Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 356 of 433
Found at i:111998388 original size:22 final size:20
Alignment explanation
Indices: 111998301--111998396 Score: 121
Period size: 19 Copynumber: 4.9 Consensus size: 20
111998291 AATATTTAAG
111998301 GATATGCAATCTT-AGATAT
1 GATATGCAATCTTGAGATAT
111998320 GATATGCAATCTT-AGATAT
1 GATATGCAATCTTGAGATAT
111998339 GATA--CAATCTTG-GATAT
1 GATATGCAATCTTGAGATAT
111998356 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTG-AGATAT
*
111998377 GATTTTGCAATCTTGGAGAT
1 GA-TATGCAATCTT-GAGAT
111998397 TTAATTTGTA
Statistics
Matches: 69, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
17 16 0.23
19 31 0.45
21 7 0.10
22 14 0.20
23 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (20 bp):
GATATGCAATCTTGAGATAT
Found at i:111998388 original size:41 final size:36
Alignment explanation
Indices: 111998304--111998393 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 36
111998294 ATTTAAGGAT
*
111998304 ATGCAATCTTAGATATGATATGCAATCTTAGATATG
1 ATGCAATCTTGGATATGATATGCAATCTTAGATATG
*
111998340 ATACAATCTTGGATATGATATGCAATCTTGAAGATATG
1 ATGCAATCTTGGATATGATATGCAATCTT--AGATATG
111998378 ATTTTGCAATCTTGGA
1 A---TGCAATCTTGGA
111998394 GATTTAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
36 27 0.59
38 8 0.17
41 11 0.24
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (36 bp):
ATGCAATCTTGGATATGATATGCAATCTTAGATATG
Found at i:111998403 original size:22 final size:22
Alignment explanation
Indices: 111998360--111998403 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
111998350 GGATATGATA
*
111998360 TGCAATCTTGAAGATATGATTT
1 TGCAATCTTGAAGATATAATTT
* *
111998382 TGCAATCTTGGAGATTTAATTT
1 TGCAATCTTGAAGATATAATTT
111998404 GTAGATATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (22 bp):
TGCAATCTTGAAGATATAATTT
Found at i:112002310 original size:35 final size:35
Alignment explanation
Indices: 112002271--112002340 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
112002261 TTAAAGAACA
112002271 GTAAGTTTAAGTTTCTCTTATACGAGCTTACTAAG
1 GTAAGTTTAAGTTTCTCTTATACGAGCTTACTAAG
112002306 GTAAGTTTAAGTTTCTCTTATACGAGCTTACTAAG
1 GTAAGTTTAAGTTTCTCTTATACGAGCTTACTAAG
112002341 CACTAGTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (35 bp):
GTAAGTTTAAGTTTCTCTTATACGAGCTTACTAAG
Found at i:112007010 original size:22 final size:22
Alignment explanation
Indices: 112006982--112007027 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
112006972 TGATGGTCAA
112006982 TAACCAATTGGGGAAACTTGAC
1 TAACCAATTGGGGAAACTTGAC
112007004 TAACCAATTGGGGAAACTTGAC
1 TAACCAATTGGGGAAACTTGAC
112007026 TA
1 TA
112007028 TCTCTTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (22 bp):
TAACCAATTGGGGAAACTTGAC
Found at i:112007666 original size:253 final size:252
Alignment explanation
Indices: 112007219--112007724 Score: 1003
Period size: 253 Copynumber: 2.0 Consensus size: 252
112007209 GTTGGAAAAA
112007219 TTACATTTTTATTGGAACTTTGAGGCATATCTCAATAGGTAAAGCTGAAGAGTTGAATCATACAA
1 TTACATTTTTATTGGAACTTTGAGGCATATCTCAATAGGTAAAGCTGAAGAGTTGAATCATACAA
112007284 TTATGGTTTCATATTCTACTTCATGAGGCCTTTACAACGGCATATCATATACTCAAAATGGTTGA
66 TTATGGTTTCATATTCTACTTCATGAGGCCTTTACAACGGCATATCATATACTCAAAATGGTTGA
112007349 GTGATGAATGAGAAATTGATGCTCAAAGTAAGCTACTTAAAAATATTGAGGAAAAGTAAATGCTT
131 GTGATGAATGAGAAATTGATGCTCAAAGTAAGCTACTTAAAAATATTGAGGAAAAGTAAATGCTT
112007414 AGATCCCACATTGGTTAAATACCTAGAGTAGGATGTGTATAAACCCTGCCTCACGCG
196 AGATCCCACATTGGTTAAATACCTAGAGTAGGATGTGTATAAACCCTGCCTCACGCG
112007471 TTACATTTTTATTGGAACTTTGAGGCATATTCTCAATAGGTAAAGCTGAAGAGTTGAATCATACA
1 TTACATTTTTATTGGAACTTTGAGGCATA-TCTCAATAGGTAAAGCTGAAGAGTTGAATCATACA
