Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 124 of 186
Found at i:41129233 original size:25 final size:26
Alignment explanation
Indices: 41129173--41129221 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
41129163 ATTTGTTTTA
*
41129173 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
41129197 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
41129222 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:41129634 original size:23 final size:23
Alignment explanation
Indices: 41129600--41129738 Score: 95
Period size: 24 Copynumber: 6.0 Consensus size: 23
41129590 CGAGCTAATG
41129600 AACAGTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
* * *
41129623 AACGGTAAGCTCTATCGAGTTG-
1 AACAGTAAGCTCTATTGAGCTGA
* * *
41129645 AACAATAAGC-CCATACGAGCTGA
1 AACAGTAAGCTCTAT-TGAGCTGA
** * * * *
41129668 AATGGTAAGCTCCAATAAGCTAA
1 AACAGTAAGCTCTATTGAGCTGA
* *
41129691 TAACAGTAAGCTCTAATGAGCTAAA
1 -AACAGTAAGCTCTATTGAGCT-GA
41129716 AACAGTAAGCTCT-TATGAGCTGA
1 AACAGTAAGCTCTAT-TGAGCTGA
41129739 TATATCGGTC
Statistics
Matches: 90, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
21 3 0.03
22 14 0.16
23 32 0.36
24 39 0.43
25 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:41134318 original size:29 final size:27
Alignment explanation
Indices: 41134300--41134369 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
41134290 ATATTAAGTC
41134300 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
41134327 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
41134355 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
41134370 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:41134363 original size:28 final size:28
Alignment explanation
Indices: 41134300--41134397 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
41134290 ATATTAAGTC
*
41134300 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
41134327 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
41134355 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
41134384 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41134398 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:41139345 original size:314 final size:314
Alignment explanation
Indices: 41138761--41139387 Score: 1173
Period size: 314 Copynumber: 2.0 Consensus size: 314
41138751 ACCTCTATCC
* *
41138761 GTCAATTCCTGCAACTGAGCTTTCAACTCTTTTAACTCGGTTAGTGCCATACGATACGGAGCGAT
1 GTCAACTCCTGCAACTGAGCTTTCAACTCCTTTAACTCGGTTAGTGCCATACGATACGGAGCGAT
41138826 CGAAATTGGCGTAGTTCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGCAAAC
66 CGAAATTGGCGTAGTTCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGCAAAC
41138891 CCGGTAACTCTTCAGGAAAAACATCTGGGTATTCACAAACCACCGGTACAGATTCAGGTTTCTTT
131 CCGGTAACTCTTCAGGAAAAACATCTGGGTATTCACAAACCACCGGTACAGATTCAGGTTTCTTT
41138956 TCTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTG
196 TCTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTG
41139021 GGCCAACATTGCTGATATTACAGCTGGCAACCCCCTTAAGTCCGTAGACTCAAT
261 GGCCAACATTGCTGATATTACAGCTGGCAACCCCCTTAAGTCCGTAGACTCAAT
* * * * *
41139075 GTCAACTCTTGCAATTGAGCTTTCAATTCCTTTAACTCGGTTGGTGCCATACGATACGGAGCTAT
1 GTCAACTCCTGCAACTGAGCTTTCAACTCCTTTAACTCGGTTAGTGCCATACGATACGGAGCGAT
*
41139140 CGAAATTGGCGTAGTTCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGTAAAC
66 CGAAATTGGCGTAGTTCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGCAAAC
*
41139205 CCGGTAATTCTTCAGGAAAAACATCTGGGTATTCACAAACCACCGGTACAGATTCAGGTTTCTTT
131 CCGGTAACTCTTCAGGAAAAACATCTGGGTATTCACAAACCACCGGTACAGATTCAGGTTTCTTT
41139270 TCTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTG
196 TCTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTG
41139335 GGCCAACATTGCTGATATTACAGCTGGCAACCCCCTTAAGTCCGTAGACTCAA
261 GGCCAACATTGCTGATATTACAGCTGGCAACCCCCTTAAGTCCGTAGACTCAA
41139388 CTCGGATTAT
Statistics
Matches: 304, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
314 304 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (314 bp):
GTCAACTCCTGCAACTGAGCTTTCAACTCCTTTAACTCGGTTAGTGCCATACGATACGGAGCGAT
CGAAATTGGCGTAGTTCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGCAAAC
CCGGTAACTCTTCAGGAAAAACATCTGGGTATTCACAAACCACCGGTACAGATTCAGGTTTCTTT
TCTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTG
GGCCAACATTGCTGATATTACAGCTGGCAACCCCCTTAAGTCCGTAGACTCAAT
Found at i:41142307 original size:24 final size:25
Alignment explanation
Indices: 41142257--41142329 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 25
41142247 TATCATCCCT
41142257 ATTTTATCCCTAGTAAAATTTGATG
1 ATTTTATCCCTAGTAAAATTTGATG
* *
41142282 ATTTTA-CCCTCGATAAAATTTTTGATA
1 ATTTTATCCCTAG-TAAAA--TTTGATG
* *
41142309 ATTTTATCCTTGGTAAAATTT
1 ATTTTATCCCTAGTAAAATTT
41142330 TGAGAATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.12
25 14 0.35
27 17 0.43
28 4 0.10
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (25 bp):
ATTTTATCCCTAGTAAAATTTGATG
Found at i:41146693 original size:50 final size:49
Alignment explanation
Indices: 41146574--41146892 Score: 275
Period size: 50 Copynumber: 6.6 Consensus size: 49
41146564 TAAGATGCCA
* * * * * *
41146574 ATGCCATGTCCCGGACATGGTCTTACACTA-GCTCACACATCAAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTACTCTCATATATCGAGGCCG
** * *
41146622 ATTG-CATGTCCTTGACTTGGTCTTACACTGACTCTCATATATCGAGGCCA
1 A-TGCCATGTCCCAGACATGGTCTTACACT-ACTCTCATATATCGAGGCCG
* * * *
41146672 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTGTCG-GTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-ACTCTCATATATCGAG-GCCG
* * *
41146722 ATGCCATGTCCCAGACATGGTCTTACACTGA----CACATATC-AAGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACT-ACTCTCATATATCGAGGCCG
* ** * * *
41146767 ATGACATGTCTTAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTA-CTCTCATATATCGAGGCCG
*
41146817 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AT-GTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTA-CTCTCATATATCGAGGCCG
41146865 ATG-CATGTCCCAGACAT-GTCTTACACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
41146893 GCACACATGT
Statistics
Matches: 222, Mismatches: 37, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
44 1 0.00
45 28 0.13
46 16 0.07
47 14 0.06
48 31 0.14
49 13 0.06
50 119 0.54
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTACTCTCATATATCGAGGCCG
Found at i:41146840 original size:145 final size:146
Alignment explanation
Indices: 41146574--41146900 Score: 429
Period size: 145 Copynumber: 2.3 Consensus size: 146
41146564 TAAGATGCCA
* * * * *
41146574 ATGCCATGTCCCGGACATGGTCTTACACTAGCTCACACATCAAGGTCGATTGCATGTCCTTGACT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGCTCGATTGCATGTCCTTGACA
*
41146639 TGGTCTTACACTGACTCTCATATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACTGGC
66 TGGTCTTACACTGACTCTCATATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGC
* *
41146704 TCTCAT-CTGTCGGTGTCG
131 TCTCATAATGT--G-GCCG
41146722 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCAAGCT-GA-TGACATGT-CTTAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGCTCGATTG-CATGTCCTT-GA
* * **
41146782 CATGGTCTTACACT-AGCTTTCATATCTCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACT
64 CATGGTCTTACACTGA-CTCTCATATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACT
41146846 AGCTCTCATAATGTGGCCG
128 AGCTCTCATAATGTGGCCG
41146865 ATG-CATGTCCCAGACAT-GTCTTACACTAGCACACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
41146901 GTCACCCAAA
Statistics
Matches: 161, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
141 10 0.06
142 15 0.09
143 12 0.07
144 7 0.04
145 74 0.46
146 14 0.09
147 1 0.01
148 28 0.17
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (146 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGCTCGATTGCATGTCCTTGACA
TGGTCTTACACTGACTCTCATATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGC
TCTCATAATGTGGCCG
Found at i:41148894 original size:22 final size:19
Alignment explanation
Indices: 41148869--41148910 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
41148859 TGATAATCAT
41148869 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
41148891 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
41148910 T
1 T
41148911 CAACTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:41150764 original size:37 final size:37
Alignment explanation
Indices: 41150711--41151132 Score: 835
Period size: 37 Copynumber: 11.4 Consensus size: 37
41150701 CGAATAGTCC
*
41150711 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41150748 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41150785 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41150822 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41150859 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41150896 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41150933 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41150970 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41151007 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41151044 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41151081 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41151118 CCACACGTAGTCATC
1 CCACACGTAGTCATC
41151133 AATACAAATC
Statistics
Matches: 384, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 384 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:41151211 original size:48 final size:48
Alignment explanation
Indices: 41151140--41151520 Score: 672
Period size: 48 Copynumber: 7.9 Consensus size: 48
41151130 ATCAATACAA
* * *
41151140 ATCTCATATATAATTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
*
41151188 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATAGAT
1 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
* * * *
41151236 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
* *
41151284 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
41151332 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
41151380 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
41151428 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
41151476 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATA
1 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATA
41151521 CAACTGGAGC
Statistics
Matches: 321, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 321 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
Found at i:41155540 original size:40 final size:40
Alignment explanation
Indices: 41155395--41155544 Score: 201
Period size: 40 Copynumber: 3.7 Consensus size: 40
41155385 GCATGATTGT
* *
41155395 TCTTCGAGACCTAGCCCGGATATAACACCAGCACGAATGC
1 TCTTCGAGACTTAGCCCGGATATAACACTAGCACGAATGC
* * * *
