Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 199 of 199
Found at i:63136829 original size:25 final size:25
Alignment explanation
Indices: 63136801--63136880 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
63136791 TCTTTTGCTA
63136801 CTGCTGGTGCTGGTTATTTGTTCC-
1 CTGCTGGTGCTGGTTATTTGTTCCT
63136825 C--C---TGCTGGTTATTTGTTCCT
1 CTGCTGGTGCTGGTTATTTGTTCCT
* * *
63136845 CTACTGGTGCTAGTTCTTTGTTCCT
1 CTGCTGGTGCTGGTTATTTGTTCCT
63136870 CTGCTGGTGCT
1 CTGCTGGTGCT
63136881 TTGTTCCTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
19 17 0.36
20 1 0.02
22 2 0.04
24 1 0.02
25 26 0.55
ACGTcount: A:0.05, C:0.24, G:0.25, T:0.46
Consensus pattern (25 bp):
CTGCTGGTGCTGGTTATTTGTTCCT
Found at i:63136851 original size:19 final size:19
Alignment explanation
Indices: 63136810--63136852 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
63136800 ACTGCTGGTG
*
63136810 CTGGTTATTTGTTCCCCTG
1 CTGGTTATTTGTTCCCCTA
*
63136829 CTGGTTATTTGTTCCTCTA
1 CTGGTTATTTGTTCCCCTA
63136848 CTGGT
1 CTGGT
63136853 GCTAGTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.23, G:0.21, T:0.49
Consensus pattern (19 bp):
CTGGTTATTTGTTCCCCTA
Found at i:63136865 original size:44 final size:44
Alignment explanation
Indices: 63136804--63136890 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
63136794 TTTGCTACTG
* *
63136804 CTGGTGCTGGTTATTTGTTCCCCTGCTGGTTATTTGTTCCTCTA
1 CTGGTGCTAGTTATTTGTTCCCCTGCTGGTGATTTGTTCCTCTA
* * *
63136848 CTGGTGCTAGTTCTTTGTTCCTCTGCTGGTGCTTTGTTCCTCT
1 CTGGTGCTAGTTATTTGTTCCCCTGCTGGTGATTTGTTCCTCT
63136891 TCTCCACCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.05, C:0.24, G:0.23, T:0.48
Consensus pattern (44 bp):
CTGGTGCTAGTTATTTGTTCCCCTGCTGGTGATTTGTTCCTCTA
Found at i:63137526 original size:18 final size:18
Alignment explanation
Indices: 63137503--63137568 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
63137493 AAAATATGAG
63137503 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
63137521 AAATGATGTTCAGATTTC
1 AAATGATGTTCACATTTC
*
63137539 AAGTGATGTTCACATTTC
1 AAATGATGTTCACATTTC
63137557 AAATGATGTTCA
1 AAATGATGTTCA
63137569 AATTGATGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:63138091 original size:71 final size:72
Alignment explanation
Indices: 63137997--63138130 Score: 207
Period size: 71 Copynumber: 1.9 Consensus size: 72
63137987 CAATGCTAAA
* * * * *
63137997 CTAGTTTTATTAACAGTTATTTATGTTTGGTTTTTGGATATTGAA-TTATGTTCTACTTATTTAT
1 CTAGTTTTATTAAAAGTTATTTATGCTTGGTCTTTAGATATTGAATTTATATTCTACTTATTTAT
63138061 GTGTAAT
66 GTGTAAT
*
63138068 CTAGTTTTATTAAAAGTTGTTTATGCTTGGTCTTTAGATATTGAATTTATATTCTACTTATTT
1 CTAGTTTTATTAAAAGTTATTTATGCTTGGTCTTTAGATATTGAATTTATATTCTACTTATTT
63138131 TTTACTAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
71 40 0.71
72 16 0.29
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATTAAAAGTTATTTATGCTTGGTCTTTAGATATTGAATTTATATTCTACTTATTTAT
GTGTAAT
Found at i:63138158 original size:72 final size:71
Alignment explanation
Indices: 63137992--63138163 Score: 195
Period size: 71 Copynumber: 2.4 Consensus size: 71
63137982 AACAACAATG
* * * * * * *
63137992 CTAAACTAGTTTTATTAACAGTTATTTATGTTTGGTTTTTGGATATTGAATTATGTTCTACTTAT
1 CTAAATTAGTTTTATTAAAAGTTGTTTATGCTTGGTCTTTAGATATTGAATTATATTCTACTTAT
63138057 TTATGT
66 TTATGT
*
63138063 GT-AATCTAGTTTTATTAAAAGTTGTTTATGCTTGGTCTTTAGATATTGAATTTATATTCTACTT
1 CTAAAT-TAGTTTTATTAAAAGTTGTTTATGCTTGGTCTTTAGATATTGAA-TTATATTCTACTT
*
63138127 ATTT-TTT
64 ATTTATGT
** *
63138134 ACTAAATTAGTTTTATCGATAGTTGTTTAT
1 -CTAAATTAGTTTTATTAAAAGTTGTTTAT
63138164 ATGTGATTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
70 2 0.02
71 42 0.50
72 37 0.44
73 3 0.04
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.53
Consensus pattern (71 bp):
CTAAATTAGTTTTATTAAAAGTTGTTTATGCTTGGTCTTTAGATATTGAATTATATTCTACTTAT
TTATGT
Found at i:63140230 original size:13 final size:13
Alignment explanation
Indices: 63140212--63140272 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
63140202 CTCAAAATTT
63140212 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* *
63140225 TCAAAAGTACTTT
1 TCAAAAGCACTTC
* *
63140238 TCTACAGCACTTC
1 TCAAAAGCACTTC
*
63140251 TCAAAAGCACTTT
1 TCAAAAGCACTTC
63140264 TCAAAAGCA
1 TCAAAAGCA
63140273 ATGAAGAACT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:63140272 original size:26 final size:26
Alignment explanation
Indices: 63140209--63140272 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
63140199 ACACTCAAAA
*
63140209 TTTTCAAAAGCACTTCTCAAAAGTAC
1 TTTTCAAAAGCACTTCTCAAAAGCAC
* *
63140235 TTTTCTACAGCACTTCTCAAAAGCAC
1 TTTTCAAAAGCACTTCTCAAAAGCAC
63140261 TTTTCAAAAGCA
1 TTTTCAAAAGCA
63140273 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (26 bp):
TTTTCAAAAGCACTTCTCAAAAGCAC
Found at i:63145439 original size:14 final size:13
Alignment explanation
Indices: 63145420--63145491 Score: 55
Period size: 14 Copynumber: 5.5 Consensus size: 13
63145410 GATGCAATAT
63145420 AAATAAAATGAAAC
1 AAATAAAAT-AAAC
63145434 AAATAAACAATAAAC
1 AAAT-AA-AATAAAC
63145449 -AATAAAAT--A-
1 AAATAAAATAAAC
63145458 AAATAAAATGAAAC
1 AAATAAAAT-AAAC
63145472 AAATAAACAATAAA-
1 AAAT-AA-AATAAAC
63145486 AAATAA
1 AAATAA
63145492 TCATACGGGC
Statistics
Matches: 49, Mismatches: 0, Indels: 19
0.72 0.00 0.28
Matches are distributed among these distances:
10 9 0.18
12 3 0.06
13 5 0.10
14 15 0.31
15 11 0.22
16 6 0.12
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (13 bp):
AAATAAAATAAAC
Found at i:63145480 original size:31 final size:28
Alignment explanation
Indices: 63145421--63145486 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 28
63145411 ATGCAATATA
* *
63145421 AATAAAATGAAACAAATAAACAATAAAC
1 AATAAAATAAAAAAAATAAACAATAAAC
63145449 AATAAAATAAAATAAAATGAAACAAATAAAC
1 AATAAAATAAAA-AAAAT-AAAC-AATAAAC
63145480 AATAAAA
1 AATAAAA
63145487 AATAATCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 11 0.33
29 4 0.12
30 4 0.12
31 14 0.42
