Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 33 of 54
Found at i:13418258 original size:54 final size:54
Alignment explanation
Indices: 13418174--13418282 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
13418164 GTTTAAGAGA
* *
13418174 TAGTTTTCATTTCTTCTTCGAGTGTGGAGTAAAGTATTCATAATCATGCCTAAT
1 TAGTTTCCATTTCTTCTTCGAGTGTAGAGTAAAGTATTCATAATCATGCCTAAT
*
13418228 TAGTTTCCATTTCTTCTTCGAGTGTAGAGTAGAGTATTCATAATCATGCCTAAT
1 TAGTTTCCATTTCTTCTTCGAGTGTAGAGTAAAGTATTCATAATCATGCCTAAT
13418282 T
1 T
13418283 TCGTGGACAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.42
Consensus pattern (54 bp):
TAGTTTCCATTTCTTCTTCGAGTGTAGAGTAAAGTATTCATAATCATGCCTAAT
Found at i:13419073 original size:22 final size:22
Alignment explanation
Indices: 13419041--13419086 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
13419031 CGTTGTTCAT
*
13419041 GCATTGCGTGACCCAATTTTAG
1 GCATTGCGTGACCCAATATTAG
* *
13419063 GCATTGTGTGACCCCATATTAG
1 GCATTGCGTGACCCAATATTAG
13419085 GC
1 GC
13419087 TCATTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (22 bp):
GCATTGCGTGACCCAATATTAG
Found at i:13421224 original size:13 final size:13
Alignment explanation
Indices: 13421206--13421230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13421196 ATTTTCAAAA
13421206 ATTTTATAAAATT
1 ATTTTATAAAATT
13421219 ATTTTATAAAAT
1 ATTTTATAAAAT
13421231 CTCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:13422431 original size:28 final size:29
Alignment explanation
Indices: 13422383--13422446 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
13422373 GTAAATTTTT
** *
13422383 AAAAATTACACTTTTATCCCCGTAAAGTG
1 AAAAATTACACTTTTATCCCCAAAAACTG
13422412 AAAAATTACA-TTTT-TGCCCCAAAAACTG
1 AAAAATTACACTTTTAT-CCCCAAAAACTG
13422440 AAAAATT
1 AAAAATT
13422447 GCCCATAGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 20 0.65
29 10 0.32
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.30
Consensus pattern (29 bp):
AAAAATTACACTTTTATCCCCAAAAACTG
Found at i:13425929 original size:20 final size:20
Alignment explanation
Indices: 13425904--13425943 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13425894 TTATATGAAT
*
13425904 AAAAGAAAATAAGAATAAAA
1 AAAAGAAAATAAGAAGAAAA
* *
13425924 AAAAGAGAGTAAGAAGAAAA
1 AAAAGAAAATAAGAAGAAAA
13425944 CCAAGTCGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
AAAAGAAAATAAGAAGAAAA
Found at i:13426930 original size:28 final size:28
Alignment explanation
Indices: 13426890--13426945 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13426880 AGTTTACCAC
13426890 AATTTGGTGGTAGATAAAAATAAGTCTT
1 AATTTGGTGGTAGATAAAAATAAGTCTT
13426918 AATTTGGTGGTAGATAAAAATAAGTCTT
1 AATTTGGTGGTAGATAAAAATAAGTCTT
13426946 GATAATGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (28 bp):
AATTTGGTGGTAGATAAAAATAAGTCTT
Found at i:13433904 original size:6 final size:6
Alignment explanation
Indices: 13433895--13433924 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
13433885 ACATATGCAA
13433895 AAAAAT AAAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAA
13433925 AAATGAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:13434386 original size:13 final size:13
Alignment explanation
Indices: 13434368--13434430 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
13434358 AAAGTTATTC
13434368 AATAAAAATAATA
1 AATAAAAATAATA
*
13434381 AATAAATAACAATA
1 AATAAA-AATAATA
* *
13434395 GATAAAAA-AA-G
1 AATAAAAATAATA
*
13434406 GATAAAAATAATA
1 AATAAAAATAATA
13434419 AATAAAAATAAT
1 AATAAAAATAAT
13434431 TCAAATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
11 8 0.19
12 4 0.10
13 19 0.45
14 11 0.26
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (13 bp):
AATAAAAATAATA
Found at i:13434410 original size:21 final size:21
Alignment explanation
Indices: 13434369--13434425 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
13434359 AAGTTATTCA
13434369 ATAAAAATAATAAAT--AA--
1 ATAAAAATAATAAATAAAAGG
*
13434386 ATAACAATAGATAAA-AAAAGG
1 ATAAAAATA-ATAAATAAAAGG
13434407 ATAAAAATAATAAATAAAA
1 ATAAAAATAATAAATAAAA
13434426 ATAATTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 2 0.06
20 5 0.16
21 12 0.38
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (21 bp):
ATAAAAATAATAAATAAAAGG
Found at i:13434785 original size:11 final size:11
Alignment explanation
Indices: 13434723--13434778 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
13434713 TGATAATATG
13434723 AAATAA-AATGA
1 AAATAATAAT-A
*
13434734 AAATAATAATT
1 AAATAATAATA
*
13434745 AAATAATAAAA
1 AAATAATAATA
* * *
13434756 AAATGACAAAA
1 AAATAATAATA
13434767 AAATAATAATA
1 AAATAATAATA
13434778 A
1 A
13434779 TAAAATAGAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
11 33 0.92
12 3 0.08
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (11 bp):
AAATAATAATA
Found at i:13435736 original size:16 final size:16
Alignment explanation
Indices: 13435715--13435746 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13435705 AAAACTTAAG
13435715 CTCAAGTTACTAGTAT
1 CTCAAGTTACTAGTAT
13435731 CTCAAGTTACTAGTAT
1 CTCAAGTTACTAGTAT
13435747 TGGTGGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
CTCAAGTTACTAGTAT
Found at i:13437361 original size:512 final size:511
Alignment explanation
Indices: 13436231--13437483 Score: 2007
Period size: 512 Copynumber: 2.5 Consensus size: 511
13436221 GAGCACAATG
*
13436231 TCAAATTTAAGAAGCTTGGAGCTGCAGTCATTACCAGCATTGAAGAGTATATTGAAAGAGCCAAC
1 TCAAATTTAAGAAGCTTGGAGCTGCAGTCATTACCAGCATTGGAGAGTATATTGAAAGAGCCAAC
* *
13436296 TCATCATGTAAGCCTACAAAGTCTGAAGGAAGTAATAATTAATGACTGTGATAAACTGAAATCTA
66 TCATCATGTAAGCCTACAAAGTCTGAAGGAAGTAATAATTCATGGCTGTGATAAACTGAAATCTA
* * ** * * *
13436361 TTTTCTCACCTTACCTTGCTCAAAGTCTGTTGCATCTAAAACAACTCCAA-ATA-TTTGAAT-AC
131 TCTTCTCACCTTACCTTGCTCAAAGTCTGTTGCATCTAGAACATGT-CAAGATAGATAG-ATGCC
* *
13436423 AAAAATTTAGAACAAGTCTTTGCTTTTGACAAAGAGATGGCTGAGCTAGAGGTACCTCTTATCTC
194 AAAAA-TTAGAGCAAGTCTTTGCTTTTGACAAAGAAATGGCTGAGCTAGAGGTACCTCTTATCTC
* *
13436488 TCCATTTTTCCTTTAAGAATGCTCTCATATATATATTTTTTCTAATTACCTTTCTTTTTATTGAA
258 TCCATTTTTCCTTTAAGAATGCTCTCATATATATACTTTTTCAAATTACCTTTCTTTTTATTGAA
*
13436553 TTATCAAATATATAAATAATTACTATCTAATTTTTCTAAATTATTAACTTTTAATACTTCTTTCT
323 TTATCAAATATATAAATAATTACTATCTAATCTTTCTAAATTATTAACTTTTAATACTTCTTTCT
*
13436618 ACTCTTTTAAAAAAAATGTATTTCTTCTCAATAATTAAGATCAAGTATAATGAATTAATTTTCAA
388 ACTCTTTTAAAAAAAATGTATTTCTTCTCAATAATTAAGATCAAGTATAATGAATTAATATTCAA
13436683 TACTTAATTAATAAATTTTATATTTTTCTTTATGTGAGGTAAATCAGGCAACACCACTC
453 TACTTAATTAATAAATTTTATATTTTTCTTTATGTGAGGTAAATCAGGCAACACCACTC
* *
13436742 TCAAATTTAAGAAGCTTGGAGCTACAGTCATTACCAGCATTGGAGAGTATATTGAAAAAGCCAAC
1 TCAAATTTAAGAAGCTTGGAGCTGCAGTCATTACCAGCATTGGAGAGTATATTGAAAGAGCCAAC
* * * *
13436807 TCATCATGTAAGCCTACAAAGTTTGAAGGAAGTAACAATTCATGGCTGTGATAAACTAAAATATA
66 TCATCATGTAAGCCTACAAAGTCTGAAGGAAGTAATAATTCATGGCTGTGATAAACTGAAATCTA
*
13436872 TCTTCTCACCTTACCTTGCTCAAAGTCTATTGCATCTAGAACATGTCAAGATAGATAGATGCCAA
131 TCTTCTCACCTTACCTTGCTCAAAGTCTGTTGCATCTAGAACATGTCAAGATAGATAGATGCCAA
* * *
13436937 ATATTAGAGCAAGTCTTTGTTTTTGACAAAGAAATGGCTGAGCTAGAGGTACCTGTTATCTCTCC
196 AAATTAGAGCAAGTCTTTGCTTTTGACAAAGAAATGGCTGAGCTAGAGGTACCTCTTATCTCTCC
13437002 ATTTTTCCTTTAAGAATGCTCTCATATAT-T-CTTTTTCAAATTACCTTTCTTTTTATTGAATTA
261 ATTTTTCCTTTAAGAATGCTCTCATATATATACTTTTTCAAATTACCTTTCTTTTTATTGAATTA
* *
13437065 TCAAATATATAAATAATTACTATCTAATCTTTCTAAATTGTTAACTTTTAATACTTTTTTCTACT
326 TCAAATATATAAATAATTACTATCTAATCTTTCTAAATTATTAACTTTTAATACTTCTTTCTAC-
* *** *
13437130 TTTTTTTTTAAAAATGTATTTCTTCTCAATAATTAAGATCAAGTATAATGAGTTAATATTCAAAT
390 TCTTTTAAAAAAAATGTATTTCTTCTCAATAATTAAGATCAAGTATAATGAATTAATATTC-AA-
*
13437195 TTA-TTAATTAATAAATTTTATATTTTTCTTTATGTGAGGTAAATCAGGCAGA-ACCATTC
453 -TACTTAATTAATAAATTTTATATTTTTCTTTATGTGAGGTAAATCAGGCA-ACACCACTC
* * *
13437254 TCAAATTTAAGAAGCTTGGAGCTGCGGTCATTACCAACAGTGGAGAGTATATTGAAAGAGCCAAC
1 TCAAATTTAAGAAGCTTGGAGCTGCAGTCATTACCAGCATTGGAGAGTATATTGAAAGAGCCAAC
* * * *
13437319 TCATCATGTAAGCCTACAAAGTCTGGAGTAAGTAATAATTCATGGTTGTGATAAATTGAAATCTA
66 TCATCATGTAAGCCTACAAAGTCTGAAGGAAGTAATAATTCATGGCTGTGATAAACTGAAATCTA
*
13437384 TCTTCTCACCTTACTTTGCTCAAAGTCTGTTGCATCTAGAACATGTCAAGATAGATAGATGCCAA
131 TCTTCTCACCTTACCTTGCTCAAAGTCTGTTGCATCTAGAACATGTCAAGATAGATAGATGCCAA
13437449 AAATTAGAGCAAGTCTTTGCTTTTGACAAAGAAAT
196 AAATTAGAGCAAGTCTTTGCTTTTGACAAAGAAAT
13437484 CTATCTCCAT
Statistics
Matches: 683, Mismatches: 51, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
509 92 0.13
510 59 0.09
511 256 0.37
512 273 0.40
513 3 0.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (511 bp):
TCAAATTTAAGAAGCTTGGAGCTGCAGTCATTACCAGCATTGGAGAGTATATTGAAAGAGCCAAC
TCATCATGTAAGCCTACAAAGTCTGAAGGAAGTAATAATTCATGGCTGTGATAAACTGAAATCTA
TCTTCTCACCTTACCTTGCTCAAAGTCTGTTGCATCTAGAACATGTCAAGATAGATAGATGCCAA
AAATTAGAGCAAGTCTTTGCTTTTGACAAAGAAATGGCTGAGCTAGAGGTACCTCTTATCTCTCC
ATTTTTCCTTTAAGAATGCTCTCATATATATACTTTTTCAAATTACCTTTCTTTTTATTGAATTA
TCAAATATATAAATAATTACTATCTAATCTTTCTAAATTATTAACTTTTAATACTTCTTTCTACT
CTTTTAAAAAAAATGTATTTCTTCTCAATAATTAAGATCAAGTATAATGAATTAATATTCAATAC
TTAATTAATAAATTTTATATTTTTCTTTATGTGAGGTAAATCAGGCAACACCACTC
Found at i:13441462 original size:18 final size:18
Alignment explanation
Indices: 13441427--13441463 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13441417 GTTTTTCTTA
*
13441427 CTATTTATTTTTTATTTT
1 CTATTTATTTTTCATTTT
*
13441445 CTATTTATTTTTCCTTTT
1 CTATTTATTTTTCATTTT
13441463 C
1 C
13441464 CTTTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (18 bp):
CTATTTATTTTTCATTTT
Found at i:13443570 original size:35 final size:34
Alignment explanation
Indices: 13443531--13443632 Score: 107
Period size: 35 Copynumber: 2.9 Consensus size: 34
13443521 CACTCAGCCA
* * *
13443531 ATGTGGACTCCTTACACGCACAAGGCAATATCATC
1 ATGTGCACTCC-TACTCGCACAACGCAATATCATC
***
13443566 ATGTGCACTTCCTACTCGCACATTTCAATATCATC
1 ATGTGCAC-TCCTACTCGCACAACGCAATATCATC
*