41155435 TCTTCGGGACTTAACCCTGATATAACTCTAGCACGAATGC
1 TCTTCGAGACTTAGCCCGGATATAACACTAGCACGAATGC
* *
41155475 TCTTTCGAGACTTAGCCCGGGTATATCACTAGCACGAATGC
1 TC-TTCGAGACTTAGCCCGGATATAACACTAGCACGAATGC
* *
41155516 TCTTCGGGACTTAGCCCGGATATATCACT
1 TCTTCGAGACTTAGCCCGGATATAACACT
41155545 CTCAATTCTC
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
40 61 0.64
41 34 0.36
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
TCTTCGAGACTTAGCCCGGATATAACACTAGCACGAATGC
Found at i:41155793 original size:138 final size:138
Alignment explanation
Indices: 41155545--41155820 Score: 552
Period size: 138 Copynumber: 2.0 Consensus size: 138
41155535 ATATATCACT
41155545 CTCAATTCTCATGTACATATACACATATAGCAATACACATTAGTATATCATTTACATTACTTGAA
1 CTCAATTCTCATGTACATATACACATATAGCAATACACATTAGTATATCATTTACATTACTTGAA
41155610 TACAAACAAAACATGCTTATCGACCATTCAACTTCCAGTTCCATAGTCACATACAAAAATCACAT
66 TACAAACAAAACATGCTTATCGACCATTCAACTTCCAGTTCCATAGTCACATACAAAAATCACAT
41155675 TTATAGTC
131 TTATAGTC
41155683 CTCAATTCTCATGTACATATACACATATAGCAATACACATTAGTATATCATTTACATTACTTGAA
1 CTCAATTCTCATGTACATATACACATATAGCAATACACATTAGTATATCATTTACATTACTTGAA
41155748 TACAAACAAAACATGCTTATCGACCATTCAACTTCCAGTTCCATAGTCACATACAAAAATCACAT
66 TACAAACAAAACATGCTTATCGACCATTCAACTTCCAGTTCCATAGTCACATACAAAAATCACAT
41155813 TTATAGTC
131 TTATAGTC
41155821 ATAACACTCT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (138 bp):
CTCAATTCTCATGTACATATACACATATAGCAATACACATTAGTATATCATTTACATTACTTGAA
TACAAACAAAACATGCTTATCGACCATTCAACTTCCAGTTCCATAGTCACATACAAAAATCACAT
TTATAGTC
Found at i:41158481 original size:47 final size:47
Alignment explanation
Indices: 41158400--41158650 Score: 328
Period size: 47 Copynumber: 5.4 Consensus size: 47
41158390 TAATTGAATA
* * *
41158400 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGAG-ATAAGGCCGAATGGCCAATGTGATG
** *
41158448 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
*
41158495 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
41158542 AAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
41158589 AATGTGAGCATGTGTATGTGAGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
41158636 AATGTGAA-A-GTGTAT
1 AATGTGAACATGTGTAT
41158651 AAATGTGATA
Statistics
Matches: 182, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
45 6 0.03
46 1 0.01
47 157 0.86
48 17 0.09
49 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
Found at i:41158837 original size:37 final size:37
Alignment explanation
Indices: 41158781--41158860 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
41158771 CCGGACTCTA
* * *
41158781 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
41158818 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
41158855 AAGACT
1 AAGACT
41158861 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:41160525 original size:48 final size:48
Alignment explanation
Indices: 41160465--41160666 Score: 332
Period size: 48 Copynumber: 4.2 Consensus size: 48
41160455 TTCGGCCGCA
* * *
41160465 ATATACACATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAA
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
41160513 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
41160561 ATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
41160609 ATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
41160657 ATATATATAT
1 ATATACATAT
41160667 TTGTCTTGTA
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:41163748 original size:25 final size:25
Alignment explanation
Indices: 41163707--41163790 Score: 127
Period size: 25 Copynumber: 3.4 Consensus size: 25
41163697 CTGGAGGCCT
41163707 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
*
41163731 AGCCCTTTTCGATAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
41163756 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
41163782 AGCCCTTTT
1 AGCCCTTTT
41163791 GCACTTCCTC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.09
24 6 0.11
25 34 0.62
26 10 0.18
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:41163850 original size:20 final size:20
Alignment explanation
Indices: 41163825--41163905 Score: 128
Period size: 20 Copynumber: 4.0 Consensus size: 20
41163815 CCCAACCCAA
41163825 TGCATTTCATACATATCATG
1 TGCATTTCATACATATCATG
41163845 TGCATTTCATACATATCATG
1 TGCATTTCATACATATCATG
*
41163865 TGCATTTTATACATATCATG
1 TGCATTTCATACATATCATG
*
41163885 TGCATATCATATCA-ATCATG
1 TGCATTTCATA-CATATCATG
41163905 T
1 T
41163906 AATCATTCCC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
20 55 0.96
21 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (20 bp):
TGCATTTCATACATATCATG
Found at i:41164882 original size:27 final size:27
Alignment explanation
Indices: 41164706--41164883 Score: 130
Period size: 27 Copynumber: 6.6 Consensus size: 27
41164696 CATCCTCCAA
* * * *
41164706 GGGTGTTTTGGTAAATCTACAAA-TCAA
1 GGGTATTTTGGTAATTTTACAAACT-AG
**
41164733 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
* *
41164760 GGGTATTTTGGTAACTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
41164786 AGGGTATTTCCGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
** *
41164814 TAGTATTTTGGAAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
41164841 AGATATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
41164868 GGGTATTGTGGTAATT
1 GGGTATTTTGGTAATT
41164884 CTATCTTACA
Statistics
Matches: 117, Mismatches: 30, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
26 2 0.02
27 113 0.97
28 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:41164948 original size:27 final size:27
Alignment explanation
Indices: 41164919--41165112 Score: 255
Period size: 27 Copynumber: 7.2 Consensus size: 27
41164909 TTTCATAATT
*
41164919 GAGGGTAAAATGGTAATTTTGTAAA-C
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
41164945 TGAGGGTAAAATGGTAATTTTGTAAATC
1 -GAGGGTAAAATGGTAATTCTGTAAATC
41164973 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
41165000 GAGGATAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
41165027 GAGGGTAAAATAGTAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * * * *
41165054 GAGGGTGAAACGATAATTCTATAAATT
1 GAGGGTAAAATGGTAATTCTGTAAATC
**
41165081 GAGGGTAAAATGGTAATTCTACAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
41165108 GAGGG
1 GAGGG
41165113 CATTTCAGTA
Statistics
Matches: 147, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
27 146 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTGTAAATC
Found at i:41165032 original size:81 final size:81
Alignment explanation
Indices: 41164919--41165112 Score: 282
Period size: 81 Copynumber: 2.4 Consensus size: 81
41164909 TTTCATAATT
* * *
41164919 GAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAA
1 GAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAA
* * *
41164983 TGGTAATTCTGTAAATC
65 CGATAATTCTATAAATC
* *
41165000 GAGGATAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTGAAAC
1 GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAAC
*
41165065 GATAATTCTATAAATT
66 GATAATTCTATAAATC
*
41165081 GAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 GAGGGTAAAATGGTAATTCTATAAATCGAGGG
41165113 CATTTCAGTA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
81 100 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (81 bp):
GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAAC
GATAATTCTATAAATC
Found at i:41166516 original size:37 final size:37
Alignment explanation
Indices: 41166471--41166573 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
41166461 ATGTGGTAAG
41166471 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
* *
41166508 TGTAAGACCATAGTTGGGCTATGGCATCGTGATGGCA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
41166545 TGTAAGACCAT-GTCTGGGAC-ATGGCATCG
1 TGTAAGACCATAG-CTGGG-CTATGGCATCG
41166574 ATATGAGATC
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 59 0.97
38 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (37 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
Found at i:41166611 original size:42 final size:42
Alignment explanation
Indices: 41166545--41166883 Score: 242
Period size: 42 Copynumber: 7.7 Consensus size: 42
41166535 CGTGATGGCA
* * *
41166545 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCTTG
* *
41166587 TGTAAGACCATATCTAGGATATGGCATCAACATCAATATGAGATCTTG
1 TGTAAGACCATATCTGGGATATGG------CATCGATATGAGATCTTG
41166635 TGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGAGATCTTG
1 TGTAAGACCATATCTGGGATAT-G-----GCATCGATATGAGATCTTG
*
41166683 TGTAAGACCATATCTGGGAATGACATCGGCATCGATATGAGAT-TACG
1 TGTAAGACCATATCTGGG-AT---AT-GGCATCGATATGAGATCT-TG
* *
41166730 TGTAAGACCATATCTGGGATATGGCTTCGGTATGAGAT-TTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCTT-G
* * * * *
41166772 TGTAAGACCGTGTTTGGGATGCT-GCATCGATATGTGAT-TTCG
1 TGTAAGACCATATCTGGGAT-ATGGCATCGATATGAGATCTT-G
* * * * * *
41166814 TATAAGACCATGTCTGGGACATGGCATCTATGTGAGA-CTTTA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATC-TTG
41166856 TGTAAGACCATAGT-T-GGACTATGGCATC
1 TGTAAGACCATA-TCTGGGA-TATGGCATC
41166884 AAGTAAACGA
Statistics
Matches: 242, Mismatches: 31, Indels: 48
0.75 0.10 0.15
Matches are distributed among these distances:
41 4 0.02
42 116 0.48
43 6 0.02
46 3 0.01
47 34 0.14
48 72 0.30
49 3 0.01
52 3 0.01
54 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCTTG
Found at i:41166645 original size:48 final size:48
Alignment explanation
Indices: 41166568--41166754 Score: 288
Period size: 48 Copynumber: 3.9 Consensus size: 48
41166558 CTGGGACATG
* *
41166568 GCATCGATATGAGATCCTGTGTAAGACCATATCTAGGATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
* *
41166616 ACATCAATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
* *
41166664 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGA-ATGACATCG
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
*
41166711 GCATCGATATGAGAT-TACGTGTAAGACCATATCTGGGATATGGC
1 GCATCGATATGAGATCT-TGTGTAAGACCATATCTGGGATATGGC
41166755 TTCGGTATGA
Statistics
Matches: 127, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 42 0.33
48 84 0.66
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (48 bp):
GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
Found at i:41170451 original size:40 final size:40
Alignment explanation
Indices: 41170404--41170479 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
41170394 GCTAAAAAAA
**
41170404 TGGCACTTAGTGTGCGGTTCGAAATAGCTTCTGCTAAATG
1 TGGCACTTAGTGTGCAATTCGAAATAGCTTCTGCTAAATG
* * *
41170444 TGGCACTTGGTGTGCAATTGGAGATAGCTTCTGCTA
1 TGGCACTTAGTGTGCAATTCGAAATAGCTTCTGCTA
41170480 TATATGTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCAATTCGAAATAGCTTCTGCTAAATG