112007536 ATTATGGTTTCATATTCTACTTCATGAGGCCTTTACAACGGCATATCATATACTCAAAATGGTTG
65 ATTATGGTTTCATATTCTACTTCATGAGGCCTTTACAACGGCATATCATATACTCAAAATGGTTG
112007601 AGTGATGAATGAGAAATTGATGCTCAAAGTAAGCTACTTAAAAATATTGAGGAAAAGTAAATGCT
130 AGTGATGAATGAGAAATTGATGCTCAAAGTAAGCTACTTAAAAATATTGAGGAAAAGTAAATGCT
112007666 TAGATCCCACATTGGTTAAATACCTAGAGTAGGATGTGTATAAACCCTGCCTCACGCG
195 TAGATCCCACATTGGTTAAATACCTAGAGTAGGATGTGTATAAACCCTGCCTCACGCG
112007724 T
1 T
112007725 AGGGGGTACA
Statistics
Matches: 253, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
252 29 0.11
253 224 0.89
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (252 bp):
TTACATTTTTATTGGAACTTTGAGGCATATCTCAATAGGTAAAGCTGAAGAGTTGAATCATACAA
TTATGGTTTCATATTCTACTTCATGAGGCCTTTACAACGGCATATCATATACTCAAAATGGTTGA
GTGATGAATGAGAAATTGATGCTCAAAGTAAGCTACTTAAAAATATTGAGGAAAAGTAAATGCTT
AGATCCCACATTGGTTAAATACCTAGAGTAGGATGTGTATAAACCCTGCCTCACGCG
Found at i:112009890 original size:2 final size:2
Alignment explanation
Indices: 112009883--112009908 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
112009873 TTATGAATTG
112009883 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
112009909 GCAGTTGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112010259 original size:41 final size:41
Alignment explanation
Indices: 112010214--112010297 Score: 152
Period size: 41 Copynumber: 2.0 Consensus size: 41
112010204 GTTATATAAT
112010214 TTAGCACACTATGTATGAGCTATCCT-GGGTATCCAATGGTA
1 TTAGCACACTATGTATGAGCTAT-CTAGGGTATCCAATGGTA
112010255 TTAGCACACTATGTATGAGCTATCTAGGGTATCCAATGGTA
1 TTAGCACACTATGTATGAGCTATCTAGGGTATCCAATGGTA
112010296 TT
1 TT
112010298 CAAAATGGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 2 0.05
41 40 0.95
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (41 bp):
TTAGCACACTATGTATGAGCTATCTAGGGTATCCAATGGTA
Found at i:112014132 original size:14 final size:14
Alignment explanation
Indices: 112014113--112014142 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
112014103 GGATGGCAAT
112014113 GGGGCTAGTATGAC
1 GGGGCTAGTATGAC
112014127 GGGGCTAGTATGAC
1 GGGGCTAGTATGAC
112014141 GG
1 GG
112014143 CTTTTTGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.47, T:0.20
Consensus pattern (14 bp):
GGGGCTAGTATGAC
Found at i:112014662 original size:2 final size:2
Alignment explanation
Indices: 112014655--112014703 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
112014645 ACCTTAAGTT
112014655 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112014697 TA TA TA T
1 TA TA TA T
112014704 CCAAACCAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112015383 original size:28 final size:27
Alignment explanation
Indices: 112015311--112015385 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
112015301 TTTTTCATTT
*
112015311 TTTTTTTGGTTTTCGAAAGTTCTATCCA
1 TTTTTTTGGTTTTTG-AAGTTCTATCCA
* * *
112015339 -TTTTTGGGTTTTCTTGAAGTTTTCTCCA
1 TTTTTTTGG-TTT-TTGAAGTTCTATCCA
112015367 TTTTTTTGGTTTGTTGAAG
1 TTTTTTTGGTTT-TTGAAG
112015386 CTTCATCAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 7 0.18
28 22 0.58
29 9 0.24
ACGTcount: A:0.13, C:0.11, G:0.19, T:0.57
Consensus pattern (27 bp):
TTTTTTTGGTTTTTGAAGTTCTATCCA
Found at i:112016306 original size:5 final size:5
Alignment explanation
Indices: 112016296--112016324 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
112016286 CTGTGTATTC
112016296 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
112016325 AAAAACTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:112020394 original size:29 final size:29
Alignment explanation
Indices: 112020352--112020461 Score: 130
Period size: 29 Copynumber: 3.6 Consensus size: 29
