Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 165 of 171
Found at i:48881980 original size:17 final size:15
Alignment explanation
Indices: 48881954--48882018 Score: 78
Period size: 17 Copynumber: 4.1 Consensus size: 15
48881944 ATTGATTTTA
48881954 AATTTATTTAAATTT
1 AATTTATTTAAATTT
48881969 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
48881986 AA-ATATTTAAATTT
1 AATTTATTTAAATTT
48882000 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
48882017 AA
1 AA
48882019 ATAAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.09
16 6 0.14
17 22 0.51
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:48881996 original size:31 final size:31
Alignment explanation
Indices: 48881958--48882021 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
48881948 ATTTTAAATT
*
48881958 TATTTAAATTTAGATTT-ATTTTAAATTTAAA
1 TATTTAAATTTA-ATTTGAATTTAAATTTAAA
48881989 TATTTAAATTTAATTTGAATTTAAATTTAAA
1 TATTTAAATTTAATTTGAATTTAAATTTAAA
48882020 TA
1 TA
48882022 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TATTTAAATTTAATTTGAATTTAAATTTAAA
Found at i:48882017 original size:42 final size:41
Alignment explanation
Indices: 48881950--48882057 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 41
48881940 TTAAATTGAT
* ** * *
48881950 TTTAAATTT-ATTTAAATTTAGATTTATTTTAAATTTAAATA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAA-A
*
48881991 TTTAAATTTAATTTGAATTTAAATTTAAATAAAAATTAAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
*
48882032 TATTAAATTTAACATTATAATTTAAA
1 T-TTAAATTTAA-TTTA-AATTTAAA
48882058 AGTCCAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 11 0.20
42 34 0.62
43 2 0.04
44 8 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (41 bp):
TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
Found at i:48882243 original size:15 final size:14
Alignment explanation
Indices: 48882223--48882278 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
48882213 GCCTATGCTG
48882223 CTGCCACCACCAGC
1 CTGCCACCACCAGC
48882237 TCTGCCACCACCAG-
1 -CTGCCACCACCAGC
48882251 CT-CCATCCACCATGCC
1 CTGCCA-CCACCA-G-C
48882267 CTGCCACCACCA
1 CTGCCACCACCA
48882279 TTGAACCTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 8 0.22
14 1 0.03
15 13 0.36
16 8 0.22
17 3 0.08
ACGTcount: A:0.21, C:0.55, G:0.11, T:0.12
Consensus pattern (14 bp):
CTGCCACCACCAGC
Found at i:48884000 original size:30 final size:30
Alignment explanation
Indices: 48883956--48884238 Score: 381
Period size: 30 Copynumber: 9.4 Consensus size: 30
48883946 AAATTATCCA
*
48883956 AAAATTACATTTTGACCCCAAAACTTTCCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
48883986 AATATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
48884016 AAAATTACATTTTGA-CCCGAAACTTTACC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * **
48884045 AAAATTACACTTTAACCATAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
48884075 AAAATTACATTTT-AGCCCCAAAACTTTTTC
1 AAAATTACATTTTGA-CCCCAAAACTTTTCC
* * *
48884105 AAAATTACATTTTAAACCCCGAAACTTTACC
1 AAAATTACATTTT-GACCCCAAAACTTTTCC
*
48884136 AAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
48884166 AAAGTTACATTTTGACCCCAAAACTTTACC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
48884196 AAAATTACGTTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
48884226 AAAATTACATTTT
1 AAAATTACATTTT
48884239 TAACCCCGAT
Statistics
Matches: 220, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
29 26 0.12
30 168 0.76
31 25 0.11
32 1 0.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:48884160 original size:91 final size:90
Alignment explanation
Indices: 48883956--48884245 Score: 404
Period size: 91 Copynumber: 3.2 Consensus size: 90
48883946 AAATTATCCA
* * * *
48883956 AAAATTACATTTTGACCCCAAAACTTTCCCAATATTATATTTTGACCCCAAAACTTTTCCAAAAT
1 AAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAAT
*
48884021 TACATTTTGA-CCCGAAACTTTACC
66 TACATTTTAACCCCGAAACTTTACC
* ** *
48884045 AAAATTACACTTTAACCATAAAACTTTTCCAAAATTACATTTT-AGCCCCAAAACTTTTTCAAAA
1 AAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGA-CCCCAAAACTTTTCCAAAA
48884109 TTACATTTTAAACCCCGAAACTTTACC
65 TTACATTTT-AACCCCGAAACTTTACC
* *
48884136 AAAATTACATTTTAACCCCAAAACTTTTCCAAAGTTACATTTTGACCCCAAAACTTTACCAAAAT
1 AAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAAT
* * * *
48884201 TACGTTTTGACCCCAAAACTTTTCC
66 TACATTTTAACCCCGAAACTTTACC
48884226 AAAATTACATTTTTAACCCC
1 AAAATTACA-TTTTAACCCC
48884246 GATTTCACCA
Statistics
Matches: 177, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
88 1 0.01
89 63 0.36
90 24 0.14
91 88 0.50
92 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (90 bp):
AAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAAT
TACATTTTAACCCCGAAACTTTACC
Found at i:48884164 original size:60 final size:59
Alignment explanation
Indices: 48883956--48884304 Score: 357
Period size: 60 Copynumber: 5.8 Consensus size: 59
48883946 AAATTATCCA
* * * * * *
48883956 AAAATTACATTTTGACCCCAAAACTTTCCCAATATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTT-TCAAAATTACATTTTAACCCCAAAACTTTACC
* * * * ** *
48884016 AAAATTACATTTTGA-CCCGAAACTTTACCAAAATTACACTTTAACCATAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTT-TCAAAATTACATTTTAACCCCAAAACTTTACC
* *
48884075 AAAATTACATTTTAGCCCCAAAACTTTTTCAAAATTACATTTTAAACCCCGAAACTTTACC
1 AAAATTACATTTTAACCCCAAAAC-TTTTCAAAATTACATTTT-AACCCCAAAACTTTACC
* *
48884136 AAAATTACATTTTAACCCCAAAACTTTTCCAAAGTTACATTTTGACCCCAAAACTTTACC
1 AAAATTACATTTTAACCCCAAAACTTTT-CAAAATTACATTTTAACCCCAAAACTTTACC
* * *
48884196 AAAATTACGTTTTGACCCCAAAACTTTTCCAAAATTACATTTTTAACCCC--GA-TTTCACC
1 AAAATTACATTTTAACCCCAAAACTTTT-CAAAATTACA-TTTTAACCCCAAAACTTT-ACC
* * *
48884255 AAAAATTACCATTTTACCCCCAAATCTTTT-AAAATTCCATTTTTAACCCC
1 -AAAATTA-CATTTTAACCCCAAAACTTTTCAAAATTACA-TTTTAACCCC
48884305 GATTTCACCA
Statistics
Matches: 250, Mismatches: 31, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
58 3 0.01
59 72 0.29
60 97 0.39
61 78 0.31
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (59 bp):
AAAATTACATTTTAACCCCAAAACTTTTCAAAATTACATTTTAACCCCAAAACTTTACC
Found at i:48884268 original size:91 final size:88
Alignment explanation
Indices: 48883956--48884306 Score: 354
Period size: 91 Copynumber: 3.9 Consensus size: 88
48883946 AAATTATCCA
* * * *
48883956 AAAATTACATTTTGACCCCAAAACTTTCCCAATATTATATTTTGA-CCCCAAAACTTTTCCAAAA
1 AAAATTACATTTTAACCCC--AACTTTTCCAAAATTACATTTT-ACCCCCAAAACTTTTCCAAAA
48884020 TTACATTTTGA-CCCGAAACTTTACC
63 TTACATTTTGACCCCGAAACTTTACC
* ** * *
48884045 AAAATTACACTTTAACCATAAAACTTTTCCAAAATTACATTTTAGCCCCAAAACTTTTTCAAAAT
1 AAAATTACATTTTAACC--CCAACTTTTCCAAAATTACATTTTACCCCCAAAACTTTTCCAAAAT
*
48884110 TACATTTTAAACCCCGAAACTTTACC
64 TACATTTT-GACCCCGAAACTTTACC
* *
48884136 AAAATTACATTTTAACCCCAAAACTTTTCCAAAGTTACATTTTGA-CCCCAAAACTTTACCAAAA
1 AAAATTACATTTTAACCCC--AACTTTTCCAAAATTACATTTT-ACCCCCAAAACTTTTCCAAAA
* * *
48884200 TTACGTTTTGACCCCAAAACTTTTCC
63 TTACATTTTGACCCCGAAACTTTACC
* * *
48884226 AAAATTACATTTTTAACCCCGA-TTTCACCAAAAATTACCATTTTACCCCCAAATCTTTT--AAA
1 AAAATTACA-TTTTAACCCCAACTTT-TCC-AAAATTA-CATTTTACCCCCAAAACTTTTCCAAA
* *
48884288 ATTCCATTTTTAACCCCGA
62 ATTACA-TTTTGACCCCGA
48884307 TTTCACCAAA
Statistics
Matches: 220, Mismatches: 28, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
88 4 0.02
89 71 0.32
90 41 0.19
91 103 0.47
92 1 0.00
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.33
Consensus pattern (88 bp):
AAAATTACATTTTAACCCCAACTTTTCCAAAATTACATTTTACCCCCAAAACTTTTCCAAAATTA
CATTTTGACCCCGAAACTTTACC
Found at i:48884667 original size:60 final size:59
Alignment explanation
Indices: 48884226--48884860 Score: 880
Period size: 59 Copynumber: 10.7 Consensus size: 59
48884216 AAACTTTTCC
* * *
48884226 AAAATTACATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * *
48884285 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * ** * * *
48884344 AAAATTTCGTTTTTAACCCTAATTTCACTGAAAATTACCGTTTTACCCCTGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * * * *
48884403 AAAATTCTATTTTTAACCTCGATTTCACCGAAAATTACCATTTCACCCCCGAAGCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * * * * *
48884462 AAAATCCCATTTTTAACCCCGATTTCACTGAAATTTACCATTTTA-CCCCAAAGCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
48884520 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
*
48884579 AAAA-TCCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTT
1 AAAATTCC-ATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATC-TTTT
* * **
48884639 AAAATTCCATTTTTAACCCCTATTTCACCAAAAATTACCATTTTACCCCTAAATCTTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATC-TTTT
* * *
48884699 AAAATTCCATTTTTAACCCCGATTTCATCGAAAATTACCATTTTACCCCCCGAAGCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTA-CCCCCGAATCTTTT
* * *
48884759 AAAATTTCGTTTTTAACCCCGATTTCACCGAAAATTGCCATTTTACCCCCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* *
48884818 AAAATTCCATTTTTAATCCCGATTACACC-AAAATTACCATTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTT
48884861 TGCCCCCGGG
Statistics
Matches: 510, Mismatches: 61, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
58 70 0.14
59 287 0.56
60 143 0.28
61 10 0.02
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
Found at i:48899479 original size:12 final size:12
Alignment explanation
Indices: 48899462--48899487 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48899452 TATGCAGTCA
48899462 ACGATTATCGAT
1 ACGATTATCGAT
48899474 ACGATTATCGAT
1 ACGATTATCGAT
48899486 AC
1 AC
48899488 CACTAAATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (12 bp):
ACGATTATCGAT
Found at i:48908781 original size:343 final size:341
Alignment explanation
Indices: 48908147--48908833 Score: 950
Period size: 343 Copynumber: 2.0 Consensus size: 341
48908137 CATTGGGGAA
*
48908147 GAAATACCAGCTCATTAATTACACCTGCAGTAACGAGTATCGATACCTACTAAAAGGTTATCGAT
1 GAAATACCAGCTCATTAATTACACCTGCAGCAACGAGTATCGATACCTACTAAAAGGTTATCGAT
* * * * * *
48908212 ATTTTCTTTAATTAATGCAGATATCAGTGATCGTTGGAACAGGAATATACAGACACATTGGATTT
66 AATTTCTTTAATTAACGCAGATATCAGTGACCGTTGGAACAAGAATATACAGAAACATTAGATTT
*
48908277 AATCGATATCTTATAGAAGGTATCGATACCAGATCGATACTTCCTAGGGTTCGGTAAAACAGAAT
131 AATCGATATCTTATAGAAGGTATCGATACCAGATCGATACTTCCTAGGGTTCGGTAAAACAAAAT
* * * *
48908342 GCTCATTTGGGATTGTTTATCACAGGGGTATTGATATGTTGTAAAATATCGATACTAAGACAAAA
196 GCTCATTTGGGATCGTTTATCACAGGGGTATTAATATCTTCTAAAATATCGATACTAAGACAAAA
* * * *
48908407 AGTACTGATACTGTTTGCCCTGGAACAATTCTAACTTTTTCTTTAAAATGGTCAAAACATATTTA
261 AGTACCGATACTGTTTGACCTGGAACAATTCTAAC-TTGT-TTGAAAATGGTCAAAACATATTTA
48908472 AAAATGTTTAACTCAATT
324 AAAATGTTTAACTCAATT
* * * *
48908490 GAAATACCAGCTCATTAATTACTCCTGCAGCAACGATTATCGATACCTACTAAATCGG-TATCGG
1 GAAATACCAGCTCATTAATTACACCTGCAGCAACGAGTATCGATACCTACTAAA-AGGTTATCGA
* * * * *
48908554 TAATTTCTTTAATTAACGCAGATTTCAGTGACCGTTGTAGCAAGAATATAGATAAACATTAGATT
65 TAATTTCTTTAATTAACGCAGATATCAGTGACCGTTGGAACAAGAATATACAGAAACATTAGATT
** * * *
48908619 TTCTCGATA-CGTTACT-TAAGGTATCGATATCAGATCGATACTTCCTAGGGTTTGGTAAAACAA
130 TAATCGATATC-TTA-TAGAAGGTATCGATACCAGATCGATACTTCCTAGGGTTCGGTAAAACAA
* * *
48908682 AATGCTCATTTTGTATCGTTTATCAGAGGGGTATTAATATCTTCTAAAATATCGATACTAAGACA