Found at i:41173312 original size:27 final size:27
Alignment explanation
Indices: 41173282--41173443 Score: 148
Period size: 27 Copynumber: 6.0 Consensus size: 27
41173272 ACACTACAAA
* *
41173282 GGTATTTCGGTCATTTTACAAGTCAGG
1 GGTATTTCAGTAATTTTACAAGTCAGG
* * * *
41173309 GGTATTTCAATAAATTTAGAAGTCAAG
1 GGTATTTCAGTAATTTTACAAGTCAGG
* * *
41173336 GGTATTTCGGTAATTTCACAAATC-GAG
1 GGTATTTCAGTAATTTTACAAGTCAG-G
* * * *
41173363 GGTATTTCAGTAATTTCACAAATTAAG
1 GGTATTTCAGTAATTTTACAAGTCAGG
* *
41173390 GGTGTTTCAGTAATTTTACAA-CCAGAG
1 GGTATTTCAGTAATTTTACAAGTCAG-G
*
41173417 GATATTTCAGTAATTTTACAAGTCAGG
1 GGTATTTCAGTAATTTTACAAGTCAGG
41173444 AGTCTTAACG
Statistics
Matches: 107, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.96
28 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAGTCAGG
Found at i:41173340 original size:54 final size:54
Alignment explanation
Indices: 41173282--41173441 Score: 173
Period size: 54 Copynumber: 3.0 Consensus size: 54
41173272 ACACTACAAA
* * *
41173282 GGTATTTCGGTCATTTTACAAGTCAG-GGGTATTTCAATAAATTTAGAAGTCAAG
1 GGTATTTCGGTAATTTTACAA-TCAGAGGGTATTTCAGTAAATTTACAAGTCAAG
* * *
41173336 GGTATTTCGGTAATTTCACAAATC-GAGGGTATTTCAGT-AATTTCACAAATTAAG
1 GGTATTTCGGTAATTTTAC-AATCAGAGGGTATTTCAGTAAATTT-ACAAGTCAAG
* * * * *
41173390 GGTGTTTCAGTAATTTTACAACCAGAGGATATTTCAGTAATTTTACAAGTCA
1 GGTATTTCGGTAATTTTACAATCAGAGGGTATTTCAGTAAATTTACAAGTCA
41173442 GGAGTCTTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
53 9 0.10
54 72 0.83
55 6 0.07
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTACAATCAGAGGGTATTTCAGTAAATTTACAAGTCAAG
Found at i:41177672 original size:20 final size:20
Alignment explanation
Indices: 41177649--41177694 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
41177639 GGGTTAAGAT
*
41177649 TGAGCTAAATTGAGCTTGAG
1 TGAGCTAAATTGAGCTCGAG
* * *
41177669 TGAGTTGACTTGAGCTCGAG
1 TGAGCTAAATTGAGCTCGAG
41177689 TGAGCT
1 TGAGCT
41177695 GGAAACGAGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (20 bp):
TGAGCTAAATTGAGCTCGAG
Found at i:41179417 original size:48 final size:48
Alignment explanation
Indices: 41179365--41179470 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
41179355 TTGTCTTTTC
*
41179365 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
41179413 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
41179461 TTTCTTTTTC
1 TTTCTTTTTC
41179471 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:41182104 original size:20 final size:20
Alignment explanation
Indices: 41182081--41182127 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
41182071 GGGTTAAGAT
*
41182081 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
41182101 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
41182121 TGAGCTG
1 TGAGCTG
41182128 GAAACGATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:41192358 original size:27 final size:27
Alignment explanation
Indices: 41192328--41192525 Score: 263
Period size: 27 Copynumber: 7.3 Consensus size: 27
41192318 TACTGAAATG
**
41192328 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
41192355 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
41192382 CCCTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
41192409 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
41192436 CCCTTGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
41192463 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
41192490 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
*
41192517 CCCTTGATT
1 CCCTCGATT
41192526 GTGAAATTAC
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 150 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:41192445 original size:81 final size:81
Alignment explanation
Indices: 41192328--41192525 Score: 299
Period size: 81 Copynumber: 2.4 Consensus size: 81
41192318 TACTGAAATG
* * * *
41192328 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTCACCCTCGATTTA
*
41192393 CAAAATTACTATTTTA
66 CAAAATTACCATTTTA
*
41192409 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTCACCCTCGATTTA
41192474 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * *
41192490 CCCTC-AGTTTACAAAATTACCGTTTTACCCTTGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTTGATT
41192526 GTGAAATTAC
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 106 0.99
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:41192569 original size:27 final size:27
Alignment explanation
Indices: 41192529--41192656 Score: 89
Period size: 27 Copynumber: 4.7 Consensus size: 27
41192519 CTTGATTGTG
**
41192529 AAATTACTGAAATACCCCT-GTTGGATA
1 AAATTACCAAAATACCCCTAGTTGG-TA
* * * *
41192556 GAATTACCACAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTGGTA
** * * *
41192583 AAATTACCAAAATACCAATGGTTTGTG
1 AAATTACCAAAATACCCCTAGTTGGTA
** * *
41192610 AAATTACTGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTTGGTA
41192637 AAATTACCAAAATACCCCTA
1 AAATTACCAAAATACCCCTA
41192657 ATTTACAAAA
Statistics
Matches: 77, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
26 2 0.03
27 67 0.87
28 8 0.10
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTGGTA
Found at i:41192598 original size:54 final size:54
Alignment explanation
Indices: 41192515--41192655 Score: 137
Period size: 54 Copynumber: 2.6 Consensus size: 54
41192505 ATTACCGTTT
* * **
41192515 TACCCTT-GATTGTGAAATTACTGAAATACCCCT-GTTGGAT-AGAATTAC-CACAA
1 TACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTGG-TGA-AATTACTCA-AA
** * *
41192568 TACCCTTAGTTTGTAAAATTACCAAAATACCAATGGTTTGTGAAATTACTGAAA
1 TACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTGGTGAAATTACTCAAA
* *
41192622 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTTAGTTTGTAAAATTACCAAAATACCCCT
41192656 AATTTACAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
53 7 0.10
54 59 0.82
55 6 0.08
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (54 bp):
TACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTGGTGAAATTACTCAAA
Found at i:41192659 original size:27 final size:27
Alignment explanation
Indices: 41192557--41192669 Score: 102
Period size: 27 Copynumber: 4.2 Consensus size: 27
41192547 TGTTGGATAG
* * *
41192557 AATTACCACAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
** ** *
41192584 AATTACCAAAATACCAATGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
**
41192611 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
41192638 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
41192665 AATTA
1 AATTA
41192670 TAGAAATACC
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 2 0.03
27 62 0.91
28 4 0.06
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:41192668 original size:54 final size:54
Alignment explanation
Indices: 41192566--41192758 Score: 183
Period size: 54 Copynumber: 3.5 Consensus size: 54
41192556 GAATTACCAC
* ***
41192566 AATACCCTTAGTTTGTAAAATTACCAAAATACCAATGGTTTGTGAAATTACTGA
1 AATACCCTCAGTTTGTAAAATTACCAAAATACCAATGGTTTACAAAATTACTGA
* ** **
41192620 AATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA-TAGA
1 AATACCCTCAGTTTGTAAAATTACCAAAATACCAATGGTTTACAAAATTACT-GA
* * * * *
41192674 AATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGA
1 AATACCC-TCAGTTTGT-AAAATTACCA-AAATACCAATGGTTTACAAAATTACTGA
* * *
41192730 AATACCCTCGGTTTGTAGATTTACCAAAA
1 AATACCCTCAGTTTGTAAAATTACCAAAA
41192759 CACCCTTGCA
Statistics
Matches: 109, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
53 1 0.01
54 58 0.53
55 13 0.12
56 36 0.33
57 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (54 bp):
AATACCCTCAGTTTGTAAAATTACCAAAATACCAATGGTTTACAAAATTACTGA
Found at i:41192676 original size:27 final size:27
Alignment explanation
Indices: 41192610--41192737 Score: 93
Period size: 27 Copynumber: 4.7 Consensus size: 27
41192600 ATGGTTTGTG
* **
41192610 AAATTACT-GAAATACCCTCAATTTGTA
1 AAATTA-TAGAAATACCCTTAATTTACA
* *
41192637 AAATTACCA-AAATACCCCTAATTTACA
1 AAATTA-TAGAAATACCCTTAATTTACA
*
41192664 AAATTATAGAAATACCCTTGACTTT-CTAA
1 AAATTATAGAAATACCCTT-AATTTAC--A
* **
41192693 AAATTATAGAAATACCATTGGTTTACA
1 AAATTATAGAAATACCCTTAATTTACA
41192720 AAATTACT-GAAATACCCT
1 AAATTA-TAGAAATACCCT
41192738 CGGTTTGTAG
Statistics
Matches: 82, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
26 1 0.01
27 53 0.65
28 8 0.10
29 20 0.24
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATTATAGAAATACCCTTAATTTACA
Found at i:41192827 original size:27 final size:27
Alignment explanation
Indices: 41192784--41192857 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
41192774 AAATGACTAA
*
41192784 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
41192811 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
41192838 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
41192858 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:41192861 original size:27 final size:27
Alignment explanation
Indices: 41192797--41192861 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
41192787 ACCCCTAATA
*
41192797 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
41192824 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
41192851 GGTAAAATGAC
1 GGTAAAATGAC
41192862 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:41193710 original size:25 final size:24
Alignment explanation
Indices: 41193672--41193754 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
41193662 AGGAAGTGCT
*
41193672 AAAAGGGCTCTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
* *
41193697 AAAAGGGCTTTGCCCTAGTTTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
* *
41193721 AGAAAGGACTTTGCCCCAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATG
41193745 AAAAGAGGCT
1 AAAAG-GGCT
41193755 AGGCCTCTAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.08
24 11 0.22
25 35 0.70
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:41193948 original size:42 final size:42
Alignment explanation
Indices: 41193889--41193980 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
41193879 TAGTCTCCCC
* * *
41193889 AAATGGGCTTGCATACATTCGTTGAAATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGAAATTACATGTGATATTA
*
41193931 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
1 AAATGGGCTTGCATACATCCATTGAAATTACATGTGATATTA
41193973 AAATGGGC
1 AAATGGGC
41193981 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGAAATTACATGTGATATTA
Found at i:41194042 original size:31 final size:31
Alignment explanation
Indices: 41194004--41194087 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
41193994 CGTTTACAGT
*
41194004 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
41194035 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