13443601 GTGTGCACTCCCTACTCGCAC-ACGCAATATCA
1 ATGTGCACT-CCTACTCGCACAACGCAATATCA
13443633 CCACCCACAC
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
34 9 0.16
35 44 0.79
36 3 0.05
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.26
Consensus pattern (34 bp):
ATGTGCACTCCTACTCGCACAACGCAATATCATC
Found at i:13453010 original size:22 final size:23
Alignment explanation
Indices: 13452967--13453010 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13452957 TAGGCGAGCC
*
13452967 AGCCCGCACAGCCCCAGGCAGAT
1 AGCCCGCACAGCCCCAGACAGAT
*
13452990 AGCCTGCACAG-CCCAGACAGA
1 AGCCCGCACAGCCCCAGACAGA
13453011 CAGTCTGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.30, C:0.41, G:0.25, T:0.05
Consensus pattern (23 bp):
AGCCCGCACAGCCCCAGACAGAT
Found at i:13460075 original size:35 final size:34
Alignment explanation
Indices: 13460020--13460189 Score: 189
Period size: 34 Copynumber: 4.9 Consensus size: 34
13460010 CACTCAGCCA
*
13460020 ATGTGCACTCCCTACACGCACAAGGCAATATCATC
1 ATGTGCACTCCCTACTCGCACAA-GCAATATCATC
* **
13460055 ATGTGCACTCTCTACTCGCACATTTCAATATCATC
1 ATGTGCACTCCCTACTCGCACA-AGCAATATCATC
* * * * *
13460090 GTGTGCACTTCCTACTCGAACACGTAATATCATC
1 ATGTGCACTCCCTACTCGCACAAGCAATATCATC
*
13460124 ATGTGCATTCCCTACTCGCACACA-CAATATCATC
1 ATGTGCACTCCCTACTCGCACA-AGCAATATCATC
* * *
13460158 GTGTGCACTCCCTACTCGCACACGTAATATCA
1 ATGTGCACTCCCTACTCGCACAAGCAATATCA
13460190 CCAATCACAC
Statistics
Matches: 111, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
34 63 0.57
35 48 0.43
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (34 bp):
ATGTGCACTCCCTACTCGCACAAGCAATATCATC
Found at i:13460175 original size:68 final size:69
Alignment explanation
Indices: 13460021--13460189 Score: 241
Period size: 68 Copynumber: 2.4 Consensus size: 69
13460011 ACTCAGCCAA
* * * * **
13460021 TGTGCACTCCCTACACGCACAAGGCAATATCATCATGTGCACTCTCTACTCGCACATTTCAATAT
1 TGTGCACTCCCTACTCGCAC-ACGTAATATCATCATGTGCACTCCCTACTCGCACATCACAATAT
13460086 CATCG
65 CATCG
* * *
13460091 TGTGCACTTCCTACTCGAACACGTAATATCATCATGTGCATTCCCTACTCGCACA-CACAATATC
1 TGTGCACTCCCTACTCGCACACGTAATATCATCATGTGCACTCCCTACTCGCACATCACAATATC
13460155 ATCG
66 ATCG
13460159 TGTGCACTCCCTACTCGCACACGTAATATCA
1 TGTGCACTCCCTACTCGCACACGTAATATCA
13460190 CCAATCACAC
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
68 40 0.45
69 31 0.35
70 17 0.19
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (69 bp):
TGTGCACTCCCTACTCGCACACGTAATATCATCATGTGCACTCCCTACTCGCACATCACAATATC
ATCG
Found at i:13471367 original size:3 final size:3
Alignment explanation
Indices: 13471359--13471387 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13471349 TCCCTTTTGG
13471359 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
13471388 CTTGAGCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:13473283 original size:2 final size:2
Alignment explanation
Indices: 13473276--13473331 Score: 103
Period size: 2 Copynumber: 27.5 Consensus size: 2
13473266 TTGTGGGAAA
13473276 TC TC TC TC TC TC TC TNC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC T-C TC TC TC TC TC TC TC TC TC TC TC TC TC
13473319 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
13473332 AAAACACCTA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 51 0.96
3 2 0.04
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:13475251 original size:22 final size:22
Alignment explanation
Indices: 13475223--13475273 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
13475213 CATCTCCCAT
13475223 AAACCAGC-AGTAAATCAATCAC
1 AAACCAGCAAG-AAATCAATCAC
**
13475245 AAACCAGCAAGAAATCTCTCAC
1 AAACCAGCAAGAAATCAATCAC
13475267 AAACCAG
1 AAACCAG
13475274 TAGCAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.49, C:0.29, G:0.10, T:0.12
Consensus pattern (22 bp):
AAACCAGCAAGAAATCAATCAC
Found at i:13475281 original size:22 final size:21
Alignment explanation
Indices: 13475214--13475273 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
13475204 GAACACTGTC
* * *
13475214 ATCTCCCATAAACCAGCAGTAA
1 ATCTCTCACAAACCAGAAG-AA
**
13475236 ATCAATCACAAACCAGCAAGAA
1 ATCTCTCACAAACCAG-AAGAA
13475258 ATCTCTCACAAACCAG
1 ATCTCTCACAAACCAG
13475274 TAGCAAATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.45, C:0.32, G:0.08, T:0.15
Consensus pattern (21 bp):
ATCTCTCACAAACCAGAAGAA
Found at i:13487761 original size:94 final size:93
Alignment explanation
Indices: 13487618--13487808 Score: 321
Period size: 94 Copynumber: 2.1 Consensus size: 93
13487608 CTTGGCAGAT
* *
13487618 GAACAACATCATTATTTCTTCAACTTTGTTTTGTTAAGAATCAAATTAATTTCTGAATGGGCTTG
1 GAACAACATCATTATTTCTTCAACTTTGTTTTGTTAAGAATAAAATTAATTTCTGAAT-GGCTTC
*
13487683 GGGAGTGGATCAACAATGTATGGATTTGA
65 GGGAGTGGATCAACAATGAATGGATTTGA
*
13487712 GAACAACATCATTATTTCTTCAACTTTGTTTTGTTAATAATAAAATTAATTTCTGAATGGCTTCG
1 GAACAACATCATTATTTCTTCAACTTTGTTTTGTTAAGAATAAAATTAATTTCTGAATGGCTTCG
*
13487777 GGAGTGGATCGACAATGAATGGATTTGA
66 GGAGTGGATCAACAATGAATGGATTTGA
13487805 -AACA
1 GAACA
13487809 TCAAACTTCG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 4 0.04
93 32 0.35
94 56 0.61
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (93 bp):
GAACAACATCATTATTTCTTCAACTTTGTTTTGTTAAGAATAAAATTAATTTCTGAATGGCTTCG
GGAGTGGATCAACAATGAATGGATTTGA
Found at i:13490041 original size:68 final size:68
Alignment explanation
Indices: 13489919--13490186 Score: 329
Period size: 68 Copynumber: 3.9 Consensus size: 68
13489909 TCACATACCA
* * * * ** *
13489919 ACTTACTCATCTCAAAAGGTATATAGAAAATACATCATATACATAATCTCATGGCATTCATCATG
1 ACTTAATCATCTCATATGGTATATGGAATTTACATCATATACATAATCTTATGGCATTCATCATG
**
13489984 TTT
66 CAT
* * * * * * * *
13489987 TCTCAATCATCTCATCTAGTATATGGAATGTACATCATATACATTATCTAATGGCATTTATCATG
1 ACTTAATCATCTCATATGGTATATGGAATTTACATCATATACATAATCTTATGGCATTCATCATG
13490052 CAT
66 CAT
* * * * *
13490055 ACTTAATCACCTGATATGGTATATGGAATTTACATCATATACATAATCTTATAGTATACATCATG
1 ACTTAATCATCTCATATGGTATATGGAATTTACATCATATACATAATCTTATGGCATTCATCATG
13490120 CAT
66 CAT
*
13490123 ACTTAATTATCTCATATGGTATATGGAATTTACATCATATACATAATCTTATGGCATTCATCAT
1 ACTTAATCATCTCATATGGTATATGGAATTTACATCATATACATAATCTTATGGCATTCATCAT
13490187 ACCAAACATG
Statistics
Matches: 166, Mismatches: 34, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 166 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (68 bp):
ACTTAATCATCTCATATGGTATATGGAATTTACATCATATACATAATCTTATGGCATTCATCATG
CAT
Found at i:13502166 original size:13 final size:13
Alignment explanation
Indices: 13502148--13502211 Score: 78
Period size: 13 Copynumber: 4.8 Consensus size: 13
13502138 NNNNNNNNAC
13502148 TATATATATAATA
1 TATATATATAATA
*
13502161 TATATATATACTA
1 TATATATATAATA
13502174 TATATATAT-ATA
1 TATATATATAATA
13502186 TATATAGTAGTAAT-
1 TATATA-TA-TAATA
13502200 TATATTATATAA
1 TATA-TATATAA
13502212 GAACACAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
12 8 0.18
13 26 0.58
14 7 0.16
15 4 0.09
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (13 bp):
TATATATATAATA
Found at i:13502210 original size:2 final size:2
Alignment explanation
Indices: 13502148--13502191 Score: 72
Period size: 2 Copynumber: 22.0 Consensus size: 2
13502138 NNNNNNNNAC
13502148 TA TA TA TA TA -A TA TA TA TA TA TA CTA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
13502190 TA
1 TA
13502192 GTAGTAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 37 0.93
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13504931 original size:15 final size:16
Alignment explanation
Indices: 13504911--13504940 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13504901 AAACCATATT
13504911 TTTTTATTTT-ATTAA
1 TTTTTATTTTGATTAA
13504926 TTTTTATTTTGATTA
1 TTTTTATTTTGATTA
13504941 TCATAGGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTATTTTGATTAA
Found at i:13505492 original size:24 final size:24
Alignment explanation
Indices: 13505464--13505509 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
13505454 ATATGCAGAT
13505464 GCAGTCAATGAAGTTGGAGATCTA
1 GCAGTCAATGAAGTTGGAGATCTA
*
13505488 GCAGTCAATGTAGTTGGAGATC
1 GCAGTCAATGAAGTTGGAGATC
13505510 CAGCGGGCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (24 bp):
GCAGTCAATGAAGTTGGAGATCTA
Found at i:13507126 original size:26 final size:26
Alignment explanation
Indices: 13507086--13507137 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
13507076 AACATTATTC
*
13507086 TGTATCATCTCCATATTATTCTTTGT
1 TGTATCATCTACATATTATTCTTTGT
*
13507112 TGTATCATTTACATATTATTCTTTGT
1 TGTATCATCTACATATTATTCTTTGT
13507138 ATTCATTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (26 bp):
TGTATCATCTACATATTATTCTTTGT
Found at i:13507137 original size:23 final size:23
Alignment explanation
Indices: 13507079--13507144 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 23
13507069 TAACACTAAC
* *
13507079 ATTATTC--TGTATCATCTCCAT
1 ATTATTCTTTGTATCATTTACAT
13507100 ATTATTCTTTGTTGTATCATTTACAT
1 ATTATTC--T-TTGTATCATTTACAT
13507126 ATTATTCTTTGTATTCATT
1 ATTATTCTTTGTA-TCATT
13507145 CATGTGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
21 7 0.19
23 5 0.14
24 6 0.16
26 19 0.51
ACGTcount: A:0.23, C:0.15, G:0.06, T:0.56
Consensus pattern (23 bp):
ATTATTCTTTGTATCATTTACAT
Found at i:13507997 original size:257 final size:256
Alignment explanation
Indices: 13507501--13508017 Score: 770
Period size: 257 Copynumber: 2.0 Consensus size: 256
13507491 TGAGTAGTAA
*
13507501 ATATGGATCGTGTGAACAGTTAAGATTTAAATCACGTGAGTATTTGATATTTACTCCCGTTAGTA
1 ATATGGATCGCGTGAACAGTTAAGATTTAAATCACGTGAGTATTTGATATTTACTCCCGTTAGTA
* * **
13507566 GTAAATATGGAGTGGCGTTACTAGTTAATATGAAAGAACGTGACATGAGTTTTTTGTAGAATTGC
66 ATAAATATGGAGTGGCGTTACTAGTTAATATGAAAGAACGTGACATGACTTTTTTGTAGAATCAC
* * * *
13507631 TTGACTAGTTGATATTGACTTGCGTGACCGAATATTATGGAATTTCATTACCAGTTTATATAGAT
131 GTGACTAGTTGATATTGACTTGCGTGACCGAATATTATGGAATTACATTACCAATTTATATAGAG
** *
13507696 TCGTGTGAGTAGTATGTATGGAGTGGCGTTACGAATTCTTATTGAATCG-TGTGACTAGATG