112020342 GAGAAGGTGG
112020352 AGAACTTGTTCATTGAGAGTTCTCGATAA
1 AGAACTTGTTCATTGAGAGTTCTCGATAA
* * **
112020381 AGAACTTGTTCATTGAGAATTCGTGTCAAGGTGG
1 AGAACTTGTTCATTGAGAGTTC---TC--GATAA
*
112020415 AGAACTTGTTCGTTGAGAGTTCTCGATAA
1 AGAACTTGTTCATTGAGAGTTCTCGATAA
112020444 AGAACTTGTTCATTGAGA
1 AGAACTTGTTCATTGAGA
112020462 ATTCGTGTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
29 40 0.61
31 2 0.03
32 2 0.03
34 22 0.33
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.34
Consensus pattern (29 bp):
AGAACTTGTTCATTGAGAGTTCTCGATAA
Found at i:112020444 original size:63 final size:63
Alignment explanation
Indices: 112020345--112020480 Score: 263
Period size: 63 Copynumber: 2.2 Consensus size: 63
112020335 TTTTATGGAG
112020345 AAGGTGGAGAACTTGTTCATTGAGAGTTCTCGATAAAGAACTTGTTCATTGAGAATTCGTGTC
1 AAGGTGGAGAACTTGTTCATTGAGAGTTCTCGATAAAGAACTTGTTCATTGAGAATTCGTGTC
*
112020408 AAGGTGGAGAACTTGTTCGTTGAGAGTTCTCGATAAAGAACTTGTTCATTGAGAATTCGTGTC
1 AAGGTGGAGAACTTGTTCATTGAGAGTTCTCGATAAAGAACTTGTTCATTGAGAATTCGTGTC
112020471 AAGGTGGAGA
1 AAGGTGGAGA
112020481 TTGGTAGAAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 72 1.00
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.32
Consensus pattern (63 bp):
AAGGTGGAGAACTTGTTCATTGAGAGTTCTCGATAAAGAACTTGTTCATTGAGAATTCGTGTC
Found at i:112020806 original size:5 final size:5
Alignment explanation
Indices: 112020796--112020823 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
112020786 CTGTGTGTTC
112020796 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
112020824 CACACCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:112022014 original size:60 final size:60
Alignment explanation
Indices: 112021891--112022007 Score: 207
Period size: 60 Copynumber: 1.9 Consensus size: 60
112021881 GACAAGTTTC
* *
112021891 AAAGTAAGTTGTTAAGATAAGAGATAGATGTTTAATTTATAAGCAGAAAACCTCAAGAAA
1 AAAGTAAGTTGTTAAGATAAGAAATAGATGTTTAATTTATAACCAGAAAACCTCAAGAAA
112021951 AAAGTAAGTTGTTAAGATAAGAAATAGATGTTTTAATTTATAACCAGAAAACCTCAA
1 AAAGTAAGTTGTTAAGATAAGAAATAGATG-TTTAATTTATAACCAGAAAACCTCAA
112022008 ACAAAAGAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
60 29 0.54
61 25 0.46
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (60 bp):
AAAGTAAGTTGTTAAGATAAGAAATAGATGTTTAATTTATAACCAGAAAACCTCAAGAAA
Found at i:112023885 original size:11 final size:11
Alignment explanation
Indices: 112023869--112023944 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
112023859 CTTAATCACT
112023869 TTAATATTAAA
1 TTAATATTAAA
112023880 TTAATA--AAA
1 TTAATATTAAA
*
112023889 -TACTATTAAGA
1 TTAATATTAA-A
*
112023900 TAAATATTAAA
1 TTAATATTAAA
112023911 TTAA-ATTTAATA
1 TTAATA-TTAA-A
112023923 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
112023936 ATAATATTA
1 TTAATATTA
112023945 TTTTTGGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.39
12 12 0.24
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:112023931 original size:37 final size:36
Alignment explanation
Indices: 112023869--112023944 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
112023859 CTTAATCACT
*
112023869 TTAATATTAAATTAATAAAATACTATTAAGATAAATA
1 TTAATATTAAATTAATAAAATACTATTAAAAT-AATA
*
112023906 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
112023942 TTA
1 TTA
112023945 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:112028975 original size:16 final size:16
Alignment explanation
Indices: 112028954--112028984 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112028944 CTATGCATGC
*
112028954 AAAATATAAAATACAA
1 AAAATACAAAATACAA
112028970 AAAATACAAAATACA
1 AAAATACAAAATACA
112028985 TAATAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATACAAAATACAA
Found at i:112032090 original size:13 final size:13
Alignment explanation
Indices: 112032072--112032106 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
112032062 CCCTGTGACT
*
112032072 TACACGGCCTAGG
1 TACACGCCCTAGG
112032085 TACACGCCCTAGG
1 TACACGCCCTAGG
112032098 TACACGCCC
1 TACACGCCC
112032107 GTGTCCCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.14
Consensus pattern (13 bp):
TACACGCCCTAGG
Found at i:112045193 original size:33 final size:31
Alignment explanation
Indices: 112045151--112045219 Score: 102
Period size: 33 Copynumber: 2.2 Consensus size: 31
112045141 ACTTTTACAC
* *
112045151 AAAACAAATCTTTACAAGGTCTTTTTTATCCTT
1 AAAAAAAATCTTTACAAGGTC-CTTTTATCC-T
112045184 AAAAAAAATCTTTACAAGGTCCTTTTATCCT
1 AAAAAAAATCTTTACAAGGTCCTTTTATCCT
112045215 AAAAA
1 AAAAA
112045220 CTAAGGTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 6 0.18
32 8 0.24
33 20 0.59
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (31 bp):
AAAAAAAATCTTTACAAGGTCCTTTTATCCT
Found at i:112051340 original size:32 final size:33
Alignment explanation
Indices: 112051294--112051357 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
112051284 AATAGCGGGT
112051294 ACTGGGCCGAAG-CCCTTTTCAGA-ATACAGTAA
1 ACTGGGCCGAAGCCCCTTTTCAGATA-ACAGTAA
**
112051326 ACTGGGCCTTAGCCCCTTTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCCTTTTCAGATAACAGTA
112051358 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 17 0.61
34 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCCTTTTCAGATAACAGTAA
Found at i:112051730 original size:27 final size:26
Alignment explanation
Indices: 112051674--112051730 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
112051664 CAACCTTAAC
** * *
112051674 CCTAGGGGTGTATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
112051700 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
112051727 CCTA
1 CCTA
112051731 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:112053646 original size:19 final size:19
Alignment explanation
Indices: 112053615--112053660 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
112053605 ACATACATAC
112053615 AATAATATTTTTCTAATAAT
1 AATAAT-TTTTTCTAATAAT
*
112053635 AATAATTTTTTCTCATAAT
1 AATAATTTTTTCTAATAAT
*
112053654 ACTAATT
1 AATAATT
112053661 AAAATTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAATTTTTTCTAATAAT
Found at i:112053659 original size:22 final size:21
Alignment explanation
Indices: 112053606--112053659 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
112053596 ATTTTTCAAA
112053606 CATACATAC-AATAATATTTTT
1 CATA-ATACTAATAATATTTTT
* *
112053627 C-TAATAATAATAATTTTTTCT
1 CATAATACTAATAATATTTT-T
112053648 CATAATACTAAT
1 CATAATACTAAT
112053660 TAAAATTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.11
20 12 0.44
21 3 0.11
22 9 0.33
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
CATAATACTAATAATATTTTT
Found at i:112054864 original size:19 final size:20
Alignment explanation
Indices: 112054824--112054876 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
112054814 AAAACAAAAA
112054824 TTTTCCAGAAAATAAGATTT
1 TTTTCCAGAAAATAAGATTT
*
112054844 TTTTCCAGAAAATCAGATTT
1 TTTTCCAGAAAATAAGATTT
112054864 TTTTCCA-AAAATA
1 TTTTCCAGAAAATA
112054877 CCCTTCTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAAATAAGATTT
Found at i:112055796 original size:40 final size:40
Alignment explanation
Indices: 112055720--112055860 Score: 223
Period size: 40 Copynumber: 3.5 Consensus size: 40
112055710 GCAAGCCTAT
* *
112055720 GGGTCTTTAA-CCCGGATACAATTCCTGCACGA-AGCCTGC
1 GGGTCTTTAAGCCCGGATACAATTCCAGCA-TATAGCCTGC
* *
112055759 GGGTCTTTATGCTCGGATACAATTCCAGCATATAGCCTGC