41194066 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
41194088 TCAAGACTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:41210031 original size:42 final size:41
Alignment explanation
Indices: 41209984--41210124 Score: 113
Period size: 42 Copynumber: 3.2 Consensus size: 41
41209974 TTGTGATACA
41209984 TGTAAGACCATGTTTAGGGCATGGCATCGATATGAGATCCTG
1 TGTAAGACCATGTTTAGGGCATGGCATCGATATGAGAT-CTG
* *
41210026 TGTAAGACCATATTTGGGATATGGCATCGGCATCGATATGAGAT-TACG
1 TGTAAGACCAT-GTT----TAGGGCAT-GGCATCGATATGAGATCT--G
* ** * * *
41210074 TGTAAGACCATGTCTAGGATATGGCTTCGTTATGAGATTTCG
1 TGTAAGACCATGTTTAGGGCATGGCATCGATATGAGATCT-G
41210116 TGTAAGACC
1 TGTAAGACC
41210125 GTGTCTGGGA
Statistics
Matches: 81, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
42 36 0.44
43 8 0.10
46 1 0.01
47 8 0.10
48 28 0.35
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATGTTTAGGGCATGGCATCGATATGAGATCTG
Found at i:41210077 original size:48 final size:47
Alignment explanation
Indices: 41210001--41210098 Score: 135
Period size: 48 Copynumber: 2.1 Consensus size: 47
41209991 CCATGTTTAG
* * *
41210001 GGCATGGCATCGATATGAGATCCTGTGTAAGACCATATTTGGGATAT
1 GGCATGGCATCGATATGAGATACTGTGTAAGACCATATCTAGGATAT
*
41210048 GGCATCGGCATCGATATGAGATTAC-GTGTAAGACCATGTCTAGGATAT
1 GGCAT-GGCATCGATATGAGA-TACTGTGTAAGACCATATCTAGGATAT
41210096 GGC
1 GGC
41210099 TTCGTTATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
47 5 0.11
48 38 0.84
49 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (47 bp):
GGCATGGCATCGATATGAGATACTGTGTAAGACCATATCTAGGATAT
Found at i:41210155 original size:42 final size:42
Alignment explanation
Indices: 41210053--41210155 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
41210043 GATATGGCAT
* *
41210053 CGGCATCGATATGAGATTACGTGTAAGACCATGTCTAGGATA
1 CGGCATCTATATGAGATTTCGTGTAAGACCATGTCTAGGATA
* * * * *
41210095 TGGCTTCGT-TATGAGATTTCGTGTAAGACCGTGTCTGGGATG
1 CGGCATC-TATATGAGATTTCGTGTAAGACCATGTCTAGGATA
*
41210137 CGGCATCTATATGTGATTT
1 CGGCATCTATATGAGATTT
41210156 ACCATGTCTA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (42 bp):
CGGCATCTATATGAGATTTCGTGTAAGACCATGTCTAGGATA
Found at i:41210377 original size:41 final size:41
Alignment explanation
Indices: 41210331--41210413 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
41210321 TGGGCTCGAG
*
41210331 TAAGTAAATTTGCTGTTTGAAATTGTGGATAACAGAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGATAACAGAAACAT
*
41210372 TAAGTAAATTTACTGTTTGAAATTGTGGATGACAGAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGATAACAGAAACAT
41210413 T
1 T
41210414 TGTAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (41 bp):
TAAGTAAATTTACTGTTTGAAATTGTGGATAACAGAAACAT
Found at i:41215267 original size:36 final size:36
Alignment explanation
Indices: 41215176--41215268 Score: 123
Period size: 37 Copynumber: 2.6 Consensus size: 36
41215166 TGGAAATACA
* *
41215176 TGTGGTACGTGCAAGACCATAGCTGGGCTATGGCAT
1 TGTGATACGTGTAAGACCATAGCTGGGCTATGGCAT
** * *
41215212 CATAATTGCGTGTAAGACCATAGCTGGGCTATGGCAT
1 TGTGA-TACGTGTAAGACCATAGCTGGGCTATGGCAT
41215249 TGTGATACGTGTAAGACCAT
1 TGTGATACGTGTAAGACCAT
41215269 GTTTAGGACA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
36 15 0.33
37 31 0.67
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (36 bp):
TGTGATACGTGTAAGACCATAGCTGGGCTATGGCAT
Found at i:41215324 original size:42 final size:42
Alignment explanation
Indices: 41215257--41215501 Score: 194
Period size: 42 Copynumber: 5.7 Consensus size: 42
41215247 ATTGTGATAC
* * *
41215257 GTGTAAGACCATGTTTAGGACATGGCATCGATATGAGATCCT
1 GTGTAAGACCATGTTTGGGATATGGCATCGATATGAGATCTT
* *
41215299 GTGTAAGACCATATTTGGGATATGGCATCGACATCGATATGAGAT-TAC
1 GTGTAAGACCATGTTTGGGATAT-G----G-CATCGATATGAGATCT-T
* *
41215347 GTGTAAGACCATGTTTGGGATATGGCTTCGGTATGAGAT-TT
1 GTGTAAGACCATGTTTGGGATATGGCATCGATATGAGATCTT
* * * * * *
41215388 CGTGTAATACCGTGTCTGGGATGTGGCATCGATATGTGATTTT
1 -GTGTAAGACCATGTTTGGGATATGGCATCGATATGAGATCTT
* * * * *
41215431 GTATAAGACCATGTCTGAGACATGGCATCGATGTGAGA-CTTT
1 GTGTAAGACCATGTTTGGGATATGGCATCGATATGAGATC-TT
41215473 GTGTAAGACCATAG-TT-GGACTATGGCATC
1 GTGTAAGACCAT-GTTTGGGA-TATGGCATC
41215502 AAGTAAACGA
Statistics
Matches: 162, Mismatches: 29, Indels: 24
0.75 0.13 0.11
Matches are distributed among these distances:
41 2 0.01
42 117 0.72
43 5 0.03
47 2 0.01
48 36 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTTTGGGATATGGCATCGATATGAGATCTT
Found at i:41215408 original size:90 final size:90
Alignment explanation
Indices: 41215254--41215419 Score: 226
Period size: 90 Copynumber: 1.8 Consensus size: 90
41215244 GGCATTGTGA
*
41215254 TACGTGTAAGACCATGTTTAGGACATGGCATCGATATGAGATCCTGTGTAAGACCATATTTGGGA
1 TACGTGTAAGACCATGTTTAGGACATGGCATCGATATGAGATCCTGTGTAAGACCATATCTGGGA
41215319 TATGGCATCGACATCGATATGAGAT
66 TATGGCATCGACATCGATATGAGAT
* * * * * * * *
41215344 TACGTGTAAGACCATGTTTGGGATATGGCTTCGGTATGAGAT-TTCGTGTAATACCGTGTCTGGG
1 TACGTGTAAGACCATGTTTAGGACATGGCATCGATATGAGATCCT-GTGTAAGACCATATCTGGG
*
41215408 ATGTGGCATCGA
65 ATATGGCATCGA
41215420 TATGTGATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
89 1 0.02
90 64 0.98
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (90 bp):
TACGTGTAAGACCATGTTTAGGACATGGCATCGATATGAGATCCTGTGTAAGACCATATCTGGGA
TATGGCATCGACATCGATATGAGAT
Found at i:41215659 original size:41 final size:41
Alignment explanation
Indices: 41215613--41215695 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
41215603 TGGGCTCGAG
* *
41215613 TAAGTAAATTTGCTGTTTGAAATTGTGGACGACAGAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGACGACAAAAACAT
*
41215654 TAAGTAAATTTACTGTTTGAAATTGTGGATGACAAAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGACGACAAAAACAT
41215695 T
1 T
41215696 TGTAAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (41 bp):
TAAGTAAATTTACTGTTTGAAATTGTGGACGACAAAAACAT
Found at i:41217529 original size:28 final size:28
Alignment explanation
Indices: 41217448--41217530 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
41217438 TATATATGTA
* *
41217448 TATGGCACTTAGTGTGCAAAAAATTAAG
1 TATGGCACTTAGTGTGCAAGAAATTGAG
* *
41217476 AATGGCACTT-GTTGTGCAAGATATTGAG
1 TATGGCACTTAG-TGTGCAAGAAATTGAG
* *
41217504 TATGGCACTTAGTGTGCGAGACATTGA
1 TATGGCACTTAGTGTGCAAGAAATTGA
41217531 AGATGCAACG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.02
28 44 0.96
29 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (28 bp):
TATGGCACTTAGTGTGCAAGAAATTGAG
Found at i:41235858 original size:27 final size:27
Alignment explanation
Indices: 41235819--41235871 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
41235809 TTCGTAGGCC
41235819 ACACAGGCGTGTGGGC-CTACATGGGCT
1 ACACAGGCGTGTGGGCTC-ACATGGGCT
* *
41235846 ACACGGGCTTGTGGGCTCACATGGGC
1 ACACAGGCGTGTGGGCTCACATGGGC
41235872 CCGTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.17, C:0.26, G:0.38, T:0.19
Consensus pattern (27 bp):
ACACAGGCGTGTGGGCTCACATGGGCT
Found at i:41236013 original size:27 final size:27
Alignment explanation
Indices: 41235975--41236130 Score: 170
Period size: 27 Copynumber: 5.8 Consensus size: 27
41235965 GCGTACCTGA
* * *
41235975 ACCCTCATGTGACAAGATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
41236002 ACCCTTATGTGATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
41236029 GCCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
41236056 ACCCTTATGTGAT-AAATCGATGATTTG
1 ACCCTTATGTGATAAAAT-GACGATTTT
* * * *
41236083 CCCCTTATATGATAAAATAATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
41236110 GCCTTTATGTGATCAAATGAC
1 ACCCTTATGTGATAAAATGAC
41236131 CGAAATACCT
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.04
27 100 0.93
28 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGACGATTTT
Found at i:41236189 original size:27 final size:26
Alignment explanation
Indices: 41236124--41236191 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
41236114 TTATGTGATC
*
41236124 AAATGACCGAAATACCTTCATAGGGT
1 AAATGACCGAAATACCCTCATAGGGT
*
41236150 AAATGACTGAAATACCCTCATAGGGT
1 AAATGACCGAAATACCCTCATAGGGT
41236176 AGAATGACCGAAATAC
1 A-AATGACCGAAATAC
41236192 ACCTATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 25 0.66
27 13 0.34
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (26 bp):
AAATGACCGAAATACCCTCATAGGGT
Found at i:41236295 original size:23 final size:23
Alignment explanation
Indices: 41236267--41236312 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
41236257 ATGTATTTGA
41236267 GCATGCCATG-AT-ATATGTATGTT
1 GCATG-CATGTATGATAT-TATGTT
41236290 GCATGCATGTATGATATTATGTT
1 GCATGCATGTATGATATTATGTT
41236313 TGTAATAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 13 0.62
24 4 0.19
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (23 bp):
GCATGCATGTATGATATTATGTT
Found at i:41237695 original size:92 final size:94
Alignment explanation
Indices: 41237530--41237795 Score: 251
Period size: 94 Copynumber: 2.8 Consensus size: 94
41237520 ATTTGTGTGA
*
41237530 GCTAGTGTAAGACATGTCTGGGACATACATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATACATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTT
*
41237595 TGGGACATGGCATTGGCATTGAGACGAGT
66 CGGGACATGGCATTGGCATTGAGACGAGT
* * * * *
41237624 GCTAGTGTAAGACATGTTTGGGACATCCATCGGCTACGA-GATG-G-GTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATACATCAGCCAC-ATGATGAGAGCCAGTGTAAGACCATGT
*
41237686 TCGGGACATGGCA-TGGC-TTG-GTTACGTGAGA
65 TCGGGACATGGCATTGGCATTGAG--AC--GAGT
* ** ** * *
41237717 GCTAGTGTAAGACCATGTCTAGGACATGGGATTGGCCTCAAAT-ATGATAGCCAGTGTAAGACCA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-ACATCAG-C-CACATGATGAGAGCCAGTGTAAGACCA
41237781 TG-TCTGGGACATGGC
62 TGTTC-GGGACATGGC
41237796 GTCGGCACTT
Statistics
Matches: 142, Mismatches: 17, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
89 1 0.01
90 3 0.02
91 6 0.04
92 29 0.20
93 16 0.11
94 48 0.34
95 5 0.04
96 5 0.04
97 3 0.02
98 26 0.18
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATACATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTT
CGGGACATGGCATTGGCATTGAGACGAGT
Found at i:41245216 original size:46 final size:46
Alignment explanation
Indices: 41245158--41245477 Score: 235
Period size: 49 Copynumber: 6.8 Consensus size: 46
41245148 TCATTTGTGT
* *
41245158 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCA-GATGA
* * * * *
41245204 GAGCCGGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CTCAGATGA
* * * *
41245252 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCTCGGGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTC-AGATG-A
* *
41245299 -AGCCAGTATAAGA-CATGTCTGGGACATGCAACGG-CT-ACGA-GA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCA-GATGA