196 TCACGTGAGTAGTATGTATGGAGTGGCGTTACGAATTCTTATTGAATCGCT-TAACTAGATG
* * *
13507757 ATATGGATCGCGTGAACCA-TTAAGATTTAGAATCGCGTGATTATTTGATATTTACTCTCGTTAG
1 ATATGGATCGCGTGAA-CAGTTAAGATTTA-AATCACGTGAGTATTTGATATTTACTCCCGTTAG
** *
13507821 TAATAAATATGGAGTGGCGTTACTAGTTAATATGAAATCATGTGACATGACTTTTTTGTAGAATC
64 TAATAAATATGGAGTGGCGTTACTAGTTAATATGAAAGAACGTGACATGACTTTTTTGTAGAATC
* * *
13507886 ACGTGACTAGTTGATATTGACTCT-CGTGACTGAATATTATGGAATTACGTTACCAATTTATATG
129 ACGTGACTAGTTGATATTGACT-TGCGTGACCGAATATTATGGAATTACATTACCAATTTATATA
* *
13507950 GAGTCACGTGAGTTGTATGTATGGAGTGGTGTTACGAATTCTTATTGAATCGCTTAACTAGATG
193 GAGTCACGTGAGTAGTATGTATGGAGTGGCGTTACGAATTCTTATTGAATCGCTTAACTAGATG
13508014 ATAT
1 ATAT
13508018 TGCATCGTGT
Statistics
Matches: 234, Mismatches: 23, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
256 25 0.11
257 207 0.88
258 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (256 bp):
ATATGGATCGCGTGAACAGTTAAGATTTAAATCACGTGAGTATTTGATATTTACTCCCGTTAGTA
ATAAATATGGAGTGGCGTTACTAGTTAATATGAAAGAACGTGACATGACTTTTTTGTAGAATCAC
GTGACTAGTTGATATTGACTTGCGTGACCGAATATTATGGAATTACATTACCAATTTATATAGAG
TCACGTGAGTAGTATGTATGGAGTGGCGTTACGAATTCTTATTGAATCGCTTAACTAGATG
Found at i:13510082 original size:13 final size:13
Alignment explanation
Indices: 13510064--13510097 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
13510054 AAATCTCTCA
13510064 TTCTTCTTTTTTT
1 TTCTTCTTTTTTT
13510077 TTCTTCTTTTTTT
1 TTCTTCTTTTTTT
*
13510090 ATCTTCTT
1 TTCTTCTT
13510098 CTTGTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTTCTTTTTTT
Found at i:13516774 original size:30 final size:30
Alignment explanation
Indices: 13516738--13516797 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
13516728 TCTCCTATTG
*
13516738 GAATATGTGCAACTGGTCCCTCACACTCAA
1 GAATATGTGCAACTAGTCCCTCACACTCAA
13516768 GAATATGTGCAACTAGTCCCTCACACTCAA
1 GAATATGTGCAACTAGTCCCTCACACTCAA
13516798 AGGCACCTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (30 bp):
GAATATGTGCAACTAGTCCCTCACACTCAA
Found at i:13517470 original size:48 final size:47
Alignment explanation
Indices: 13517400--13517559 Score: 156
Period size: 48 Copynumber: 3.5 Consensus size: 47
13517390 ATAACGCTTG
13517400 TCACGCAACGCT-AACAAATATTCAGTCACGTAATATCTATAAAAAAC
1 TCACGCAACGCTCAACAAATATTCAGTCACGTAATA-CTATAAAAAAC
* * **
13517447 TCACGCAATGCTCAACAAATATTCAATCACG---TA-T-T--AACTC
1 TCACGCAACGCTCAACAAATATTCAGTCACGTAATACTATAAAAAAC
* * * *
13517487 TCACGCAACGCTCAACATATATTCAGTCATGTAATGCCTATAAAGAAC
1 TCACGCAACGCTCAACAAATATTCAGTCACGTAAT-ACTATAAAAAAC
**
13517535 TCACGCAATACTCAACAAATATTCA
1 TCACGCAACGCTCAACAAATATTCA
13517560 AGCACCTAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
40 30 0.34
42 1 0.01
43 2 0.02
45 3 0.03
46 1 0.01
47 11 0.12
48 41 0.46
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.25
Consensus pattern (47 bp):
TCACGCAACGCTCAACAAATATTCAGTCACGTAATACTATAAAAAAC
Found at i:13517528 original size:88 final size:87
Alignment explanation
Indices: 13517400--13517560 Score: 259
Period size: 88 Copynumber: 1.8 Consensus size: 87
13517390 ATAACGCTTG
* *
13517400 TCACGCAACGCTAACAAATATTCAGTCACGTAATATCTATAAAAAACTCACGCAATGCTCAACAA
1 TCACGCAACGCTAACAAATATTCAGTCACGTAATACCTATAAAAAACTCACGCAATACTCAACAA
13517465 ATATTCAATCACGTATTAACTC
66 ATATTCAATCACGTATTAACTC
* * * *
13517487 TCACGCAACGCTCAACATATATTCAGTCATGTAATGCCTATAAAGAACTCACGCAATACTCAACA
1 TCACGCAACGCT-AACAAATATTCAGTCACGTAATACCTATAAAAAACTCACGCAATACTCAACA
13517552 AATATTCAA
65 AATATTCAA
13517561 GCACCTAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 12 0.18
88 55 0.82
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (87 bp):
TCACGCAACGCTAACAAATATTCAGTCACGTAATACCTATAAAAAACTCACGCAATACTCAACAA
ATATTCAATCACGTATTAACTC
Found at i:13520902 original size:2 final size:2
Alignment explanation
Indices: 13520895--13520927 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13520885 CATCCATTTG
13520895 AT AT AT 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 AT AT AT A
13520928 ACTTATAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13522538 original size:18 final size:18
Alignment explanation
Indices: 13522515--13522549 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13522505 TCATTAGAAT
* *
13522515 TTCTTCTTATCTCTTGAG
1 TTCTTCATAACTCTTGAG
13522533 TTCTTCATAACTCTTGA
1 TTCTTCATAACTCTTGA
13522550 ACTGCCTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.23, G:0.09, T:0.51
Consensus pattern (18 bp):
TTCTTCATAACTCTTGAG
Found at i:13522669 original size:24 final size:24
Alignment explanation
Indices: 13522642--13522694 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
13522632 TACTTCGATA
13522642 ACCATTCCAATATGCATTTCAATC
1 ACCATTCCAATATGCATTTCAATC
13522666 ACCATTCCAATATGCATTTCAATC
1 ACCATTCCAATATGCATTTCAATC
13522690 ACCAT
1 ACCAT
13522695 CGCAACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (24 bp):
ACCATTCCAATATGCATTTCAATC
Found at i:13523965 original size:33 final size:32
Alignment explanation
Indices: 13523904--13523972 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
13523894 ATGAAAAGAT
* *
13523904 TTATTTCTTTTCCTAATTCAGCTTTTCAAATAA
1 TTATTTCTTTTCATAATACAGCTTTTC-AATAA
*
13523937 TTATTTCTTTTCATAATACA-TTTATTCAATAA
1 TTATTTCTTTTCATAATACAGCTT-TTCAATAA
13523969 TTAT
1 TTAT
13523973 GTTTAATAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 11 0.34
33 21 0.66
ACGTcount: A:0.30, C:0.14, G:0.01, T:0.54
Consensus pattern (32 bp):
TTATTTCTTTTCATAATACAGCTTTTCAATAA
Found at i:13531613 original size:129 final size:129
Alignment explanation
Indices: 13531379--13531613 Score: 389
Period size: 129 Copynumber: 1.8 Consensus size: 129
13531369 AGCGGAGCTA
* * *
13531379 AGGAAGAGTTCGTCGGCGGGGGTTCTCCAACAGATCGGCGGTAGAGGAAGCTTCACCGTCGCTCC
1 AGGAAGAATTCGTCGGCGGGGGTCCTCCAACAGATCGACGGTAGAGGAAGCTTCACCGTCGCTCC
* *
13531444 ACCGTACACGGCACAGGAAAGAGGGCAGCAGCACCCGATCGACGCAAAGGGGGTTCGCGCCGGC
66 ACCGTACACAGCACAGGAAAGAGAGCAGCAGCACCCGATCGACGCAAAGGGGGTTCGCGCCGGC
* * *
13531508 AGGAAGAATTCGTCGGCGTGGGTCCTCCAACAGATCGACGGTCGAGGAAGCTTGACCGTCGCTCC
1 AGGAAGAATTCGTCGGCGGGGGTCCTCCAACAGATCGACGGTAGAGGAAGCTTCACCGTCGCTCC
*
13531573 ACCGTACACAGCACAGGAAAGAGAGCAGCAGCACCTGATCG
66 ACCGTACACAGCACAGGAAAGAGAGCAGCAGCACCCGATCG
13531614 GCGGCCAATG
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 97 1.00
ACGTcount: A:0.25, C:0.29, G:0.33, T:0.13
Consensus pattern (129 bp):
AGGAAGAATTCGTCGGCGGGGGTCCTCCAACAGATCGACGGTAGAGGAAGCTTCACCGTCGCTCC
ACCGTACACAGCACAGGAAAGAGAGCAGCAGCACCCGATCGACGCAAAGGGGGTTCGCGCCGGC
Found at i:13545834 original size:12 final size:12
Alignment explanation
Indices: 13545819--13545843 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13545809 TTAATAATAG
13545819 AAATATAAAACT
1 AAATATAAAACT
13545831 AAATATAAAACT
1 AAATATAAAACT
13545843 A
1 A
13545844 TAATTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATATAAAACT
Found at i:13546301 original size:15 final size:16
Alignment explanation
Indices: 13546281--13546332 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 16
13546271 GAACAAATAG
13546281 AATAAAAATAAA-AAA
1 AATAAAAATAAATAAA
*
13546296 AATAAATATAAATAAA
1 AATAAAAATAAATAAA
*
13546312 AGTAATAATATAAATTAAA
1 AATAA-AA-ATAAA-TAAA
13546331 AA
1 AA
13546333 AAATTAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 11 0.38
16 7 0.24
17 1 0.03
18 5 0.17
19 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (16 bp):
AATAAAAATAAATAAA
Found at i:13546308 original size:19 final size:19
Alignment explanation
Indices: 13546275--13546336 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
13546265 ACATATGAAC
*
13546275 AAATAGAATAAAAATAAAAA
1 AAATA-AATATAAATAAAAA
*
13546295 AAATAAATATAAATAAAAG
1 AAATAAATATAAATAAAAA
*
13546314 TAAT-AATATAAATTAAAAA
1 AAATAAATATAAA-TAAAAA
13546333 AAAT
1 AAAT
13546337 TAGAATTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.22
19 23 0.64
20 5 0.14
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
AAATAAATATAAATAAAAA
Found at i:13552435 original size:12 final size:10
Alignment explanation
Indices: 13552410--13552442 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
13552400 TCTTCTTCGG
13552410 AAAAAATAAT
1 AAAAAATAAT
13552420 AAAAAATAAT
1 AAAAAATAAT
*
13552430 TAAAAA-AAT
1 AAAAAATAAT
13552439 AAAA
1 AAAA
13552443 CCCTAGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:13553893 original size:2 final size:2
Alignment explanation
Indices: 13553888--13553927 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
13553878 GATTTGAGTT
*
13553888 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13553928 ATTTTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13561968 original size:30 final size:30
Alignment explanation
Indices: 13561934--13562008 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
13561924 TATTATGTTC
*
13561934 AAATAAGTTCTTATACTATTATTTTGAGTT
1 AAATAAATTCTTATACTATTATTTTGAGTT
* * **
13561964 AAATAAATTCTTATATTTTTATTTTGAACT
1 AAATAAATTCTTATACTATTATTTTGAGTT
* *
13561994 AAATTAACTCTTATA
1 AAATAAATTCTTATA
13562009 ATTAATAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (30 bp):
AAATAAATTCTTATACTATTATTTTGAGTT
Found at i:13562122 original size:33 final size:33
Alignment explanation
Indices: 13562064--13562138 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
13562054 AGTGATATCG
* * * *
13562064 ACGTGATATGTTAAAATATTATAATTGATGATA
1 ACGTGACATATTAAAATATCATAATTAATGATA
* * *
13562097 ATGTGACATATTAATATATCATAATTAATGATG
1 ACGTGACATATTAAAATATCATAATTAATGATA
13562130 ACGTGACAT
1 ACGTGACAT
13562139 GATGATATGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (33 bp):
ACGTGACATATTAAAATATCATAATTAATGATA
Found at i:13565802 original size:11 final size:11
Alignment explanation
Indices: 13565784--13565836 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
13565774 ATTTTTAGTG
13565784 TTATTATTATT
1 TTATTATTATT
*
13565795 TGATTATTATT
1 TTATTATTATT
*
13565806 TTATT-TTACT