193 AATGCTCATTTGGGATCGTTTATCACAGGGGTATTAATATCTTCTAAAATATCGATACTAAGACA
* * *
48908747 AAAAGTACCGATACTGTTTGTACC-GGAGCAATTCTAACTTGTTTGAAAATGGTTAAAATATATT
258 AAAAGTACCGATACTGTTTG-ACCTGGAACAATTCTAACTTGTTTGAAAATGGTCAAAACATATT
* *
48908811 TGAAAATGTTTGACTCAATT
322 TAAAAATGTTTAACTCAATT
48908831 GAA
1 GAA
48908834 TCCATTTCAA
Statistics
Matches: 302, Mismatches: 38, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
341 40 0.13
342 4 0.01
343 253 0.84
344 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (341 bp):
GAAATACCAGCTCATTAATTACACCTGCAGCAACGAGTATCGATACCTACTAAAAGGTTATCGAT
AATTTCTTTAATTAACGCAGATATCAGTGACCGTTGGAACAAGAATATACAGAAACATTAGATTT
AATCGATATCTTATAGAAGGTATCGATACCAGATCGATACTTCCTAGGGTTCGGTAAAACAAAAT
GCTCATTTGGGATCGTTTATCACAGGGGTATTAATATCTTCTAAAATATCGATACTAAGACAAAA
AGTACCGATACTGTTTGACCTGGAACAATTCTAACTTGTTTGAAAATGGTCAAAACATATTTAAA
AATGTTTAACTCAATT
Found at i:48917822 original size:342 final size:342
Alignment explanation
Indices: 48917196--48918224 Score: 1584
Period size: 342 Copynumber: 3.0 Consensus size: 342
48917186 CATTGGGGAA
* * * ** * *
48917196 GAAATACCAGCTCATTAATTACACCTGCAGTAACGAGTATCGATACCTACTAAAAAGTTATCGAT
1 GAAATACCAGCTCATTAATTACTCCTGCAGCAACGATTATCGATACCTACTAAATCGGTATCGGT
* * * * * * * * * *
48917261 ATTTTCTGTAATTAATGCAGATATCAGTGATCGTTGGAACAGGAATATACAGACACATTAGATTT
66 AATTTCTTTAATTAAAGCAGATTTCAGTGACCGTT-GTACAAGAATATAGATAAACATTAGATTT
* * * *
48917326 TATCGATATC-TTA-TAGAAGGTATCTATACCAGATCGATACTTCCTAGGGTTCGGTAAAACAGA
130 TCTCGATA-CGTTACT-TAAGGTATCGATATCAGATCGATACTTCCTAGGGTTCGGTAAAACAGA
*
48917389 ATGCTCATTTGGTATTGTTTATCACAGGGGTATTGATATCTTGTAAAATATCGATACTAAGACAA
193 ATGCTCATTTGGTATTGTTTATCGCAGGGGTATTGATATCTTGTAAAATATCGATACTAAGACAA
48917454 AAAGTACTGATACTGTTTGCCCTGGAACAATTCTAACTTTTTCTTTAAAATGGTCAAAACATATT
258 AAAGTACTGATACTGTTTGCCCTGGAACAATTCTAACTTTTTCTTTAAAATGGTCAAAACATATT
48917519 TAAAAATGTTTAACTCAATT
323 TAAAAATGTTTAACTCAATT
48917539 GAAATACCAGCTCATTAATTACTCCTGCAGCAACGATTATCGATACCTACTAAATCGGTATCGGT
1 GAAATACCAGCTCATTAATTACTCCTGCAGCAACGATTATCGATACCTACTAAATCGGTATCGGT
48917604 AATTTCTTTAATTAAAGCAGATTTCAGTGACCGTTGTACAAGAATATAGATAAACATTAGATTTT
66 AATTTCTTTAATTAAAGCAGATTTCAGTGACCGTTGTACAAGAATATAGATAAACATTAGATTTT
* *
48917669 CTCGATACGTTACTTAAGGTATCGATATCAGATCGATACTTCCTAGGGTTCAGAAAAACAGAATG
131 CTCGATACGTTACTTAAGGTATCGATATCAGATCGATACTTCCTAGGGTTCGGTAAAACAGAATG
*
48917734 CTCATTTGGTATTGTTTATCGCAGGGGTGTTGATATCTTGTAAAATATCGATACTAAGACAAAAA
196 CTCATTTGGTATTGTTTATCGCAGGGGTATTGATATCTTGTAAAATATCGATACTAAGACAAAAA
48917799 GTACTGATACTGTTTGCCCTGGAACAATTCTAACTTTTTCTTTAAAATGGTCAAAACATATTTAA
261 GTACTGATACTGTTTGCCCTGGAACAATTCTAACTTTTTCTTTAAAATGGTCAAAACATATTTAA
48917864 AAATGTTTAACTCAATT
326 AAATGTTTAACTCAATT
48917881 GAAATACCAGCTCATTAATTACTCCTGCAGCAACGATTATCGATACCTACTAAATCGGTATCGGT
1 GAAATACCAGCTCATTAATTACTCCTGCAGCAACGATTATCGATACCTACTAAATCGGTATCGGT
*
48917946 AATTTCTTTAATTAACGCAGATTTCAGTGACCGTTGTAGCAAGAATATAGATAAACATTAGATTT
66 AATTTCTTTAATTAAAGCAGATTTCAGTGACCGTTGTA-CAAGAATATAGATAAACATTAGATTT
* *
48918011 TCTCGATACGTTACTTAAGGTATCGATATCAGATCGATACTTCCTAGGGTTTGGTAAAACAAAAT
130 TCTCGATACGTTACTTAAGGTATCGATATCAGATCGATACTTCCTAGGGTTCGGTAAAACAGAAT
* * * *
48918076 GCTCATTTTGTATCGTTTATCAG-AGGGGTATTAATATCTTCTAAAATATCGATACTAAGACAAA
195 GCTCATTTGGTATTGTTTATC-GCAGGGGTATTGATATCTTGTAAAATATCGATACTAAGACAAA
* * * * * * * *
48918140 AAGTACCGATACAGTTTGTACC-GGAGCAATTCTAAC-TTGT-TTGAAAATGGTTAAAATATATT
259 AAGTACTGATACTGTTTG-CCCTGGAACAATTCTAACTTTTTCTTTAAAATGGTCAAAACATATT
* *
48918202 TGAAAATGTTTGACTCAATT
323 TAAAAATGTTTAACTCAATT
48918222 GAA
1 GAA
48918225 TCCATTTCAA
Statistics
Matches: 636, Mismatches: 45, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
341 41 0.06
342 330 0.52
343 262 0.41
344 3 0.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (342 bp):
GAAATACCAGCTCATTAATTACTCCTGCAGCAACGATTATCGATACCTACTAAATCGGTATCGGT
AATTTCTTTAATTAAAGCAGATTTCAGTGACCGTTGTACAAGAATATAGATAAACATTAGATTTT
CTCGATACGTTACTTAAGGTATCGATATCAGATCGATACTTCCTAGGGTTCGGTAAAACAGAATG
CTCATTTGGTATTGTTTATCGCAGGGGTATTGATATCTTGTAAAATATCGATACTAAGACAAAAA
GTACTGATACTGTTTGCCCTGGAACAATTCTAACTTTTTCTTTAAAATGGTCAAAACATATTTAA
AAATGTTTAACTCAATT
Found at i:48920672 original size:2 final size:2
Alignment explanation
Indices: 48920665--48920690 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48920655 AAAAGAAGCT
48920665 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
48920691 ATTAAATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48922020 original size:15 final size:15
Alignment explanation
Indices: 48922000--48922028 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48921990 ACACAAGTTA
48922000 TTTTGTTTTATCTAT
1 TTTTGTTTTATCTAT
48922015 TTTTGTTTTATCTA
1 TTTTGTTTTATCTA
48922029 GGCACGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTGTTTTATCTAT
Found at i:48932074 original size:37 final size:37
Alignment explanation
Indices: 48932023--48932347 Score: 218
Period size: 37 Copynumber: 9.4 Consensus size: 37
48932013 TCAACGTCAT
** *
48932023 CCTCTTGAAATTGAAGTAGAGTGGATAACATATCTTTA
1 CCTC-TGAAATTGAAGTAGAGTGGATAACACGTCTTTC
* * *
48932061 CCTCTGAAATTGAAGTA-AG-AG-T-A-ACGTCATCC
1 CCTCTGAAATTGAAGTAGAGTGGATAACACGTCTTTC
*
48932093 CCTC-GAAATTGAAGTAGAGTGGATAACACGGC-TTC
1 CCTCTGAAATTGAAGTAGAGTGGATAACACGTCTTTC
* ** *
48932128 ATCTCTGAAATTGAAGTA-A---GAGCA-ACGTCATTC
1 -CCTCTGAAATTGAAGTAGAGTGGATAACACGTCTTTC
*
48932161 CCT-TGAAATTGAAGTAGAGTGGATAACACGAC-TTC
1 CCTCTGAAATTGAAGTAGAGTGGATAACACGTCTTTC
* ** *
48932196 ATCTCTGAAATTGAAGTA-A---GAGCA-ACGTCATTC
1 -CCTCTGAAATTGAAGTAGAGTGGATAACACGTCTTTC
48932229 CCT-TGAAATTGAAGTAGAGTGGATAACACGTC-TTC
1 CCTCTGAAATTGAAGTAGAGTGGATAACACGTCTTTC
* * *
48932264 CTCTCTGAAATTGAAGTA-A---GA-AGCAGCGTCATCC
1 C-CTCTGAAATTGAAGTAGAGTGGATAACA-CGTCTTTC
** *
48932298 CCTC-GAAATTGAAGTAGAGTGGATAACATATCTTTA
1 CCTCTGAAATTGAAGTAGAGTGGATAACACGTCTTTC
48932334 CCTCTGAAATTGAA
1 CCTCTGAAATTGAA
48932348 ATAAGAGCAA
Statistics
Matches: 224, Mismatches: 32, Indels: 63
0.70 0.10 0.20
Matches are distributed among these distances:
31 38 0.17
32 39 0.17
33 24 0.11
34 5 0.02
35 17 0.08
36 34 0.15
37 63 0.28
38 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (37 bp):
CCTCTGAAATTGAAGTAGAGTGGATAACACGTCTTTC
Found at i:48932104 original size:31 final size:33
Alignment explanation
Indices: 48932061--48932379 Score: 172
Period size: 37 Copynumber: 9.5 Consensus size: 33
48932051 CATATCTTTA
48932061 CCTCTGAAATTGAAGTAAG-AGTAACGTCATCC
1 CCTCTGAAATTGAAGTAAGTAGTAACGTCATCC
* * * *
48932093 CCTC-GAAATTGAAGTAGAGTGGATAACACGGCTTCA
1 CCTCTGAAATTGAAGTA-AGTAG-T-A-ACGTCATCC
* * *
48932129 TCTCTGAAATTGAAGTAAG-AGCAACGTCATTC
1 CCTCTGAAATTGAAGTAAGTAGTAACGTCATCC
* * * *
48932161 CCT-TGAAATTGAAGTAGAGTGGATAACACGACTTCA
1 CCTCTGAAATTGAAGTA-AGTAG-T-A-ACGTCATCC
* * *
48932197 TCTCTGAAATTGAAGTAAG-AGCAACGTCATTC
1 CCTCTGAAATTGAAGTAAGTAGTAACGTCATCC
* *
48932229 CCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCC
1 CCTCTGAAATTGAAGTA-AGTAG-T-A-ACGTCATCC
* * * *
48932265 TCTCTGAAATTGAAGTAAGAAGCAGCGTCATCC
1 CCTCTGAAATTGAAGTAAGTAGTAACGTCATCC
* * *
48932298 CCTC-GAAATTGAAGTAGAGTGGATAACAT-ATCTTTA
1 CCTCTGAAATTGAAGTA-AGTAG-TAACGTCATC---C
* * *
48932334 CCTCTGAAATTGAAATAAG-AGCAATGTCATCC
1 CCTCTGAAATTGAAGTAAGTAGTAACGTCATCC
*
48932366 TCT-TGAAATTGAAG
1 CCTCTGAAATTGAAG
48932380 AAGAGTTGGA
Statistics
Matches: 211, Mismatches: 51, Indels: 51
0.67 0.16 0.16
Matches are distributed among these distances:
31 48 0.23
32 38 0.18
33 21 0.10
34 8 0.04
35 9 0.04
36 38 0.18
37 49 0.23
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (33 bp):
CCTCTGAAATTGAAGTAAGTAGTAACGTCATCC
Found at i:48932134 original size:68 final size:68
Alignment explanation
Indices: 48932014--48932399 Score: 547
Period size: 68 Copynumber: 5.6 Consensus size: 68
48932004 CTGCAGGTCT
* ** * *
48932014 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACATATCTTTACCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
48932079 GAG
66 GAG
* * *
48932082 TAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGGCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
48932147 GAG
66 GAG
* *
48932150 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGACTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
48932215 GAG
66 GAG
* *
48932218 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCCTCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
48932283 GAAG
66 G-AG
* * ** * * *
48932287 CAGCGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACATATCTTTACCTCTGAAATTGAAATAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
48932352 GAG
66 GAG
* * * *
48932355 CAATGTCATCCTCTTGAAATTGAAGAAGAGTTGGATAACAAGTCT
1 CAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCT
48932400 CCGAAATTGA
Statistics
Matches: 286, Mismatches: 30, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
68 215 0.75
69 71 0.25
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (68 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
GAG
Found at i:48932778 original size:6 final size:6
Alignment explanation
Indices: 48932760--48932867 Score: 82
Period size: 6 Copynumber: 18.0 Consensus size: 6
48932750 TTAAATTGAT
* *
48932760 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA
* ** *
48932807 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A
48932856 -TTATAA TTTAAA
1 TTTA-AA TTTAAA
48932868 AGTCCAAATA
Statistics
Matches: 83, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 53 0.64
7 14 0.17
8 4 0.05
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:48932790 original size:17 final size:15
Alignment explanation
Indices: 48932764--48932828 Score: 78
Period size: 17 Copynumber: 4.1 Consensus size: 15
48932754 ATTGATTTTA
48932764 AATTTATTTAAATTT
1 AATTTATTTAAATTT
48932779 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
48932796 AA-ATATTTAAATTT
1 AATTTATTTAAATTT
48932810 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
48932827 AA
1 AA
48932829 ATAAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.09
16 6 0.14
17 22 0.51
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:48932806 original size:31 final size:31
Alignment explanation
Indices: 48932768--48932831 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
48932758 ATTTTAAATT
*
48932768 TATTTAAATTTAGATTT-ATTTTAAATTTAAA
1 TATTTAAATTTA-ATTTGAATTTAAATTTAAA
48932799 TATTTAAATTTAATTTGAATTTAAATTTAAA
1 TATTTAAATTTAATTTGAATTTAAATTTAAA
48932830 TA
1 TA
48932832 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TATTTAAATTTAATTTGAATTTAAATTTAAA
Found at i:48932827 original size:42 final size:41
Alignment explanation
Indices: 48932760--48932867 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 41
48932750 TTAAATTGAT
* ** * *
48932760 TTTAAATTT-ATTTAAATTTAGATTTATTTTAAATTTAAATA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAA-A
*
48932801 TTTAAATTTAATTTGAATTTAAATTTAAATAAAAATTAAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
*
48932842 TATTAAATTTAACATTATAATTTAAA
1 T-TTAAATTTAA-TTTA-AATTTAAA
48932868 AGTCCAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 11 0.20
42 34 0.62
43 2 0.04
44 8 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (41 bp):
TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
Found at i:48933053 original size:15 final size:14
Alignment explanation
Indices: 48933033--48933088 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
48933023 GCCTATGCTG
48933033 CTGCCACCACCAGC
1 CTGCCACCACCAGC
48933047 TCTGCCACCACCAG-
1 -CTGCCACCACCAGC
48933061 CT-CCATCCACCATGCC
1 CTGCCA-CCACCA-G-C
48933077 CTGCCACCACCA
1 CTGCCACCACCA
48933089 TTGAACCTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 8 0.22
14 1 0.03
15 13 0.36
16 8 0.22
17 3 0.08
ACGTcount: A:0.21, C:0.55, G:0.11, T:0.12
Consensus pattern (14 bp):
CTGCCACCACCAGC
Found at i:48934805 original size:30 final size:30
Alignment explanation
Indices: 48934757--48935043 Score: 342
Period size: 30 Copynumber: 9.5 Consensus size: 30
48934747 CCCTAAATTA
*
48934757 TCCAGAAATTACATTTTGACCACAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
* * * *
48934788 CCCAATATTATATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * *
48934818 TCCAAAATTTCATTTTAACCCCGAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * *
48934848 ACCAAAATTACACTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
**
48934878 TCCAAAATTACATTTT-AGCCTTAAAACTTT
1 TCCAAAATTACATTTTGA-CCCCAAAACTTT
** *
48934908 TTTAAAATTACATTTTGACCCCGAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * *
48934938 ACCAAAATTACATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
48934968 TCCAAAGTTACATTTTGACCTCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
48934998 ACCAAAATTACGTTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
48935028 TCCAAAATTACATTTT
1 TCCAAAATTACATTTT
48935044 TAACCCCGAT
Statistics
Matches: 212, Mismatches: 42, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
29 1 0.00
30 207 0.98
31 4 0.02
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:48934915 original size:90 final size:90
Alignment explanation
Indices: 48934762--48935050 Score: 391
Period size: 90 Copynumber: 3.2 Consensus size: 90
48934752 AATTATCCAG
* * * * * *
48934762 AAATTACATTTTGACCACAAAACTTTCCCAATATTATATTTTGACCCTAAAACTTTTCCAAAATT
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCTTAAAACTTTTCCAAAATT
* *
48934827 TCATTTTAACCCCGAAACTTTACCA
66 ACATTTTGACCCCGAAACTTTACCA
* **
48934852 AAATTACACTTTAACCCCAAAACTTTTCCAAAATTACATTTT-AGCCTTAAAACTTTTTTAAAAT
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGA-CCTTAAAACTTTTCCAAAAT
48934916 TACATTTTGACCCCGAAACTTTACCA
65 TACATTTTGACCCCGAAACTTTACCA
* * * *
48934942 AAATTACATTTTAACCCTAAAACTTTTCCAAAGTTACATTTTGACCTCAAAACTTTACCAAAATT
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCTTAAAACTTTTCCAAAATT
* * *
48935007 ACGTTTTGACCCCAAAACTTTTCCA
66 ACATTTTGACCCCGAAACTTTACCA
48935032 AAATTACATTTTTAACCCC
1 AAATTACA-TTTTAACCCC
48935051 GATTTCACCA
Statistics
Matches: 174, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
89 1 0.01
90 163 0.94
91 10 0.06
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.35
Consensus pattern (90 bp):
AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCTTAAAACTTTTCCAAAATT
ACATTTTGACCCCGAAACTTTACCA
Found at i:48935102 original size:59 final size:59
Alignment explanation
Indices: 48935031--48935545 Score: 780
Period size: 59 Copynumber: 8.7 Consensus size: 59
48935021 AAACTTTTCC
* * *
48935031 AAAATTACATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * *
48935090 AAAATTCCATTTTTAACCCCGATTTCATCGAAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * * *
48935149 AAAATTTCGTTTTTAACCCCAATTTCACCGAAAATTACCGTTTTACCCCCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
*
48935208 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * * * *
48935267 AAAATCCCGTTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCTCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* *
48935326 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * *
48935385 AAAATTCCATTTTTAACCCCGATTTCATCGAAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * *
48935444 AAAATTTCATTTTTAACCCCGATTTCACCGAAAATTGCCATTTTACCCCCAAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * *
48935503 AAAATTCCATTTTTAATCTCGATTACACC-AAAATTACCATTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTT
48935546 TGCCCCCGGG
Statistics
Matches: 411, Mismatches: 45, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
58 13 0.03
59 398 0.97
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
Found at i:48946154 original size:30 final size:30
Alignment explanation
Indices: 48946094--48946155 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
48946084 TATCTATATC
* * *
48946094 TTTATAATTTTTAAAAGATTAAATTAAATT
1 TTTATAATTTTTAAAAAATAAAAATAAATT
*
48946124 TTTATCATTTTTAAAAAACTAAAAAT-AATT
1 TTTATAATTTTTAAAAAA-TAAAAATAAATT
48946154 TT
1 TT
48946156 CCTTTACGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (30 bp):
TTTATAATTTTTAAAAAATAAAAATAAATT
Found at i:48947653 original size:14 final size:15
Alignment explanation
Indices: 48947622--48947654 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48947612 TAATATGTTC
*
48947622 TAAATTATATATATA
1 TAAATAATATATATA
48947637 TAAATAATATA-ATA
1 TAAATAATATATATA
48947651 TAAA
1 TAAA
48947655 GTATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAATAATATATATA
Found at i:48950759 original size:30 final size:29
Alignment explanation
Indices: 48950723--48950792 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
48950713 ATAATTTGTG
* * * *
48950723 AAAATTGGACCAAATCGAAATTTCATGTAT
1 AAAATTGCACAAAATC-AAAATTCATATAT
*
48950753 AAAATTGCTCAAAATCAAAATTCATATAT
1 AAAATTGCACAAAATCAAAATTCATATAT
*
48950782 AAAATTACACA
1 AAAATTGCACA
48950793 TTAAGTCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (29 bp):
AAAATTGCACAAAATCAAAATTCATATAT
Found at i:48954091 original size:28 final size:28
Alignment explanation
Indices: 48954059--48954118 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
48954049 AAAACGGGAC
*
48954059 TTTTGGA-TACCCGGGGGCAAAATGGTAA
1 TTTTGGACT-CCCGAGGGCAAAATGGTAA
*
48954087 TTTTGGACTCGCGAGGGCAAAATGGTAA
1 TTTTGGACTCCCGAGGGCAAAATGGTAA
48954115 TTTT
1 TTTT
48954119 CGGTGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (28 bp):
TTTTGGACTCCCGAGGGCAAAATGGTAA
Found at i:48954147 original size:30 final size:29
Alignment explanation
Indices: 48954104--48954267 Score: 88
Period size: 30 Copynumber: 5.6 Consensus size: 29
48954094 CTCGCGAGGG
* *
48954104 CAAAATGGTAATTTTCGGTGAAATCGGGGT
1 CAAAAAGGGAATTTT-GGTGAAATCGGGGT
* *
48954134 CAAAAAGGGAATTTTGG-AAAATTCAAGGGT
1 CAAAAAGGGAATTTTGGTGAAA-TC-GGGGT
*
48954164 -AAAATA-GTAATTTTTGGTGAAATCGGGGT
1 CAAAA-AGGGAA-TTTTGGTGAAATCGGGGT
* * * *
48954193 -TAAAATGGAATTTT--AGAAAGTTCGGGGG
1 CAAAAAGGGAATTTTGGTGAAA--TCGGGGT
* * * *
48954221 GAAAATGGTAATTTTTGGTCAAATCGGGGT
1 CAAAAAGGGAA-TTTTGGTGAAATCGGGGT
*
48954251 CAAAAATGGAATTTTGG
1 CAAAAAGGGAATTTTGG
48954268 AAAGTTTAGG
Statistics
Matches: 100, Mismatches: 22, Indels: 25
0.68 0.15 0.17
Matches are distributed among these distances:
26 4 0.04
28 14 0.14
29 33 0.33
30 43 0.43
31 3 0.03
32 3 0.03
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.30
Consensus pattern (29 bp):
CAAAAAGGGAATTTTGGTGAAATCGGGGT
Found at i:48954175 original size:29 final size:28
Alignment explanation
Indices: 48954143--48954353 Score: 92
Period size: 29 Copynumber: 7.2 Consensus size: 28
48954133 TCAAAAAGGG
*
48954143 AATTTTGGAAAATTCAAGGGTAAAATAGT
1 AATTTTGGAAAATTC-GGGGTAAAATAGT
* *
48954172 AATTTTTGGTGAAA-TCGGGGTTAAAAT-GG
1 AA-TTTTGG-AAAATTCGGGG-TAAAATAGT
* * * *
48954201 AATTTTAGAAAGTTCGGGGGGAAAATGGT
1 AATTTTGGAAAATTC-GGGGTAAAATAGT
* *
48954230 AATTTTTGGTCAAA-TCGGGGTCAAAA-ATGG
1 AA-TTTTGG-AAAATTCGGGGT-AAAATA-GT
* * *
48954260 AATTTTGGAAAGTTTAGGGGTAAAATGGT
1 AATTTTGGAAA-ATTCGGGGTAAAATAGT
*
48954289 AATTTTTGGTAAAATT-GGGGTTAAAA-ATGG
1 AA-TTTTGG-AAAATTCGGGG-TAAAATA-GT
* ** *
48954319 AATTTTGGAAAGTTTAAGGGTAAAATGGT
1 AATTTTGGAAA-ATTCGGGGTAAAATAGT
48954348 AATTTT
1 AATTTT
48954354 TGGTGAAATC
Statistics
Matches: 136, Mismatches: 26, Indels: 40
0.67 0.13 0.20
Matches are distributed among these distances:
27 2 0.01
28 17 0.12
29 56 0.41
30 53 0.39
31 8 0.06
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (28 bp):
AATTTTGGAAAATTCGGGGTAAAATAGT
Found at i:48954184 original size:59 final size:59
Alignment explanation
Indices: 48954100--48954415 Score: 395
Period size: 59 Copynumber: 5.4 Consensus size: 59
48954090 TGGACTCGCG
* * * *
48954100 AGGGCAAAATGGTAATTTTCGGTGAAATCGGGGTCAAAAAGGGAATTTTGGAAAATTCA
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
* * * *
48954159 AGGGTAAAATAGTAATTTTTGGTGAAATCGGGGT-TAAAATGGAATTTTAGAAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
* * * *
48954217 GGGGGAAAATGGTAATTTTTGGTCAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTA
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
* * * * *
48954276 GGGGTAAAATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTA
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
* *** *
48954335 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTATAAATAT-G-ATTTCAAAAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCA-AAA-ATGGAATTTTGGAAAGTTCA
48954394 AGGGTAAAATGGTAATTTTTGG
1 AGGGTAAAATGGTAATTTTTGG
48954416 ACAGTCCAAG
Statistics
Matches: 226, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
58 49 0.22
59 171 0.76
60 4 0.02
61 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (59 bp):
AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
Found at i:48954248 original size:117 final size:118
Alignment explanation
Indices: 48954100--48954368 Score: 396
Period size: 117 Copynumber: 2.3 Consensus size: 118
48954090 TGGACTCGCG
* *
48954100 AGGGCAAAATGGTAATTTTCGGTGAAATCGGGGTCAAAAAGGGAATTTTGGAAAATTCAAGGGTA
1 AGGGGAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAAGGGAATTTTGGAAAATTCAAGGGTA
* *
48954165 AAATAGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTAGAAAGTTCG
66 AAATAGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCA
* * * * * *
48954217 GGGGGAAAATGGTAATTTTTGGTCAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTA
1 AGGGGAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAAGGGAATTTTGGAAAATTCAAGGGTA
* * * *
48954282 AAATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTA
66 AAATAGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCA
*
48954335 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGT
1 AGGGGAAAATGGTAATTTTTGGTGAAATCGGGGT
48954369 TATAAATATG
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
117 83 0.62
118 51 0.38
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.31
Consensus pattern (118 bp):
AGGGGAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAAGGGAATTTTGGAAAATTCAAGGGTA
AAATAGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCA
Found at i:48954280 original size:30 final size:29
Alignment explanation
Indices: 48954188--48954353 Score: 123
Period size: 29 Copynumber: 5.7 Consensus size: 29
48954178 TGGTGAAATC
* **
48954188 GGGGTTAAAATGG-AATTTTAGAAAGTTCG
1 GGGG-TAAAATGGTAATTTTGGAAAGTTTA
* *
48954217 GGGGGAAAATGGTAATTTTTGGTCAAA---TC
1 GGGGTAAAATGGTAA-TTTTGG--AAAGTTTA
48954246 GGGGTCAAAAATGG-AATTTTGGAAAGTTTA