* * * * * *
41245341 TGTGTCAGTGTAAGACCATGTCTGAGATATTGCAT-GACACGGTTATG-TGA
1 -GAGCCAGTGTAAGACCATGTCTGGGACA-TGCATCGGC-C--TCA-GATGA
* *
41245391 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAAAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTC--AGATGA
*
41245440 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC
41245478 ACTTTACCCA
Statistics
Matches: 212, Mismatches: 41, Indels: 39
0.73 0.14 0.13
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 12 0.06
45 15 0.07
46 54 0.25
47 31 0.15
48 23 0.11
49 69 0.33
50 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCAGATGA
Found at i:41250378 original size:42 final size:42
Alignment explanation
Indices: 41250326--41250421 Score: 174
Period size: 42 Copynumber: 2.3 Consensus size: 42
41250316 GTGCCAAGCA
41250326 ATGAGACTGAGAGGGTATCTTAGGTAATAATCTTTAGTGAAG
1 ATGAGACTGAGAGGGTATCTTAGGTAATAATCTTTAGTGAAG
*
41250368 ATGAGACTGAGAGGGTATCTTAGGTAGTAATCTTTAGTGAAG
1 ATGAGACTGAGAGGGTATCTTAGGTAATAATCTTTAGTGAAG
*
41250410 ATGAGATTGAGA
1 ATGAGACTGAGA
41250422 TGGTGTTTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (42 bp):
ATGAGACTGAGAGGGTATCTTAGGTAATAATCTTTAGTGAAG
Found at i:41254814 original size:14 final size:15
Alignment explanation
Indices: 41254795--41254827 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
41254785 AGAGAGAATG
*
41254795 ATGATGGATGA-GGA
1 ATGATGAATGAGGGA
41254809 ATGATGAATGAGGGA
1 ATGATGAATGAGGGA
41254824 ATGA
1 ATGA
41254828 AGGGGTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.21
Consensus pattern (15 bp):
ATGATGAATGAGGGA
Found at i:41257878 original size:39 final size:38
Alignment explanation
Indices: 41257800--41258037 Score: 244
Period size: 39 Copynumber: 6.1 Consensus size: 38
41257790 GTAAATTATA
*** *
41257800 CCCTGAACGCACTTACGTGCCTTGTTGTACTTCGATAC
1 CCCTGAACGCACTTACGTGCCCCATTGTACTTCGGTAC
41257838 CCCTGAACGCACTTACGTGCCCCAGTTGTACTTCGGTAC
1 CCCTGAACGCACTTACGTGCCCCA-TTGTACTTCGGTAC
** * *
41257877 CCCCAAATGCACTTACGTGCCCCTATTGTACTTCAGTAC
1 CCCTGAACGCACTTACGTGCCCC-ATTGTACTTCGGTAC
* * * *
41257916 CCGTGAATGCACTTACCTGTCCCTATTGTACTTCGGTAC
1 CCCTGAACGCACTTACGTG-CCCCATTGTACTTCGGTAC
* *
41257955 CCCT-AATCGCACTTAAGTGCCCCTGTTGTACTTCGGTAC
1 CCCTGAA-CGCACTTACGTGCCCC-ATTGTACTTCGGTAC
* * * *
41257994 ACCTGATCACACTTACGTGCCCCTATTGTACTTCGATAC
1 CCCTGAACGCACTTACGTGCCCC-ATTGTACTTCGGTAC
*
41258033 TCCTG
1 CCCTG
41258038 TTAACATGTT
Statistics
Matches: 167, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
38 26 0.16
39 136 0.81
40 5 0.03
ACGTcount: A:0.19, C:0.34, G:0.17, T:0.30
Consensus pattern (38 bp):
CCCTGAACGCACTTACGTGCCCCATTGTACTTCGGTAC
Found at i:41262931 original size:46 final size:46
Alignment explanation
Indices: 41262781--41262955 Score: 144
Period size: 46 Copynumber: 3.8 Consensus size: 46
41262771 TCACTTGTGT
* * **
41262781 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTTTGA-GA
1 GAGCGAGTGTAAGACATGTCTGGGACATGCTTC-G--ACATTGAGACGA
* *
41262829 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATT-GGCATTGAGACGA
1 GAGCGAGTGTAAGA-CATGTCTGGGACAT-GC-TTCGACATTGAGACGA
* * * *
41262875 GTGCTAGTGTAAGACATGTTTGGGACATGCTTCGACTTTGAGACGTA
1 GAGCGAGTGTAAGACATGTCTGGGACATGCTTCGACATTGAGACG-A
* *
41262922 -AGCGAGTGTAAGAAATGTCTGGGACATGCATCGA
1 GAGCGAGTGTAAGACATGTCTGGGACATGCTTCGA
41262956 TGAGTGAAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
45 8 0.08
46 53 0.50
47 31 0.30
48 12 0.11
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (46 bp):
GAGCGAGTGTAAGACATGTCTGGGACATGCTTCGACATTGAGACGA
Found at i:41282977 original size:49 final size:49
Alignment explanation
Indices: 41282907--41283453 Score: 930
Period size: 49 Copynumber: 11.3 Consensus size: 49
41282897 GTGAACATGC
*
41282907 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41282956 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41283005 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41283054 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41283103 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41283152 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41283201 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41283250 ATATATGTGATAAGGCCTAATGGCCGATGTGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGA--TGTGATGAATGTGAAAGTGTAT
*
41283299 ATATATGTGATAAGGCCTAATGGCCGATGTTATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
41283346 ATATATGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * *
41283393 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41283442 A-A-ATGTGATAAG
1 ATATATGTGATAAG
41283454 TTTCGAAGGG
Statistics
Matches: 481, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
47 111 0.23
48 1 0.00
49 350 0.73
51 19 0.04
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:41286061 original size:25 final size:25
Alignment explanation
Indices: 41286027--41286075 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
41286017 CCCCTATAAT
* *
41286027 GTGAAAATGACCATTTTGCCCCTAA
1 GTGAAAATGACCATTATACCCCTAA
41286052 GTGAAAATGACCATTATACCCCTA
1 GTGAAAATGACCATTATACCCCTA
41286076 GGGATATGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAA
Found at i:41286132 original size:10 final size:10
Alignment explanation
Indices: 41286117--41286144 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
41286107 CTGTTCTGTA
41286117 CATGATATGC
1 CATGATATGC
41286127 CATGATATGC
1 CATGATATGC
41286137 CATGATAT
1 CATGATAT
41286145 ATTCATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (10 bp):
CATGATATGC
Found at i:41287208 original size:18 final size:17
Alignment explanation
Indices: 41287182--41287215 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41287172 GGTGTTACTT
41287182 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
41287200 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
41287216 AAGCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:41316749 original size:18 final size:18
Alignment explanation
Indices: 41316726--41316762 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
41316716 CGCGACGACT
*
41316726 GCTACTGAGATCTCTTCC
1 GCTACTGAAATCTCTTCC
41316744 GCTACTGAAATCTCTTCC
1 GCTACTGAAATCTCTTCC
41316762 G
1 G
41316763 ATGTCCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.32
Consensus pattern (18 bp):
GCTACTGAAATCTCTTCC
Found at i:41318978 original size:17 final size:18
Alignment explanation
Indices: 41318946--41318980 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
41318936 AAATTTACCA
41318946 AAAATCACAGAAAATCAG
1 AAAATCACAGAAAATCAG
*
41318964 AAAATCCCA-AAAATCAG
1 AAAATCACAGAAAATCAG
41318981 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.20, G:0.09, T:0.11
Consensus pattern (18 bp):
AAAATCACAGAAAATCAG
Found at i:41341509 original size:110 final size:110
Alignment explanation
Indices: 41341316--41341534 Score: 420
Period size: 110 Copynumber: 2.0 Consensus size: 110
41341306 TCGATTGATT
*
41341316 TCATTCATCAAGGCATCCAATACGAAATGCAAAACATCCAAAATTTGCTAGAACTTAAAGTCTTT
1 TCATTCATCAAGGCATCCAATACGAAATGCAAAACATCCAAAATTTGCTAGAACCTAAAGTCTTT
41341381 GGCCGAATGTTACTAAACTCAAGCCACCATATATTTTTTTTATCC
66 GGCCGAATGTTACTAAACTCAAGCCACCATATATTTTTTTTATCC
41341426 TCATTCATCAAGGCATCCAATACGAAATGCAAAACATCCAAAATTTGCTAGAACCTAAAGTCTTT
1 TCATTCATCAAGGCATCCAATACGAAATGCAAAACATCCAAAATTTGCTAGAACCTAAAGTCTTT
*
41341491 GGCCGAATGTTACTAAACTCAAGCCACCATATTTTTTTTTTATC
66 GGCCGAATGTTACTAAACTCAAGCCACCATATATTTTTTTTATC
41341535 GCTAAGTCAC
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (110 bp):
TCATTCATCAAGGCATCCAATACGAAATGCAAAACATCCAAAATTTGCTAGAACCTAAAGTCTTT
GGCCGAATGTTACTAAACTCAAGCCACCATATATTTTTTTTATCC
Found at i:41345929 original size:37 final size:37
Alignment explanation
Indices: 41345870--41345978 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
41345860 AGCTCAGATG
* *
41345870 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41345907 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41345944 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
41345979 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:41346181 original size:48 final size:48
Alignment explanation
Indices: 41346119--41347324 Score: 2169
Period size: 48 Copynumber: 25.0 Consensus size: 48
41346109 ATATACATAC
* * *
41346119 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
* * *
41346167 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
* *
41346215 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346265 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346313 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346361 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346409 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346457 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346505 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346553 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346601 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346649 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346697 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346745 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346793 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346841 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346889 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41346937 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
*
41346985 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
* *
41347033 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
* * *
41347081 ATCTCATACAAATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
*
41347129 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
* * * *
41347177 ACCTCATACATATTTCACAGTAGACATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
*
41347225 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
* * *
41347273 ATCTCATATATATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
41347323 AT
1 AT
41347325 ATTTATCTTG
Statistics
Matches: 1132, Mismatches: 22, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
48 1044 0.92
50 88 0.08
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAGATACAT
Found at i:41349696 original size:44 final size:41
Alignment explanation
Indices: 41349648--41349744 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
41349638 ATCTATGACG
41349648 TTGGCATCGACTTATGATTTACGTGTAAAACCATGTCTGAGACA
1 TTGGCATCGA-TT-TGATTT-CGTGTAAAACCATGTCTGAGACA
* * *
41349692 TTGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGACA
1 TTGGCATCG-ATTTGATTTCGTGTAAAACCATGTCTGAGACA
**
41349734 GAGGCATCGAT
1 TTGGCATCGAT