1 TTATTATTATT
13565816 TTATATATT-TT
1 TTAT-TATTATT
13565827 TTATTATTAT
1 TTATTATTAT
13565837 ATTTTCTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 12 0.34
11 21 0.60
12 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (11 bp):
TTATTATTATT
Found at i:13565853 original size:29 final size:32
Alignment explanation
Indices: 13565784--13565853 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
13565774 ATTTTTAGTG
* *
13565784 TTATTATTATTTGATTATTATTTTATTTTACT
1 TTATTATTATTTGATTATTATATTATTCTACT
*
13565816 TTATATATT-TTTTATTATTATATT-TTCTACT
1 TTAT-TATTATTTGATTATTATATTATTCTACT
13565847 TT-TTATT
1 TTATTATT
13565854 CTTCCATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 4 0.12
30 1 0.03
31 8 0.24
32 17 0.50
33 4 0.12
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.70
Consensus pattern (32 bp):
TTATTATTATTTGATTATTATATTATTCTACT
Found at i:13565871 original size:22 final size:22
Alignment explanation
Indices: 13565821--13565877 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
13565811 TTACTTTATA
*
13565821 TATTTTTTATTATTATATTTTC
1 TATTTTTTATTCTTATATTTTC
*
13565843 TACTTTTTATTCTTCCATA-TTT-
1 TATTTTTTATTCTT--ATATTTTC
13565865 TATTTTTTATTCT
1 TATTTTTTATTCT
13565878 AAGTTTCTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 24 0.80
23 3 0.10
24 3 0.10
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (22 bp):
TATTTTTTATTCTTATATTTTC
Found at i:13568225 original size:2 final size:2
Alignment explanation
Indices: 13568218--13568256 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13568208 NNNNNNNNNN
13568218 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13568257 TTCAAAGTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13568432 original size:38 final size:38
Alignment explanation
Indices: 13568370--13568783 Score: 468
Period size: 38 Copynumber: 10.9 Consensus size: 38
13568360 TTTTTTTTTT
* * * *
13568370 AAATGAGATTCCTTAAAGTTGAGGCAATGAAACTTTTAA
1 AAATGA-ACTCCTCAAAGCTGAGGCAACGAAACTTTTAA
** * *
13568409 AAATGAACTCCTCAAAATTGAGGCTATGAAAC-TTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAA
* *
13568446 AAATGAAACTCTTCAAAGTTGAGGCAACGAAAC-TTTAA
1 AAATG-AACTCCTCAAAGCTGAGGCAACGAAACTTTTAA
* ** **
13568484 AAATGAACTTCTCAAAATTGAGGTTACGAAA-TTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAA
* *
13568521 AAATGAAACTCCTCAAAACTGAGGCAACGAAACTTTAAA
1 AAATG-AACTCCTCAAAGCTGAGGCAACGAAACTTTTAA
* *
13568560 AATATG-GCTCCTCAAAGCTGAGGCAAC-ATGAC-TTTAA
1 AA-ATGAACTCCTCAAAGCTGAGGCAACGA-AACTTTTAA
*
13568597 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTT-A
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAA
* *
13568634 AAATGAACTCTTCAAAACTGAGGCAACGAAAC-TTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAA
13568671 AAATGAACTCCTCAAAGCTGAGGCAAC-AAGACTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAA-ACTTTTAA
*
13568709 AAATGAACTCCTCAAAGCTGAGGAAACGAAACTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAA
* * *
13568747 AAATGAACTCCTCAAAACTGAGGTAACAAAACCTTTT
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAA-CTTTT
13568784 TTTTCTTTTT
Statistics
Matches: 329, Mismatches: 32, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
36 8 0.02
37 129 0.39
38 169 0.51
39 20 0.06
40 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (38 bp):
AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAA
Found at i:13568506 original size:75 final size:74
Alignment explanation
Indices: 13568370--13568778 Score: 473
Period size: 75 Copynumber: 5.4 Consensus size: 74
13568360 TTTTTTTTTT
* * * * * *
13568370 AAATGAGATTCCTTAAAGTTGAGGCAATGAAACTTTTAAAAATGAACTCCTCAAAATTGAGGCTA
1 AAATGA-ACTCCTCAAAGCTGAGGCAACGAAAC-TTTAAAAATGAACTCCTCAAAACTGAGGCAA
*
13568435 TGAAACTTTAA
64 CGAAACTTTAA
* * * * **
13568446 AAATGAAACTCTTCAAAGTTGAGGCAACGAAACTTTAAAAATGAACTTCTCAAAATTGAGGTTAC
1 AAATG-AACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAACTGAGGCAAC
*
13568511 GAAATTTTAA
65 GAAACTTTAA
* * *
13568521 AAATGAAACTCCTCAAAACTGAGGCAACGAAACTTTAAAAAT-ATGGCTCCTCAAAGCTGAGGCA
1 AAATG-AACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGA--ACTCCTCAAAACTGAGGCA
*
13568585 AC-ATGACTTTAA
63 ACGA-AACTTTAA
* * *
13568597 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAAAATGAACTCTTCAAAACTGAGGCAACG
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAACTGAGGCAACG
13568662 AAACTTTAA
66 AAACTTTAA
* *
13568671 AAATGAACTCCTCAAAGCTGAGGCAAC-AAGACTTTTAAAAATGAACTCCTCAAAGCTGAGGAAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAA-AC-TTTAAAAATGAACTCCTCAAAACTGAGGCAA
13568735 CGAAACTTTTAA
64 CGAAAC-TTTAA
* * *
13568747 AAATGAACTCCTCAAAACTGAGGTAACAAAAC
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAAC
13568779 CTTTTTTTTC
Statistics
Matches: 290, Mismatches: 33, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
73 1 0.00
74 55 0.19
75 145 0.50
76 86 0.30
77 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.23
Consensus pattern (74 bp):
AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAACTGAGGCAACG
AAACTTTAA
Found at i:13581422 original size:15 final size:13
Alignment explanation
Indices: 13581390--13581416 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13581380 TTTTTCAGAA
13581390 AATTTATAAAATC
1 AATTTATAAAATC
13581403 AATTTATAAAATC
1 AATTTATAAAATC
13581416 A
1 A
13581417 CAATTTCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
AATTTATAAAATC
Found at i:13582613 original size:29 final size:28
Alignment explanation
Indices: 13582570--13582635 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
13582560 GTAAATTTTT
* * *
13582570 AAAAATTACACTTTTGCCCCCATAAAGTG
1 AAAAATTACACTTTT-ACCCCAAAAACTG
** *
13582599 AAAAATTACGTTTTTACCTCAAAAACTG
1 AAAAATTACACTTTTACCCCAAAAACTG
13582627 AAAAATTAC
1 AAAAATTAC
13582636 CCATAGACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 18 0.58
29 13 0.42
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.29
Consensus pattern (28 bp):
AAAAATTACACTTTTACCCCAAAAACTG
Found at i:13583534 original size:11 final size:11
Alignment explanation
Indices: 13583516--13583568 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
13583506 ATTTTTAGTA
13583516 TTATTATTATT
1 TTATTATTATT
*
13583527 TGATTATTATT
1 TTATTATTATT
*
13583538 TTATT-TTACT
1 TTATTATTATT
13583548 TTA-TATATATT
1 TTATTAT-TATT
13583559 TTATTATTAT
1 TTATTATTAT
13583569 ATTTTCTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 1 0.03
10 8 0.23
11 23 0.66
12 3 0.09
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (11 bp):
TTATTATTATT
Found at i:13583570 original size:17 final size:16
Alignment explanation
Indices: 13583508--13583568 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
13583498 AATTAACTAT
*
13583508 TTTTAGTATTATTATTA
1 TTTTATTATTATTA-TA
* *
13583525 TTTGATTATTATTTTA
1 TTTTATTATTATTATA
*
13583541 TTTTACT-TTATATATA
1 TTTTATTATTAT-TATA
13583557 TTTTATTATTAT
1 TTTTATTATTAT
13583569 ATTTTCTACT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
15 4 0.11
16 16 0.46
17 15 0.43
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTATTATTATTATA
Found at i:13585228 original size:122 final size:122
Alignment explanation
Indices: 13585011--13585232 Score: 399
Period size: 122 Copynumber: 1.8 Consensus size: 122
13585001 TGACTGGCCT
*
13585011 TCCCTCATTTCACCGATCAGCACTAAGACCCAGGCTTCCTAACCCAAAATCCCTATATCTTTCCT
1 TCCCTCATTTCACCGATCAGCACTAAGACCCAGGCTTCCTAACCCAAAATCCCCATATCTTTCCT
* * *
13585076 CAGAACAACTACCGATCTGCTCTCCCTTCACCGCCGATGGCTAACCCGAAGCAAACC
66 CAAAACAACCACCGATCTACTCTCCCTTCACCGCCGATGGCTAACCCGAAGCAAACC
*
13585133 TCCCTCCTTTCACCGATCAGCACTAAGACCCAGGCTTCCTAACCCAAAATCCCCATATCTTTCCT
1 TCCCTCATTTCACCGATCAGCACTAAGACCCAGGCTTCCTAACCCAAAATCCCCATATCTTTCCT
13585198 CAAAACAACCACCGATCTACTCTCCCTTCACCGCC
66 CAAAACAACCACCGATCTACTCTCCCTTCACCGCC
13585233 ACCTTCCTTG
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 95 1.00
ACGTcount: A:0.27, C:0.41, G:0.09, T:0.23
Consensus pattern (122 bp):
TCCCTCATTTCACCGATCAGCACTAAGACCCAGGCTTCCTAACCCAAAATCCCCATATCTTTCCT
CAAAACAACCACCGATCTACTCTCCCTTCACCGCCGATGGCTAACCCGAAGCAAACC
Found at i:13588641 original size:19 final size:19
Alignment explanation
Indices: 13588613--13588649 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13588603 AGCATCGGGA
*
13588613 GAGCAGAGAGGAGAGCACC
1 GAGCAAAGAGGAGAGCACC
*
13588632 GAGCAAAGAGGGGAGCAC
1 GAGCAAAGAGGAGAGCAC
13588650 TTGGGGAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.43, T:0.00
Consensus pattern (19 bp):
GAGCAAAGAGGAGAGCACC
Found at i:13588713 original size:23 final size:24
Alignment explanation
Indices: 13588686--13588741 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
13588676 TGCTCTTTGT
* *
13588686 TAATTTTTTTAAA-AATATAATAA
1 TAATTTTTTTAAATAATAAAAAAA
13588709 TAATTTTTTTAAATAATAAAAAAA
1 TAATTTTTTTAAATAATAAAAAAA
*
13588733 TAATATTTT
1 TAATTTTTT
13588742 AATTTTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 13 0.45
24 16 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAATTTTTTTAAATAATAAAAAAA
Found at i:13588742 original size:23 final size:23
Alignment explanation
Indices: 13588686--13588743 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
13588676 TGCTCTTTGT
* * *
13588686 TAATTTTTTTAAAAATATAATAA
1 TAATTATTTTAAAAATAAAAAAA
*
13588709 TAATTTTTTTAAATAATAAAAAAA
1 TAATTATTTTAAA-AATAAAAAAA
13588733 TAA-TATTTTAA
1 TAATTATTTTAA
13588744 TTTTTTTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 20 0.65
24 11 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATTATTTTAAAAATAAAAAAA
Found at i:13590597 original size:83 final size:84
Alignment explanation
Indices: 13590458--13590628 Score: 220
Period size: 83 Copynumber: 2.0 Consensus size: 84
13590448 CAAAGTTGAG
* * * *
13590458 AAGTTTAATCTCAATAAGTAGGTTTCTTTAAAGTTTGAATGGTTGAGAAGTTATAAAA-TGTTTC
1 AAGTTTAATCTCAATAAGTAGGTTTCATTAAAGTTTGAAAGGTTAAGAAGTTATAAAATTGTTTA
* *
13590522 TTACATTTAATCTCTCGAT