1 GGGGT--AAAATGGTAATTTTGGAAAGTTTA
*
48954276 GGGGTAAAATGGTAATTTTTGGTAAA-ATT-
1 GGGGTAAAATGGTAA-TTTTGG-AAAGTTTA
48954305 GGGGTTAAAAATGG-AATTTTGGAAAGTTTA
1 GGGG-T-AAAATGGTAATTTTGGAAAGTTTA
*
48954335 AGGGTAAAATGGTAATTTT
1 GGGGTAAAATGGTAATTTT
48954354 TGGTGAAATC
Statistics
Matches: 111, Mismatches: 9, Indels: 34
0.72 0.06 0.22
Matches are distributed among these distances:
27 3 0.03
28 24 0.22
29 37 0.33
30 27 0.24
31 17 0.15
32 3 0.03
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTGGAAAGTTTA
Found at i:48955497 original size:15 final size:16
Alignment explanation
Indices: 48955463--48955501 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
48955453 AATTATTATC
48955463 ATTATTAAAATACATTT
1 ATTATT-AAATACATTT
*
48955480 ATTATTAAA-ACCTTT
1 ATTATTAAATACATTT
48955495 ATTATTA
1 ATTATTA
48955502 TTATTATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 3 0.14
17 6 0.29
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTATTAAATACATTT
Found at i:48957431 original size:18 final size:18
Alignment explanation
Indices: 48957408--48957452 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
48957398 AAAACTCATA
* *
48957408 AATTGAGTTATTTAAGTT
1 AATTGAATTATTTAAATT
48957426 AATTGAATTATTTAAATT
1 AATTGAATTATTTAAATT
48957444 AATTCGAAT
1 AATT-GAAT
48957453 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (18 bp):
AATTGAATTATTTAAATT
Found at i:48957481 original size:30 final size:31
Alignment explanation
Indices: 48957426--48957483 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
48957416 TATTTAAGTT
*
48957426 AATTGAATTATTTAAATTAATTCGAATAAAA
1 AATTGAATTATTTAAATTAACTCGAATAAAA
* *
48957457 AATT-AATTTTTTAATTTAACTCGAATA
1 AATTGAATTATTTAAATTAACTCGAATA
48957484 TAAATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (31 bp):
AATTGAATTATTTAAATTAACTCGAATAAAA
Found at i:48959001 original size:60 final size:60
Alignment explanation
Indices: 48958839--48959006 Score: 191
Period size: 61 Copynumber: 2.8 Consensus size: 60
48958829 GAATTTGATA
* * * *
48958839 TTTTT-TTAATTTAGTATTTAATTTTTTTTCGATTCAATTTGATATTTGAATTTGACATT
1 TTTTTCTTAATTTGGTATTTAATTTTTTTTCAATTCAATTTGGTATTTGAACTTGACATT
* * * *
48958898 TTTTTCTTAATTTGGTACCTAAATTTTTTTTGAA-CCAAATTTGGTATTTGAACTTGACATT
1 TTTTTCTTAATTTGGTA-TTTAATTTTTTTTCAATTC-AATTTGGTATTTGAACTTGACATT
*
48958959 TTTTTAC-TAATTTGGTATTTAAGCTTTTTTT-AATTCAATTTGGTATTT
1 TTTTT-CTTAATTTGGTATTTAA-TTTTTTTTCAATTCAATTTGGTATTT
48959007 AAATTTATTA
Statistics
Matches: 91, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
59 5 0.05
60 28 0.31
61 57 0.63
62 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.57
Consensus pattern (60 bp):
TTTTTCTTAATTTGGTATTTAATTTTTTTTCAATTCAATTTGGTATTTGAACTTGACATT
Found at i:48962394 original size:20 final size:20
Alignment explanation
Indices: 48962354--48962394 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48962344 TCATTCAATC
* **
48962354 TGTTATGTTTAAAAATTTAA
1 TGTTATGTTAAAAAAAATAA
48962374 TGTTATGTTAAAAAAAATAA
1 TGTTATGTTAAAAAAAATAA
48962394 T
1 T
48962395 TGATTCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (20 bp):
TGTTATGTTAAAAAAAATAA
Found at i:48963188 original size:17 final size:17
Alignment explanation
Indices: 48963142--48963191 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
48963132 TAATATTTTC
* *
48963142 AATATTTTTAAAGATA-
1 AATAATTTTAAAAATAT
*
48963158 AATAAATATT-AAAATAT
1 AAT-AATTTTAAAAATAT
48963175 AATAATTTTAAAAATAT
1 AATAATTTTAAAAATAT
48963192 TTAAACATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
AATAATTTTAAAAATAT
Found at i:48964678 original size:21 final size:21
Alignment explanation
Indices: 48964627--48964668 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48964617 TTAAAATAAA
*
48964627 TAAATAAA-ACTAATTTTTTGT
1 TAAATAAATA-TAATTATTTGT
48964648 TAAATAAATATAATTATTTGT
1 TAAATAAATATAATTATTTGT
48964669 GTATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
TAAATAAATATAATTATTTGT
Found at i:48964776 original size:22 final size:22
Alignment explanation
Indices: 48964742--48964785 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
48964732 CCAAATAAAA
48964742 AGAATGATCAAATATA-TTTTTT
1 AGAATGATCAAATA-ACTTTTTT
48964764 AGAA-GATCAAAATAACTTTTTT
1 AGAATGATC-AAATAACTTTTTT
48964786 TCTTTTACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (22 bp):
AGAATGATCAAATAACTTTTTT
Found at i:48964783 original size:21 final size:22
Alignment explanation
Indices: 48964742--48964784 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
48964732 CCAAATAAAA
*
48964742 AGAATGATCAAATATATTTTTT
1 AGAATGATCAAATATACTTTTT
48964764 AGAA-GATCAAA-ATAACTTTTT
1 AGAATGATCAAATAT-ACTTTTT
48964785 TTCTTTTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 13 0.68
22 4 0.21
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (22 bp):
AGAATGATCAAATATACTTTTT
Found at i:48967505 original size:16 final size:16
Alignment explanation
Indices: 48967465--48967505 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
48967455 AGGTTACATC
48967465 TAATTTTAA--TAAAA
1 TAATTTTAATTTAAAA
48967479 T-ATTTTAAATTTAAAA
1 TAATTTT-AATTTAAAA
48967495 TAATTTTAATT
1 TAATTTTAATT
48967506 ACTGAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 5 0.22
14 3 0.13
16 10 0.43
17 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATTTTAATTTAAAA
Found at i:48971282 original size:20 final size:20
Alignment explanation
Indices: 48971244--48971282 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48971234 GTTTTTTTTT
* **
48971244 ATTTAAGATAATAGTTGATA
1 ATTTAAAATAATACATGATA
48971264 ATTTAAAATAATACATGAT
1 ATTTAAAATAATACATGAT
48971283 TTTATAAGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (20 bp):
ATTTAAAATAATACATGATA
Found at i:48975632 original size:7 final size:7
Alignment explanation
Indices: 48975620--48975646 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
48975610 TAATTATATA
48975620 AAATTTT
1 AAATTTT
48975627 AAATTTT
1 AAATTTT
48975634 AAATTTT
1 AAATTTT
48975641 AAATTT
1 AAATTT
48975647 AGTAAGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:48976759 original size:11 final size:11
Alignment explanation
Indices: 48976745--48976778 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
48976735 CTTTTTGTTA
48976745 TACTATTATTT
1 TACTATTATTT
*
48976756 TACTATTATGT
1 TACTATTATTT
*
48976767 TATTATTATTT
1 TACTATTATTT
48976778 T
1 T
48976779 GTTGTTATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (11 bp):
TACTATTATTT
Found at i:48980915 original size:32 final size:28
Alignment explanation
Indices: 48980844--48980917 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 28
48980834 GAATAAGCAT
*
48980844 ATTATTTTTATAATTTAATATTTAAATA
1 ATTATTTTTATAATTTAATAATTAAATA
*
48980872 A-TATTTTTTATAATTTTATAAATTACACATAA
1 ATTA-TTTTTATAATTTAAT-AATTA-A-AT-A
48980904 ATTATTTTTATAAT
1 ATTATTTTTATAAT
48980918 AAAATTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 2 0.05
28 15 0.39
29 4 0.11
30 1 0.03
31 2 0.05
32 12 0.32
33 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTATTTTTATAATTTAATAATTAAATA
Found at i:48981302 original size:22 final size:22
Alignment explanation
Indices: 48981248--48981320 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
48981238 TTACATGAAA
*
48981248 AATAAAATAATATAAAAATATTT
1 AATAAAATGA-ATAAAAATATTT
* *
48981271 -TTAAAA--AATAATAAT-TATT
1 AATAAAATGAATAAAAATAT-TT
48981290 AATAAAATGAATAAAAATATTT
1 AATAAAATGAATAAAAATATTT
*
48981312 TATAAAATG
1 AATAAAATG
48981321 TTGAATGCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
18 1 0.03
19 9 0.22
20 6 0.15
22 23 0.57
23 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (22 bp):
AATAAAATGAATAAAAATATTT
Found at i:48984027 original size:9 final size:9
Alignment explanation
Indices: 48984013--48984051 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
48984003 ATACTAATCT
48984013 ATTATTCAA
1 ATTATTCAA
**
48984022 ATTATTTGA
1 ATTATTCAA
48984031 ATTATTCAA
1 ATTATTCAA
*
48984040 GTTATTCAA
1 ATTATTCAA
48984049 ATT
1 ATT
48984052 GTAAAATCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (9 bp):
ATTATTCAA
Found at i:48987636 original size:48 final size:48
Alignment explanation
Indices: 48987565--48987662 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
48987555 CACGTTATCC
*
48987565 TCCTATTTATGGATTAGGAAGGGATTATGGTTTGTTCAAGATATTGTG
1 TCCTATTTATGGATTAGGAAGGGATTATGATTTGTTCAAGATATTGTG
*
48987613 TCCTATTTATGGATTAGGAAGGGATTATGATTTGTTCTAGATATTGTG
1 TCCTATTTATGGATTAGGAAGGGATTATGATTTGTTCAAGATATTGTG
48987661 TC
1 TC
48987663 AAAAATAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.24, C:0.07, G:0.26, T:0.43
Consensus pattern (48 bp):
TCCTATTTATGGATTAGGAAGGGATTATGATTTGTTCAAGATATTGTG
Found at i:48989072 original size:49 final size:49
Alignment explanation
Indices: 48989013--48989112 Score: 184
Period size: 49 Copynumber: 2.0 Consensus size: 49
48989003 GATTTACACA
48989013 TACTAAAACCATTATTTATTTATATG-GTTATTATATATGATAATTTTTT
1 TACTAAAACCATTATTTATTTATA-GAGTTATTATATATGATAATTTTTT
48989062 TACTAAAACCATTATTTATTTATAGAGTTATTATATATGATAATTTTTT
1 TACTAAAACCATTATTTATTTATAGAGTTATTATATATGATAATTTTTT
48989111 TA
1 TA
48989113 AGTCGATTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 1 0.02
49 49 0.98
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (49 bp):
TACTAAAACCATTATTTATTTATAGAGTTATTATATATGATAATTTTTT
Found at i:48989574 original size:18 final size:17
Alignment explanation
Indices: 48989532--48989581 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
48989522 CTCAGTTCAG
48989532 CTTTTTTTTTT-TTTTT
1 CTTTTTTTTTTCTTTTT
* *
48989548 CTCTCTTTTTTCTTTTT
1 CTTTTTTTTTTCTTTTT
48989565 CTTTTGTTTTTTCTTTT
1 CTTTT-TTTTTTCTTTT
48989582 CACTGTCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 9 0.32
17 8 0.29
18 11 0.39
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (17 bp):
CTTTTTTTTTTCTTTTT
Found at i:49001787 original size:23 final size:23
Alignment explanation
Indices: 49001761--49001883 Score: 160
Period size: 23 Copynumber: 5.3 Consensus size: 23
49001751 GAACACTAGC
49001761 GTGCTCTCTGATTAGCACTGTGT
1 GTGCTCTCTGATTAGCACTGTGT
* *
49001784 GTGCTCTCTGTTTAGCAC-GTCT
1 GTGCTCTCTGATTAGCACTGTGT
49001806 CGTGCTCTCTGTTATTAGCACTGTGT
1 -GTGCTCTCTG--ATTAGCACTGTGT
*
49001832 GTGCTCTCCGATTAGCACT-TCGT
1 GTGCTCTCTGATTAGCACTGT-GT
*
49001855 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTGTGT
49001878 GTGCTC
1 GTGCTC
49001884 AGTACTTTGT
Statistics
Matches: 88, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
22 4 0.05
23 64 0.73
24 1 0.01
25 16 0.18
26 3 0.03
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTGTGT
Found at i:49001829 original size:48 final size:47
Alignment explanation
Indices: 49001760--49001883 Score: 180
Period size: 48 Copynumber: 2.6 Consensus size: 47
49001750 GGAACACTAG
* *
49001760 CGTGCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-T
1 CGTGCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT
*
49001806 CGTGCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGT
1 CGTGCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT
*
49001855 -GTGCTCTCTGATTAGCACTTTGTGTGCTC
1 CGTGCTCTCTGATTAGCACTGTGTGTGCTC