41349745 ATTTGATTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 2 0.04
42 27 0.57
43 6 0.13
44 11 0.23
45 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (41 bp):
TTGGCATCGATTTGATTTCGTGTAAAACCATGTCTGAGACA
Found at i:41349727 original size:42 final size:41
Alignment explanation
Indices: 41349648--41349783 Score: 123
Period size: 43 Copynumber: 3.2 Consensus size: 41
41349638 ATCTATGACG
* *
41349648 TTGGCATCG-ACTTATGATTTACGTGTAAAACCATGTCTGAGACA
1 TTGGCATCGTA-TT-TGATTT-CGTGTAAGACCCTGTCTG-GACA
41349692 TTGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGACA
1 TTGGCATCGTATTTGATTTCGTGTAAGACCCTGTCT-GGACA
** * * *
41349734 GAGGCATCGATATTTGATTACATATAAGACCAC-GTCTGGAACA
1 TTGGCATCG-TATTTGATTTCGTGTAAGACC-CTGTCTGG-ACA
41349777 TTGGCAT
1 TTGGCAT
41349784 TGTACAATCT
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
42 28 0.36
43 37 0.47
44 12 0.15
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (41 bp):
TTGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGACA
Found at i:41349748 original size:43 final size:43
Alignment explanation
Indices: 41349662--41349752 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 43
41349652 CATCGACTTA
**
41349662 TGATTTACGTGTAAAACCATGTCTGAGACATTGGCATCGTATT
1 TGATTTACGTGTAAAACCATGTCTGAGACAGAGGCATCGTATT
* * *
41349705 TGATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 TGATTTACGTGTAAAACCATGTCTGAGACAGAGGCATCG-TATT
41349748 TGATT
1 TGATT
41349753 ACATATAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 27 0.64
43 15 0.36
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
TGATTTACGTGTAAAACCATGTCTGAGACAGAGGCATCGTATT
Found at i:41350078 original size:8 final size:8
Alignment explanation
Indices: 41350065--41350089 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
41350055 AATTTTGATG
41350065 ATGTTTAT
1 ATGTTTAT
41350073 ATGTTTAT
1 ATGTTTAT
41350081 ATGTTTAT
1 ATGTTTAT
41350089 A
1 A
41350090 AAGTTAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (8 bp):
ATGTTTAT
Found at i:41351336 original size:43 final size:42
Alignment explanation
Indices: 41351275--41351359 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 42
41351265 TTTGGATGGT
41351275 ATCAGAGCTACGATTTAGTCAATTCT-AGAACTAACGTAGCATA
1 ATCAGAGCTACGATTTAGTCAATT-TAAG-ACTAACGTAGCATA
* * *
41351318 ATCAGAGCTGC-AGTTTAGTCGATTTAAGACTAATGTAGCATA
1 ATCAGAGCTACGA-TTTAGTCAATTTAAGACTAACGTAGCATA
41351360 TGTGAGTCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 15 0.41
43 22 0.59
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (42 bp):
ATCAGAGCTACGATTTAGTCAATTTAAGACTAACGTAGCATA
Found at i:41358183 original size:17 final size:17
Alignment explanation
Indices: 41358161--41358214 Score: 99
Period size: 17 Copynumber: 3.2 Consensus size: 17
41358151 ACAATCAGAG
*
41358161 TAAACCCAATATGGACC
1 TAAACCCAATATGGGCC
41358178 TAAACCCAATATGGGCC
1 TAAACCCAATATGGGCC
41358195 TAAACCCAATATGGGCC
1 TAAACCCAATATGGGCC
41358212 TAA
1 TAA
41358215 GCCCTTTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.19
Consensus pattern (17 bp):
TAAACCCAATATGGGCC
Found at i:41370907 original size:47 final size:47
Alignment explanation
Indices: 41370789--41370960 Score: 244
Period size: 47 Copynumber: 3.7 Consensus size: 47
41370779 GGATAGTTGA
* * * *
41370789 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTGG
41370837 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTGG
41370882 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTGG
*
41370929 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
41370961 ATTTATGGAT
Statistics
Matches: 115, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
43 7 0.06
45 3 0.03
46 29 0.25
47 75 0.65
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTGG
Found at i:41371273 original size:19 final size:20
Alignment explanation
Indices: 41371236--41371273 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
41371226 ATAAGGTTGT
41371236 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
41371256 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
41371274 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:41376262 original size:29 final size:26
Alignment explanation
Indices: 41376218--41376271 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 26
41376208 GAACAAAGAT
41376218 AACAAGAAAACCGAATAAAGAAATCC
1 AACAAGAAAACCGAATAAAGAAATCC
41376244 AACATAGAGAAACCAGAATAAAGAAATC
1 AACA-AGA-AAACC-GAATAAAGAAATC
41376272 TAGAATAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 4 0.16
27 3 0.12
28 5 0.20
29 13 0.52
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (26 bp):
AACAAGAAAACCGAATAAAGAAATCC
Found at i:41376278 original size:15 final size:15
Alignment explanation
Indices: 41376221--41376299 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
41376211 CAAAGATAAC
*
41376221 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
41376235 AAGAAATCCA-ACATA
1 AAGAAATCCAGA-ATA
*
41376250 GAGAAA-CCAGAATA
1 AAGAAATCCAGAATA
*
41376264 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
41376279 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
41376294 AAGAAA
1 AAGAAA
41376300 GCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 20 0.38
15 33 0.62
ACGTcount: A:0.59, C:0.13, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:41386096 original size:15 final size:15
Alignment explanation
Indices: 41386048--41386127 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
41386038 CAAAGATAAC
*
41386048 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
41386062 AAGAAATCCA-ACATA
1 AAGAAATCCAGA-ATA
* *
41386077 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
41386092 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* * *
41386107 AAGAGATCTAGGATA
1 AAGAAATCCAGAATA
41386122 AAGAAA
1 AAGAAA
41386128 CCCAAGATAC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 9 0.17
15 44 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.16, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:41388670 original size:40 final size:40
Alignment explanation
Indices: 41388599--41388770 Score: 276
Period size: 40 Copynumber: 4.3 Consensus size: 40
41388589 AAACCAAGTA
* * * *
41388599 CCTTCGGGATTTAG-CCGGATATAGCT-TCTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
41388638 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41388678 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
41388718 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
41388758 CCTTCGGGACTTA
1 CCTTCGGGACTTA
41388771 TCTCGGTTAT
Statistics
Matches: 125, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
39 14 0.11
40 111 0.89
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:41396612 original size:40 final size:40
Alignment explanation
Indices: 41396529--41396706 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
41396519 AAACCAAGTA
* * * *
41396529 CCTTCGGGATTTAG-CCGGATATAGCT-TCTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
41396568 CCTTCGGGACTTAGCCCGGATATAGTAACTGGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41396608 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41396648 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41396688 CCTTCGGGACTTATCCCGG
1 CCTTCGGGACTTAGCCCGG
41396707 TTATCATCCG
Statistics
Matches: 125, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 14 0.11
40 111 0.89
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:41400472 original size:93 final size:93
Alignment explanation
Indices: 41400313--41400484 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
41400303 CGCCCATAAG
* **
41400313 CGAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
41400378 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
41400406 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
41400471 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
41400485 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:41400479 original size:46 final size:45
Alignment explanation
Indices: 41400314--41400481 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 45
41400304 GCCCATAAGC
* * * * *
41400314 GAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA-CAGT
* *
41400360 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC---
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATC-CACAGT
41400407 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAC-AGT
41400453 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
41400482 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
44 1 0.01
46 56 0.54
47 29 0.28
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCACAGT
Found at i:41407221 original size:47 final size:47
Alignment explanation
Indices: 41407152--41407794 Score: 1286
Period size: 47 Copynumber: 13.7 Consensus size: 47
41407142 GGATGGTTGA
41407152 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407199 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407246 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407293 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407340 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407387 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407434 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407481 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407528 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407575 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407622 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407669 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407716 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
41407763 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
41407795 ACTCATGGAT
Statistics
Matches: 596, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 596 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41407893 original size:46 final size:46
Alignment explanation
Indices: 41407840--41408015 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
41407830 TGGTTGAGCA
*
41407840 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
* *** * * * *
41407886 TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGACGTA-AC-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACGAATG
* * *
41407931 CATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
* *
41407979 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41408016 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 2 0.02
46 68 0.66
47 31 0.30
48 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
Found at i:41407951 original size:93 final size:93
Alignment explanation
Indices: 41407837--41408007 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