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (28 bp):
AATAAAATAAAAAAAATAAACAATAAAC
Found at i:63145485 original size:38 final size:39
Alignment explanation
Indices: 63145415--63145491 Score: 138
Period size: 38 Copynumber: 2.0 Consensus size: 39
63145405 ATAATGATGC
*
63145415 AATATAAATAAAATGAAACAAATAAACAATAAACAATAA
1 AATATAAATAAAATGAAACAAATAAACAATAAAAAATAA
63145454 AATA-AAATAAAATGAAACAAATAAACAATAAAAAATAA
1 AATATAAATAAAATGAAACAAATAAACAATAAAAAATAA
63145492 TCATACGGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 33 0.89
39 4 0.11
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (39 bp):
AATATAAATAAAATGAAACAAATAAACAATAAAAAATAA
Found at i:63146206 original size:3 final size:3
Alignment explanation
Indices: 63146186--63146262 Score: 73
Period size: 3 Copynumber: 25.7 Consensus size: 3
63146176 AAGCGAAAAC
* * * * * *
63146186 ATA ACA ATA ATA ACA ATA ATA TTA ATA ATA ATA CTA ATA ATA ATA GTG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** *
63146234 AGG ATA ACA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
63146263 GAAAGTAATG
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:63147181 original size:20 final size:20
Alignment explanation
Indices: 63147153--63147196 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
63147143 GGCGGCGCAA
* *
63147153 GTGGTGGTGGTGACATGACC
1 GTGGCGGTGGAGACATGACC
**
63147173 GTGGCGGTGGAGATGTGACC
1 GTGGCGGTGGAGACATGACC
63147193 GTGG
1 GTGG
63147197 AAGTGGCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.50, T:0.23
Consensus pattern (20 bp):
GTGGCGGTGGAGACATGACC
Found at i:63147742 original size:50 final size:49
Alignment explanation
Indices: 63147601--63148163 Score: 255
Period size: 50 Copynumber: 11.3 Consensus size: 49
63147591 ATTCGCCATC
* * * * *
63147601 GTAGCTTCAATCTGTTCCACTGTAT-CTGCAGGGAGGTGAGATTCACTC-TT
1 GTAGCTTCAATCTGTTCCGCTGCATGCT--TGGGAAGTAAGATTCAC-CGTT
* * * * **
63147651 GTAGCTTCAATCTATT-TGACTGCAATG-TCGGGGAAGGAAGATTCATTGTT
1 GTAGCTTCAATCTGTTCCG-CTGC-ATGCT-TGGGAAGTAAGATTCACCGTT
* *
63147701 GTAGCTTCAATCTATTCCGCTGCATCGCTTGGGAAGTAAGATTCGCCGTT
1 GTAGCTTCAATCTGTTCCGCTGCAT-GCTTGGGAAGTAAGATTCACCGTT
* * * **** * *
63147751 GTGGCTTCAATATTTTAAATTGCAATG-TTGGGGAAGCAAGATTCGCCGTT
1 GTAGCTTCAATCTGTTCCGCTGC-ATGCTT-GGGAAGTAAGATTCACCGTT
* ** * * * *
63147801 CTAGCTTCAATCTGTTTTGTTGCATCGCCTGGAAAGTAAGATTCATCGTT
1 GTAGCTTCAATCTGTTCCGCTGCAT-GCTTGGGAAGTAAGATTCACCGTT
* **** * ** * *
63147851 GTGGCTTCAATCT-TTAAAATTGCAATG-TTGGGGAAGCAAGATTCGTCATC
1 GTAGCTTCAATCTGTT-CCGCTGC-ATGCTT-GGGAAGTAAGATTCACCGTT
* *
63147901 GTAGCTTCAATATG-TCTCGCTGCATTGCTTGGGAAGTAAGATTCGCCGTT
1 GTAGCTTCAATCTGTTC-CGCTGCA-TGCTTGGGAAGTAAGATTCACCGTT
* * **** * * * *
63147951 GTGGCTTCAATCTTTTAAATTGCAATG-TTGGGGAAGCAAGATTCGCCCTC
1 GTAGCTTCAATCTGTTCCGCTGC-ATGCTT-GGGAAGTAAGATTCACCGTT
* *
63148001 GTAGCTTCAATCTGTTCCGCTACATCGCTTGGGAATTAAGATTCACCGTT
1 GTAGCTTCAATCTGTTCCGCTGCAT-GCTTGGGAAGTAAGATTCACCGTT
* * * **** * * *
63148051 GTGGCTTTAATCTTTTAAATTGCAATG-TCGGGGAAGCAAGATTCACCGTC
1 GTAGCTTCAATCTGTTCCGCTGC-ATGCT-TGGGAAGTAAGATTCACCGTT
* * * *
63148101 GTAGCTTCAATCTGTTCCGCTGCATAGCCTGAGAAGTAAGATTCGCCATT
1 GTAGCTTCAATCTGTTCCGCTGCAT-GCTTGGGAAGTAAGATTCACCGTT
*
63148151 GTGGCTTCAATCT
1 GTAGCTTCAATCT
63148164 TTTAAATTGC
Statistics
Matches: 380, Mismatches: 106, Indels: 54
0.70 0.20 0.10
Matches are distributed among these distances:
49 17 0.04
50 345 0.91
51 18 0.05
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (49 bp):
GTAGCTTCAATCTGTTCCGCTGCATGCTTGGGAAGTAAGATTCACCGTT
Found at i:63147743 original size:100 final size:100
Alignment explanation
Indices: 63147584--63148178 Score: 741
Period size: 100 Copynumber: 6.0 Consensus size: 100
63147574 AATGTCAGAA
* * * * * *
63147584 AAGCAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTGTATCTGC-AGGGAGGTGAGATTCACT
1 AAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATC-GCTTGGGAAGTAAGATTCAC-
* * * *
63147648 C-TTGTAGCTTCAATCTATTT-GACTGCAATGTCGGGG
64 CGTTGTGGCTTCAATCT-TTTAAATTGCAATGTTGGGG
* *** * * *
63147684 AAGGAAGATTCATTGTTGTAGCTTCAATCTATTCCGCTGCATCGCTTGGGAAGTAAGATTCGCCG
1 AAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGGAAGTAAGATTCACCG
*
63147749 TTGTGGCTTCAATATTTTAAATTGCAATGTTGGGG
66 TTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
** * * * *
63147784 AAGCAAGATTCGCCGTTC-TAGCTTCAATCTGTTTTGTTGCATCGCCTGGAAAGTAAGATTCATC
1 AAGCAAGATTCGCCG-TCGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGGAAGTAAGATTCACC
*
63147848 GTTGTGGCTTCAATCTTTAAAATTGCAATGTTGGGG
65 GTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
* * * * *
63147884 AAGCAAGATTCGTCATCGTAGCTTCAATATG-TCTCGCTGCATTGCTTGGGAAGTAAGATTCGCC
1 AAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTC-CGCTGCATCGCTTGGGAAGTAAGATTCACC
63147948 GTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
65 GTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
* * *
63147984 AAGCAAGATTCGCCCTCGTAGCTTCAATCTGTTCCGCTACATCGCTTGGGAATTAAGATTCACCG
1 AAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGGAAGTAAGATTCACCG
* *
63148049 TTGTGGCTTTAATCTTTTAAATTGCAATGTCGGGG
66 TTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
* * * * * *
63148084 AAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATAGCCTGAGAAGTAAGATTCGCCA
1 AAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGGAAGTAAGATTCACCG
63148149 TTGTGGCTTCAATCTTTTAAATTGCAATGT
66 TTGTGGCTTCAATCTTTTAAATTGCAATGT
63148179 ATAGTTTCTT
Statistics
Matches: 424, Mismatches: 64, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
99 9 0.02
100 412 0.97
101 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (100 bp):
AAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGGAAGTAAGATTCACCG
TTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
Found at i:63172531 original size:22 final size:19
Alignment explanation
Indices: 63172498--63172561 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 19
63172488 CTTTTTTATT
*
63172498 TTTTTAGAAAATTTTAAAA