49001884 AGTACTTTGT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
46 29 0.41
48 41 0.58
49 1 0.01
ACGTcount: A:0.11, C:0.26, G:0.23, T:0.40
Consensus pattern (47 bp):
CGTGCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT
Found at i:49001912 original size:39 final size:39
Alignment explanation
Indices: 49001848--49001922 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
49001838 TCCGATTAGC
*
49001848 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
49001887 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
49001923 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:49007657 original size:29 final size:31
Alignment explanation
Indices: 49007596--49007664 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
49007586 TTGTTTTTAG
* *
49007596 TTTTTAAGGGGCCTCAAATTTTTTTTATCAA
1 TTTTTAAGGGACCTAAAATTTTTTTTATCAA
*
49007627 -TTTTAAGGGACCTAAAATTTTTTTTCT-AA
1 TTTTTAAGGGACCTAAAATTTTTTTTATCAA
49007656 TTTTTAAGG
1 TTTTTAAGG
49007665 AATTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 32 0.94
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (31 bp):
TTTTTAAGGGACCTAAAATTTTTTTTATCAA
Found at i:49008109 original size:23 final size:23
Alignment explanation
Indices: 49008080--49008140 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
49008070 AATTAAATTG
49008080 TATATTTTTATGATATTAAAAATA
1 TATATTTTTATGAT-TTAAAAATA
* * *
49008104 TA-A-TTTTATTATTTAATAATT
1 TATATTTTTATGATTTAAAAATA
*
49008125 TATATTTTTATAATTT
1 TATATTTTTATGATTT
49008141 TTAAAGGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 9 0.29
22 9 0.29
23 11 0.35
24 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATATTTTTATGATTTAAAAATA
Found at i:49008131 original size:22 final size:23
Alignment explanation
Indices: 49008074--49008132 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
49008064 GGTTGAAATT
49008074 AAATTGTATATTTTTATGATATTAA
1 AAATT-TATA-TTTTATGATATTAA
* *
49008099 AAATATA-ATTTTATTAT-TTAA
1 AAATTTATATTTTATGATATTAA
*
49008120 TAATTTATATTTT
1 AAATTTATATTTT
49008133 TATAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 9 0.31
22 13 0.45
23 1 0.03
24 2 0.07
25 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (23 bp):
AAATTTATATTTTATGATATTAA
Found at i:49008137 original size:15 final size:15
Alignment explanation
Indices: 49008102--49008141 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
49008092 ATATTAAAAA
49008102 TATAATTTTATTATT
1 TATAATTTTATTATT
49008117 TAATAATTTATATT-TT
1 T-ATAATTT-TATTATT
49008133 TATAATTTT
1 TATAATTTT
49008142 TAAAGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 8 0.35
16 10 0.43
17 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TATAATTTTATTATT
Found at i:49011655 original size:484 final size:485
Alignment explanation
Indices: 49010735--49011711 Score: 1830
Period size: 484 Copynumber: 2.0 Consensus size: 485
49010725 TCATATCTGT
* *
49010735 TTTTTGAAGTAACCTGAAAGATTGTTGGTTTCGCTTACCACTCCTACTTCGATCCTTAAGCGTTT
1 TTTTTAAAGTAACCTGAAAGATTGTTGGTTTCGCTTACCACTCCTACTTCGATCCTTAAGCGTGT
*
49010800 AGGTGAATAGAGACAAGGAGTTTTGTTTTCTACTTCCTTTCTCTAGTGTTTCATCTCATCCTTGT
66 AGGTGAATAGAGACAAGGAGTTTTGTTTTCTACTTCCTTTCTCCAGTGTTTCATCTCATCCTTGT
49010865 CGTTGTAGCTCACTAAATGTGTTTTGCTAGTATGATGTTCCGTTTTCTATTTTTTTTAGTTTCCA
131 CGTTGTAGCTCACTAAATGTGTTTTGCTAGTATGATGTTCCGTTTTCTATTTTTTTTAGTTTCCA
*
49010930 TTTGTTTTGTTATTTTTCTGTTATATTTTAACTTGGTTTGGAATGTTTCTCTATTTTAATTTCTA
196 TTTGTTTTGTTATTTTTCTGTTATATTTTAACTTGGTTTGAAATGTTTCTCTATTTTAATTTCTA
**
49010995 GTAAATTCAACCGGCATATTATTTAAAAAAAATTAAACCCATCTGAATATCTAACATCAATTAAA
261 GTAAATTCAACCAACATATTATTTAAAAAAAATTAAACCCATCTGAATATCTAACATCAATTAAA
*
49011060 CCCCAAACTAATAAAATTGATCAAATAGGCTCTTTGATTGACATTGACCGTCTGTATTTAACGAC
326 CCCCAAACTAATAAAATTGATCAAATAGACTCTTTGATTGACATTGACCGTCTGTATTTAACGAC
49011125 AACAATGGTGTGAGTGTTAACAGATATCACATGAACACTAATTGTTAATGTGGTTGTGTCATGTC
391 AACAATGGTGTGAGTGTTAACAGATATCACATGAACACTAATTGTTAATGTGGTTGTGTCATGTC
49011190 AAC-AAAAAATAAAAAATATTTTCAAATAA
456 AACAAAAAAATAAAAAATATTTTCAAATAA
49011219 TTTTTAAAGTAACCTGAAAGATTGTTGGTTTCGCTTACCACTCCTACTTCGATCCTTAAGCGTGT
1 TTTTTAAAGTAACCTGAAAGATTGTTGGTTTCGCTTACCACTCCTACTTCGATCCTTAAGCGTGT
*
49011284 AGGTGAATAGAGACAAGGAGTTTTGTTTTCTACTTCCTTTCTCCAGTGTTTCATCTCATCCTTTT
66 AGGTGAATAGAGACAAGGAGTTTTGTTTTCTACTTCCTTTCTCCAGTGTTTCATCTCATCCTTGT
* * *
49011349 CGTTGTAGCTCACTGAATGTGTTTTGCTAGTTTGATGTTCCGTTTTCTATTTTTTTTAGTTTCTA
131 CGTTGTAGCTCACTAAATGTGTTTTGCTAGTATGATGTTCCGTTTTCTATTTTTTTTAGTTTCCA
49011414 TTTGTTTTGTTATTTTTCTGTTATATTTTAACTTGGTTTGAAATGTTTCTCTATTTTAATTTCTA
196 TTTGTTTTGTTATTTTTCTGTTATATTTTAACTTGGTTTGAAATGTTTCTCTATTTTAATTTCTA
*
49011479 GTAAATTCAACCAACATATTATTTAAAAAAAATTAAACCCATCTGAATATCTTACATCAATTAAA
261 GTAAATTCAACCAACATATTATTTAAAAAAAATTAAACCCATCTGAATATCTAACATCAATTAAA
49011544 CCCCAAACTAATAAAATTGATCAAATAGACTCTTTGATTGACATTGACCGTCTGTATTTAACGAC
326 CCCCAAACTAATAAAATTGATCAAATAGACTCTTTGATTGACATTGACCGTCTGTATTTAACGAC
*
49011609 AACAATGGTGTGAGTGTTAACAGATATCACATGAACACTGATTGTTAATGTGGTTGTGTCATGTC
391 AACAATGGTGTGAGTGTTAACAGATATCACATGAACACTAATTGTTAATGTGGTTGTGTCATGTC
49011674 AACAAAAAAATAAAAAATATTTTCAAATAA
456 AACAAAAAAATAAAAAATATTTTCAAATAA
49011704 TTTTTAAA
1 TTTTTAAA
49011712 ATAAGTACAC
Statistics
Matches: 479, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
484 445 0.93
485 34 0.07
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (485 bp):
TTTTTAAAGTAACCTGAAAGATTGTTGGTTTCGCTTACCACTCCTACTTCGATCCTTAAGCGTGT
AGGTGAATAGAGACAAGGAGTTTTGTTTTCTACTTCCTTTCTCCAGTGTTTCATCTCATCCTTGT
CGTTGTAGCTCACTAAATGTGTTTTGCTAGTATGATGTTCCGTTTTCTATTTTTTTTAGTTTCCA
TTTGTTTTGTTATTTTTCTGTTATATTTTAACTTGGTTTGAAATGTTTCTCTATTTTAATTTCTA
GTAAATTCAACCAACATATTATTTAAAAAAAATTAAACCCATCTGAATATCTAACATCAATTAAA
CCCCAAACTAATAAAATTGATCAAATAGACTCTTTGATTGACATTGACCGTCTGTATTTAACGAC
AACAATGGTGTGAGTGTTAACAGATATCACATGAACACTAATTGTTAATGTGGTTGTGTCATGTC
AACAAAAAAATAAAAAATATTTTCAAATAA
Found at i:49011799 original size:30 final size:29
Alignment explanation
Indices: 49011762--49011852 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 29
49011752 TTCATTCTAC
49011762 ATTATAAAAATATAAAAAAATAATTAAAA
1 ATTATAAAAATATAAAAAAATAATTAAAA
*
49011791 TTTTATAAAAAT-TAATAGAAAATAATTAAAA
1 -ATTATAAAAATATAA-A-AAAATAATTAAAA
* * *
49011822 ATAATAAAATTTATAAAAAAATTATTAAAA
1 ATTATAAAA-ATATAAAAAAATAATTAAAA
49011852 A
1 A
49011853 CCATAAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.06
30 31 0.60
31 15 0.29
32 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (29 bp):
ATTATAAAAATATAAAAAAATAATTAAAA
Found at i:49011840 original size:10 final size:10
Alignment explanation
Indices: 49011765--49011852 Score: 58
Period size: 10 Copynumber: 8.7 Consensus size: 10
49011755 ATTCTACATT
49011765 ATAAAAATATA
1 ATAAAAAT-TA
49011776 A-AAAAA-TA
1 ATAAAAATTA
* *
49011784 ATTAAAATTTT
1 A-TAAAAATTA
49011795 ATAAAAATTA
1 ATAAAAATTA
49011805 ATAGAAAA-TA
1 ATA-AAAATTA
49011815 ATTAAAAA-TA
1 A-TAAAAATTA
*
49011825 ATAAAATTTA
1 ATAAAAATTA
*
49011835 TAAAAAAATTA
1 -ATAAAAATTA
*
49011846 TTAAAAA
1 ATAAAAA
49011853 CCATAAAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
8 3 0.05
9 5 0.08
10 36 0.59
11 17 0.28
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (10 bp):
ATAAAAATTA
Found at i:49011859 original size:30 final size:30
Alignment explanation
Indices: 49011809--49011869 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
49011799 AAATTAATAG
* *
49011809 AAAATAATTAAAAATAATAAAATTTATAAA
1 AAAATAATTAAAAACAATAAAATTTAGAAA
* *
49011839 AAAATTATTAAAAACCATAAAATTTAGAAA
1 AAAATAATTAAAAACAATAAAATTTAGAAA
49011869 A
1 A
49011870 TTAATTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (30 bp):
AAAATAATTAAAAACAATAAAATTTAGAAA
Found at i:49011912 original size:30 final size:30
Alignment explanation
Indices: 49011795--49011912 Score: 76
Period size: 30 Copynumber: 4.2 Consensus size: 30
49011785 TTAAAATTTT
* * **
49011795 ATAAAAATTAATAGAAAATAATTAAAAATA
1 ATAAAAATTATTAGAAATTAATTAAAAACC
* * *
49011825 ATAAAATTTATAAAAAAATT-ATTAAAAACC
1 ATAAAAATTAT-TAGAAATTAATTAAAAACC
*
49011855 AT-AAAA-T-TTAGAAAATTAATT------T
1 ATAAAAATTATTAG-AAATTAATTAAAAACC
49011877 ATAAAAATTATTAGAAATTAATTAAAAACC
1 ATAAAAATTATTAGAAATTAATTAAAAACC
49011907 ATAAAA
1 ATAAAA
49011913 TTTTGTTAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 24
0.64 0.12 0.24
Matches are distributed among these distances:
22 2 0.03
23 4 0.06
24 10 0.16
25 4 0.06
26 1 0.02
27 6 0.09
28 4 0.06
29 3 0.05
30 25 0.39
31 5 0.08
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (30 bp):
ATAAAAATTATTAGAAATTAATTAAAAACC
Found at i:49012304 original size:14 final size:14
Alignment explanation
Indices: 49012285--49012311 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49012275 AACTTAAAAA
49012285 TAAATTTTTTATTT
1 TAAATTTTTTATTT
49012299 TAAATTTTTTATT
1 TAAATTTTTTATT
49012312 GATGTGGCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TAAATTTTTTATTT
Found at i:49013828 original size:6 final size:6
Alignment explanation
Indices: 49013817--49013841 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
49013807 AAGGGAAGAA
49013817 ATGAAG ATGAAG ATGAAG ATGAAG A
1 ATGAAG ATGAAG ATGAAG ATGAAG A
49013842 AGAGAGGCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
ATGAAG
Found at i:49016046 original size:19 final size:21
Alignment explanation
Indices: 49016024--49016062 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
49016014 AAATTAATCT
49016024 TAATTAATTA-A-TTTAAACA
1 TAATTAATTAGACTTTAAACA
*
49016043 TAATTGATTAGACTTTAAAC
1 TAATTAATTAGACTTTAAAC
49016063 TAAATTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 1 0.06
21 7 0.41
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATTAATTAGACTTTAAACA
Found at i:49042440 original size:20 final size:20
Alignment explanation
Indices: 49042417--49042458 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
49042407 AACCGTAAAA
*
49042417 AAGTATTAAGAAATTATAAG
1 AAGTATAAAGAAATTATAAG
* *
49042437 AAGTATAAATACATTATAAG
1 AAGTATAAAGAAATTATAAG
49042457 AA
1 AA
49042459 AAAGTTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (20 bp):
AAGTATAAAGAAATTATAAG
Found at i:49043342 original size:24 final size:24
Alignment explanation
Indices: 49043285--49043343 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
49043275 TAAACTAATA
*
49043285 AGAGTTTAACTGAAACAAATAAAT
1 AGAGTTTAATTGAAACAAATAAAT
49043309 AGAGTTTAATTGAAACAAATAAAT
1 AGAGTTTAATTGAAACAAATAAAT
49043333 AGAGTTTAATT
1 AGAGTTTAATT
49043344 AAAGATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.31
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAATAAAT
Found at i:49045747 original size:27 final size:28
Alignment explanation
Indices: 49045695--49045748 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
49045685 ATATATATTT
**
49045695 TTTTTCTAAAAAATAATAATTTATTTAA
1 TTTTTCTAAAAAATAATAATCAATTTAA
49045723 TTTTT-TAATAAAATAA-AATCAATTTA
1 TTTTTCTAA-AAAATAATAATCAATTTA
49045749 GTATTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTTTCTAAAAAATAATAATCAATTTAA
Found at i:49052282 original size:23 final size:24
Alignment explanation
Indices: 49052233--49052282 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
49052223 ATAATTACTT