41407827 GGATGGTTGA
*
41407837 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAATGCCCGAACTCATTGAGT
41407902 TGAGTCCGAGTTCGAGAGACGTAACTAG
66 TGAGTCCGAGTTCGAGAGACGTAACTAG
* * * * *
41407930 GCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAATGCCCGAACTCATTGAGT
41407995 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41408008 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGAGAGACGTAACTAG
Found at i:41415410 original size:17 final size:18
Alignment explanation
Indices: 41415388--41415421 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41415378 CACATTGAAG
41415388 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
41415405 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
41415422 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:41419066 original size:28 final size:29
Alignment explanation
Indices: 41419028--41419090 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
41419018 AAGTCTGCAT
*
41419028 ACATGCATATGGCCCATTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
41419056 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
41419085 ACATTC
1 ACATTC
41419091 GTATACATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:41419346 original size:16 final size:18
Alignment explanation
Indices: 41419305--41419347 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
41419295 GTAGCCAAAC
41419305 TTTCGGC-TTTTCGACAT
1 TTTCGGCATTTTCGACAT
41419322 TTT-GGCATTTT-GAC-T
1 TTTCGGCATTTTCGACAT
41419337 TTTCGGCATTT
1 TTTCGGCATTT
41419348 CGGGATTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.17
16 13 0.54
17 7 0.29
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.51
Consensus pattern (18 bp):
TTTCGGCATTTTCGACAT
Found at i:41429103 original size:37 final size:37
Alignment explanation
Indices: 41429042--41429120 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
41429032 TTATTACGAA
* *
41429042 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCCCCACACGAAGTCATCGG
*
41429079 GTCTTACCCGGACCA-AATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGA-CATAATCCCCACACGAAGTCATCGG
41429116 GTCTT
1 GTCTT
41429121 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCCCCACACGAAGTCATCGG
Found at i:41429317 original size:47 final size:47
Alignment explanation
Indices: 41429239--41429557 Score: 548
Period size: 47 Copynumber: 6.8 Consensus size: 47
41429229 CCCTTCGGGA
* * * * * *
41429239 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41429286 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41429333 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41429380 CTTATCACATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41429427 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41429474 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41429521 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
41429558 AATCCTAAAT
Statistics
Matches: 258, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 258 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41431617 original size:56 final size:56
Alignment explanation
Indices: 41431550--41431669 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
41431540 TATTAGTTTA
*
41431550 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATATTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
41431606 TTGCCCATGCTTCTTATATTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATATTATTCTTCCATTAACACAACATGTTTCATGACATGTT
41431662 TTGCCCAT
1 TTGCCCAT
41431670 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATATTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:41432417 original size:44 final size:44
Alignment explanation
Indices: 41432320--41432410 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
41432310 ATTCATATGT
* * *
41432320 ATGAATGTTTTTAAAAAGAATAAAATTTTATGGCTTAGATTTGT
1 ATGAATGTTTTTAAAAAGAATAAAATTTTATGGCTCAGAATTGC
41432364 ATGAATGTTTTTAAAAAGAATAAAATTTTATGGCTCAGAATTGC
1 ATGAATGTTTTTAAAAAGAATAAAATTTTATGGCTCAGAATTGC
41432408 ATG
1 ATG
41432411 TGTGTTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (44 bp):
ATGAATGTTTTTAAAAAGAATAAAATTTTATGGCTCAGAATTGC
Found at i:41435322 original size:46 final size:47
Alignment explanation
Indices: 41435269--41435527 Score: 164
Period size: 46 Copynumber: 5.5 Consensus size: 47
41435259 TTTGTGCACT
41435269 AGTGTAAGA-CATGTCTGGGACATGCATTGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCACATTATGAGAGCC
* * * *
41435315 AGTGTAAGACCATGTCTAGGACATGGCA-T--CGACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCCACATT---ATGAGAGCC
* * ** *
41435363 AGTGTAAGACACA--TCTGGGACATGAATCGGCCTTGA-GATGTA-AGCC
1 AGTGTAAGAC-CATGTCTGGGACATGCATTGGCC-ACATTATG-AGAGCC
* * * *
41435409 AGTGTAAGA-CATGTCTGGGACATGCATTGG-C-TATGA-GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCACATTATGA-GAGCC
* * * * * *
41435453 AGTGTAAGATCATGTCTAGGACATGGCATCGGCACAGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGC-CACAT-TATGAGAGCC
41435503 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
41435528 GTGTCGGCCT
Statistics
Matches: 162, Mismatches: 28, Indels: 43
0.70 0.12 0.18
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 15 0.09
45 20 0.12
46 46 0.28
47 24 0.15
48 21 0.13
49 6 0.04
50 25 0.15
51 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATTGGCCACATTATGAGAGCC
Found at i:41436430 original size:42 final size:42
Alignment explanation
Indices: 41436371--41436454 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
41436361 ACACACGGGT
* *
41436371 GTGTGTCTAGGTCGTGTGTGATACACGGTCAGCCCCATGGGC
1 GTGTGTCTAGGCCGTGTGTGACACACGGTCAGCCCCATGGGC
*
41436413 GTGTGTCTAGGCCGTGTGTGACACACGGTCAGCTCCATGGGC
1 GTGTGTCTAGGCCGTGTGTGACACACGGTCAGCCCCATGGGC
41436455 ATGTTGTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.14, C:0.25, G:0.36, T:0.25
Consensus pattern (42 bp):
GTGTGTCTAGGCCGTGTGTGACACACGGTCAGCCCCATGGGC
Found at i:41446666 original size:46 final size:44
Alignment explanation
Indices: 41446582--41446681 Score: 139
Period size: 46 Copynumber: 2.2 Consensus size: 44
41446572 GACAAAAACT
41446582 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT--GCC
* * *
41446628 AGTGTAAGATATGTCTGGGACATGCATCGG-CTATGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTGCC
41446672 AGTGTAAGAC
1 AGTGTAAGAC
41446682 CATATCTAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
44 11 0.22
45 2 0.04
46 36 0.73
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTGCC
Found at i:41458088 original size:42 final size:43
Alignment explanation
Indices: 41457989--41458103 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
41457979 AATGCCAACA
* * *
41457989 TCCCAGACGTGGTCTTACATGAAATCAAACATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGAAATCAGACATCGATGCCACTG
* * *
41458032 TCCTTA-ACAGGGTCTTACACGAAATCAGATA-CGATGCCGA-TG
1 TCC-CAGACATGGTCTTACACGAAATCAGACATCGATGCC-ACTG
*
41458074 TCCCAGACATGGTCTTACACGTAAAACAGA
1 TCCCAGACATGGTCTTACACG-AAATCAGA
41458104 AGTTAATGCT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
41 1 0.02
42 26 0.44
43 31 0.53
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCAGACATCGATGCCACTG
Found at i:41464979 original size:23 final size:25
Alignment explanation
Indices: 41464929--41464981 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
41464919 ATGTCATAAA
*
41464929 CATAACTTCATCATATAACTTATAC
1 CATAACTTCATCATATAACATATAC
41464954 CATAAC-TCATTCATA-AACATAT-C
1 CATAACTTCA-TCATATAACATATAC
41464977 CATAA
1 CATAA
41464982 TCAAGCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.23
24 9 0.35
25 11 0.42
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (25 bp):
CATAACTTCATCATATAACATATAC
Found at i:41466875 original size:50 final size:50
Alignment explanation
Indices: 41466787--41466997 Score: 201
Period size: 50 Copynumber: 4.2 Consensus size: 50
41466777 ATGACCTTTA
* * * * * *
41466787 ATATTCGACCACATAGGTATGTACATATATGATGTTATATTGGATCTTGT
1 ATATTCGGCCATAAAGGTATGCACATATGTGATATTATATTGGATCTTGT
* * *
41466837 ATATTCGGCTATAAAGGTATGCACAAATGTGATATTATATTTGAAT-TTGT
1 ATATTCGGCCATAAAGGTATGCACATATGTGATATTATA-TTGGATCTTGT
* * * * *
41466887 ATATTCAGCCATATAA-GTAAGCACATATGTGATGTTATATTTGATCTTGC
1 ATATTCGGCCATA-AAGGTATGCACATATGTGATATTATATTGGATCTTGT
* * * ** * *
41466937 ATATTTGGCCACATAGGTATGCTTATATGTGATATTATATTTGATCTCGT
1 ATATTCGGCCATAAAGGTATGCACATATGTGATATTATATTGGATCTTGT
41466987 ATATTCGGCCA
1 ATATTCGGCCA
41466998 AATGAGTGAT
Statistics
Matches: 129, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
49 5 0.04
50 117 0.91
51 7 0.05
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (50 bp):
ATATTCGGCCATAAAGGTATGCACATATGTGATATTATATTGGATCTTGT
Found at i:41466967 original size:100 final size:100
Alignment explanation
Indices: 41466809--41466997 Score: 254
Period size: 100 Copynumber: 1.9 Consensus size: 100
41466799 ATAGGTATGT
* * *
41466809 ACATATATGATGTTATATTGGATCTTGTATATTCGGCTATAAAGGTATGCACAAATGTGATATTA
1 ACATATATGATGTTATATTGGATCTTGCATATTCGGCCACAAAGGTATGCACAAATGTGATATTA
*
41466874 TATTTGAAT-TTGTATATTCAGCCATATAAGTAAGC
66 TATTTG-ATCTCGTATATTCAGCCATATAAGTAAGC
* * * * ** *
41466909 ACATATGTGATGTTATATTTGATCTTGCATATTTGGCCACATAGGTATGCTTATATGTGATATTA
1 ACATATATGATGTTATATTGGATCTTGCATATTCGGCCACAAAGGTATGCACAAATGTGATATTA
*
41466974 TATTTGATCTCGTATATTCGGCCA
66 TATTTGATCTCGTATATTCAGCCA
41466998 AATGAGTGAT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
99 2 0.03
100 74 0.97
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (100 bp):
ACATATATGATGTTATATTGGATCTTGCATATTCGGCCACAAAGGTATGCACAAATGTGATATTA
TATTTGATCTCGTATATTCAGCCATATAAGTAAGC
Found at i:41469228 original size:67 final size:65
Alignment explanation
Indices: 41469140--41469378 Score: 209
Period size: 64 Copynumber: 3.6 Consensus size: 65
41469130 CACCCATGTG
* * * ** *
41469140 ACCTAGCCAC-TTTATCTCGTAGCTCTCTTGTTTACATGGTGTCCTTCACCTGGA-ACCACACAT
1 ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGT--TACAAAT-AATACCACACAT
41469203 GCA
63 GCA
* * * *
41469206 ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACAAGGTG-TACAAATAATATCACCCATGCG
1 ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGTTACAAATAATACCACACATGCA
* * * * * * *
41469270 ACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTG-TACACATAGTATCACCCATGCG
1 ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGTTACAAATAATACCACACATGCA
*
41469334 ACCTAGCTACCTTATAATGTCTCGTAGCTCTCTTGTAC-ACATGGT
1 ACCTAGCTACATT-T-A--TCTCGTAGCTCTCTTGT-CTACATGGT
41469379 ATACATCCCG
Statistics
Matches: 148, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
63 1 0.01
64 83 0.56
65 1 0.01
66 10 0.07
67 29 0.20
