCCCGAT
1175876 TGTGGAGAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
25 18 0.35
27 2 0.04
28 12 0.23
29 20 0.38
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (29 bp):
GAAATAATCGGGGTTGGAGTATCCCCGAT
Found at i:1175877 original size:105 final size:106
Alignment explanation
Indices: 1175752--1175947 Score: 261
Period size: 105 Copynumber: 1.8 Consensus size: 106
1175742 AATAAGGTCC
* * *
1175752 GAGTTGAAGTATCCCCGATTGT-GAGAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATC
1 GAGTTGAAGTATCCCCGATTGTGGAG-AATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATC
* *
1175816 CCC-GAAATAACGGGGTTGGAGTATCCCCGATGAAATAATCG
65 CCCTGAAATAACGGGATTAGAGTATCCCCGATGAAATAATCG
* *** *
1175857 GAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATCC
1 GAGTTGAAGTATCCCCGATTGTGGAGAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATCC
1175922 CCTTGGAAATAACGGGATTAGAGTAT
66 CC-T-GAAATAACGGGATTAGAGTAT
1175948 TCCTGATTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
105 55 0.71
106 3 0.04
108 19 0.25
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.28
Consensus pattern (106 bp):
GAGTTGAAGTATCCCCGATTGTGGAGAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATCC
CCTGAAATAACGGGATTAGAGTATCCCCGATGAAATAATCG
Found at i:1175992 original size:79 final size:79
Alignment explanation
Indices: 1175826--1176157 Score: 243
Period size: 79 Copynumber: 4.2 Consensus size: 79
1175816 CCCGAAATAA
* * * * *
1175826 CGGGGTTGGAGTATCCCCGAT-GAAATAATC-GGAGTTGGAGTATCCCCGATTGTG-GAGAATTG
1 CGGGGTTGGAGTATCCCC-TTGGAAATAA-CGGGA-TTAGAGTATTCCTGATTATGAGA-AATTG
* * *
1175888 GTGTTTTAGAAATAAAAT
62 ATATTTTAGAAATAAAAC
* *
1175906 CGAGGTTGGAGTATCCCCTTGGAAATAACGGGATTAGAGTATTCCTGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTTGGAAATAACGGGATTAGAGTATTCCTGATTATGAGAAATTGATAT
*
1175971 TTTAGAAATAAAGC
66 TTTAGAAATAAAAC
* * *
1175985 CGGGGTTGGAGT-TTCCCTTCGGAAATAACGAGG-CTAGAGTA-TCTCTG---ATGAAAAATTGA
1 CGGGGTTGGAGTATCCCCTT-GGAAATAACG-GGATTAGAGTATTC-CTGATTATGAGAAATTGA
1176044 TATTTTAGAAATAAAAC
63 TATTTTAGAAATAAAAC
** * * * * * * * * * * *
1176061 TAGGGTTGGAGTGTTCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGA-AAAGTCAGTG
1 CGGGGTTGGAGTATCCCCTTGGAAATAACGGGATTAGAGTATTCCTGATTATGAGAAATTGA-TA
* *
1176125 TTTTGGAAATAAAAT
65 TTTTAGAAATAAAAC
* *
1176140 TGGAGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1176158 GATTATGGAA
Statistics
Matches: 205, Mismatches: 34, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
75 2 0.01
76 53 0.26
77 8 0.04
78 13 0.06
79 98 0.48
80 31 0.15
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTTGGAAATAACGGGATTAGAGTATTCCTGATTATGAGAAATTGATAT
TTTAGAAATAAAAC
Found at i:1176101 original size:76 final size:77
Alignment explanation
Indices: 1175891--1176103 Score: 236
Period size: 76 Copynumber: 2.7 Consensus size: 77
1175881 AGAATTGGTG
* * *
1175891 TTTTAGAAATAAAA-TCGAGGTTGGAGTATCCCCTTGGAAATAACGGGATTAGAGTAT-TCCTGA
1 TTTTAGAAATAAAACTAG-GGTTGGAGT-TTCCCTTGGAAATAACGGGGTTAGAGTATCTCCTG-
*
1175954 TTATGAGAAATTAATA
63 -TATGAAAAATTAATA
* ** * *
1175970 TTTTAGAAATAAAGCCGGGGTTGGAGTTTCCCTTCGGAAATAACGAGGCTAGAGTATCT-CTG-A
1 TTTTAGAAATAAAACTAGGGTTGGAGTTTCCCTT-GGAAATAACGGGGTTAGAGTATCTCCTGTA
*
1176033 TGAAAAATTGATA
65 TGAAAAATTAATA
* *
1176046 TTTTAGAAATAAAACTAGGGTTGGAGTGTTCCCTTGAAAATAACGGGGTTGGAGTATC
1 TTTTAGAAATAAAACTAGGGTTGGAGT-TTCCCTTGGAAATAACGGGGTTAGAGTATC
1176104 CCCGATTGTG
Statistics
Matches: 114, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