1 TTTTTATAAAATTTTAAAA
* *
63172517 TTTTTAAATATAAATTTTGACA
1 TTTTT--ATA-AAATTTTAAAA
63172539 TTTTTATAAATATTTTAAAA
1 TTTTTATAAA-ATTTTAAAA
63172559 TTT
1 TTT
63172562 AAAAATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
19 7 0.19
20 13 0.36
21 2 0.06
22 14 0.39
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTTATAAAATTTTAAAA
Found at i:63172587 original size:20 final size:20
Alignment explanation
Indices: 63172559--63172600 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
63172549 TATTTTAAAA
*
63172559 TTTAAAAATTATTGT-AATT
1 TTTAAAAAATATTGTGAATT
*
63172578 TTTAAAAAATATTTTGAATT
1 TTTAAAAAATATTGTGAATT
63172598 TTT
1 TTT
63172601 TTTTGTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTAAAAAATATTGTGAATT
Found at i:63173650 original size:21 final size:21
Alignment explanation
Indices: 63173625--63173670 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
63173615 TATATATATA
63173625 TGAAAATACAACAGAAATGCT
1 TGAAAATACAACAGAAATGCT
63173646 TGAAAATACAACAGAAATGCT
1 TGAAAATACAACAGAAATGCT
63173667 TGAA
1 TGAA
63173671 CATCATTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.20
Consensus pattern (21 bp):
TGAAAATACAACAGAAATGCT
Found at i:63179938 original size:21 final size:21
Alignment explanation
Indices: 63179913--63179954 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
63179903 TAGTCTTGAA
*
63179913 ACATTGCAGATTTTTTCAATT
1 ACATTGCAAATTTTTTCAATT
63179934 ACATTGCAAATTTTTTCAATT
1 ACATTGCAAATTTTTTCAATT
63179955 TTTGAATTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
ACATTGCAAATTTTTTCAATT
Found at i:63183501 original size:15 final size:14
Alignment explanation
Indices: 63183481--63183511 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
63183471 TGGCTTCTTC
63183481 TTCTTTTTTTCTTTT
1 TTCTTTTTTT-TTTT
63183496 TTCTTTTTTTTTTT
1 TTCTTTTTTTTTTT
63183510 TT
1 TT
63183512 GTGATTGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTCTTTTTTTTTTT
Found at i:63183967 original size:23 final size:24
Alignment explanation
Indices: 63183928--63183978 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
63183918 ACTTCAATTT
* *
63183928 TTTTTCTTTTATTTTCTTTGTTCC
1 TTTTTCTTTTATATTCTTTATTCC
*
63183952 TTTTTCTTTTA-ATTCTTTATTTC
1 TTTTTCTTTTATATTCTTTATTCC
63183975 TTTT
1 TTTT
63183979 CTTACCTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.08, C:0.14, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTCTTTTATATTCTTTATTCC
Found at i:63186354 original size:6 final size:6
Alignment explanation
Indices: 63186343--63186372 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
63186333 ATTTGATATA
63186343 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
63186373 ACAAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:63189394 original size:15 final size:16
Alignment explanation
Indices: 63189369--63189399 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
63189359 CAAAAGTTAT
63189369 AATTAATTTTTATAAA
1 AATTAATTTTTATAAA
63189385 AATT-ATTTTTATAAA
1 AATTAATTTTTATAAA
63189400 TTTCCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATTTTTATAAA
Found at i:63190814 original size:15 final size:16
Alignment explanation
Indices: 63190789--63190819 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
63190779 CAAAAGTTAT
63190789 AATTAATTTTTATAAA
1 AATTAATTTTTATAAA
63190805 AATT-ATTTTTATAAA
1 AATTAATTTTTATAAA
63190820 TTTCCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATTTTTATAAA
Found at i:63191340 original size:23 final size:24
Alignment explanation
Indices: 63191314--63191360 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
63191304 TTTTTTTAGA
63191314 AAATTTTAAAATTTTT-TAAATAT
1 AAATTTTAAAATTTTTATAAATAT
*
63191337 AAATTTTGAAATTTTTATAAATAT
1 AAATTTTAAAATTTTTATAAATAT
63191361 TTTGAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATTTTAAAATTTTTATAAATAT
Found at i:63191370 original size:19 final size:20
Alignment explanation
Indices: 63191339--63191410 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
63191329 TTAAATATAA
*
63191339 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTAAAAATT
63191359 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
*
63191378 ATTGTGAATTTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
63191398 ATTTTGAATTTTT
1 ATTTTGAATTTTT
63191411 TTTGTTGAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
18 8 0.17
19 10 0.21
20 29 0.62
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:63193726 original size:21 final size:22
Alignment explanation
Indices: 63193696--63193738 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
63193686 AAAGAAAACC
*
63193696 TTGTTGTTTTTTCA-TGTTTTG
1 TTGTTATTTTTTCACTGTTTTG
63193717 TTGTTATTTTTTCACTGTTTTG
1 TTGTTATTTTTTCACTGTTTTG
63193739 CTACAAGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.07, C:0.07, G:0.16, T:0.70
Consensus pattern (22 bp):
TTGTTATTTTTTCACTGTTTTG
Found at i:63194898 original size:20 final size:22
Alignment explanation
Indices: 63194857--63194900 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
63194847 AATTTAATTA
*
63194857 TTTTACTTTTATTTTTAGAAAT
1 TTTTACTTTTATTTTTACAAAT
63194879 TTTTA-TTTTATTTTT-CAAAT
1 TTTTACTTTTATTTTTACAAAT
63194899 TT
1 TT
63194901 CAATACTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 10 0.48
22 5 0.24
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTACTTTTATTTTTACAAAT
Found at i:63196002 original size:42 final size:42
Alignment explanation
Indices: 63195858--63196012 Score: 162
Period size: 41 Copynumber: 3.8 Consensus size: 42
63195848 TTTAAACAAA
* * *
63195858 CGCCGCTAATGTTATGGTTTTTAGTGGCGTTTGTTTCT-AAG
1 CGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTGTTTGTAAAG
* *
63195899 CGCCGCTAACT-TTAGGGCTTTTAGCGGCG-TT-TTTGATAATG
1 CGCCGCTAA-TGTTAGGGTTTTTAGCGGCGTTTGTTTG-TAAAG
* *
63195940 CGCCGCT-ATAGTTAAGGTTTTTAGTGGCGTTTGTTTGTAAAG
1 CGCCGCTAAT-GTTAGGGTTTTTAGCGGCGTTTGTTTGTAAAG
63195982 CGCCGCTAATGTT-GGAG-TTTTAGCGGCGTTT