* * *
49052233 AAATTATTTAATTTTTTAAATTTA
1 AAATTAATTAATTATTTAAATTGA
*
49052257 AAATTAATT-ATTATTTAACTTGA
1 AAATTAATTAATTATTTAAATTGA
49052280 AAA
1 AAA
49052283 AACTAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
AAATTAATTAATTATTTAAATTGA
Found at i:49054891 original size:3 final size:3
Alignment explanation
Indices: 49054883--49054915 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
49054873 AGTGAAAGTA
49054883 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49054916 GAATAATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:49057091 original size:226 final size:226
Alignment explanation
Indices: 49056697--49057123 Score: 757
Period size: 226 Copynumber: 1.9 Consensus size: 226
49056687 GAACTCAAGC
49056697 CACATCTAGGACAATGAACACCATTGACTATCAGGCCAACACACGGAATTCTAAATGTTTGTAAT
1 CACATCTAGGACAATGAACACCATTGACTATCAGGCCAACACACGGAATTCTAAATGTTTGTAAT
*
49056762 TTTCAAAAATTTAGAATGTAGCTCTTGCATTTTTATTTTTAAGAATTTAGTCTATCTATTTTTTA
66 TTTCAAAAATTTAGAATGTAGCTCTTGCATTTTTATTTTTAAGAACTTAGTCTATCTATTTTTTA
49056827 TATTTCAAATTTTAATTTTAGTTGTTAACGTTGTTCATTTTTGTATTAAATCTATCATTTTAAAA
131 TATTTCAAATTTTAATTTTAGTTGTTAACGTTGTTCATTTTTGTATTAAATCTATCATTTTAAAA
49056892 GAAAAACGACTGGCACGACTCAAACTTGAGT
196 GAAAAACGACTGGCACGACTCAAACTTGAGT
* * *
49056923 CACATCT-GAGACAATGAACACCCTTGACTATCAGGCCAACACACGGGATTCTAAGTGTTTGTAA
1 CACATCTAG-GACAATGAACACCATTGACTATCAGGCCAACACACGGAATTCTAAATGTTTGTAA
* * **
49056987 TTTTCGAAAATTTTGAATGTAGCTCTTGCATTTTTATTTTTTGGAACTTAGTCTATCTATTTTTT
65 TTTTCAAAAATTTAGAATGTAGCTCTTGCATTTTTATTTTTAAGAACTTAGTCTATCTATTTTTT
49057052 ATATTTCAAATTTTAATTTTAGTTGTTAACGTTGTTCATTTTTGTATTAAATCTATCATTTTAAA
130 ATATTTCAAATTTTAATTTTAGTTGTTAACGTTGTTCATTTTTGTATTAAATCTATCATTTTAAA
*
49057117 ATAAAAA
195 AGAAAAA
49057124 AATACTTACT
Statistics
Matches: 191, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
225 1 0.01
226 190 0.99
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (226 bp):
CACATCTAGGACAATGAACACCATTGACTATCAGGCCAACACACGGAATTCTAAATGTTTGTAAT
TTTCAAAAATTTAGAATGTAGCTCTTGCATTTTTATTTTTAAGAACTTAGTCTATCTATTTTTTA
TATTTCAAATTTTAATTTTAGTTGTTAACGTTGTTCATTTTTGTATTAAATCTATCATTTTAAAA
GAAAAACGACTGGCACGACTCAAACTTGAGT
Found at i:49059693 original size:6 final size:6
Alignment explanation
Indices: 49059670--49059761 Score: 73
Period size: 6 Copynumber: 15.5 Consensus size: 6
49059660 TTTGAACAAG
* ** * *
49059670 ATTTAA ATTTAT GGTTAA ATTTAA ATTT-A TTTTAA ATTTAA ATGTAAAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-T-TAA
* * *
49059719 ATTTAA ATTT-G CTTTAA ATTTAA ATTT-A ATTAAA ATTTAA ATT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATT
49059762 AATAATAAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
5 11 0.17
6 48 0.74
7 2 0.03
8 4 0.06
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:49059706 original size:17 final size:17
Alignment explanation
Indices: 49059670--49059761 Score: 91
Period size: 17 Copynumber: 5.5 Consensus size: 17
49059660 TTTGAACAAG
*
49059670 ATTTAAATTTATGGTTAA
1 ATTTAAATTTAT-TTTAA
49059688 ATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
* *
49059705 ATTTAAATGTA---AAA
1 ATTTAAATTTATTTTAA
**
49059719 ATTTAAATTTGCTTTAA
1 ATTTAAATTTATTTTAA
* *
49059736 ATTTAAATTTAATTAAA
1 ATTTAAATTTATTTTAA
49059753 ATTTAAATT
1 ATTTAAATT
49059762 AATAATAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
14 11 0.18
17 39 0.63
18 12 0.19
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:49059749 original size:11 final size:11
Alignment explanation
Indices: 49059687--49059761 Score: 50
Period size: 11 Copynumber: 6.9 Consensus size: 11
49059677 TTTATGGTTA
49059687 AATTTAAATTT
1 AATTTAAATTT
*
49059698 ATTTTAAATTT
1 AATTTAAATTT
*
49059709 AAATGTAAA---
1 -AATTTAAATTT
49059718 AATTTAAATTT
1 AATTTAAATTT
**
49059729 GCTTTAAATTT
1 AATTTAAATTT
*
49059740 AAATTT-AATTAA
1 -AATTTAAATT-T
49059752 AATTTAAATT
1 AATTTAAATT
49059762 AATAATAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 13
0.69 0.13 0.19
Matches are distributed among these distances:
8 7 0.15
11 28 0.58
12 13 0.27
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:49061542 original size:30 final size:30
Alignment explanation
Indices: 49061508--49061814 Score: 426
Period size: 30 Copynumber: 10.4 Consensus size: 30
49061498 CAAAAATCAT
* **
49061508 ATTTTAACCCCAAAACTTTTTTAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
* *
49061538 ATTTTGACCCCAAAACTTTTCTAAAATTAT
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
* *
49061568 ATTTTAACCCCGAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
*
49061598 A-TTCGACCCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
* * * *
49061627 ATTTTAACCCTAAATCTTTTCTAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
49061657 ATTTTGA-CCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
49061686 ATTTTGACCCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
* * *
49061716 ATTTCGACCCCAAAACTTTTCTAAAATTAT
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
49061746 ATTTTGACCCCAAAAC-TTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
*
49061775 ATTTTGACCCCAAAAC-TTTCAAAAATTATC
1 ATTTTGACCCCAAAACTTTTCCAAAATTA-C
49061805 ATTTT-ACCCC
1 ATTTTGACCCC
49061815 CGAATCTTTT
Statistics
Matches: 248, Mismatches: 26, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
29 95 0.38
30 153 0.62
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.36
Consensus pattern (30 bp):
ATTTTGACCCCAAAACTTTTCCAAAATTAC
Found at i:49061635 original size:59 final size:60
Alignment explanation
Indices: 49061508--49061837 Score: 438
Period size: 59 Copynumber: 5.6 Consensus size: 60
49061498 CAAAAATCAT
** * *
49061508 ATTTTAACCCCAAAACTTTTTTAAAATTACATTTTGACCCCAAAACTTTTCTAAAATTAT
1 ATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTAC
* *
49061568 ATTTTAACCCCGAAACTTTTCCAAAATTACA-TTCGACCCCAAAACTTTTCCAAAATTAC
1 ATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTAC
* * *
49061627 ATTTTAACCCTAAATCTTTTCTAAAATTACATTTTGA-CCCAAAACTTTTCCAAAATTAC
1 ATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTAC
* * * *
49061686 ATTTTGACCCCAAAACTTTTCCAAAATTACATTTCGACCCCAAAACTTTTCTAAAATTAT
1 ATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTAC
* *
49061746 ATTTTGACCCCAAAAC-TTTCCAAAATTACATTTTGACCCCAAAAC-TTTCAAAAATTATC
1 ATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTA-C
* * * *
49061805 ATTTTACCCCCGAATCTTTT--AAAATTCCATTTT
1 ATTTTAACCCCAAAACTTTTCCAAAATTACATTTT
49061838 TAACCCCGAT
Statistics
Matches: 240, Mismatches: 26, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
58 23 0.10
59 146 0.61
60 71 0.30
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (60 bp):
ATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTAC
Found at i:49061695 original size:89 final size:90
Alignment explanation
Indices: 49061508--49061837 Score: 447
Period size: 89 Copynumber: 3.7 Consensus size: 90
49061498 CAAAAATCAT
* ** * *
49061508 ATTTTAACCCCAAAACTTTTTTAAAATTACATTTTGACCCCAAAACTTTTCTAAAATTATATTTT
1 ATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTCTAAAATTACATTTT
* *
49061573 AACCCCGAAACTTTTCCAAAATTAC
66 GACCCCAAAACTTTTCCAAAATTAC
* * *
49061598 A-TTCGACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAATCTTTTCTAAAATTACATTTT
1 ATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTCTAAAATTACATTTT
49061662 GA-CCCAAAACTTTTCCAAAATTAC
66 GACCCCAAAACTTTTCCAAAATTAC
** *
49061686 ATTTTGACCCCAAAACTTTTCCAAAATTACATTTCGACCCCAAAACTTTTCTAAAATTATATTTT
1 ATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTCTAAAATTACATTTT
49061751 GACCCCAAAAC-TTTCCAAAATTAC
66 GACCCCAAAACTTTTCCAAAATTAC
* * * * *
49061775 ATTTTGACCCCAAAAC-TTTCAAAAATTATCATTTTACCCCCGAATC-TTT-TAAAATTCCATTT
1 ATTTTGACCCCAAAACTTTTCCAAAATTA-CATTTTAACCCCAAAACTTTTCTAAAATTACATTT
49061837 T
65 T
49061838 TAACCCCGAT
Statistics
Matches: 213, Mismatches: 24, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
87 12 0.06
88 36 0.17
89 156 0.73
90 9 0.04
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (90 bp):
ATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTCTAAAATTACATTTT
GACCCCAAAACTTTTCCAAAATTAC
Found at i:49061861 original size:59 final size:58
Alignment explanation
Indices: 49061796--49061933 Score: 233
Period size: 59 Copynumber: 2.4 Consensus size: 58
49061786 AAAACTTTCA
*
49061796 AAAATTATCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTACCCCCGAAT-TTTCTAAAATTCCATTTTTAACCCCGATTTCACC
49061854 GAAAATTACCATTTTACCCCCGAATTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
1 -AAAATTACCATTTTACCCCCGAATTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
*
49061913 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
49061934 GGTATCCATA
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
58 23 0.30
59 53 0.70
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.36
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAATTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:49061903 original size:29 final size:29
Alignment explanation
Indices: 49061806--49061905 Score: 107
Period size: 29 Copynumber: 3.4 Consensus size: 29
49061796 AAAATTATCA
*
49061806 TTTTACCCCCGAATCTTT-TAAAATTCCAT
1 TTTTAACCCCGAAT-TTTCTAAAATTCCAT
* *
49061835 TTTTAACCCCG-ATTTCACCGAAAATTACCA-
1 TTTTAACCCCGAATTT--TCTAAAATT-CCAT
*
49061865 TTTTACCCCCGAATTTTCTAAAATTCCAT
1 TTTTAACCCCGAATTTTCTAAAATTCCAT
49061894 TTTTAACCCCGA
1 TTTTAACCCCGA
49061906 TTTCACCAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
27 2 0.03
28 5 0.09
29 28 0.48
30 16 0.28
31 7 0.12
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (29 bp):
TTTTAACCCCGAATTTTCTAAAATTCCAT
Found at i:49061916 original size:29 final size:30
Alignment explanation
Indices: 49061825--49061926 Score: 131
Period size: 30 Copynumber: 3.5 Consensus size: 30
49061815 CGAATCTTTT
49061825 AAAATT-CCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTTAACCCCGATTTCACC
* * *
49061854 GAAAATTACCA-TTTTACCCCCGAATTT-TCT
1 -AAAATTACCATTTTTAACCCCG-ATTTCACC
49061884 AAAATT-CCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTTAACCCCGATTTCACC
49061913 AAAATTACCATTTT
1 AAAATTACCATTTT
49061927 GCCCCCGGGT
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
28 7 0.11
29 23 0.38
30 24 0.39
31 7 0.11
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.36
Consensus pattern (30 bp):
AAAATTACCATTTTTAACCCCGATTTCACC
Found at i:49061932 original size:29 final size:29
Alignment explanation
Indices: 49061825--49061933 Score: 116
Period size: 29 Copynumber: 3.7 Consensus size: 29
49061815 CGAATCTTTT
*
49061825 AAAATT-CCATTTTTAACCCCGATTTCACC
1 AAAATTACCA-TTTTACCCCCGATTTCACC
* *
49061854 GAAAATTACCATTTTACCCCCGAATTT-TCT
1 -AAAATTACCATTTTACCCCCG-ATTTCACC
*
49061884 AAAATT-CCATTTTTAACCCCGATTTCACC
1 AAAATTACCA-TTTTACCCCCGATTTCACC
*
49061913 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
49061934 GGTATCCATA
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
28 7 0.11
29 32 0.48
30 20 0.30
31 7 0.11
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGATTTCACC
Found at i:49061955 original size:58 final size:59
Alignment explanation
Indices: 49061796--49061968 Score: 197