76 55 0.48
77 7 0.06
78 6 0.05
79 44 0.39
80 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (77 bp):
TTTTAGAAATAAAACTAGGGTTGGAGTTTCCCTTGGAAATAACGGGGTTAGAGTATCTCCTGTAT
GAAAAATTAATA
Found at i:1176148 original size:51 final size:51
Alignment explanation
Indices: 1176093--1176261 Score: 182
Period size: 51 Copynumber: 3.3 Consensus size: 51
1176083 AAATAACGGG
* * *
1176093 GTTGGAGTATCCCCGATTGT-GAAAAGTCAGTGTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGGAAAA-TCAGTGTTTTAGAAATAAAATCGGA
**
1176144 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGA
* * * * * * *
1176195 GTTGGAGTATCCCCGATTAAGAAAAAT-TGATGTCTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATGGAAAATCAG-TGTTTTAGAAATAAAATCGGA
1176245 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
1176262 GATGAAAAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
50 2 0.02
51 96 0.93
52 5 0.05
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGA
Found at i:1178514 original size:20 final size:19
Alignment explanation
Indices: 1178489--1178562 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
1178479 AAAATGCCTG
*
1178489 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
1178509 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
1178529 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
1178549 AATGTATCGATACA
1 AATGTATCGATACA
1178563 TCTGGGTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1180527 original size:16 final size:16
Alignment explanation
Indices: 1180472--1180543 Score: 90
Period size: 16 Copynumber: 4.5 Consensus size: 16
1180462 CCCGAACCCA
* *
1180472 AAAGAAACTAAACCCG
1 AAAGAACCTAAACCTG
* *
1180488 AAAGAACATAAACATG
1 AAAGAACCTAAACCTG
1180504 AAAGAACCTAAACCTG
1 AAAGAACCTAAACCTG
*
1180520 AAAGAACCCAAACCTG
1 AAAGAACCTAAACCTG
*
1180536 AAAAAACC
1 AAAGAACC
1180544 CCAATCCAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.57, C:0.24, G:0.11, T:0.08
Consensus pattern (16 bp):
AAAGAACCTAAACCTG
Found at i:1180594 original size:94 final size:94
Alignment explanation
Indices: 1180488--1180675 Score: 254
Period size: 94 Copynumber: 2.0 Consensus size: 94
1180478 ACTAAACCCG
* * * *
1180488 AAAGAACATAAACATGAAAGAACCTAAACCTGAAAGAACCCAAACCTGAAAAAACCCCAATCCAA
1 AAAGAACATAAACACGAAAGAACATAAACATGAAAAAACCCAAACCTGAAAAAACCCCAATCCAA
* *
1180553 CAGAA-CTCAAACTCGAGACTGACCCGAAC
66 CAGAATC-CAAACCCGAGACTAACCCGAAC
* * **
1180582 AAAGAA-ACTAAACCCGAAAGAACATGAACATGAAAAAACGTAAACCTGAAAAAACCCCAATCCA
1 AAAGAACA-TAAACACGAAAGAACATAAACATGAAAAAACCCAAACCTGAAAAAACCCCAATCCA
1180646 ACAGAATCCAAACCCGAGACTAACCCGAAC
65 ACAGAATCCAAACCCGAGACTAACCCGAAC
1180676 TTGAATTTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
93 1 0.01
94 80 0.98
95 1 0.01
ACGTcount: A:0.51, C:0.28, G:0.12, T:0.09
Consensus pattern (94 bp):
AAAGAACATAAACACGAAAGAACATAAACATGAAAAAACCCAAACCTGAAAAAACCCCAATCCAA
CAGAATCCAAACCCGAGACTAACCCGAAC
Found at i:1181724 original size:24 final size:24
Alignment explanation
Indices: 1181692--1181768 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
1181682 AATACATAAA
1181692 ATTAATATGATTAATTTGTAATAT
1 ATTAATATGATTAATTTGTAATAT
1181716 ATTAATATGATTAATTT-TAAT-T
1 ATTAATATGATTAATTTGTAATAT
** * *
1181738 ACCAATCTGATTAATTTGCAATAT
1 ATTAATATGATTAATTTGTAATAT
1181762 A-TAATAT
1 ATTAATAT
1181769 TATAATAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 15 0.33
23 11 0.24
24 19 0.42
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTAATATGATTAATTTGTAATAT
Found at i:1181829 original size:20 final size:19
Alignment explanation
Indices: 1181795--1181832 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1181785 TTAAAAATTA
*
1181795 ATTTTATATATAAATATAG
1 ATTTTATAAATAAATATAG
1181814 ATTTTAATAAATAAATATA
1 ATTTT-ATAAATAAATATA
1181833 TTTAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTTTATAAATAAATATAG
Found at i:1182045 original size:16 final size:16
Alignment explanation
Indices: 1182026--1182066 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
1182016 AAAAAGGCTT
*
1182026 GAACCTAAATAGGTCC
1 GAACCCAAATAGGTCC
*
1182042 GAACCCGAATAGGTCC
1 GAACCCAAATAGGTCC
1182058 GAACCCAAA
1 GAACCCAAA
1182067 AAAGACCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.29, G:0.20, T:0.12
Consensus pattern (16 bp):
GAACCCAAATAGGTCC
Found at i:1182062 original size:32 final size:32
Alignment explanation
Indices: 1182026--1182113 Score: 81
Period size: 32 Copynumber: 2.8 Consensus size: 32
1182016 AAAAAGGCTT
* * *
1182026 GAACCTAAATAGGTCCGAACCCGAAT-AGGTCC
1 GAACCTAAATAGGACCAAACCCGAATAAGCT-C
* * * *
1182058 GAACCCAAAAAAGACCAAACCCGAATAAGCTT
1 GAACCTAAATAGGACCAAACCCGAATAAGCTC
1182090 GAACCTAAATAGG-CCAAAACCCGA
1 GAACCTAAATAGGACC-AAACCCGA
1182114 CAAAACCCAA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
31 2 0.05
32 39 0.89
33 3 0.07
ACGTcount: A:0.43, C:0.28, G:0.17, T:0.11
Consensus pattern (32 bp):
GAACCTAAATAGGACCAAACCCGAATAAGCTC
Found at i:1183703 original size:13 final size:13
Alignment explanation
Indices: 1183685--1183710 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1183675 TACACAAAGT
1183685 ATGTATCGATACA
1 ATGTATCGATACA
1183698 ATGTATCGATACA
1 ATGTATCGATACA
1183711 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1183708 original size:32 final size:33
Alignment explanation
Indices: 1183667--1183730 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1183657 TAGCCAAACT
**
1183667 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1183699 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1183731 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1187076 original size:15 final size:15
Alignment explanation
Indices: 1187056--1187087 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1187046 ATAAAAGTGT
*
1187056 TCAAAATGAGGAAGC
1 TCAAAATGAAGAAGC
1187071 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
1187086 TC
1 TC
1187088 CAAACGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:1189173 original size:20 final size:20
Alignment explanation
Indices: 1189102--1189179 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 20
1189092 AATGTCCAAA
1189102 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACAT-TTTTCT
* *
1189122 GTGTATCGATACATTTGGAAATTCA
1 ATGTATCGATACATTT-----TTCT
1189147 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
1189167 TTGTATCGATACA
1 ATGTATCGATACA
1189180 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 2 0.04
20 28 0.60
24 2 0.04
25 15 0.32
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:1189186 original size:13 final size:13
Alignment explanation
Indices: 1189168--1189205 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1189158 CATTTTTCTT
1189168 TGTATCGATACAA
1 TGTATCGATACAA
*
1189181 TGTATCGATACAC
1 TGTATCGATACAA
1189194 TGTATCGATACA
1 TGTATCGATACA
1189206 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1191782 original size:13 final size:13
Alignment explanation