1 CGCCGCTAATGTTAGG-GTTTTTAGCGGCGTTT
63196013 TGATGGAAAC
Statistics
Matches: 94, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 4 0.04
40 4 0.04
41 62 0.66
42 18 0.19
43 6 0.06
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.39
Consensus pattern (42 bp):
CGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTGTTTGTAAAG
Found at i:63196003 original size:82 final size:82
Alignment explanation
Indices: 63195858--63196013 Score: 230
Period size: 82 Copynumber: 1.9 Consensus size: 82
63195848 TTTAAACAAA
*
63195858 CGCCGCTAATGTTATGGTTTTTAGTGGCGTTTGTTTCTAAGCGCCGCTAACTTTAGGGCTTTTAG
1 CGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTGTTTCTAAGCGCCGCTAACTTTAGGGCTTTTAG
63195923 CGGCGTTTTTGATAATG
66 CGGCGTTTTTGATAATG
*
63195940 CGCCGCT-ATAGTTAAGGTTTTTAGTGGCGTTTGTTTGTAAAGCGCCGCTAA-TGTT-GGAG-TT
1 CGCCGCTAAT-GTTAAGGTTTTTAGTGGCGTTTGTTTCT-AAGCGCCGCTAACT-TTAGG-GCTT
63196001 TTAGCGGCGTTTT
62 TTAGCGGCGTTTT
63196014 GATGGAAACG
Statistics
Matches: 68, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
81 2 0.03
82 51 0.75
83 15 0.22
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (82 bp):
CGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTGTTTCTAAGCGCCGCTAACTTTAGGGCTTTTAG
CGGCGTTTTTGATAATG
Found at i:63196026 original size:82 final size:81
Alignment explanation
Indices: 63195837--63196027 Score: 221
Period size: 82 Copynumber: 2.3 Consensus size: 81
63195827 TCAGAGGGAC
* * * *
63195837 TTAGTGGCGTTTTTAAACAAACGCCGCTAATGTTATGGTTTTTAGTGGCGTTTGTTTCTAAGCGC
1 TTAGCGGCGTTTTT-GATAAACGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTGTTTCTAAGCGC
63195902 CGCTAACTTTAGGGCTT
65 CGCTAACTTTAGGGCTT
* *
63195919 TTAGCGGCGTTTTTGATAATGCGCCGCT-ATAGTTAAGGTTTTTAGTGGCGTTTGTTTGTAAAGC
1 TTAGCGGCGTTTTTGATAA-ACGCCGCTAAT-GTTAAGGTTTTTAGTGGCGTTTGTTTCT-AAGC
63195983 GCCGCTAA-TGTT-GGAG-TT
63 GCCGCTAACT-TTAGG-GCTT
63196001 TTAGCGGCG-TTTTGATGGAAACGCCGC
1 TTAGCGGCGTTTTTGAT--AAACGCCGC
63196028 AAAATACATT
Statistics
Matches: 95, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
81 12 0.13
82 66 0.69
83 17 0.18
ACGTcount: A:0.19, C:0.16, G:0.28, T:0.37
Consensus pattern (81 bp):
TTAGCGGCGTTTTTGATAAACGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTGTTTCTAAGCGCC
GCTAACTTTAGGGCTT
Found at i:63196628 original size:7 final size:7
Alignment explanation
Indices: 63196616--63196718 Score: 73
Period size: 7 Copynumber: 13.9 Consensus size: 7
63196606 GGATTAAAGT
63196616 TTAGGGG
1 TTAGGGG
63196623 TTAGGGG
1 TTAGGGG
**
63196630 TTAGGAAT
1 TTAGG-GG
63196638 TTAGGGG
1 TTAGGGG
63196645 TTAGGGG
1 TTAGGGG
**
63196652 TTAGTGAT
1 TTAG-GGG
63196660 TTAGGAGG
1 TTAGG-GG
*
63196668 -TAGGGT
1 TTAGGGG
63196674 TTATGGGG
1 TTA-GGGG
63196682 ATTTAGGGG
1 --TTAGGGG
*
63196691 TTAAGGG
1 TTAGGGG
*
63196698 TTAGGGAT
1 TTAGGG-G
63196706 TTAGGGG
1 TTAGGGG
63196713 TTAGGG
1 TTAGGG
63196719 TGTCAAGGGT
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
6 1 0.01
7 47 0.64
8 19 0.26
9 4 0.05
10 3 0.04
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:63196641 original size:22 final size:22
Alignment explanation
Indices: 63196615--63196718 Score: 138
Period size: 22 Copynumber: 4.6 Consensus size: 22
63196605 GGGATTAAAG
*
63196615 TTTAGGGGTTAGGGGTTAGGAA
1 TTTAGGGGTTAGGGGTTAGGGA
*
63196637 TTTAGGGGTTAGGGGTTAGTGA
1 TTTAGGGGTTAGGGGTTAGGGA
*
63196659 TTTAGGAGG-TAGGGTTTATGGGGA
1 TTTAGG-GGTTAGGGGTTA--GGGA
*
63196683 TTTAGGGGTTAAGGGTTAGGGA
1 TTTAGGGGTTAGGGGTTAGGGA
63196705 TTTAGGGGTTAGGG
1 TTTAGGGGTTAGGG
63196719 TGTCAAGGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
22 51 0.72
23 4 0.06
24 16 0.23
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (22 bp):
TTTAGGGGTTAGGGGTTAGGGA
Found at i:63198250 original size:11 final size:11
Alignment explanation
Indices: 63198222--63198264 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
63198212 ATCACTTTTC
*
63198222 TCCCCAAAAAT
1 TCCCCCAAAAT
63198233 TCCCCCCAAAAT
1 T-CCCCCAAAAT
* *
63198245 TTCCCCAAAAA
1 TCCCCCAAAAT
63198256 TCCCCCAAA
1 TCCCCCAAA
63198265 TCTAGAACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (11 bp):
TCCCCCAAAAT
Found at i:63199587 original size:24 final size:23
Alignment explanation
Indices: 63199559--63199656 Score: 58
Period size: 24 Copynumber: 4.2 Consensus size: 23
63199549 TAAACTTTTA
63199559 ATTTTAAAAATAATTGTAAATGTT
1 ATTTTAAAAATAATT-TAAATGTT
** * **
63199583 ATTTTTTAAATAA-TAAAACCTAT
1 ATTTTAAAAATAATTTAAATGT-T
* * *
63199606 ATTTTCAAAAATAATTT--TTATA
1 ATTTT-AAAAATAATTTAAATGTT
*
63199628 ATTTTAGAAATAATTGTAAATGTT
1 ATTTTAAAAATAATT-TAAATGTT
63199652 ATTTT
1 ATTTT
63199657 CTAAATATTA
Statistics
Matches: 52, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
21 9 0.17
22 10 0.19
23 8 0.15
24 24 0.46
25 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (23 bp):
ATTTTAAAAATAATTTAAATGTT
Found at i:63199675 original size:69 final size:69
Alignment explanation
Indices: 63199547--63199739 Score: 298
Period size: 69 Copynumber: 2.8 Consensus size: 69
63199537 TTTTATTGGT
* * * * * *
63199547 AATAAACTTT-TAATTTTAAAAATAATTGTAAATGTTATTTTTTAAATAATAAAACCTATATTTT
1 AATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTT
63199611 CAAA
66 CAAA
*
63199615 AATAATTTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTT
1 AATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTT
*
63199680 CAAT
66 CAAA
*
63199684 AATAAATTTTATAATTTTAGAAATAATTGTAAATGCTATTTTCTAAATATTAACAT
1 AATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACAT
63199740 AATACATAAC
Statistics
Matches: 114, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
68 8 0.07
69 106 0.93
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (69 bp):
AATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTT
CAAA
Found at i:63199780 original size:9 final size:9
Alignment explanation
Indices: 63199766--63199860 Score: 81
Period size: 9 Copynumber: 10.6 Consensus size: 9
63199756 ATTAATATTA
63199766 TACATAACT