68 23 0.16
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (65 bp):
ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGTTACAAATAATACCACACATGCA
Found at i:41469296 original size:64 final size:64
Alignment explanation
Indices: 41469200--41469343 Score: 234
Period size: 64 Copynumber: 2.2 Consensus size: 64
41469190 TGGAACCACA
* * *
41469200 CATGCAACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACAAGGTGTACAAATAATATCACC
1 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACAAGGTGTACAAATAATATCACC
* * *
41469264 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACC
1 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACAAGGTGTACAAATAATATCACC
41469328 CATGCGACCTAGCTAC
1 CATGCGACCTAGCTAC
41469344 CTTATAATGT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (64 bp):
CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACAAGGTGTACAAATAATATCACC
Found at i:41469909 original size:29 final size:29
Alignment explanation
Indices: 41469876--41469932 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
41469866 TCCTTAACTC
41469876 AAACTTTTGCAAAATT-ACAATTTTGCCCT
1 AAACTTTTGC-AAATTCACAATTTTGCCCT
* *
41469905 AAACTTTTGCATATTCACACTTTTGCCC
1 AAACTTTTGCAAATTCACAATTTTGCCC
41469933 CTAGGCTCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (29 bp):
AAACTTTTGCAAATTCACAATTTTGCCCT
Found at i:41471742 original size:43 final size:43
Alignment explanation
Indices: 41471695--41471782 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 43
41471685 TCTTACATGC
41471695 AATCAAACATCGATGC-CATCGTCCCAGACAGGGCCTTACAC-TA
1 AATCAAACA-CGATGCTCAT-GTCCCAGACAGGGCCTTACACATA
* * * * *
41471738 AATCAGATACGATGCTGATGTCCCAGACATGGTCTTACACATA
1 AATCAAACACGATGCTCATGTCCCAGACAGGGCCTTACACATA
41471781 AA
1 AA
41471783 ATAGAAGTCG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
42 25 0.66
43 13 0.34
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
AATCAAACACGATGCTCATGTCCCAGACAGGGCCTTACACATA
Found at i:41474075 original size:17 final size:17
Alignment explanation
Indices: 41474053--41474088 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
41474043 AATTAATATT
*
41474053 AAAATGAAAATAAAATG
1 AAAATGAAAAGAAAATG
*
41474070 AAAATGATAAGAAAATG
1 AAAATGAAAAGAAAATG
41474087 AA
1 AA
41474089 GGAAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (17 bp):
AAAATGAAAAGAAAATG
Found at i:41476268 original size:47 final size:47
Alignment explanation
Indices: 41476214--41476343 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 47
41476204 GTGCGAATAA
* *
41476214 TACCTTGATTTGGCTATGGGCCATGGTATAAGTATTCAAAGATGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAAGTACTCAAAGATAAGT
* * * *** *
41476261 TACCTTGATTTGGCTACGGGGCATGGTATAGGTACTCCGGGGTAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAAGTACTCAAAGATAAGT
* *
41476308 TACCTTGATTTGGTTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAAGTACT
41476344 TATCGATTGT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAAGTACTCAAAGATAAGT
Found at i:41476361 original size:47 final size:48
Alignment explanation
Indices: 41476211--41476362 Score: 129
Period size: 47 Copynumber: 3.2 Consensus size: 48
41476201 TGGGTGCGAA
* *
41476211 TAATACCTTGATTTGGCTATGGGCCATGGTATAAGTA-TTCAAAGATGAG
1 TAATACCTTGATTTGGCTATGGGCCATGGTATAGGTACTT-AACGAT-AG
* * * **
41476260 T--TACCTTGATTTGGCTACGGGGCATGGTATAGGTAC-T-CCG-GGG
1 TAATACCTTGATTTGGCTATGGGCCATGGTATAGGTACTTAACGATAG
* * *
41476303 TAAGTTACCTTGATTTGGTTATGGGCCATGGTATAGGTACTTATCGATTG
1 TAA--TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTTAACGATAG
41476353 TAAT-CCTTGA
1 TAATACCTTGA
41476363 GTATTTGATT
Statistics
Matches: 82, Mismatches: 13, Indels: 18
0.73 0.12 0.16
Matches are distributed among these distances:
43 2 0.02
45 1 0.01
47 70 0.85
48 2 0.02
49 3 0.04
50 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (48 bp):
TAATACCTTGATTTGGCTATGGGCCATGGTATAGGTACTTAACGATAG
Found at i:41477341 original size:21 final size:21
Alignment explanation
Indices: 41477301--41477342 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
41477291 CCCCTCTAGA
*
41477301 TTTCAAATGGCCTAATTATAC
1 TTTCAAATGCCCTAATTATAC
41477322 TTTCAAATGACCCTAA-TATAC
1 TTTCAAATG-CCCTAATTATAC
41477343 CTCATTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (21 bp):
TTTCAAATGCCCTAATTATAC
Found at i:41480089 original size:37 final size:37
Alignment explanation
Indices: 41480039--41480110 Score: 128
Period size: 37 Copynumber: 1.9 Consensus size: 37
41480029 TGGAGATACT
41480039 TTCAAGAATACTTTATCTCTGACCTAGG-ACTCAATCA
1 TTCAAGAATACTTTATCTCTGACCT-GGAACTCAATCA
41480076 TTCAAGAATACTTTATCTCTGACCTGGAACTCAAT
1 TTCAAGAATACTTTATCTCTGACCTGGAACTCAAT
41480111 TTCTTTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 2 0.06
37 32 0.94
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (37 bp):
TTCAAGAATACTTTATCTCTGACCTGGAACTCAATCA
Found at i:41488598 original size:49 final size:50
Alignment explanation
Indices: 41488509--41488751 Score: 224
Period size: 49 Copynumber: 4.9 Consensus size: 50
41488499 CCTATTGTGA
* * * * *
41488509 GGTCACGTGTGTAGTACTAAGAGCAGGTTACTACGTGTACCAGATTATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTC
* * * * *
41488558 GGTCGCATGTGTACTTCTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TTC
* * * ** ** *
41488609 GATCACGTGTGTAGTACTAAATGCAGGCTACTACATGT--CAGATGGTTG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTC
** * * *
41488657 GGTCACGCGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTC
* *
41488706 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
41488752 GCTTCGGCTA
Statistics
Matches: 153, Mismatches: 37, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
48 35 0.23
49 80 0.52
50 9 0.06
51 29 0.19
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTC
Found at i:41494340 original size:42 final size:43
Alignment explanation
Indices: 41494250--41494352 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
41494240 GTCCTGGACG
* ** *
41494250 TGGTCTTATATGTAATTCAATATCGATGCCTTTGTCCCAAATA
1 TGGTCTTATATGTAAATCAATATCGATGCCAATGTCCCAAACA
* * *
41494293 GGGTCTTACATG-AAATCAGATAT-GATGCCAATGTCCCAGACA
1 TGGTCTTATATGTAAATCA-ATATCGATGCCAATGTCCCAAACA
41494335 TGGTCTTATATGTAAATC
1 TGGTCTTATATGTAAATC
41494353 TCAATCGAGG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 30 0.61
43 19 0.39
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (43 bp):
TGGTCTTATATGTAAATCAATATCGATGCCAATGTCCCAAACA
Found at i:41501651 original size:38 final size:38
Alignment explanation
Indices: 41501609--41501705 Score: 131
Period size: 38 Copynumber: 2.6 Consensus size: 38
41501599 GGCTTAAAGA
*
41501609 CCCGCAGGCTTCGTGCTGGTAAAATATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAAAATATCCAGGATAAAT
** *
41501647 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTAAAATATCCAGGATAAAT
* * *
41501685 CCCACAGGCCTAGTGCTGGTA
1 CCCGCAGGCTTCGTGCTGGTA
41501706 CTATATTCGG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAAAATATCCAGGATAAAT
Found at i:41501711 original size:38 final size:38
Alignment explanation
Indices: 41501621--41501716 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 38
41501611 CGCAGGCTTC
* * * * * *
41501621 GTGCTGGTAAAATATCCAGGTTAAATCCCGCAGGCTTC
1 GTGCTGGTAATATATCCGGGATAAATCCCACAGGCCTA
*
41501659 GTGCTGGTATTATATCCGGGATAAATCCCACAGGCCTA
1 GTGCTGGTAATATATCCGGGATAAATCCCACAGGCCTA
* *
41501697 GTGCTGGTACTATATTCGGG
1 GTGCTGGTAATATATCCGGG
41501717 CCTTCGTGCC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (38 bp):
GTGCTGGTAATATATCCGGGATAAATCCCACAGGCCTA
Found at i:41501833 original size:43 final size:43
Alignment explanation
Indices: 41501709--41501820 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
41501699 GCTGGTACTA
41501709 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
41501752 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
41501795 TATTTGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
41501821 GTAATGCCGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:41505435 original size:49 final size:49
Alignment explanation
Indices: 41505381--41505654 Score: 386
Period size: 49 Copynumber: 5.5 Consensus size: 49
41505371 CTGGTACGCA
* * * *
41505381 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAATATCCGGTACACG
41505430 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAATATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAATATCCGGTACACG
*
41505479 TAGTAGCTTGCACTTAGTACTACACACGTGACCAAATATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAATATCCGGTACACG
** * *
41505528 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AAATATCCGGTACACG
** * * * *
41505578 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAATATCCGGTACACG
41505629 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
41505655 TGCGACCTCA
Statistics
Matches: 204, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
49 125 0.61
50 43 0.21
51 35 0.17
52 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAAATATCCGGTACACG
Found at i:41507837 original size:30 final size:30
Alignment explanation
Indices: 41507794--41507862 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
41507784 TAAAGATAAC
*
41507794 AAGAAAACC-GAATAAAGAAATCCAAGA-TA
1 AAGAAACCCAGAATAAAGAAA-CCAAGAGTA
* *
41507823 GAGAAACCCAGAATAAAGAAACCCAGAGTA
1 AAGAAACCCAGAATAAAGAAACCAAGAGTA
41507853 AAGAAACCCA
1 AAGAAACCCA
41507863 AGATATGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.35
30 22 0.65
ACGTcount: A:0.58, C:0.19, G:0.16, T:0.07
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAACCAAGAGTA
Found at i:41507842 original size:15 final size:15
Alignment explanation
Indices: 41507794--41507862 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
41507784 TAAAGATAAC
*
41507794 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
41507808 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
41507823 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
41507838 AAGAAACCCAGAGTA
1 AAGAAACCCAGAATA
41507853 AAGAAACCCA
1 AAGAAACCCA
41507863 AGATATGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.19
15 37 0.79
16 1 0.02
ACGTcount: A:0.58, C:0.19, G:0.16, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:41513133 original size:29 final size:29
Alignment explanation
Indices: 41513091--41513164 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
41513081 GTTGTGAGAT
* *
41513091 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
41513120 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
41513149 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41513165 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Done.