66 TTACATCTAATCTCTCCAT
* * * *
13590541 AAGTTTAATCTCAGTAAGTAGTTTTTCATT-AAGTTTGAAAGGTTAAGAGGTTATAAAATTTTTT
1 AAGTTTAATCTCAATAAGTAG-GTTTCATTAAAGTTTGAAAGGTTAAGAAGTTATAAAATTGTTT
*
13590605 ATTACATCTATTCTCTCCAT
65 ATTACATCTAATCTCTCCAT
13590625 AAGT
1 AAGT
13590629 AATTTTGTAT
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
83 45 0.60
84 30 0.40
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.43
Consensus pattern (84 bp):
AAGTTTAATCTCAATAAGTAGGTTTCATTAAAGTTTGAAAGGTTAAGAAGTTATAAAATTGTTTA
TTACATCTAATCTCTCCAT
Found at i:13599265 original size:256 final size:251
Alignment explanation
Indices: 13599003--13599462 Score: 617
Period size: 256 Copynumber: 1.8 Consensus size: 251
13598993 ATTCCACCTG
* * *
13599003 TATAATTTTTTA-AGTTAATTCTTAC-GAGATTACGTTAAGGTTTTTCAACTATTAAATTTT-AC
1 TATAATTTTTTACA-TTAATTCTTACTG-GATTACGTCAAGGCTTTTCAACTACT-AATTTTCAC
* * * ** *
13599065 TATAATTCTTTTTAT-TCTTACTATTATTCATGT-ATAAATTAAAATTTGTAAGTTGTAAAATAC
63 CATAAATCTTTTTATCT-TTACTATTATTAAT-TCATAAATTAAAATTTGTAAGTCATAAAACAC
*
13599128 TTTAAACTTGAGAATAAAAATTTAAATAATTAATTT-TCTCAAAAATTATGTTTATTTGACATAT
126 TTTAAACTCGAGAATAAAAATTTAAAT-ATTAATTTCTC-CAAAAATTATGTTTATTT---A-AT
* *
13599192 ATAATTGACTTGTTACGTTAAATCTCGCACATTTATGTCAATATTTTGATAATTTTTTTTTCACT
185 ATAATTAACTTGCTACGTTAAATCTCGCACATTTATGTCAATATTTTGATAATTTTTTTTTCACT
13599257 TT
250 TT
**
13599259 TATAATTTTTTACATTAATTCTTACTGTTTTACGTCAAGGCTTTTCAACTACTAATTTTCACCAT
1 TATAATTTTTTACATTAATTCTTACTGGATTACGTCAAGGCTTTTCAACTACTAATTTTCACCAT
*
13599324 AAATCTTTTTATCTTTACTATTATTAATTCATAGATTAAAATTTGTAAGTCATAAAACACTTTAA
66 AAATCTTTTTATCTTTACTATTATTAATTCATAAATTAAAATTTGTAAGTCATAAAACACTTTAA
* * *
13599389 ACTCGAGAATAAAAATTTAAATGTTTATTTCTCCCAAAATTATGTTTATTTAATATAATTAACTT
131 ACTCGAGAATAAAAATTTAAATATTAATTTCTCCAAAAATTATGTTTATTTAATATAATTAACTT
13599454 GCTACGTTA
196 GCTACGTTA
13599463 TGTAAAACCC
Statistics
Matches: 180, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
251 20 0.11
252 1 0.01
255 30 0.17
256 126 0.70
257 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (251 bp):
TATAATTTTTTACATTAATTCTTACTGGATTACGTCAAGGCTTTTCAACTACTAATTTTCACCAT
AAATCTTTTTATCTTTACTATTATTAATTCATAAATTAAAATTTGTAAGTCATAAAACACTTTAA
ACTCGAGAATAAAAATTTAAATATTAATTTCTCCAAAAATTATGTTTATTTAATATAATTAACTT
GCTACGTTAAATCTCGCACATTTATGTCAATATTTTGATAATTTTTTTTTCACTTT
Found at i:13600015 original size:28 final size:29
Alignment explanation
Indices: 13599974--13600033 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
13599964 GTCTATGGGC
*
13599974 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
13600002 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
13600032 AA
1 AA
13600034 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:13602734 original size:22 final size:22
Alignment explanation
Indices: 13602705--13602753 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
13602695 TATCCTTCAT
13602705 ATTA-TTCATAAATAGATTAAA
1 ATTAGTTCATAAATAGATTAAA
*
13602726 ATTAGTTCATGAATAGATTAAA
1 ATTAGTTCATAAATAGATTAAA
13602748 ATTAGT
1 ATTAGT
13602754 AAGCTATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (22 bp):
ATTAGTTCATAAATAGATTAAA
Found at i:13603661 original size:250 final size:247
Alignment explanation
Indices: 13602745--13603676 Score: 993
Period size: 250 Copynumber: 3.7 Consensus size: 247
13602735 TGAATAGATT
* * * * * **
13602745 AAAATTAGTAAGCTATACAATACTTCAAACTCGAA-AATAAAAATTTAAATGTTTAATTATGTCA
1 AAAATTTGTAAGCCATAAAACACTTTAAACT--AATAATAAAAATTTAAATGTTTAATT-TACCA
* * * * ***
13602809 AAAATTATGTTTATTTGAAATAATTGACTTGTTACGTTACATCTCTCACATTTACGTCCACACAA
63 AAAATTATGTTTATTTGAAATAATTGACTTGTTACGTTAAATCTCACACATTTACGTCAATATTT
* * * * * *
13602874 TAACAATTCTTATTCTACCTCTATAATGTTTTATGTTAATTATTA-TGGCTTTATGTCAA--CTT
128 TGACAATTCTTATTCTACCTTTATAATGTTTTACGTTAATTCTTACT-GTTTTACGTCAAGGCTT
* * * * *
13602936 TTCAACTACTAATTTTCACTATAGTTCTTTATATCCTTACTATTATTTATGTATAGATT
192 TTCAACTACTAATTTTCACTATAATTATTTTTATCCTTACTATTA-TTAT-TATTGA-A
* * * * * **
13602995 AAAATTTGTAAGCCGTATAACACTTTAAACGTAAGAATAAACATTTAAATATTTAATTTTTCAAA
1 AAAATTTGTAAGCCATAAAACACTTTAAAC-TAATAATAAAAATTTAAATGTTTAATTTACCAAA
* * * *
13603060 AATTATG--T-TTTGACATAATTGACTTGTTATGTTAAATCTCACACATTTAGGTTAATATTTTG
65 AATTATGTTTATTTGAAATAATTGACTTGTTACGTTAAATCTCACACATTTACGTCAATATTTTG
* * * * * * *
13603122 ATAATTCTTTTTCTACCTTTATAATTTTTTACATTAATTTTTACT-TTTTATGTTAAGGCTTTTC
130 ACAATTCTTATTCTACCTTTATAATGTTTTACGTTAATTCTTACTGTTTTACGTCAAGGCTTTTC
* * * *
13603186 AACTACTAATTTTCACTATAATTATGTTTATCCTTACTATTATTCATGAATAAA
195 AACTACTAATTTTCACTATAATTATTTTTATCCTTACTATTATT-ATTATTGAA
* * * *
13603240 TTAAAATTGGTAAGCTATAAAATACTTTAAACTCAACT-ATAAAAATTTAAATCTTTAATTTACC
1 --AAAATTTGTAAGCCATAAAACACTTTAAACT-AA-TAATAAAAATTTAAATGTTTAATTTACC
* * * * *
13603304 AAAAAATTATGTTTATTTGACATAATTGACTTATTTCGTTAAAACTCACACATTTGCGTCAATAT
62 -AAAAATTATGTTTATTTGAAATAATTGACTTGTTACGTTAAATCTCACACATTTACGTCAATAT
* * *
13603369 TTTGACAATTCTTTTTCTACCTTTATAATTTTTTAAGTTAATTCTTACTGTTTTACGTCAAGGCT
126 TTTGACAATTCTTATTCTACCTTTATAATGTTTTACGTTAATTCTTACTGTTTTACGTCAAGGCT
* * *
13603434 TTTCAACTACTAATTTTCACCATAATTTTTTTTATCCTTACTATTGTCTATTCATTGAA
191 TTTCAACTACTAATTTTCACTATAATTATTTTTATCCTTACTATTAT-TATT-ATTGAA
13603493 AAAATTTGTAAGCCATAAAACACTTTAAACTAGATAATAAAAATTTAAATGTTTAATTT-CCAAA
1 AAAATTTGTAAGCCATAAAACACTTTAAACTA-ATAATAAAAATTTAAATGTTTAATTTACC-AA
* * *
13603557 AAATTATGTTTATTTGAAATAATTGACTTGTTACGTTAATTCTCACATATTTACATCAATATTTT
64 AAATTATGTTTATTTGAAATAATTGACTTGTTACGTTAAATCTCACACATTTACGTCAATATTTT
* * * * * *
13603622 GATACTACTTATTCCACCTTTATAATGCTTTACGTTAATTCTTACAGTTTTACGT
129 GACAATTCTTATTCTACCTTTATAATGTTTTACGTTAATTCTTACTGTTTTACGT
13603677 TAAAACATAT
Statistics
Matches: 573, Mismatches: 90, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
245 9 0.02
246 83 0.14
247 97 0.17
248 10 0.02
249 15 0.03
250 156 0.27
251 140 0.24
252 58 0.10
253 5 0.01
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (247 bp):
AAAATTTGTAAGCCATAAAACACTTTAAACTAATAATAAAAATTTAAATGTTTAATTTACCAAAA
ATTATGTTTATTTGAAATAATTGACTTGTTACGTTAAATCTCACACATTTACGTCAATATTTTGA
CAATTCTTATTCTACCTTTATAATGTTTTACGTTAATTCTTACTGTTTTACGTCAAGGCTTTTCA
ACTACTAATTTTCACTATAATTATTTTTATCCTTACTATTATTATTATTGAA
Found at i:13612247 original size:15 final size:15
Alignment explanation
Indices: 13612207--13612248 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
13612197 TTTAAAAAAT
13612207 AAATATTTGTAATTTA
1 AAATATTT-TAATTTA
*
13612223 AAA-ATATTTATTTTA
1 AAATAT-TTTAATTTA
13612238 AAATATTTTAA
1 AAATATTTTAA
13612249 ATTTTTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
AAATATTTTAATTTA
Found at i:13622303 original size:38 final size:38
Alignment explanation
Indices: 13622259--13622335 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
13622249 TTAGAACATC
13622259 AAATAATACGAAATTGAGATCAATTTAGAACCCTAAAA
1 AAATAATACGAAATTGAGATCAATTTAGAACCCTAAAA
*
13622297 AAATAATACGAAATTGAGATCAATTTAGAATCCTAAAA
1 AAATAATACGAAATTGAGATCAATTTAGAACCCTAAAA
13622335 A
1 A
13622336 TTGAATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (38 bp):
AAATAATACGAAATTGAGATCAATTTAGAACCCTAAAA
Found at i:13624576 original size:56 final size:56
Alignment explanation
Indices: 13624468--13624577 Score: 141
Period size: 56 Copynumber: 2.0 Consensus size: 56
13624458 TACTTCACGT
* * *
13624468 AAATGGCATTAGAAGTAATTAAAAAAAATGATAGGTTTCATGAATTGCTTTCACAC
1 AAATGGCATTAGAAGTAACTAAAAAAAATGATAGGTTGCATGAATTACTTTCACAC
* * * *
13624524 AAATGGCATTTGAAGTAACTAAAAGCAAATGATAGG-TGCATGAGTTATTTTCAC
1 AAATGGCATTAGAAGTAACTAAAA-AAAATGATAGGTTGCATGAATTACTTTCAC
13624578 TTTGGGATGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
56 36 0.78
57 10 0.22
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (56 bp):
AAATGGCATTAGAAGTAACTAAAAAAAATGATAGGTTGCATGAATTACTTTCACAC
Found at i:13633616 original size:19 final size:20
Alignment explanation
Indices: 13633589--13633635 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13633579 AGGAGACAAG
*
13633589 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
* *
13633608 ATAATATTTTTATTAATTAA
1 ATAATATTTTTATGAATAAA
13633628 ATAATATT
1 ATAATATT
13633636 AAAATATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:13652246 original size:49 final size:49
Alignment explanation
Indices: 13652169--13652290 Score: 208
Period size: 49 Copynumber: 2.5 Consensus size: 49
13652159 TGGGCAATCT
* *
13652169 AGCTTGTCTGGGCTGCACACAGGCAGTTTGTTTGGGTGTTGGGTGCTCA
1 AGCTGGTCTGGGCTGCCCACAGGCAGTTTGTTTGGGTGTTGGGTGCTCA
13652218 AGCTGGTCTGGGCTGCCCACAGGCAGTTTGTTTGGGTGTTGGGTGCTCA
1 AGCTGGTCTGGGCTGCCCACAGGCAGTTTGTTTGGGTGTTGGGTGCTCA
* *
13652267 AGCTGGTCTGAGCTGCCTACAGGC
1 AGCTGGTCTGGGCTGCCCACAGGC
13652291 TGTCTGTCTA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.12, C:0.21, G:0.37, T:0.30
Consensus pattern (49 bp):
AGCTGGTCTGGGCTGCCCACAGGCAGTTTGTTTGGGTGTTGGGTGCTCA
Found at i:13653438 original size:16 final size:15
Alignment explanation
Indices: 13653419--13653461 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
13653409 TTATTTATTT
13653419 TTAGTTATTTTTATAA
1 TTAGTTATTTTTA-AA
*
13653435 TTAGTTTATTTTTAAG
1 TTAG-TTATTTTTAAA
*
13653451 TGAGTTATTTT
1 TTAGTTATTTT
13653462 AATTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 8 0.33
17 9 0.38
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (15 bp):
TTAGTTATTTTTAAA
Found at i:13664104 original size:31 final size:31
Alignment explanation
Indices: 13664066--13664368 Score: 428
Period size: 31 Copynumber: 9.8 Consensus size: 31
13664056 CAACATTAGC
**
13664066 TATATGCATGGCGTGTTACAACAGCTTACGT
1 TATATGCATGGCGTGTTACAACATTTTACGT
* *
13664097 TATATGCATGGTGTGTTACAACATTTAACGT
1 TATATGCATGGCGTGTTACAACATTTTACGT
* * *
13664128 TGTATGCATGGCGTGTTACAACATTTAATGT
1 TATATGCATGGCGTGTTACAACATTTTACGT
* *
13664159 TATATGCATGGCGTGTTACCACATTTTTCGT
1 TATATGCATGGCGTGTTACAACATTTTACGT
*
13664190 TATATGCATGGCGTGTTACCACATTTTACGT