1 TACATAACT
63199775 TACATAA--
1 TACATAACT
63199782 TACATAACT
1 TACATAACT
* *
63199791 TACGTTAATATT
1 TAC-AT-A-ACT
63199803 ATACATAACT
1 -TACATAACT
*
63199813 TACACAACT
1 TACATAACT
63199822 TACATAACT
1 TACATAACT
*
63199831 TAAATAACT
1 TACATAACT
*
63199840 TATATAA--
1 TACATAACT
63199847 TACATAACT
1 TACATAACT
63199856 TACAT
1 TACAT
63199861 TAATATGATA
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
7 13 0.19
9 45 0.65
10 3 0.04
11 2 0.03
12 3 0.04
13 3 0.04
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:63199809 original size:22 final size:21
Alignment explanation
Indices: 63199741--63199815 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 21
63199731 TATTAACATA
63199741 ATACATAACTATCACATTAATATT
1 ATACATAACT-T-AC-TTAATATT
63199765 ATACATAACTTAC---ATA--
1 ATACATAACTTACTTAATATT
63199781 ATACATAACTTACGTTAATATT
1 ATACATAACTTAC-TTAATATT
63199803 ATACATAACTTAC
1 ATACATAACTTAC
63199816 ACAACTTACA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
16 13 0.29
18 3 0.07
20 3 0.07
22 15 0.33
23 1 0.02
24 10 0.22
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.36
Consensus pattern (21 bp):
ATACATAACTTACTTAATATT
Found at i:63199827 original size:18 final size:18
Alignment explanation
Indices: 63199766--63199860 Score: 81
Period size: 16 Copynumber: 5.3 Consensus size: 18
63199756 ATTAATATTA
63199766 TACATAACTTACATAA--
1 TACATAACTTACATAACT
* *
63199782 TACATAACTTACGTTAATATT
1 TACATAACTTAC-AT-A-ACT
*
63199803 ATACATAACTTACACAACT
1 -TACATAACTTACATAACT
*
63199822 TACATAACTTAAATAACT
1 TACATAACTTACATAACT
*
63199840 TATATAA--TACATAACT
1 TACATAACTTACATAACT
63199856 TACAT
1 TACAT
63199861 TAATATGATA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
16 24 0.38
17 1 0.02
18 23 0.36
19 3 0.05
20 1 0.02
22 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (18 bp):
TACATAACTTACATAACT
Found at i:63199843 original size:38 final size:38
Alignment explanation
Indices: 63199740--63199859 Score: 125
Period size: 38 Copynumber: 3.0 Consensus size: 38
63199730 ATATTAACAT
* *
63199740 AATACATAACTATCACATTAATATTATACATAACTTACAT
1 AATACATAACT-T-ACAATAATATTATACATAACTTACAC
**
63199780 AATACATAACTTACGTTAATATTATACATAACTTACAC
1 AATACATAACTTACAATAATATTATACATAACTTACAC
63199818 AACTTACATAACTTA-AATAACTTATATAATACATAACTTACA
1 AA--TACATAACTTACAATAA--TAT-T-ATACATAACTTACA
63199860 TTAATATGAT
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
38 26 0.37
39 4 0.06
40 22 0.31
41 3 0.04
42 1 0.01
43 14 0.20
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (38 bp):
AATACATAACTTACAATAATATTATACATAACTTACAC
Found at i:63199951 original size:9 final size:9
Alignment explanation
Indices: 63199934--63199997 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
63199924 CATAAATATT
*
63199934 TAACCTACA
1 TAACTTACA
63199943 TAACTTACA
1 TAACTTACA
63199952 TAACTTACA
1 TAACTTACA
63199961 TAA--TACA
1 TAACTTACA
*
63199968 CAACTTACA
1 TAACTTACA
63199977 TAA--TACA
1 TAACTTACA
63199984 TAACCTT-CA
1 TAA-CTTACA
63199993 TAACT
1 TAACT
63199998 CATATATACT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
7 13 0.28
8 2 0.04
9 31 0.66
10 1 0.02
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (9 bp):
TAACTTACA
Found at i:63199995 original size:16 final size:16
Alignment explanation
Indices: 63199919--63199987 Score: 75
Period size: 16 Copynumber: 4.1 Consensus size: 16
63199909 AAGTTGTCGG
**
63199919 ACTTACATAAATATTTA
1 ACTTACAT-AATACATA
*
63199936 ACCTACATAACTTACATA
1 ACTTACATAA--TACATA
*
63199954 ACTTACATAATACACA
1 ACTTACATAATACATA
63199970 ACTTACATAATACATA
1 ACTTACATAATACATA
63199986 AC
1 AC
63199988 CTTCATAACT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 24 0.55
17 7 0.16
18 13 0.30
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (16 bp):
ACTTACATAATACATA
Found at i:63199997 original size:25 final size:25
Alignment explanation
Indices: 63199919--63199997 Score: 81
Period size: 25 Copynumber: 3.1 Consensus size: 25
63199909 AAGTTGTCGG
**
63199919 ACTTACATAAATATTTAACCTACATA
1 ACTTACAT-AATACATAACCTACATA
*
63199945 ACTTACATAACTTACATAA--TACACA
1 ACTTACATAA--TACATAACCTACATA
*
63199970 ACTTACATAATACATAACCTTCATA
1 ACTTACATAATACATAACCTACATA
63199995 ACT
1 ACT
63199998 CATATATACT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
23 7 0.16
25 24 0.55
26 8 0.18
27 5 0.11
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.32
Consensus pattern (25 bp):
ACTTACATAATACATAACCTACATA
Found at i:63205619 original size:18 final size:18
Alignment explanation
Indices: 63205596--63205641 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
63205586 GAATATGTTT
63205596 CAGCAGTCGCAACAGCCG
1 CAGCAGTCGCAACAGCCG
* *
63205614 CAGCAGCCGCAACTGCCG
1 CAGCAGTCGCAACAGCCG
*
63205632 CAACAGTCGC
1 CAGCAGTCGC
63205642 CGTCTTAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.41, G:0.26, T:0.07
Consensus pattern (18 bp):
CAGCAGTCGCAACAGCCG
Found at i:63205631 original size:9 final size:9
Alignment explanation
Indices: 63205603--63205637 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
63205593 TTTCAGCAGT
63205603 CGCAACAGC
1 CGCAACAGC
*
63205612 CGCAGCAGC
1 CGCAACAGC
*
63205621 CGCAACTGC
1 CGCAACAGC
63205630 CGCAACAG
1 CGCAACAG
63205638 TCGCCGTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.43, G:0.26, T:0.03
Consensus pattern (9 bp):
CGCAACAGC
Found at i:63205986 original size:43 final size:41
Alignment explanation
Indices: 63205886--63206239 Score: 404
Period size: 43 Copynumber: 8.2 Consensus size: 41
63205876 TCTGCCAAAA
* *
63205886 TTAGCGGCGTTTTTG-GGAAAAGCGCCGCTAAAAGGCCTTAGTCT
1 TTAGCGGCGTTTGTGTGG--AAGCGCCGCT-AAAGGTCTT-GTCT
* * * *
63205930 TTTGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCT
1 TTAGCGGCGTTTGTGTG-GAAGCGCCGCTAAAGGTCTTG-TCT
* * *
63205973 TTAGCGCCGTTTGTCGTGTAAGCGCCGCTAAATGGTTGTTGTCT
1 TTAGCGGCGTTTGT-GTGGAAGCGCCGCTAAA-GG-TCTTGTCT
63206017 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCGTTGTCT
1 TTAGCGGCGTTTGTGT-GGAAGCGCCGCTAAAGGTC-TTGTCT
63206060 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCTTGCTCT
1 TTAGCGGCGTTTGTGT-GGAAGCGCCGCTAAAGGTCTTG-TCT
* *
63206103 TTAGCGGCGTTTGTGCTGGATGCGCCGCTAAAGGTTTTGGTCT
1 TTAGCGGCGTTTGTG-TGGAAGCGCCGCTAAAGGTCTT-GTCT
*
63206146 TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTGTGTG-GAAGCGCCGCTAAAGGTCTT-GTCT
* *
63206189 TTAGCGGCGTTTGTGTTGGAAGCGCCGCTAAAGGTCTCGGCCT
1 TTAGCGGCGTTTGTG-TGGAAGCGCCGCTAAAGGTCT-TGTCT
63206232 TTAGCGGC
1 TTAGCGGC
63206240 ATTTTTTACT
Statistics
Matches: 274, Mismatches: 22, Indels: 29
0.84 0.07 0.09
Matches are distributed among these distances:
42 7 0.03
43 202 0.74
44 60 0.22
45 5 0.02
ACGTcount: A:0.16, C:0.20, G:0.33, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTGTGTGGAAGCGCCGCTAAAGGTCTTGTCT
Found at i:63206199 original size:129 final size:129
Alignment explanation
Indices: 63205886--63206239 Score: 473
Period size: 129 Copynumber: 2.7 Consensus size: 129
63205876 TCTGCCAAAA
* * * * * * **
63205886 TTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAAGGCCTTAGTCTTTTGCGGCATTTGTGAGAAAA
1 TTAGCGGCGTTTGTGTGAAAAGCGCCGCT-AAAGGTCTT-GTCTTTAGCGGCGTTTGTGTGGGAA
* * *
63205951 GCGCCGCTAAAGGTCTTGATCTTTAGCGCCGTTTGTCGTGTAAGCGCCGCTAAATGGTTGTTGTC
64 GCGCCGCTAAAGGTCTTGCTCTTTAGCGGCGTTTGTCGTGGAAGCGCCGCTAAATGGTTGTTGTC
63206016 T
129 T
**
63206017 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCGTTGTCTTTAGCGGCGTTTGTGTGGGAAG
1 TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTC-TTGTCTTTAGCGGCGTTTGTGTGGGAAG
*
63206082 CGCCGCTAAAGGTCTTGCTCTTTAGCGGCGTTTGT-GCTGGATGCGCCGCTAAA-GGTT-TTGGT
65 CGCCGCTAAAGGTCTTGCTCTTTAGCGGCGTTTGTCG-TGGAAGCGCCGCTAAATGGTTGTT-GT
63206144 CT
128 CT
*
63206146 TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGTTGGAAG
1 TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTT-GTCTTTAGCGGCGTTTGTGTGGGAAG
*
63206211 CGCCGCTAAAGGTCTCGGC-CTTTAGCGGC
65 CGCCGCTAAAGGTCT-TGCTCTTTAGCGGC
63206240 ATTTTTTACT
Statistics
Matches: 200, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
128 4 0.02
129 93 0.47
130 76 0.38
131 27 0.14
ACGTcount: A:0.16, C:0.20, G:0.33, T:0.31
Consensus pattern (129 bp):
TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGTCTTTAGCGGCGTTTGTGTGGGAAGC
GCCGCTAAAGGTCTTGCTCTTTAGCGGCGTTTGTCGTGGAAGCGCCGCTAAATGGTTGTTGTCT
Found at i:63206369 original size:22 final size:22
Alignment explanation
Indices: 63206337--63206379 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
63206327 TACCGGCGCT
* *
63206337 AAAAAGTGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
63206359 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
63206380 GTTTTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:63210583 original size:48 final size:48
Alignment explanation
Indices: 63210531--63210631 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 48
63210521 ACCTTTTGTT
**
63210531 GAAGACAACGAAGAAAGTGAAGCCTATGAACCAGAAGAAGAAGAAGAA
1 GAAGACAACGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAA
* **
63210579 GAAGATATTGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAA
1 GAAGACAACGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAA
63210627 GAAGA
1 GAAGA
63210632 ATTAATGGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.55, C:0.09, G:0.27, T:0.09
Consensus pattern (48 bp):
GAAGACAACGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAA
Found at i:63213754 original size:16 final size:16
Alignment explanation
Indices: 63213719--63213753 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
63213709 ATAAATAATC
*
63213719 AAAATGATTCAAACCT
1 AAAATGATCCAAACCT
63213735 AAAATGATCCAAA-CT
1 AAAATGATCCAAACCT
63213750 AAAA
1 AAAA
63213754 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAATGATCCAAACCT
Found at i:63218263 original size:15 final size:16
Alignment explanation
Indices: 63218243--63218272 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63218233 CACTGATGAG
63218243 TCAGTT-CATAGAAAC
1 TCAGTTCCATAGAAAC
63218258 TCAGTTCCATAGAAA
1 TCAGTTCCATAGAAA
63218273 TCTGACTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (16 bp):
TCAGTTCCATAGAAAC
Found at i:63218727 original size:45 final size:45
Alignment explanation
Indices: 63218678--63218764 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
63218668 TCGAAGACAA
*
63218678 TGAAGAAAGTGAAACCTATGAACCAGAAGAAGAAGAAGAAGATAT
1 TGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAAGATAT
63218723 TGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAAGA
1 TGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAAGA
63218765 ATTAATGGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.55, C:0.08, G:0.25, T:0.11
Consensus pattern (45 bp):
TGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAAGATAT
Found at i:63220307 original size:7 final size:7
Alignment explanation
Indices: 63220295--63220325 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
63220285 CTTAGAATTA
63220295 CCCATAG
1 CCCATAG
63220302 CCCATAG
1 CCCATAG
63220309 CCCATAG
1 CCCATAG
*
63220316 CCTATAG
1 CCCATAG
63220323 CCC
1 CCC
63220326 CTCCTTAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.26, C:0.45, G:0.13, T:0.16
Consensus pattern (7 bp):
CCCATAG
Found at i:63220831 original size:20 final size:20
Alignment explanation
Indices: 63220808--63220846 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
63220798 TTTTAAAATT
63220808 TATTTTTTAAAGAAAAATAC
1 TATTTTTTAAAGAAAAATAC
*
63220828 TATTTTTTAAGGAAAAATA
1 TATTTTTTAAAGAAAAATA
63220847 TTAAAAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (20 bp):
TATTTTTTAAAGAAAAATAC
Found at i:63229713 original size:15 final size:16
Alignment explanation
Indices: 63229693--63229722 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63229683 CACTGATGAG
63229693 TCAGTT-CATAGAAAC
1 TCAGTTCCATAGAAAC
63229708 TCAGTTCCATAGAAA
1 TCAGTTCCATAGAAA
63229723 TCTGACTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (16 bp):