Indices: 1191764--1191822 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 13
1191754 TAAACAAAGT
1191764 ATGTATCGATACA
1 ATGTATCGATACA
1191777 ATGTATCGATACACAAAAA
1 ATGTATCGAT--AC----A
1191796 ATTGTATCGATACA
1 A-TGTATCGATACA
1191810 ATGTATCGATACA
1 ATGTATCGATACA
1191823 CAAAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.56
14 2 0.05
15 2 0.05
18 2 0.05
19 2 0.05
20 9 0.23
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1191803 original size:20 final size:20
Alignment explanation
Indices: 1191778--1191842 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
1191768 ATCGATACAA
1191778 TGTATCGATACACAAAAAAT
1 TGTATCGATACACAAAAAAT
1191798 TGTATCGAT--AC----AA-
1 TGTATCGATACACAAAAAAT
1191811 TGTATCGATACACAAAAAAT
1 TGTATCGATACACAAAAAAT
1191831 TGTATCGATACA
1 TGTATCGATACA
1191843 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.24
14 2 0.05
15 2 0.05
18 2 0.05
19 2 0.05
20 21 0.55
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (20 bp):
TGTATCGATACACAAAAAAT
Found at i:1191807 original size:33 final size:33
Alignment explanation
Indices: 1191746--1191842 Score: 160
Period size: 33 Copynumber: 3.0 Consensus size: 33
1191736 TAGCCAAACT
* **
1191746 TGTATCGATAAACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1191778 TGTATCGATACACAAAAAATTGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1191811 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1191843 TTGGCTTGTA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 16 0.26
33 45 0.74
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1193576 original size:26 final size:27
Alignment explanation
Indices: 1193537--1193590 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
1193527 TCTAAGCTTA
*
1193537 ATGATGAGTTTTTGACATAC-TTAATG
1 ATGATGAGTATTTGACATACATTAATG
1193563 ATGATGAGTATTTGACATACATTAATG
1 ATGATGAGTATTTGACATACATTAATG
1193590 A
1 A
1193591 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (27 bp):
ATGATGAGTATTTGACATACATTAATG
Found at i:1194771 original size:106 final size:102
Alignment explanation
Indices: 1194621--1194827 Score: 290
Period size: 106 Copynumber: 2.0 Consensus size: 102
1194611 ACAATGATTC
* *
1194621 AAAAAAAATTTTATATTATTTTAGCAAAAAAAATCGAAGTTGAGTTGACTTGCAAAATGAGTCCA
1 AAAAAAAAATTTATATTATTTTAGCAAAAAAAATCGAAGTTGAGTTGACTTGCAAAATGAGTCAA
* *
1194686 ATCTCTATCGATAGTTAAGACACAACCTTAAAAATAACA
66 ATCTCTATCAATAGTCAA-A-ACAACCTTAAAAATAACA
* *
1194725 AAAAAAAAATTTATATTATTTTAGCCAAAAGAAAATC-AAGATTGAGTTGACTTGCAATATGGGT
1 AAAAAAAAATTTATATTATTTTAG-CAAAA-AAAATCGAAG-TTGAGTTGACTTGCAAAATGAGT
* *
1194789 CAAATTTCTATCAATAGTCAAAACTACCTTAAAAATAAC
63 CAAATCTCTATCAATAGTCAAAACAACCTTAAAAATAAC
1194828 TCATAAATCA
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
104 39 0.42
105 9 0.10
106 44 0.48
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.29
Consensus pattern (102 bp):
AAAAAAAAATTTATATTATTTTAGCAAAAAAAATCGAAGTTGAGTTGACTTGCAAAATGAGTCAA
ATCTCTATCAATAGTCAAAACAACCTTAAAAATAACA
Found at i:1195341 original size:13 final size:13
Alignment explanation
Indices: 1195316--1195461 Score: 58
Period size: 13 Copynumber: 11.6 Consensus size: 13
1195306 AATATTTCAC
1195316 TAATATGTTAAAAA
1 TAATAT-TTAAAAA
1195330 TAATATTTAAAAGTA
1 TAATATTTAAAA--A
*
1195345 TAA-ATTTAACAA
1 TAATATTTAAAAA
1195357 T-AT-TTT-AAAA
1 TAATATTTAAAAA
* **
1195367 TAATATTTTATATT
1 TAATA-TTTAAAAA
*
1195381 TAATAATT-AAAA
1 TAATATTTAAAAA
* * **
1195393 TTATATTTTACTA
1 TAATATTTAAAAA
* *
1195406 TCATATTTATAAA