Period size: 59 Copynumber: 2.9 Consensus size: 59
49061786 AAAACTTTCA
* * ** *
49061796 AAAATTATCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAATATCCTAAAATCCCATTTTTAACCCCGATTTCACCG
* * *
49061855 AAAATTACCATTTTACCCCCGAATTTTCTAAAATTCCATTTTTAACCCCGATTTCACC-
1 AAAATTACCATTTTACCCCCGAATATCCTAAAATCCCATTTTTAACCCCGATTTCACCG
* ** * * *
49061913 AAAATTACCATTTTGCCCCCGGGTATCC-ATAAGTCCCGTTTTTCACCCCGATTTCA
1 AAAATTACCATTTTACCCCCGAATATCCTA-AAATCCCATTTTTAACCCCGATTTCA
49061969 TCATTTATCA
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
57 1 0.01
58 45 0.45
59 55 0.54
ACGTcount: A:0.28, C:0.29, G:0.07, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAATATCCTAAAATCCCATTTTTAACCCCGATTTCACCG
Found at i:49074050 original size:68 final size:68
Alignment explanation
Indices: 49073863--49074543 Score: 1123
Period size: 68 Copynumber: 10.0 Consensus size: 68
49073853 CTGCAGGTCT
*
49073863 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
49073928 GAG
66 GAG
* *
49073931 CAACGTCAT-CCCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
49073995 GAG
66 GAG
* * *
49073998 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAAATGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
49074063 GAG
66 GAG
* *
49074066 CAACATCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
49074131 GAG
66 GAG
*
49074134 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
*
49074199 AAG
66 GAG
* * *
49074202 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCT-AAAATGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
49074266 GAG
66 GAG
* *
49074269 CAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
49074334 GAG
66 GAG
* ** *
49074337 CAACGTTATCCCCTTAAAATTAAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
*
49074402 GAA
66 GAG
* * *
49074405 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAAATGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
49074470 GAG
66 GAG
* *
49074473 CAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
49074538 GAG
66 GAG
49074541 CAA
1 CAA
49074544 GATCGCTTCC
Statistics
Matches: 566, Mismatches: 45, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
67 125 0.22
68 441 0.78
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (68 bp):
CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
GAG
Found at i:49074350 original size:271 final size:272
Alignment explanation
Indices: 49073863--49074543 Score: 1132
Period size: 271 Copynumber: 2.5 Consensus size: 272
49073853 CTGCAGGTCT
*
49073863 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
*
49073928 GAGCAACGTCAT-CCCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAG
66 GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAG
*
49073992 TAAGAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAAATG
131 TAAGAGCAACATCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAAATG
* *
49074057 AAGTAAGAGCAACATCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAA
196 AAGTAAGAGCAACATCATCCCCTCAAAATTAAAGTAGAGTGGATAACACGTCTTCATCTCTGAAA
*
49074122 TTGAAGTAAGAG
261 TTGAAGTAAGAA
*
49074134 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
* * * * *
49074199 AAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCT-AAAATGAAG
66 GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAG
* * * *
49074263 TAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTG
131 TAAGAGCAACATCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAAATG
* * * *
49074328 AAGTAAGAGCAACGTTATCCCCTTAAAATTAAAGTAGAGTGGATAACACGTCTTTATCTCTGAAA
196 AAGTAAGAGCAACATCATCCCCTCAAAATTAAAGTAGAGTGGATAACACGTCTTCATCTCTGAAA
49074393 TTGAAGTAAGAA
261 TTGAAGTAAGAA
* * *
49074405 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAAATGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
*
49074470 GAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAG
66 GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAG
49074535 TAAGAGCAA
131 TAAGAGCAA
49074544 GATCGCTTCC
Statistics
Matches: 378, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
271 323 0.85
272 55 0.15
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (272 bp):
CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAG
TAAGAGCAACATCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAAATG
AAGTAAGAGCAACATCATCCCCTCAAAATTAAAGTAGAGTGGATAACACGTCTTCATCTCTGAAA
TTGAAGTAAGAA
Found at i:49074922 original size:6 final size:6
Alignment explanation
Indices: 49074901--49074974 Score: 64
Period size: 6 Copynumber: 12.5 Consensus size: 6
49074891 TTTGAACAAG
* * * *
49074901 ATTTAA ATTT-A TTTTAA ATTTAA ATGTAAAA ATTTAA ATTT-G CTTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA AT-T-TAA ATTTAA ATTTAA ATTTAA
*
49074949 ATTTAA ATTT-A ATTAAA ATTTAA ATT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATT
49074975 AATAATAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
5 11 0.21
6 36 0.68
7 2 0.04
8 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:49074923 original size:17 final size:16
Alignment explanation
Indices: 49074901--49074974 Score: 71
Period size: 17 Copynumber: 4.6 Consensus size: 16
49074891 TTTGAACAAG
*
49074901 ATTTAAATTTATTTTAA
1 ATTTAAATTTA-TTAAA
*
49074918 ATTTAAATGTA--AAA
1 ATTTAAATTTATTAAA
* *
49074932 ATTTAAATTTGCTTTAA
1 ATTTAAATTT-ATTAAA
49074949 ATTTAAATTTAATTAAA
1 ATTTAAATTT-ATTAAA
49074966 ATTTAAATT
1 ATTTAAATT
49074975 AATAATAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.24
17 35 0.76
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTTAAATTTATTAAA
Found at i:49076775 original size:30 final size:30
Alignment explanation
Indices: 49076741--49076993 Score: 427
Period size: 30 Copynumber: 8.5 Consensus size: 30
49076731 CAAAAATCAT
* *
49076741 ATTTTGACCCTAAAACTTTTCTAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
* *
49076771 ATTTTGACCCCAAAACTTTTCTAAAATTAT
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
*
49076801 ATTTTAACCCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
*
49076831 A-TTCGACCCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
49076860 ATTTTGACCCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
*
49076890 ATTTCGACCCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
49076920 ATTTTGACCCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
49076950 ATTTTGACCCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
*
49076980 ATTTTAACCCCAAA
1 ATTTTGACCCCAAA
49076994 CTTCCCTAAA
Statistics
Matches: 211, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
29 27 0.13
30 184 0.87
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.34
Consensus pattern (30 bp):
ATTTTGACCCCAAAACTTTTCCAAAATTAC
Found at i:49076996 original size:89 final size:90
Alignment explanation
Indices: 49076741--49076993 Score: 436
Period size: 89 Copynumber: 2.8 Consensus size: 90
49076731 CAAAAATCAT
* * * *
49076741 ATTTTGACCCTAAAACTTTTCTAAAATTACATTTTGACCCCAAAACTTTTCTAAAATTATATTTT
1 ATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
49076806 AACCCCAAAACTTTTCCAAAATTAC
66 AACCCCAAAACTTTTCCAAAATTAC
* *
49076831 A-TTCGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTC
1 ATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
*
49076895 GACCCCAAAACTTTTCCAAAATTAC
66 AACCCCAAAACTTTTCCAAAATTAC
49076920 ATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
1 ATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
49076985 AACCCCAAA
66 AACCCCAAA
49076994 CTTCCCTAAA
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
89 82 0.54
90 70 0.46
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.34
Consensus pattern (90 bp):
ATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
AACCCCAAAACTTTTCCAAAATTAC
Found at i:49086817 original size:23 final size:25
Alignment explanation
Indices: 49086791--49086836 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49086781 CCAATTAAGG
49086791 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
49086814 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
49086837 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:49089976 original size:2 final size:2
Alignment explanation
Indices: 49089969--49089995 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49089959 AATACAGGTA
49089969 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
49089996 AACCATGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49092748 original size:17 final size:18
Alignment explanation
Indices: 49092721--49092754 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49092711 GTAATGAGTG
*
49092721 TATGATATGAATATATAA
1 TATGATATGAAAATATAA
49092739 TATG-TATGAAAATATA
1 TATGATATGAAAATATA
49092755 TCAAATGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (18 bp):
TATGATATGAAAATATAA
Found at i:49102571 original size:18 final size:18
Alignment explanation
Indices: 49102548--49102587 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
49102538 AGTCTACATG
* *
49102548 TACTTCATGTTGATATTA
1 TACTTCATATTGACATTA
49102566 TACTTCATATTGACATTA
1 TACTTCATATTGACATTA
49102584 TACT
1 TACT
49102588 ATTTTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (18 bp):
TACTTCATATTGACATTA
Found at i:49105851 original size:21 final size:19
Alignment explanation
Indices: 49105806--49105856 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 19
49105796 CTTTTAATTT
49105806 ATTTTATAATTCTTTTTTAA
1 ATTTTA-AATTCTTTTTTAA
*
49105826 ATTTTAAATTTTTTTTTATA
1 ATTTTAAATTCTTTTTTA-A
49105846 ACTTTTAAATT
1 A-TTTTAAATT
49105857 ATTTCTTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 11 0.39
20 8 0.29
21 9 0.32
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTAAATTCTTTTTTAA
Found at i:49106813 original size:7 final size:7
Alignment explanation
Indices: 49106798--49106858 Score: 63
Period size: 7 Copynumber: 8.7 Consensus size: 7
49106788 TTGGATCCTA
49106798 GACCTTG
1 GACCTTG
*
49106805 GACCATG
1 GACCTTG
*
49106812 GACCTTA
1 GACCTTG
49106819 GACCTTG
1 GACCTTG
49106826 GACCATT-
1 GACC-TTG
*
49106833 AACCTTG
1 GACCTTG
49106840 GACCTT-
1 GACCTTG
49106846 GAGCCTTG
1 GA-CCTTG
49106854 GACCT
1 GACCT
49106859 AAGGTTTAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
6 4 0.09
7 36 0.82
8 4 0.09
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (7 bp):
GACCTTG
Found at i:49106820 original size:21 final size:21
Alignment explanation
Indices: 49106796--49106846 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
49106786 CTTTGGATCC
*
49106796 TAGACCTTGGACCATGGACCT
1 TAGACCTTGGACCATGAACCT
*
49106817 TAGACCTTGGACCATTAACCT
1 TAGACCTTGGACCATGAACCT
*
49106838 TGGACCTTG
1 TAGACCTTG
49106847 AGCCTTGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (21 bp):
TAGACCTTGGACCATGAACCT
Found at i:49106938 original size:21 final size:21
Alignment explanation
Indices: 49106914--49106957 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
49106904 GTCCATGATC
49106914 TAGGATTC-AAGGTCCAAGGTT
1 TAGG-TTCTAAGGTCCAAGGTT
* *
49106935 TAGGTTCTATGGTCTAAGGTT
1 TAGGTTCTAAGGTCCAAGGTT
49106956 TA
1 TA
49106958 AGGTCTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.36
Consensus pattern (21 bp):
TAGGTTCTAAGGTCCAAGGTT
Found at i:49106959 original size:7 final size:7