1 TATATGCATGGCGTGTTACAACATTTTACGT
*
13664221 TATATGCATGGCGTGTTACAACATTTTATGT
1 TATATGCATGGCGTGTTACAACATTTTACGT
*
13664252 TATATGCATGGCGTGTTACAACATTTTATGT
1 TATATGCATGGCGTGTTACAACATTTTACGT
* *
13664283 TATTTGTATGGCGTGTTAGC-ACATTTTACGT
1 TATATGCATGGCGTGTTA-CAACATTTTACGT
* * *
13664314 TATATGCACGGCGTGTTACTACATTTTACAT
1 TATATGCATGGCGTGTTACAACATTTTACGT
*
13664345 TATATGCATGGCGTGTAACAACAT
1 TATATGCATGGCGTGTTACAACAT
13664369 GACTGACAAA
Statistics
Matches: 245, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
30 1 0.00
31 243 0.99
32 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (31 bp):
TATATGCATGGCGTGTTACAACATTTTACGT
Found at i:13670698 original size:30 final size:30
Alignment explanation
Indices: 13670659--13670788 Score: 118
Period size: 31 Copynumber: 4.2 Consensus size: 30
13670649 CCAATTATGG
*
13670659 TGACACGTTGAGTACAAGCAGACTTATGGCA
1 TGACACGTTGAGTA-ATGCAGACTTATGGCA
* *
13670690 TGA-ACGTTGAGTTAATTCAGACTTATGGCG
1 TGACACGTTGAG-TAATGCAGACTTATGGCA
* * *
13670720 TGACACGCTGACTTAATGCAAACTTATGGCA
1 TGACACGTTGA-GTAATGCAGACTTATGGCA
** * * *
13670751 TGACACACTAACTTAATGCAAACTTATGGCA
1 TGACACGTTGA-GTAATGCAGACTTATGGCA
13670782 TGACACG
1 TGACACG
13670789 CTGACTTCTT
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
30 24 0.28
31 61 0.72
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (30 bp):
TGACACGTTGAGTAATGCAGACTTATGGCA
Found at i:13670745 original size:31 final size:31
Alignment explanation
Indices: 13670680--13670795 Score: 162
Period size: 31 Copynumber: 3.8 Consensus size: 31
13670670 GTACAAGCAG
* * * *
13670680 ACTTATGGCATGA-ACGTTGAGTTAATTCAG
1 ACTTATGGCATGACACGCTGACTTAATGCAA
*
13670710 ACTTATGGCGTGACACGCTGACTTAATGCAA
1 ACTTATGGCATGACACGCTGACTTAATGCAA
* *
13670741 ACTTATGGCATGACACACTAACTTAATGCAA
1 ACTTATGGCATGACACGCTGACTTAATGCAA
13670772 ACTTATGGCATGACACGCTGACTT
1 ACTTATGGCATGACACGCTGACTT
13670796 CTTGCAGTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
30 12 0.16
31 63 0.84
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (31 bp):
ACTTATGGCATGACACGCTGACTTAATGCAA
Found at i:13672861 original size:31 final size:31
Alignment explanation
Indices: 13672603--13672859 Score: 334
Period size: 31 Copynumber: 8.3 Consensus size: 31
13672593 AATAAGGAAT
*
13672603 AAATGTTGTGACACGCCATGCATAGCAAGCA
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
* * *
13672634 AAATGTTATGACACACCATGCATAGCAAGCA
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
* *
13672665 AAATGTTGTGGCACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
*
13672696 AAATGTTGTGGCACGCCATGCATAGCAAGTA
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
13672727 AAATGTTGTGACACGCCATGCATAGCAAGTA
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
***
13672758 AAATGTTGTGACACGCCATGCATATTGAGTA
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
* * *** *
13672789 AAATCTTGTGACACGTCATGCATATTGAGTC
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
* * * *
13672820 AAATGTTGTCACACGCCATGCATATCGAGTC
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
13672851 AAATGTTGT
1 AAATGTTGT
13672860 CATAGCGTAG
Statistics
Matches: 207, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 207 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAGCAAGTA
Found at i:13675576 original size:21 final size:21
Alignment explanation
Indices: 13675550--13675599 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
13675540 AGCATCTATC
13675550 GATACATTGGTAAAATGTATA
1 GATACATTGGTAAAATGTATA
13675571 GATACATTGGTAAAATGTATA
1 GATACATTGGTAAAATGTATA
*
13675592 AATACATT
1 GATACATT
13675600 TCACACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (21 bp):
GATACATTGGTAAAATGTATA
Found at i:13676298 original size:68 final size:68
Alignment explanation
Indices: 13676073--13676386 Score: 250
Period size: 68 Copynumber: 4.7 Consensus size: 68
13676063 CACATACATG
* * * * * *
13676073 CTTACTCATCTCATA-AGGTATATGGAATTTACATCATATACATAATCTCATGGC---AATTATG
1 CTTAATCACCTCATATA-GTATATGGAATATACATCATATACATATTCTCATAGCATTAATCATG
13676134 C-TAA
65 CAT-A
* * * *** * *
13676138 CTCAATCATCTCATGTAGTATACAAAATATACAACATATACATATTCTCATAGCATTAGTCATGC
1 CTTAATCACCTCATATAGTATATGGAATATACATCATATACATATTCTCATAGCATTAATCATGC
13676203 ATA
66 ATA
* * * *
13676206 CTTAATCATCTCATGTAGTATATGGAATATACATCATATACATGTTCTCATGGCATTAATCATGC
1 CTTAATCACCTCATATAGTATATGGAATATACATCATATACATATTCTCATAGCATTAATCATGC
13676271 ATA
66 ATA
* * * * * *
13676274 CTTAATCACCTCATATGGTGTATGGAATTTACATCATATAC-TCCATCCT-ATAGTA-TACGTCA
1 CTTAATCACCTCATATAGTATATGGAATATACATCATATACAT--ATTCTCATAGCATTA-ATCA
13676336 TGCATA
63 TGCATA
* * * * *
13676342 CTTGATCATCTTATATGGTATATGAAAT-TCACATCATATACATAT
1 CTTAATCACCTCATATAGTATATGGAATAT-ACATCATATACATAT
13676387 CTTAGGGCAT
Statistics
Matches: 204, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
65 42 0.21
66 1 0.00
67 6 0.03
68 150 0.74
69 5 0.02
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (68 bp):
CTTAATCACCTCATATAGTATATGGAATATACATCATATACATATTCTCATAGCATTAATCATGC
ATA
Found at i:13685488 original size:14 final size:14
Alignment explanation
Indices: 13685469--13685501 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
13685459 TCTTTCGAAG
13685469 TTTCTATTCGTAGA
1 TTTCTATTCGTAGA
13685483 TTTCTATTCGTAGA
1 TTTCTATTCGTAGA
13685497 TTTCT
1 TTTCT
13685502 TTGACAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (14 bp):
TTTCTATTCGTAGA
Found at i:13688202 original size:15 final size:16
Alignment explanation
Indices: 13688182--13688213 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13688172 AACGGTTTAC
13688182 AAATTAT-AAAATTAT
1 AAATTATAAAAATTAT
13688197 AAATTATAAAAATTAT
1 AAATTATAAAAATTAT
13688213 A
1 A
13688214 TTTGATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTATAAAAATTAT
Found at i:13688712 original size:16 final size:16
Alignment explanation
Indices: 13688688--13688726 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13688678 TCATTCAAAG
*
13688688 TTCAAAATATTTTTAAA
1 TTCAAAATA-ATTTAAA
13688705 TT-AAAATAATTTAAA
1 TTCAAAATAATTTAAA
13688720 TTCAAAA
1 TTCAAAA
13688727 AAACCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 8 0.40
16 10 0.50
17 2 0.10
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
TTCAAAATAATTTAAA
Found at i:13690160 original size:13 final size:13
Alignment explanation
Indices: 13690142--13690166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13690132 TTTCAGAAAA
13690142 TTTATAAAATCAT
1 TTTATAAAATCAT
13690155 TTTATAAAATCA
1 TTTATAAAATCA
13690167 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:13693629 original size:57 final size:57
Alignment explanation
Indices: 13693511--13693621 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
13693501 GAACAACTAC
* * *
13693511 TTCACGTAAATGGCATTAGAAGTAATTAAGAAAAAGTGATAGGTTTCATGAGTTACT
1 TTCACGCAAATGGCATTAGAAGTAACTAAGAAAAAGTGATAGGTTGCATGAGTTACT
*
13693568 TTCACGCAAATGGCACTT-GAAGTAACTAA-AAGCAAGTGATAGG-TGCATGAGTTA
1 TTCACGCAAATGGCA-TTAGAAGTAACTAAGAA-AAAGTGATAGGTTGCATGAGTTA
13693622 TTTTTCACTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
56 12 0.25
57 34 0.71
58 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (57 bp):
TTCACGCAAATGGCATTAGAAGTAACTAAGAAAAAGTGATAGGTTGCATGAGTTACT
Found at i:13694946 original size:20 final size:20
Alignment explanation
Indices: 13694921--13694958 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13694911 CATAGTATGC
13694921 TATTTATTAAAACAAAACAT
1 TATTTATTAAAACAAAACAT
13694941 TATTTATTAAAACAAAAC
1 TATTTATTAAAACAAAAC
13694959 GCTACCGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (20 bp):
TATTTATTAAAACAAAACAT
Found at i:13708852 original size:27 final size:27
Alignment explanation
Indices: 13708817--13708928 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
13708807 AAATATAGTC
* *
13708817 ACACGTCATGTTGAAGATTTAGCTGTT
1 ACACGTCATGTTGAAAATTTAGTTGTT
* * *
13708844 ACACATCATGTTAAAAATTTAATTGTT
1 ACACGTCATGTTGAAAATTTAGTTGTT
** * * *
13708871 ATTCGCCATATTGAATATTTAGTTGTT
1 ACACGTCATGTTGAAAATTTAGTTGTT
*
13708898 ACACGTCATGTTGACAAATTTAATTGTT
1 ACACGTCATGTTGA-AAATTTAGTTGTT
13708926 ACA
1 ACA
13708929 TACCATGATA
Statistics
Matches: 65, Mismatches: 19, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
27 51 0.78
28 14 0.22
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (27 bp):
ACACGTCATGTTGAAAATTTAGTTGTT
Found at i:13709073 original size:19 final size:19
Alignment explanation
Indices: 13709049--13709085 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13709039 TAAACACCTT
13709049 TCACCTTAACCCTTAATTC
1 TCACCTTAACCCTTAATTC
*
13709068 TCACCTTAGCCCTTAATT
1 TCACCTTAACCCTTAATT
13709086 GTAAGGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.03, T:0.38
Consensus pattern (19 bp):
TCACCTTAACCCTTAATTC
Found at i:13712089 original size:23 final size:23
Alignment explanation
Indices: 13712045--13712089 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13712035 AACTACTTCC
*
13712045 TTCTTATTATATTTCTTTCTATG
1 TTCTTATTATATTTCTTGCTATG
*
13712068 TTCTTATTTTATTT-TTAGCTAT
1 TTCTTATTATATTTCTT-GCTAT
13712090 TTAGATCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.18, C:0.11, G:0.04, T:0.67
Consensus pattern (23 bp):
TTCTTATTATATTTCTTGCTATG
Found at i:13713878 original size:38 final size:38
Alignment explanation
Indices: 13713822--13713903 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
13713812 TATAATGCGC
* *
13713822 TTGAAAGAGAGGAGTAAGAGGTGTATCTTCTTTTTCTT
1 TTGACAGAGAGGAGTAAGAGGTGTATCTTCTTTCTCTT
* * *
13713860 TTGACAGAGGGGATTAAGAGGTGTGTCTTCTTTCTCTT
1 TTGACAGAGAGGAGTAAGAGGTGTATCTTCTTTCTCTT
13713898 TTGACA
1 TTGACA
13713904 CCAGTTCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (38 bp):
TTGACAGAGAGGAGTAAGAGGTGTATCTTCTTTCTCTT
Found at i:13722854 original size:2 final size:2
Alignment explanation
Indices: 13722847--13722890 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