1 TAATATTTAAAAA
* *
1195419 TAATGTTTAATAA
1 TAATATTTAAAAA
*
1195432 T-ATATGT---AA
1 TAATATTTAAAAA
*
1195441 TCATATTTAAAAA
1 TAATATTTAAAAA
1195454 TAATATTT
1 TAATATTT
1195462 GAATATATAA
Statistics
Matches: 94, Mismatches: 26, Indels: 25
0.65 0.18 0.17
Matches are distributed among these distances:
9 3 0.03
10 9 0.10
11 6 0.06
12 13 0.14
13 40 0.43
14 19 0.20
15 4 0.04
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:1195775 original size:26 final size:26
Alignment explanation
Indices: 1195735--1195786 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1195725 ATTTATGTAT
* * **
1195735 TTTTTAAGATTTTAAATTTTGATTAA
1 TTTTTAAAATATTAAAAATTGATTAA
1195761 TTTTTAAAATATTAAAAATTGATTAA
1 TTTTTAAAATATTAAAAATTGATTAA
1195787 AAATACTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (26 bp):
TTTTTAAAATATTAAAAATTGATTAA
Found at i:1195925 original size:17 final size:17
Alignment explanation
Indices: 1195903--1195941 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1195893 ATTAGAAAAA
*
1195903 TATTAAAATATTTATAT
1 TATTAAAATATTGATAT
*
1195920 TATTAAAGTATTGATAT
1 TATTAAAATATTGATAT
1195937 T-TTAA
1 TATTAA
1195942 TTGATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TATTAAAATATTGATAT
Found at i:1196470 original size:21 final size:21
Alignment explanation
Indices: 1196369--1196475 Score: 60
Period size: 21 Copynumber: 5.0 Consensus size: 21
1196359 AAAAGAAAAC
*
1196369 ATTTTAAT-TTTAAAT-ATAT
1 ATTTTATTATTTAAATAATAT
* *
1196388 CTTGTGTATTATTAAACATAA-AT
1 ATT-T-TATTATTTAA-ATAATAT
* *
1196411 ATTTT-TATATTTCAATAATAA
1 ATTTTAT-TATTTAAATAATAT
**
1196432 ATTATTAAGATTAATAAATAATAT
1 ATT-TTATTATT--TAAATAATAT
1196456 ATTTTATTATTTAAATAATA
1 ATTTTATTATTTAAATAATA
1196476 AAATATTTAT
Statistics
Matches: 64, Mismatches: 13, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
19 2 0.03
20 6 0.09
21 22 0.34
22 10 0.16
23 12 0.19
24 12 0.19
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTTTATTATTTAAATAATAT
Found at i:1201624 original size:52 final size:52
Alignment explanation
Indices: 1201539--1201663 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
1201529 ATATGAAAAG
* *
1201539 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
1201591 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
1201643 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1201664 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:1201676 original size:52 final size:51
Alignment explanation
Indices: 1201539--1201683 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
1201529 ATATGAAAAG
*
1201539 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
1201591 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
1201643 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1201684 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:1201690 original size:13 final size:13
Alignment explanation
Indices: 1201672--1201696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1201662 CAAAGATCAG
1201672 TGTATCGATACAA
1 TGTATCGATACAA
1201685 TGTATCGATACA
1 TGTATCGATACA
1201697 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1201779 original size:33 final size:33
Alignment explanation
Indices: 1201737--1201806 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1201727 GGCAGTAGCT
1201737 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
1201770 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
1201803 TACA
1 TACA