TCAGTTCCATAGAAAC
Found at i:63230198 original size:51 final size:51
Alignment explanation
Indices: 63230128--63230226 Score: 173
Period size: 51 Copynumber: 1.9 Consensus size: 51
63230118 TTGAAGACAA
*
63230128 TGAAGAAAGTGAAACCTATGAACCAGAAGAAGAAGAAGAAGAAGAAGATAT
1 TGAAGAAAGGGAAACCTATGAACCAGAAGAAGAAGAAGAAGAAGAAGATAT
63230179 TGAAGAAAGGG-AACACTATGAACCAGAAGAAGAAGAAGAAGAAGAAGA
1 TGAAGAAAGGGAAAC-CTATGAACCAGAAGAAGAAGAAGAAGAAGAAGA
63230227 AGAAGAAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 3 0.07
51 43 0.93
ACGTcount: A:0.56, C:0.08, G:0.27, T:0.09
Consensus pattern (51 bp):
TGAAGAAAGGGAAACCTATGAACCAGAAGAAGAAGAAGAAGAAGAAGATAT
Found at i:63230211 original size:3 final size:3
Alignment explanation
Indices: 63230203--63230239 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
63230193 ACTATGAACC
63230203 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
63230240 TTAATGGAAG
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:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:63237878 original size:6 final size:6
Alignment explanation
Indices: 63237867--63237893 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
63237857 GAAGTGATAG
63237867 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
63237894 TCATCTACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:63245203 original size:2 final size:2
Alignment explanation
Indices: 63245196--63245224 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
63245186 CAAACAAATG
63245196 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
63245225 TTAGTATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:63245765 original size:37 final size:38
Alignment explanation
Indices: 63245690--63245777 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
63245680 GTGTTCATGT
* * * * *
63245690 TTCTTTATTTGTGCGAATCCTCGTAATAGAATCTGTAA
1 TTCTTTATTTATACCAATCCTCATAATAGAATCGGTAA
*
63245728 TTCTTTATTTATACCAAT-CTCATAATGGAATCGGTAA
1 TTCTTTATTTATACCAATCCTCATAATAGAATCGGTAA
*
63245765 TTCAGTTATTTAT
1 TTC-TTTATTTAT
63245778 TACTAATGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 19 0.45
38 23 0.55
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.44
Consensus pattern (38 bp):
TTCTTTATTTATACCAATCCTCATAATAGAATCGGTAA
Found at i:63246404 original size:15 final size:14
Alignment explanation
Indices: 63246384--63246444 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
63246374 TTGTTAATTG
63246384 TAATTAACTTTTAAT
1 TAATTAA-TTTTAAT
*
63246399 TAATTAAAGTTTAAT
1 TAATT-AATTTTAAT
* * *
63246414 TAAATAATTGTGAT
1 TAATTAATTTTAAT
63246428 TAATTATATTTTAAT
1 TAATTA-ATTTTAAT
63246443 TA
1 TA
63246445 CAAGTATATA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
14 11 0.31
15 23 0.64
16 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (14 bp):
TAATTAATTTTAAT
Found at i:63249065 original size:73 final size:72
Alignment explanation
Indices: 63248948--63249087 Score: 167
Period size: 72 Copynumber: 1.9 Consensus size: 72
63248938 GGCTCTTTAT
* **
63248948 GAGCTTCCTGATTAATGGCTCTCCGAAGCTTCCCGATATAGCTCGCTTGAACTT-CTCGATATAT
1 GAGCTTCCTGATTAATGGCTCTCCGAAGCTACCCGATATAGCTCGCACGAACTTCCT-GAT-TAT
63249012 GGCTATTCG
64 GGCTATTCG
* * * * *
63249021 GAGCTTCCTG-TTAATGTCTCTTCGGAGCTACCCGTTATTGGCTCGCACGAACTTCCTGATTATG
1 GAGCTTCCTGATTAATGGCTCTCCGAAGCTACCCGATA-TAGCTCGCACGAACTTCCTGATTATG
63249085 GCT
65 GCT
63249088 CTTATGAGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
72 29 0.51
73 26 0.46
74 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (72 bp):
GAGCTTCCTGATTAATGGCTCTCCGAAGCTACCCGATATAGCTCGCACGAACTTCCTGATTATGG
CTATTCG
Found at i:63255044 original size:16 final size:16
Alignment explanation
Indices: 63255001--63255045 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
63254991 AAAATTATAA
*
63255001 AAAAATTCAAAAATTT
1 AAAAATTCAAAAATAT
* *
63255017 AAAATTTTAAAAATAT
1 AAAAATTCAAAAATAT
63255033 AAAAATTCAAAAA
1 AAAAATTCAAAAA
63255046 AATTAACATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTCAAAAATAT
Found at i:63257250 original size:24 final size:25
Alignment explanation
Indices: 63257197--63257255 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
63257187 TGGATGAGTT
*
63257197 GAAAGAAGAA-GATGAAGAAGAGCA
1 GAAAGAAGAAGGCTGAAGAAGAGCA
* *
63257221 GGAAG-AGAAGGCTGAAGAAGAGCC
1 GAAAGAAGAAGGCTGAAGAAGAGCA
63257245 GAAAGAAGAAG
1 GAAAGAAGAAG
63257256 AAGATGAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.14
24 20 0.69
25 5 0.17
ACGTcount: A:0.53, C:0.07, G:0.37, T:0.03
Consensus pattern (25 bp):
GAAAGAAGAAGGCTGAAGAAGAGCA
Found at i:63257320 original size:21 final size:21
Alignment explanation
Indices: 63257271--63257320 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
63257261 GAAGAGGAAC
*
63257271 ATGAAGAAAAGGATGGAGATG
1 ATGAAGAGAAGGATGGAGATG
*
63257292 ATGAAGAGAAGGATGGGGATG
1 ATGAAGAGAAGGATGGAGATG
63257313 ATGAAGAG
1 ATGAAGAG
63257321 GAACAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (21 bp):
ATGAAGAGAAGGATGGAGATG
Found at i:63259898 original size:15 final size:15
Alignment explanation
Indices: 63259878--63259945 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
63259868 GGATGAGTCT
* *
63259878 GAAGAAGAGGAGGAG
1 GAAGAAGAAGAGAAG
*
63259893 GAAGAAGAAGAAAAG
1 GAAGAAGAAGAGAAG
63259908 GAAGAAGAAGAGAAG
1 GAAGAAGAAGAGAAG
* * *
63259923 GAAGAGGAACAGAAT
1 GAAGAAGAAGAGAAG
63259938 GAAGAAGA
1 GAAGAAGA
63259946 GAAAAATGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.57, C:0.01, G:0.40, T:0.01
Consensus pattern (15 bp):
GAAGAAGAAGAGAAG
Found at i:63259926 original size:27 final size:27
Alignment explanation
Indices: 63259896--63259948 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
63259886 GGAGGAGGAA
63259896 GAAGAAGAAAAGGAA-GAAGAAGAGAAG
1 GAAGAAGAAAA-GAATGAAGAAGAGAAG
* *
63259923 GAAGAGGAACAGAATGAAGAAGAGAA
1 GAAGAAGAAAAGAATGAAGAAGAGAA
63259949 AAATGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.60, C:0.02, G:0.36, T:0.02