13722837 AAATATTTAC
13722847 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13722889 AT
1 AT
13722891 TCTGTATGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13722945 original size:2 final size:2
Alignment explanation
Indices: 13722938--13722973 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13722928 CCTTGTAACN
13722938 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13722974 TTCTGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13726454 original size:12 final size:12
Alignment explanation
Indices: 13726439--13726463 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13726429 ACCCAAAAAA
13726439 ACACCCAAATTG
1 ACACCCAAATTG
13726451 ACACCCAAATTG
1 ACACCCAAATTG
13726463 A
1 A
13726464 ATTTATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.32, G:0.08, T:0.16
Consensus pattern (12 bp):
ACACCCAAATTG
Found at i:13729161 original size:27 final size:28
Alignment explanation
Indices: 13729131--13729187 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
13729121 TTTCGAGCAT
* *
13729131 AAGGGTAAAATAGTTATTTTGC-CACCC
1 AAGGGTAAAATAGTAATTTTACACACCC
*
13729158 AAGGGTAAAATTGTAATTTTACACACCC
1 AAGGGTAAAATAGTAATTTTACACACCC
13729186 AA
1 AA
13729188 CACTTGTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (28 bp):
AAGGGTAAAATAGTAATTTTACACACCC
Found at i:13731976 original size:2 final size:2
Alignment explanation
Indices: 13731971--13732020 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
13731961 ATATATATAT
* *
13731971 AC AC AC AC AC AC AT AT AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
13732013 AC AC AC AC
1 AC AC AC AC
13732021 GTATATACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.46, G:0.00, T:0.04
Consensus pattern (2 bp):
AC
Found at i:13736630 original size:496 final size:493
Alignment explanation
Indices: 13735566--13736956 Score: 2259
Period size: 496 Copynumber: 2.8 Consensus size: 493
13735556 GTGCAGCATG
* *
13735566 AGTCCCTTCTGACATTGTAACATTATCTTCAATCTCATTTTATCTATTTCCTTGCTAGCTTTTTC
1 AGTCCCTTCTGACATTGTAACATTATCTTGAGTCTCA-TTTATCTATTTCCTT-CTAGCTTTTTC
** * * * * *
13735631 CTCCATGTTGACTTTTCAACTATTAAATGCACAAATCATTAAACAACAAAATTTTTAAGCAAAAT
64 CTCCA-CATCA-TTTTCCACTATCAAATGCATAATTCATTAAACAACAAAATTTTTAAGCAAAAT
*
13735696 ATCACTCACTCA-TCACT-GGCAAGCTTCTGATTTTGCTCATTTTGTTCCAATATTGCTTTTCCA
127 ATCACTCACTCATTC-CTGGGC-AGCTTCTGATTTTGCTCATTTTGTTCCAATACTGCTTTTCCA
*
13735759 GTCATGCCATGATCAGCTTCAGGAAATCTTTCCTCCTTGACCAGCACTTCTCCTTTCTTCTTTGG
190 GTCATGCCATGATCAGCTTCAGGAAATCTTTCCTCCTTGACCAGCACTTCTCTTTTCTTCTTTGG
13735824 CATACCATCATCAACACCAAGCACAAGCTTTTGTGTTTCTTCATTCGGGACAACTGATTCACTGT
255 CATACCATCATCAACACCAAGCACAAGCTTTTGTGTTTCTTCATTCGGGACAACTGATTCACTGT
*
13735889 AAGCCAGTACGAATAAATTAAAGTTAAACCAAATCAACTGCAAGCCAGAAATGATTGATGAAGCA
320 AAGCCAGTAAGAATAAATTAAAGTTAAACCAAATCAACTGCAAGCCAGAAATGATTGATGAAGCA
*
13735954 AACAAACATAATAATAGTTGGCACCTCAAGGTCCTCTTCTCGATATAGTTTGTTAAGCTATTGCA
385 AACAAACATAATAATAGTTGGCACCTCAAGGTCCTCTTCTCAATATAGTTTGTTAAGCTATTGCA
13736019 TTGTATTCCTTTATCAACTAATAGGCTTCTCTTTTCTTTTAATT
450 TTGTATTCCTTTATCAACTAATAGGCTTCTCTTTTCTTTTAATT
13736063 AGTCCCTTCTGACATTGTAACATTATCTTGAGTCTCATTTCATCTATTTCCTTCTCAGCTTTTTC
1 AGTCCCTTCTGACATTGTAACATTATCTTGAGTCTCATTT-ATCTATTTCCTTCT-AGCTTTTT-
* *
13736128 CCTCCACATCATTTTCCATTATCCAATGCATAATTCATTAAACAACAAAATTTTTAAGCAAAATA
63 CCTCCACATCATTTTCCACTATCAAATGCATAATTCATTAAACAACAAAATTTTTAAGCAAAATA
*
13736193 TCACTCACTCATTCCTGGGCAGCTTCTGATTTTGCTCATTTTGTTCCAATACTGCCTTTCCAGTC
128 TCACTCACTCATTCCTGGGCAGCTTCTGATTTTGCTCATTTTGTTCCAATACTGCTTTTCCAGTC
* *
13736258 ATGCCATGATCAGCTTCAGGAAATCTTTCCTCCTTGACCAGCACTGCTCTTTTCTTCTTTGACAT
193 ATGCCATGATCAGCTTCAGGAAATCTTTCCTCCTTGACCAGCACTTCTCTTTTCTTCTTTGGCAT
13736323 ACCATCATCAACACCAAGCACAAGCTTTTGTGTTTCTTCATTCGGGACAACTGATTCACTGTAAG
258 ACCATCATCAACACCAAGCACAAGCTTTTGTGTTTCTTCATTCGGGACAACTGATTCACTGTAAG
13736388 CCAGTAAGAATAAATTAAAGTTAAACCAAATCAACTGCAAGCCAGAAATGATTGATGAAGCAAAC
323 CCAGTAAGAATAAATTAAAGTTAAACCAAATCAACTGCAAGCCAGAAATGATTGATGAAGCAAAC
13736453 AAACATAATAATAGTTGGCACCTCAAGGTCCTCTTCTCAATATAGTTTGTTAAGCTATTGCATTG
388 AAACATAATAATAGTTGGCACCTCAAGGTCCTCTTCTCAATATAGTTTGTTAAGCTATTGCATTG
*
13736518 TATTCCTTTATCAACTAATAGGCTTTTCTGTTTCTTTTAATT
453 TATTCCTTTATCAACTAATAGGCTTCTCT-TTTCTTTTAATT
*
13736560 AGTCCCTTCTGACATTGTAACATTATCTTGAGTCTCATTCTATCTATTTCCTTCCTAACTTTTTC
1 AGTCCCTTCTGACATTGTAACATTATCTTGAGTCTCATT-TATCTATTTCCTT-CTAGCTTTTTC
* * * *
13736625 CTCCACGTCATTTTCCACTCTCTAATGC-TCAATTCATTAAACAAGAAAATTTTTAAGCAAAATA
64 CTCCACATCATTTTCCACTATCAAATGCAT-AATTCATTAAACAACAAAATTTTTAAGCAAAATA
* * * *
13736689 ACACTCACTCATTACTGGCCAACTTCTGATTTTGCTCATTTTGTTCCAATACTGCTTTTCCAGTC
128 TCACTCACTCATTCCTGGGCAGCTTCTGATTTTGCTCATTTTGTTCCAATACTGCTTTTCCAGTC
* * *
13736754 ATGCCATGATCATCTTCAGAAAATCTTTCCTCCTTGACCATCACTTCTCTTTTCTTCTTTGGCAT
193 ATGCCATGATCAGCTTCAGGAAATCTTTCCTCCTTGACCAGCACTTCTCTTTTCTTCTTTGGCAT
* * * ** *
13736819 ACCATCATCAACGCCAAGCACAACCTTCTGTGTTTCTTCATTCCTGACACCTGATTCACTGTAAG
258 ACCATCATCAACACCAAGCACAAGCTTTTGTGTTTCTTCATTCGGGACAACTGATTCACTGTAAG
* **
13736884 CCAGTACA-AATAAATTAAAGTTAAACCATATCAACTGCAAGCCAGAAATGATAAATGAAGCAAA
323 CCAGTA-AGAATAAATTAAAGTTAAACCAAATCAACTGCAAGCCAGAAATGATTGATGAAGCAAA
*
13736948 CAACCATAA
387 CAAACATAA
13736957 GTTTAACAGA
Statistics
Matches: 839, Mismatches: 45, Indels: 21
0.93 0.05 0.02
Matches are distributed among these distances:
495 1 0.00
496 696 0.83
497 133 0.16
498 9 0.01
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (493 bp):
AGTCCCTTCTGACATTGTAACATTATCTTGAGTCTCATTTATCTATTTCCTTCTAGCTTTTTCCT
CCACATCATTTTCCACTATCAAATGCATAATTCATTAAACAACAAAATTTTTAAGCAAAATATCA
CTCACTCATTCCTGGGCAGCTTCTGATTTTGCTCATTTTGTTCCAATACTGCTTTTCCAGTCATG
CCATGATCAGCTTCAGGAAATCTTTCCTCCTTGACCAGCACTTCTCTTTTCTTCTTTGGCATACC
ATCATCAACACCAAGCACAAGCTTTTGTGTTTCTTCATTCGGGACAACTGATTCACTGTAAGCCA
GTAAGAATAAATTAAAGTTAAACCAAATCAACTGCAAGCCAGAAATGATTGATGAAGCAAACAAA
CATAATAATAGTTGGCACCTCAAGGTCCTCTTCTCAATATAGTTTGTTAAGCTATTGCATTGTAT
TCCTTTATCAACTAATAGGCTTCTCTTTTCTTTTAATT
Found at i:13740264 original size:2 final size:2
Alignment explanation
Indices: 13740257--13740289 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13740247 ATATCATAAT
13740257 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13740290 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13741299 original size:16 final size:17
Alignment explanation
Indices: 13741278--13741309 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13741268 ATAATAAAAT
13741278 ATTTTTAT-TTATTTTA
1 ATTTTTATATTATTTTA
13741294 ATTTTTATATTATTTT
1 ATTTTTATATTATTTT
13741310 TTAGTGTACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTTATATTATTTTA
Found at i:13744083 original size:2 final size:2
Alignment explanation
Indices: 13744076--13744105 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13744066 TGTAACCCTC
*
13744076 CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13744106 TATATACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:13749211 original size:41 final size:41
Alignment explanation
Indices: 13749166--13749244 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
13749156 CTTTGGTGCT
13749166 AGGTCACCTAATCTCAACTTCAAATTCCCAACAAAGTCCAA
1 AGGTCACCTAATCTCAACTTCAAATTCCCAACAAAGTCCAA
* * *
13749207 AGGTCACCTAATCTTAACTTCGAATTCTCAACAAAGTC
1 AGGTCACCTAATCTCAACTTCAAATTCCCAACAAAGTC
13749245 TAAGGGGAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.37, C:0.29, G:0.09, T:0.25
Consensus pattern (41 bp):
AGGTCACCTAATCTCAACTTCAAATTCCCAACAAAGTCCAA
Found at i:13750124 original size:11 final size:11
Alignment explanation
Indices: 13750095--13750124 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13750085 CTTAGTTTAT
*
13750095 TCAAAGTATCA
1 TCAAAGTCTCA
13750106 TCAAAGTCTCA
1 TCAAAGTCTCA
13750117 TCAAAGTC
1 TCAAAGTC
13750125 CTTAAGTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (11 bp):
TCAAAGTCTCA
Found at i:13750397 original size:33 final size:33
Alignment explanation
Indices: 13750351--13750418 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
13750341 CTAAATATTC
* *
13750351 AAATGAAGTCTTTTTTTTTTTTTGAAATTAAGA
1 AAATGAAGCCTTTTTTTTTTATTGAAATTAAGA
*
13750384 AAATGAGGCCTTTTTTTTTTATTGAAATTAAGA
1 AAATGAAGCCTTTTTTTTTTATTGAAATTAAGA
13750417 AA
1 AA
13750419 GAAAGAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.47
Consensus pattern (33 bp):
AAATGAAGCCTTTTTTTTTTATTGAAATTAAGA
Found at i:13751984 original size:18 final size:19
Alignment explanation
Indices: 13751949--13751983 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
13751939 GATAATGAAT
13751949 ATTTTAATATTTATTTTTA
1 ATTTTAATATTTATTTTTA
13751968 ATTTT-ATA-TTATTTTT
1 ATTTTAATATTTATTTTT
13751984 TGTGTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTTAATATTTATTTTTA
Found at i:13758002 original size:20 final size:20
Alignment explanation
Indices: 13757977--13758018 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
13757967 GCTATAAATA
*
13757977 TCATTTTTCCAGCAACTTCT
1 TCATTTCTCCAGCAACTTCT
* *
13757997 TCATTTCTCCAGTAGCTTCT
1 TCATTTCTCCAGCAACTTCT
13758017 TC
1 TC
13758019 TTCTTCTTCC
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:0.17, C:0.31, G:0.07, T:0.45
Consensus pattern (20 bp):
TCATTTCTCCAGCAACTTCT
Found at i:13758776 original size:12 final size:12
Alignment explanation
Indices: 13758761--13758792 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
13758751 TGATATATAT
13758761 ATATATATCTAA
1 ATATATATCTAA
13758773 ATATATATCTAA
1 ATATATATCTAA
13758785 ATATATAT
1 ATATATAT
13758793 ATGATATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATATATCTAA
Found at i:13770196 original size:142 final size:143
Alignment explanation
Indices: 13769944--13770230 Score: 504
Period size: 142 Copynumber: 2.0 Consensus size: 143
13769934 CTTCGAAATC
* ** *
13769944 AAGCTAAGCTCTTTAATTCTTAACCATCATGGCACTTTTTGGCCTATTTTTTTTTTTATACATCT