1201807 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:1201780 original size:13 final size:13
Alignment explanation
Indices: 1201762--1201786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1201752 CAAAAAAATA
1201762 TGTATCGATACAT
1 TGTATCGATACAT
1201775 TGTATCGATACA
1 TGTATCGATACA
1201787 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1203436 original size:13 final size:13
Alignment explanation
Indices: 1203418--1203442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1203408 CAAGAGAGAA
1203418 TGCTTGAGAGGGG
1 TGCTTGAGAGGGG
1203431 TGCTTGAGAGGG
1 TGCTTGAGAGGG
1203443 AGGAGGGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.52, T:0.24
Consensus pattern (13 bp):
TGCTTGAGAGGGG
Found at i:1207979 original size:28 final size:27
Alignment explanation
Indices: 1207940--1208010 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
1207930 AAACAAGCCT
* *
1207940 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
*
1207968 CCATTTTTGACAAACACAAAATAACTA
1 CCATTTTTGACAAACACAAAATAACCA
*
1207995 CTATTTTTGACAAACA
1 CCATTTTTGACAAACA
1208011 AATGGGTGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 19 0.50
28 18 0.47
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:1209181 original size:8 final size:8
Alignment explanation
Indices: 1209161--1209273 Score: 55
Period size: 8 Copynumber: 14.4 Consensus size: 8
1209151 TTTCAAATAA
1209161 ATTTA-AT
1 ATTTATAT
1209168 ACTTTATAT
1 A-TTTATAT
1209177 ATTTATAT
1 ATTTATAT
*
1209185 ATTTTTAT
1 ATTTATAT
1209193 ATGTTATA-
1 AT-TTATAT
1209201 A-TTATAT
1 ATTTATAT
* *
1209208 -TTAAAAT
1 ATTTATAT
1209215 A-TTATA-
1 ATTTATAT
1209221 ATTTATAT
1 ATTTATAT
1209229 AAATTT-TGAT
1 --ATTTAT-AT
1209239 ATATTAT-T
1 AT-TTATAT
* *
1209247 ATATAAAT
1 ATTTATAT
1209255 -TTTAATAT
1 ATTT-ATAT
1209263 ATTTATAT
1 ATTTATAT
1209271 ATT
1 ATT
1209274 CACACTACGT
Statistics
Matches: 80, Mismatches: 10, Indels: 31
0.66 0.08 0.26
Matches are distributed among these distances:
6 6 0.08
7 17 0.21
8 37 0.46
9 13 0.16
10 7 0.09
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.57
Consensus pattern (8 bp):
ATTTATAT
Found at i:1209262 original size:46 final size:45
Alignment explanation
Indices: 1209157--1209262 Score: 101
Period size: 46 Copynumber: 2.3 Consensus size: 45
1209147 GATATTTCAA
* *
1209157 ATAAA-TTTAATACTTTATATATTTATATATTTTTATATGTTATAAT
1 ATAAATTTTAATA--TTATATATTTATATATTTTGATATATTATAAT
* * *
1209203 -TATATTTAAAATATTATA-ATTTATATAAATTTTGATATATTATTAT
1 ATAAATTT-TAATATTATATATTTATAT--ATTTTGATATATTATAAT
1209249 ATAAATTTTAATAT
1 ATAAATTTTAATAT
1209263 ATTTATATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
44 8 0.17
45 8 0.17
46 22 0.46
47 10 0.21
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (45 bp):
ATAAATTTTAATATTATATATTTATATATTTTGATATATTATAAT
Found at i:1209272 original size:22 final size:22
Alignment explanation
Indices: 1209223--1209265 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1209213 ATATTATAAT
*
1209223 TTATATAAATTTTGATATATTA
1 TTATATAAATTTTAATATATTA
1209245 TTATATAAATTTTAATATATT
1 TTATATAAATTTTAATATATT
1209266 TATATATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATATAAATTTTAATATATTA
Found at i:1209807 original size:26 final size:26
Alignment explanation
Indices: 1209778--1209868 Score: 86
Period size: 26 Copynumber: 3.7 Consensus size: 26
1209768 ATTCAAATTC
*
1209778 AAATTAAAATTCAAATAATAATATAT
1 AAATTTAAATTCAAATAATAATATAT
1209804 AAATTT-AATAT-AAATAAT-A-A-AT
1 AAATTTAAAT-TCAAATAATAATATAT