Alignment explanation
Indices: 49106929--49107087 Score: 55
Period size: 7 Copynumber: 22.7 Consensus size: 7
49106919 TTCAAGGTCC
49106929 AAGGTTT
1 AAGGTTT
49106936 -AGGTTCT
1 AAGGTT-T
* *
49106943 ATGGTCT
1 AAGGTTT
49106950 AAGGTTT
1 AAGGTTT
49106957 AAGGTCTT
1 AAGGT-TT
*
49106965 --GGAATT
1 AAGG-TTT
*
49106971 AGGGTTT
1 AAGGTTT
49106978 AAGGTTT
1 AAGGTTT
49106985 -AGGATTT
1 AAGG-TTT
*
49106992 AAGATTT
1 AAGGTTT
*
49106999 -TGGATTT
1 AAGG-TTT
*
49107006 -AGGATTC
1 AAGG-TTT
*
49107013 AAGGTTC
1 AAGGTTT
*
49107020 AAGGTCT
1 AAGGTTT
49107027 AAGGTTT
1 AAGGTTT
*
49107034 AAGGTCT
1 AAGGTTT
*
49107041 AAAGTTT
1 AAGGTTT
*
49107048 AGGGTTT
1 AAGGTTT
49107055 -AGGATTT
1 AAGG-TTT
*
49107062 AAAGTTT
1 AAGGTTT
49107069 -AGGATTT
1 AAGG-TTT
* *
49107076 AGGGTTC
1 AAGGTTT
49107083 AAGGT
1 AAGGT
49107088 CCAAGTTAAA
Statistics
Matches: 112, Mismatches: 26, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
6 17 0.15
7 79 0.71
8 16 0.14
ACGTcount: A:0.27, C:0.05, G:0.29, T:0.39
Consensus pattern (7 bp):
AAGGTTT
Found at i:49106992 original size:14 final size:14
Alignment explanation
Indices: 49106969--49107081 Score: 63
Period size: 14 Copynumber: 8.1 Consensus size: 14
49106959 GGTCTTGGAA
*
49106969 TTAGGGTTTAAGGT
1 TTAGGATTTAAGGT
*
49106983 TTAGGATTTAAGAT
1 TTAGGATTTAAGGT
*
49106997 TTTGGATTT-AGGAT
1 TTAGGATTTAAGG-T
* *
49107011 TCAAGG-TTCAAGGT
1 T-TAGGATTTAAGGT
*
49107025 CTAAGG-TTTAAGGT
1 -TTAGGATTTAAGGT
* * *
49107039 CTA-AAGTTTAGGGT
1 TTAGGA-TTTAAGGT
*
49107053 TTAGGATTTAAAGT
1 TTAGGATTTAAGGT
*
49107067 TTAGGATTTAGGGT
1 TTAGGATTTAAGGT
49107081 T
1 T
49107082 CAAGGTCCAA
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
13 3 0.04
14 64 0.86
15 7 0.09
ACGTcount: A:0.27, C:0.04, G:0.28, T:0.41
Consensus pattern (14 bp):
TTAGGATTTAAGGT
Found at i:49107053 original size:21 final size:22
Alignment explanation
Indices: 49107029--49107076 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
49107019 CAAGGTCTAA
49107029 GGTTTAAGG-TCTAAAGTTTAG
1 GGTTTAAGGATCTAAAGTTTAG
*
49107050 GGTTT-AGGATTTAAAGTTTAG
1 GGTTTAAGGATCTAAAGTTTAG
*
49107071 GATTTA
1 GGTTTA
49107077 GGGTTCAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (22 bp):
GGTTTAAGGATCTAAAGTTTAG
Found at i:49107238 original size:54 final size:54
Alignment explanation
Indices: 49107156--49107270 Score: 230
Period size: 54 Copynumber: 2.1 Consensus size: 54
49107146 CATCAAATAA
49107156 TTAGTAAGGGATTCAAGATGATGTGACATCTATGTTCCATATAATCCTTTCCCT
1 TTAGTAAGGGATTCAAGATGATGTGACATCTATGTTCCATATAATCCTTTCCCT
49107210 TTAGTAAGGGATTCAAGATGATGTGACATCTATGTTCCATATAATCCTTTCCCT
1 TTAGTAAGGGATTCAAGATGATGTGACATCTATGTTCCATATAATCCTTTCCCT
49107264 TTAGTAA
1 TTAGTAA
49107271 AAAGTGTGCT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (54 bp):
TTAGTAAGGGATTCAAGATGATGTGACATCTATGTTCCATATAATCCTTTCCCT
Found at i:49112351 original size:29 final size:28
Alignment explanation
Indices: 49112295--49112364 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
49112285 AAAATTTTGA
49112295 ATAGTTAGGTGATCATTTTTCAACTTTTC
1 ATAGTT-GGTGATCATTTTTCAACTTTTC
* *
49112324 ATAGTTGGATGATCATTTTGT-AATTTTTG
1 ATAGTTGG-TGATCATTTT-TCAACTTTTC
49112353 ATAGTTGAGTGA
1 ATAGTTG-GTGA
49112365 CCAAAAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 2 0.06
29 32 0.89
30 2 0.06
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.47
Consensus pattern (28 bp):
ATAGTTGGTGATCATTTTTCAACTTTTC
Found at i:49112572 original size:40 final size:40
Alignment explanation
Indices: 49112516--49112591 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
49112506 CCTTAATATG
*
49112516 CATGATCAACATCTATACTATTTATTAAGCCATTGAGTAT
1 CATGATCAACAGCTATACTATTTATTAAGCCATTGAGTAT
*
49112556 CATGATCAACAGCTATACTATTTATTAAGTCATTGA
1 CATGATCAACAGCTATACTATTTATTAAGCCATTGA
49112592 TTGAGTTGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (40 bp):
CATGATCAACAGCTATACTATTTATTAAGCCATTGAGTAT
Found at i:49113431 original size:16 final size:17
Alignment explanation
Indices: 49113397--49113433 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
49113387 TTTAATCCTC
49113397 TAAAAATTATAAAGATA
1 TAAAAATTATAAAGATA
49113414 TAAAATATTA-AAAG-TA
1 TAAAA-ATTATAAAGATA
49113430 TAAA
1 TAAA
49113434 GAAAATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 9 0.47
18 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
TAAAAATTATAAAGATA
Found at i:49115600 original size:3 final size:3
Alignment explanation
Indices: 49115592--49115628 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
49115582 CCCTACTCAA
49115592 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49115629 GAGTTGTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49118311 original size:33 final size:32
Alignment explanation
Indices: 49118242--49118314 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 32
49118232 TTCAAAGTTA
*
49118242 TTATTTTATTAATTTTGTTTTGACTAAATTTG
1 TTATTTTATTAATTTTATTTTGACTAAATTTG
*
49118274 TTATTTTCTTAATTTTATTTTGACTAAAATTAT-
1 TTATTTTATTAATTTTATTTTGACT-AAATT-TG
49118307 TTATTTTA
1 TTATTTTA
49118315 AGTGAATAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 23 0.64
33 12 0.33
34 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.63
Consensus pattern (32 bp):
TTATTTTATTAATTTTATTTTGACTAAATTTG
Found at i:49128828 original size:32 final size:33
Alignment explanation
Indices: 49128787--49128862 Score: 111
Period size: 32 Copynumber: 2.3 Consensus size: 33
49128777 TTATTCAAAG
*
49128787 TTGTTATTTTATTAATTTTGTTTTGACT-AAAT
1 TTGTTATTTTATTAATTTTATTTTGACTAAAAT
*
49128819 TTGTTATTTTCTTAATTTTATTTTGACTAAAAT
1 TTGTTATTTTATTAATTTTATTTTGACTAAAAT
49128852 TAT-TTATTTTA
1 T-TGTTATTTTA
49128863 AGTAAATAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
32 26 0.67
33 12 0.31
34 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (33 bp):
TTGTTATTTTATTAATTTTATTTTGACTAAAAT
Found at i:49131319 original size:29 final size:30
Alignment explanation
Indices: 49131279--49131356 Score: 104
Period size: 31 Copynumber: 2.6 Consensus size: 30
49131269 AAGTTCTGGA
* *
49131279 TTTAGTCTTTATATTTT-AATTTGATTAAT
1 TTTAATCTTTATATTTTCAATTTGATCAAT
*
49131308 TTTAATCTTTATATTCTTCAATTTGATCGAT
1 TTTAATCTTTATATT-TTCAATTTGATCAAT
49131339 TTTAATCTTTATACTTTT
1 TTTAATCTTTATA-TTTT
49131357 TGAATTTTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 14 0.33
30 2 0.05
31 25 0.58
32 2 0.05
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60
Consensus pattern (30 bp):
TTTAATCTTTATATTTTCAATTTGATCAAT
Found at i:49131936 original size:6 final size:6
Alignment explanation
Indices: 49131905--49131946 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
49131895 ATAAAAGTCA
*
49131905 TTATAT TTA-AT TTAAAT ATT-TAT TTATAT TTATAT TTATAT T
1 TTATAT TTATAT TTATAT -TTATAT TTATAT TTATAT TTATAT T
49131947 AAATCATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 7 0.22
6 23 0.72
7 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TTATAT
Found at i:49132724 original size:27 final size:27
Alignment explanation
Indices: 49132694--49132746 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
49132684 ATATAAGGCT
*
49132694 TGTACTGTAATTTAATATTTTCTATTA
1 TGTACTCTAATTTAATATTTTCTATTA
* *
49132721 TGTACTCTAATTTAGTATTTTTTATT
1 TGTACTCTAATTTAATATTTTCTATT
49132747 TTCTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (27 bp):
TGTACTCTAATTTAATATTTTCTATTA
Found at i:49132808 original size:14 final size:14
Alignment explanation
Indices: 49132791--49132846 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
49132781 TTATATAATT
49132791 ATTAAATTTATTAA
1 ATTAAATTTATTAA
*
49132805 ATTAAATTTATTAT
1 ATTAAATTTATTAA
*
49132819 TTTCAAATGTTA-TAA
1 ATT-AAAT-TTATTAA
*
49132834 AGTAAATTTATTA
1 ATTAAATTTATTA
49132847 TCATATGTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.09
14 21 0.62
15 7 0.21
16 3 0.09
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (14 bp):
ATTAAATTTATTAA
Found at i:49140041 original size:44 final size:46
Alignment explanation
Indices: 49139993--49140083 Score: 132
Period size: 44 Copynumber: 2.0 Consensus size: 46
49139983 TATTTAATTC
* * *
49139993 AATAAAATATTTATTATGTTTAT-TTGTG-TTTTTAATATATATAT
1 AATAAAATATTTATTATATTTATGTAGTGTTTTTTAATATAAATAT
49140037 AATAAAATATTTATTATATTTATGGTAGTGTTTTTTAATATAAATAT
1 AATAAAATATTTATTATATTTAT-GTAGTGTTTTTTAATATAAATAT
49140084 TGTTAGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
44 22 0.54
46 4 0.10
47 15 0.37
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (46 bp):
AATAAAATATTTATTATATTTATGTAGTGTTTTTTAATATAAATAT
Found at i:49140506 original size:16 final size:16
Alignment explanation
Indices: 49140482--49140515 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49140472 ATCTTTAACG
*
49140482 TTTATTTTTTTATTAA
1 TTTAGTTTTTTATTAA
*
49140498 TTTAGTTTTTTCTTAA
1 TTTAGTTTTTTATTAA
49140514 TT
1 TT
49140516 AAATTTGACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTAGTTTTTTATTAA
Found at i:49148816 original size:19 final size:19
Alignment explanation
Indices: 49148772--49148820 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
49148762 AGAGAGAAAA
*
49148772 GAAATGAGACAGTGACAGT
1 GAAAGGAGACAGTGACAGT
*
49148791 GACAGGAGACAGTGACAGCT
1 GAAAGGAGACAGTGACAG-T
49148811 -AAAGGAGACA
1 GAAAGGAGACA
49148821 ATATAGGTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 25 0.96
20 1 0.04
ACGTcount: A:0.43, C:0.14, G:0.33, T:0.10
Consensus pattern (19 bp):
GAAAGGAGACAGTGACAGT
Found at i:49149187 original size:3 final size:3
Alignment explanation
Indices: 49149181--49149206 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49149171 AACTTGTCGG
49149181 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
49149207 ATCAACTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:49149287 original size:15 final size:15
Alignment explanation
Indices: 49149267--49149311 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
49149257 TTCTCTCACT
49149267 TTCCTCTTCTTCCTC
1 TTCCTCTTCTTCCTC
*
49149282 TTCCTCATCTTCCTC
1 TTCCTCTTCTTCCTC
* *
49149297 TTCTTCTTCCTCCTC
1 TTCCTCTTCTTCCTC
49149312 CACTTCCTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (15 bp):
TTCCTCTTCTTCCTC
Found at i:49149294 original size:24 final size:24
Alignment explanation
Indices: 49149251--49149320 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
49149241 TTAATCTTTC
*
49149251 TCTTCCTTCT-CT-CACTTTCCTCT
1 TCTTCCTCCTCCTCCAC-TTCCTCT
*
49149274 TCTTCCTCTTCCT-CATCTTCCTCT
1 TCTTCCTCCTCCTCCA-CTTCCTCT
*
49149298 TCTTCTTCCTCCTCCACTTCCTC
1 TCTTCCTCCTCCTCCACTTCCTC
49149321 CTTCGCCGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 8 0.20
24 29 0.73
25 3 0.08
ACGTcount: A:0.04, C:0.47, G:0.00, T:0.49
Consensus pattern (24 bp):
TCTTCCTCCTCCTCCACTTCCTCT
Found at i:49149500 original size:15 final size:12
Alignment explanation
Indices: 49149464--49149492 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49149454 TTCTCTCTCC
49149464 TCCTC-TCTTCT
1 TCCTCGTCTTCT
49149475 TCCTCGTCTTCT
1 TCCTCGTCTTCT
49149487 TCCTCG
1 TCCTCG
49149493 AAGTCTTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.00, C:0.45, G:0.07, T:0.48
Consensus pattern (12 bp):
TCCTCGTCTTCT
Done.