1 AAGCTAAGCTCTTTAACTCTTAACCATCATGGCACTTTTTGGCCTATCCTTTTTTCTATACATCT
13770009 CACTTGTGACTCAAAAGAACCTCATCACAAAGTCATAATATAAGTCAAAACATACACATTAGAGA
66 CACTTGTGACTCAAAAGAACCTCATCACAAAGTCATAATATAAGTCAAAACATACACATTAGAGA
13770074 ATATAAAATCACT
131 ATATAAAATCACT
13770087 AAGCTAAGCTCTTTAACTCTTAACCATCATGGCACTTTTTGGCCTA-CCTTTTTTCTATACATCT
1 AAGCTAAGCTCTTTAACTCTTAACCATCATGGCACTTTTTGGCCTATCCTTTTTTCTATACATCT
* * *
13770151 CAGTTTTGACTCAAAAGAACCTCATCACAAAGTCTTAATATAAGTCAAAACATACACATTAGAGA
66 CACTTGTGACTCAAAAGAACCTCATCACAAAGTCATAATATAAGTCAAAACATACACATTAGAGA
13770216 ATATAAAATCACT
131 ATATAAAATCACT
13770229 AA
1 AA
13770231 AAAGCTCTCT
Statistics
Matches: 137, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
142 92 0.67
143 45 0.33
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (143 bp):
AAGCTAAGCTCTTTAACTCTTAACCATCATGGCACTTTTTGGCCTATCCTTTTTTCTATACATCT
CACTTGTGACTCAAAAGAACCTCATCACAAAGTCATAATATAAGTCAAAACATACACATTAGAGA
ATATAAAATCACT
Found at i:13771447 original size:21 final size:21
Alignment explanation
Indices: 13771408--13771447 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13771398 TTACATACCA
*
13771408 ATTTGAAGAATAATCCTTTCT
1 ATTTGAAGAATAATACTTTCT
13771429 ATTTGTAAGAATAA-ACTTT
1 ATTTG-AAGAATAATACTTT
13771448 TTCCCAGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (21 bp):
ATTTGAAGAATAATACTTTCT
Found at i:13777935 original size:29 final size:30
Alignment explanation
Indices: 13777855--13777941 Score: 115
Period size: 29 Copynumber: 2.9 Consensus size: 30
13777845 CGCAAAAAGA
13777855 TCGCAAATTGTCCTCAACAACACTGCCTGGC
1 TCGCAAATTGTCC-CAACAACACTGCCTGGC
* * * *
13777886 TCGC-AACTGACCCAGCAACACTGCTTGGC
1 TCGCAAATTGTCCCAACAACACTGCCTGGC
13777915 TCGCAAATTGTCCCAAC-ACACTGCCTG
1 TCGCAAATTGTCCCAACAACACTGCCTG
13777942 ACTCACAGCT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
29 28 0.60
30 15 0.32
31 4 0.09
ACGTcount: A:0.25, C:0.37, G:0.17, T:0.21
Consensus pattern (30 bp):
TCGCAAATTGTCCCAACAACACTGCCTGGC
Found at i:13800476 original size:3 final size:3
Alignment explanation
Indices: 13800464--13800496 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
13800454 TAAATGAACG
13800464 ACA A-A ACA ACA ACA ACA ACA ACA ACA ACTA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA AC-A ACA
13800497 GAAGGCAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.67, C:0.30, G:0.00, T:0.03
Consensus pattern (3 bp):
ACA
Found at i:13801509 original size:20 final size:20
Alignment explanation
Indices: 13801484--13801523 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13801474 GACTTAAACA
*
13801484 ATTTACAATATTTTAAATAT
1 ATTTACAATAGTTTAAATAT
13801504 ATTTACAATAGTTTAAATAT
1 ATTTACAATAGTTTAAATAT
13801524 CTAACTACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTTACAATAGTTTAAATAT
Found at i:13810091 original size:30 final size:30
Alignment explanation
Indices: 13810057--13810158 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
13810047 GCTATTCTGC
* * *
13810057 TGGGATAGTTTACGAGCCAGGTAGTGTTGT
1 TGGGACAGTTTGCAAGCCAGGTAGTGTTGT
* * *
13810087 TGGGACAGTTTGCAAGTCAGGCAGTGTTGC
1 TGGGACAGTTTGCAAGCCAGGTAGTGTTGT
* * *
13810117 TGGGTCA-ATTGCAAGCTAGGTAGTGTTGT
1 TGGGACAGTTTGCAAGCCAGGTAGTGTTGT
13810146 TGGGACAGTTTGC
1 TGGGACAGTTTGC
13810159 TATCAATTGT
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 23 0.40
30 34 0.60
ACGTcount: A:0.20, C:0.13, G:0.36, T:0.31
Consensus pattern (30 bp):
TGGGACAGTTTGCAAGCCAGGTAGTGTTGT
Found at i:13811233 original size:24 final size:24
Alignment explanation
Indices: 13811192--13811239 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13811182 TAGTGGCGAT
*
13811192 GGCAAGCCACAATCGAAGTGGAAG
1 GGCAAGCCACAATCGAAGAGGAAG
*
13811216 GGCAAGTCCAC-ATGGAAGAGGAAG
1 GGCAAG-CCACAATCGAAGAGGAAG
13811240 CCTTCTAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.38, C:0.19, G:0.35, T:0.08
Consensus pattern (24 bp):
GGCAAGCCACAATCGAAGAGGAAG
Found at i:13817469 original size:20 final size:20
Alignment explanation
Indices: 13817421--13817469 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
13817411 ACATAGAAAC
*
13817421 AAAAAAATCATAAAATAAAA
1 AAAAAAATAATAAAATAAAA
* *
13817441 TAAATAATAAT-AAATACAAA
1 AAAAAAATAATAAAATA-AAA
13817461 AAAAAAATA
1 AAAAAAATA
13817470 GGTGAAGTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAAAATAATAAAATAAAA
Found at i:13817705 original size:2 final size:2
Alignment explanation
Indices: 13817700--13817730 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13817690 TATACATGTG
13817700 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13817731 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13817845 original size:14 final size:14
Alignment explanation
Indices: 13817819--13817857 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13817809 GCATGAGGTA
*
13817819 AACAAAAATAAAAT
1 AACAAAAAGAAAAT
*
13817833 AATAAAAAGAAAAT
1 AACAAAAAGAAAAT
*
13817847 TACAAAAAGAA
1 AACAAAAAGAA
13817858 TAAGTTATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (14 bp):
AACAAAAAGAAAAT
Found at i:13832391 original size:29 final size:28
Alignment explanation
Indices: 13832358--13832416 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
13832348 TTCAGAGTAT
* *
13832358 AGGGGCAAAATCG-TAATTTTTTTCGCTCC
1 AGGGG-AAAATCGATAA-ATTTTTCGCCCC
*
13832387 AGGGGTAAATCGATAAATTTTTCGCCCC
1 AGGGGAAAATCGATAAATTTTTCGCCCC
13832415 AG
1 AG
13832417 CACTTGTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (28 bp):
AGGGGAAAATCGATAAATTTTTCGCCCC
Found at i:13840929 original size:2 final size:2
Alignment explanation
Indices: 13840922--13840955 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13840912 CAGAATCCGG
13840922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13840956 GTACCTCGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13842062 original size:23 final size:23
Alignment explanation
Indices: 13842001--13842069 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
13841991 CTAAAAAATT
*
13842001 GTGTTTAAACAGATGTGTTT-GTA
1 GTGTTT-AACAGATGTGTTTATTA
* *
13842024 GTGCTTTTACATATGTGTTTATTA
1 GTG-TTTAACAGATGTGTTTATTA
*
13842048 -TGTTTCAACAGATGTGTCTATT
1 GTGTTT-AACAGATGTGTTTATT
13842070 GAACAATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 3 0.08
23 29 0.78
24 5 0.14
ACGTcount: A:0.23, C:0.09, G:0.20, T:0.48
Consensus pattern (23 bp):
GTGTTTAACAGATGTGTTTATTA
Found at i:13845073 original size:76 final size:76
Alignment explanation
Indices: 13844942--13845094 Score: 209
Period size: 76 Copynumber: 2.0 Consensus size: 76
13844932 TTAAATTTAC
* * * **
13844942 ATATTGGCACCATTATACTTTCATGTGTAATAGGAATGCCATATGCTTACCTATCACATGGACCT
1 ATATTGGCACCATTATACCTTCATGTATAATAGGAATGCCACATGCCCACCTATCACATGGACCT
13845007 TGATGGTATTT
66 TGATGGTATTT
* * * *
13845018 ATATTGGCATCATTATACCTT-ATTGTATAATAGGAATGCCACATGCCCACTTATCATATGGACT
1 ATATTGGCACCATTATACCTTCA-TGTATAATAGGAATGCCACATGCCCACCTATCACATGGACC
13845082 TTGATGGTATTT
65 TTGATGGTATTT
13845094 A
1 A
13845095 CATATTGACA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 1 0.01
76 66 0.99
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (76 bp):
ATATTGGCACCATTATACCTTCATGTATAATAGGAATGCCACATGCCCACCTATCACATGGACCT
TGATGGTATTT
Found at i:13845393 original size:23 final size:23
Alignment explanation
Indices: 13845362--13845424 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
13845352 CACCGAAAGT
* *
13845362 TGTGCTTGTTGTGTTT-TGATAGA
1 TGTGTTTGTTGTGTTTCT-ACAGA
*
13845385 TGTGTTTGTAGTGTTTCTACAGA
1 TGTGTTTGTTGTGTTTCTACAGA
13845408 TGTGTTTGTTGTGTTTC
1 TGTGTTTGTTGTGTTTC
13845425 AACTTTCAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.11, C:0.06, G:0.29, T:0.54
Consensus pattern (23 bp):
TGTGTTTGTTGTGTTTCTACAGA
Found at i:13848384 original size:52 final size:49
Alignment explanation
Indices: 13848327--13848481 Score: 163
Period size: 43 Copynumber: 3.3 Consensus size: 49
13848317 TGTGAAAATA
*
13848327 ATGACCCAGCTATGTACGTGTGGGAGCGTGTGTGAGTGCACATGAGCTAATG
1 ATGACCCAGCTATGTGCGTGTGGGAG-GTG-G-GAGTGCACATGAGCTAATG
13848379 ATGACCCAGCTATGTGCG-GT-----GTGGGAGTGCACATGAGCTAATG
1 ATGACCCAGCTATGTGCGTGTGGGAGGTGGGAGTGCACATGAGCTAATG
* *
13848422 ATGACCCAGCTATGTGC-AGT-----GTGGGAGTGCACATGAGCTAATA
1 ATGACCCAGCTATGTGCGTGTGGGAGGTGGGAGTGCACATGAGCTAATG
*
13848465 ATGACCCAGCTGTGTGC
1 ATGACCCAGCTATGTGC
13848482 AAGTAGGGAG
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
43 76 0.77
44 1 0.01
45 3 0.03
51 2 0.02
52 17 0.17
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (49 bp):
ATGACCCAGCTATGTGCGTGTGGGAGGTGGGAGTGCACATGAGCTAATG
Found at i:13848415 original size:43 final size:43
Alignment explanation
Indices: 13848354--13848501 Score: 235
Period size: 43 Copynumber: 3.4 Consensus size: 43
13848344 GTGTGGGAGC
* *
13848354 GTGTGTGAGTGCACATGAGCTAATGATGACCCAGCTATGTGCG
1 GTGTGGGAGTGCACATGAGCTAATGATGACCCAGCTATGTGCA
13848397 GTGTGGGAGTGCACATGAGCTAATGATGACCCAGCTATGTGCA
1 GTGTGGGAGTGCACATGAGCTAATGATGACCCAGCTATGTGCA
* *
13848440 GTGTGGGAGTGCACATGAGCTAATAATGACCCAGCTGTGTGCAA
1 GTGTGGGAGTGCACATGAGCTAATGATGACCCAGCTATGTGC-A
*
13848484 GT-AGGGAGTGCACATGAG
1 GTGTGGGAGTGCACATGAG
13848502 TTGAGTGTGG
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 96 0.97
44 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.34, T:0.23
Consensus pattern (43 bp):
GTGTGGGAGTGCACATGAGCTAATGATGACCCAGCTATGTGCA
Found at i:13848825 original size:22 final size:21
Alignment explanation
Indices: 13848770--13848830 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
13848760 TTGTAGCGAG
*
13848770 AATGGATTCTCACTGCAGC--
1 AATGGATTCTCGCTGCAGCAA
13848789 AA-GGAATT-TCGCTGCAGCAA
1 AATGG-ATTCTCGCTGCAGCAA
13848809 TAATGGATTCTCGCTGCAGCAA
1 -AATGGATTCTCGCTGCAGCAA
13848831 GAAACTCTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
18 11 0.31
19 5 0.14
21 5 0.14
22 14 0.40
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (21 bp):
AATGGATTCTCGCTGCAGCAA
Done.