** *
1209826 AAATTTAAATTTTAA-AATACATCTAT
1 AAATTTAAATTCAAATAATA-ATATAT
1209852 AAATTTAAATTCAAATA
1 AAATTTAAATTCAAATA
1209869 TTACATAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
22 12 0.23
23 6 0.12
24 2 0.04
25 10 0.19
26 21 0.40
27 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATTTAAATTCAAATAATAATATAT
Found at i:1209844 original size:22 final size:23
Alignment explanation
Indices: 1209794--1209877 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 23
1209784 AAATTCAAAT
* *
1209794 AATAATATATAAATTT-AATATA
1 AATAATAAATAAATTTAAATTTA
1209816 AATAATAAATAAATTTAAATTTTAA
1 AATAATAAATAAATTTAAA-TTT-A
** *
1209841 AATACATCTATAAATTTAAATTCA
1 AATA-ATAAATAAATTTAAATTTA
* *
1209865 AATATTACATAAA
1 AATAATAAATAAA
1209878 AATAAAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
22 15 0.30
23 8 0.16
24 7 0.14
25 7 0.14
26 13 0.26
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (23 bp):
AATAATAAATAAATTTAAATTTA
Found at i:1210098 original size:2 final size:2
Alignment explanation
Indices: 1210093--1210119 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1210083 ACACACACAC
1210093 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1210120 CTAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1210333 original size:17 final size:17
Alignment explanation
Indices: 1210281--1210348 Score: 50
Period size: 17 Copynumber: 4.0 Consensus size: 17
1210271 ATTAAAAAAT
*
1210281 TATTTTATATTTATATATA
1 TATTTT-TATTTAAATA-A
**
1210300 TATTTAAATTT-AA-AA
1 TATTTTTATTTAAATAA
1210315 TATTTTTATTTAAATAA
1 TATTTTTATTTAAATAA
* * *
1210332 TAATATGATTTAAATAA
1 TATTTTTATTTAAATAA
1210349 ATTAACTGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
15 10 0.26
16 3 0.08
17 17 0.44
18 4 0.10
19 5 0.13
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (17 bp):
TATTTTTATTTAAATAA
Found at i:1211830 original size:8 final size:8
Alignment explanation
Indices: 1211813--1211874 Score: 58
Period size: 8 Copynumber: 7.9 Consensus size: 8
1211803 TTAATAAAAA
1211813 TTTTATTAT
1 TTTTA-TAT
1211822 TTTTATAT
1 TTTTATAT
*
1211830 TTTTAAAT
1 TTTTATAT
1211838 TTTTAT-T
1 TTTTATAT
* *
1211845 ATTTAAAT
1 TTTTATAT
1211853 TTTT-TAT
1 TTTTATAT
1211860 ATTTTA-AT
1 -TTTTATAT
1211868 TTTTATA
1 TTTTATA
1211875 ATACTTTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
7 12 0.28
8 26 0.60
9 5 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTATAT
Found at i:1211849 original size:15 final size:16
Alignment explanation
Indices: 1211820--1211874 Score: 78
Period size: 15 Copynumber: 3.6 Consensus size: 16
1211810 AAATTTTATT
*
1211820 ATTTTTATATTTTTAA
1 ATTTTTATATATTTAA
1211836 ATTTTTAT-TATTTAA
1 ATTTTTATATATTTAA
*
1211851 ATTTTT-TATATTTTA
1 ATTTTTATATATTTAA
1211866 ATTTTTATA
1 ATTTTTATA
1211875 ATACTTTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 1 0.03
15 24 0.69
16 10 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTTATATATTTAA
Found at i:1213231 original size:21 final size:19
Alignment explanation
Indices: 1213181--1213233 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
1213171 CATTTTCTTT
1213181 AAGAAGAAAAAAAATGAAA
1 AAGAAGAAAAAAAATGAAA
1213200 AAGAAAAGAAAAAAGGAA-GAAA
1 AAG--AAGAAAAAA--AATGAAA
1213222 AAGAACGAAAAA
1 AAGAA-GAAAAA
1213234 GCTACCTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.10
20 2 0.07
21 15 0.52
22 7 0.24
23 2 0.07
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (19 bp):
AAGAAGAAAAAAAATGAAA
Done.