Consensus pattern (27 bp):
GAAGAAGAAAAGAATGAAGAAGAGAAG
Found at i:63272022 original size:21 final size:21
Alignment explanation
Indices: 63271996--63272036 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63271986 ATCTGCTCAA
* *
63271996 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
63272017 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
63272037 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:63279618 original size:23 final size:23
Alignment explanation
Indices: 63279555--63279619 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
63279545 TTTTAATGTA
* *
63279555 TGAAATATAAATTTTAAATATTTG
1 TGAAAT-TTAATTTTAATTATTTG
* *
63279579 T-AAGTAATTAATATTAATTATTTG
1 TGAA--ATTTAATTTTAATTATTTG
63279603 TGAAATTTAATTTTAAT
1 TGAAATTTAATTTTAAT
63279620 ATATAATCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
23 13 0.41
24 16 0.50
25 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (23 bp):
TGAAATTTAATTTTAATTATTTG
Found at i:63283077 original size:16 final size:16
Alignment explanation
Indices: 63283045--63283081 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
63283035 ATGCATATAC
63283045 ATATACATATATATGT
1 ATATACATATATATGT
* *
63283061 ATATGCATATATGTGT
1 ATATACATATATATGT
63283077 ATATA
1 ATATA
63283082 TATGATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (16 bp):
ATATACATATATATGT
Found at i:63296985 original size:16 final size:16
Alignment explanation
Indices: 63296964--63296997 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
63296954 TGGTTCGCTA
63296964 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
63296980 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
63296996 TA
1 TA
63296998 ATAGCAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TATTGGATTAGAGGTG
Found at i:63297274 original size:17 final size:18
Alignment explanation
Indices: 63297233--63297267 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
63297223 TTATTATTAA
*
63297233 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
63297251 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
63297268 TTTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:63298271 original size:10 final size:9
Alignment explanation
Indices: 63298253--63298277 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
63298243 TTGTTCATTG
63298253 TTATTTTTT
1 TTATTTTTT
63298262 TTATTTTTT
1 TTATTTTTT
63298271 TTATTTT
1 TTATTTT
63298278 GATTTGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTATTTTTT
Found at i:63299234 original size:11 final size:10
Alignment explanation
Indices: 63299215--63299253 Score: 60
Period size: 11 Copynumber: 3.7 Consensus size: 10
63299205 TCACAGGCAC
63299215 ATTTATATAT
1 ATTTATATAT
63299225 ATTATATATAT
1 ATT-TATATAT
63299236 ATTTATATAAT
1 ATTTATAT-AT
63299247 ATTTATA
1 ATTTATA
63299254 CGTATTTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTATATAT
Found at i:63299259 original size:21 final size:21
Alignment explanation
Indices: 63299215--63299260 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
63299205 TCACAGGCAC
*
63299215 ATTTATATATATTATATATAT
1 ATTTATATATATTATATACAT
*
63299236 ATTTATATAATATT-TATACGT
1 ATTTATAT-ATATTATATACAT
63299257 ATTT
1 ATTT
63299261 GCACATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTATATATATTATATACAT
Found at i:63304130 original size:11 final size:11
Alignment explanation
Indices: 63304114--63304141 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
63304104 AATCGGGAGG
63304114 CGAAGGTAGAA
1 CGAAGGTAGAA
63304125 CGAAGGTAGAA
1 CGAAGGTAGAA
63304136 CGAAGG
1 CGAAGG
63304142 AAGAGGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.39, T:0.07
Consensus pattern (11 bp):
CGAAGGTAGAA
Found at i:63304479 original size:16 final size:16
Alignment explanation
Indices: 63304447--63304483 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
63304437 ATGCATATAC
63304447 ATATACATATATATGT
1 ATATACATATATATGT
* *
63304463 ATATGCATATATGTGT
1 ATATACATATATATGT
63304479 ATATA
1 ATATA
63304484 TATGATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (16 bp):
ATATACATATATATGT
Found at i:63309897 original size:30 final size:30
Alignment explanation
Indices: 63309857--63309930 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
63309847 TGAGGAGTGG
*
63309857 ATTCCTCCACCACCTCCTGATACTGAACAA
1 ATTCCTCCACCACCTCCTGATAATGAACAA
* *
63309887 ATTCCACCACCTCCTCCTGATAATGAACAA
1 ATTCCTCCACCACCTCCTGATAATGAACAA
* *
63309917 GTTCCTCCCCCACC
1 ATTCCTCCACCACC
63309931 ACCTAATGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.27, C:0.43, G:0.07, T:0.23
Consensus pattern (30 bp):
ATTCCTCCACCACCTCCTGATAATGAACAA
Found at i:63314518 original size:11 final size:10
Alignment explanation
Indices: 63314492--63314520 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
63314482 TTATAAAATC
63314492 TTAAAAAGTT
1 TTAAAAAGTT
63314502 TTAAAAAGTT
1 TTAAAAAGTT
63314512 TTAAAAAGT
1 TTAAAAAGT
63314521 AAAAACTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
TTAAAAAGTT
Found at i:63317321 original size:7 final size:7
Alignment explanation
Indices: 63317309--63317333 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
63317299 CGATCCATCA
63317309 TCGAATT
1 TCGAATT
63317316 TCGAATT
1 TCGAATT
63317323 TCGAATT
1 TCGAATT
63317330 TCGA
1 TCGA
63317334 GATTGCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (7 bp):
TCGAATT
Found at i:63317871 original size:16 final size:15
Alignment explanation
Indices: 63317824--63317879 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
63317814 TTATTTCGTC
63317824 ATTTTAAGTTTA-AT
1 ATTTTAAGTTTAGAT
* *
63317838 A-TTTGAGTTTGGATT
1 ATTTTAAGTTTAGA-T
63317853 ATTTTAAGTTTAGAGT
1 ATTTTAAGTTTAGA-T
*
63317869 ATTTTAGGTTT
1 ATTTTAAGTTT
63317880 TGATTAAGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 8 0.24
14 2 0.06
15 2 0.06
16 21 0.64
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (15 bp):
ATTTTAAGTTTAGAT
Done.