1 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
112055799 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
1 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
112055839 GGGTCTTTAAGCCCGGATACAA
1 GGGTCTTTAAGCCCGGATACAA
112055861 CATCAAATAT
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 10 0.11
40 84 0.89
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
Found at i:112057146 original size:21 final size:21
Alignment explanation
Indices: 112057121--112057161 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
112057111 TGGCAATTTC
112057121 AATTCATACCT-TTCAACCATG
1 AATTCA-ACCTATTCAACCATG
*
112057142 AATTCAACTTATTCAACCAT
1 AATTCAACCTATTCAACCAT
112057162 CATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (21 bp):
AATTCAACCTATTCAACCATG
Found at i:112057171 original size:21 final size:21
Alignment explanation
Indices: 112057132--112057171 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
112057122 ATTCATACCT
* *
112057132 TTCAACCATGAATTCAACTTA
1 TTCAACCATCAATTAAACTTA
*
112057153 TTCAACCATCATTTAAACT
1 TTCAACCATCAATTAAACT
112057172 ACTTAACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (21 bp):
TTCAACCATCAATTAAACTTA
Found at i:112062144 original size:15 final size:15
Alignment explanation
Indices: 112062124--112062157 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
112062114 ATCGCTATCT
112062124 GTAGCCTTAAATTCA
1 GTAGCCTTAAATTCA
112062139 GTAGCCTTAAATTCA
1 GTAGCCTTAAATTCA
112062154 GTAG
1 GTAG
112062158 TCCTGTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (15 bp):
GTAGCCTTAAATTCA
Found at i:112063082 original size:40 final size:40
Alignment explanation
Indices: 112063006--112063152 Score: 226
Period size: 40 Copynumber: 3.7 Consensus size: 40
112062996 TTCTAGCGTA
* * *
112063006 AGCCTACGGGTCTTTAA-CCCAGATACCATTCCAGCATGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCAT-AT
* *
112063045 AGCCTGTGGGTCTTTATGCCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
112063085 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
112063125 AGCCTGCGGGTCTTTAAGCCCGGATACA
1 AGCCTGCGGGTCTTTAAGCCCGGATACA
112063153 GCATAAAATA
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 15 0.15
40 84 0.85
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:112064446 original size:21 final size:21
Alignment explanation
Indices: 112064421--112064461 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
112064411 CGGAAATTTC
112064421 AATTCATACCT-TTCAACCATG
1 AATTCA-ACCTATTCAACCATG
*
112064442 AATTCAACTTATTCAACCAT
1 AATTCAACCTATTCAACCAT
112064462 CATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (21 bp):
AATTCAACCTATTCAACCATG
Found at i:112064471 original size:21 final size:21
Alignment explanation
Indices: 112064432--112064471 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
112064422 ATTCATACCT
* *
112064432 TTCAACCATGAATTCAACTTA
1 TTCAACCATCAATTAAACTTA
*
112064453 TTCAACCATCATTTAAACT
1 TTCAACCATCAATTAAACT
112064472 ACTTAACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (21 bp):
TTCAACCATCAATTAAACTTA
Found at i:112066687 original size:20 final size:21
Alignment explanation
Indices: 112066662--112066700 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
112066652 TAGGCCCGTA
*
112066662 AGCCTATTG-GGCCCAGTTTT
1 AGCCTATCGAGGCCCAGTTTT
112066682 AGCCTATCGAGGCCCAGTT
1 AGCCTATCGAGGCCCAGTT
112066701 ACCGAGGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (21 bp):
AGCCTATCGAGGCCCAGTTTT
Found at i:112068287 original size:19 final size:18
Alignment explanation
Indices: 112068250--112068293 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
112068240 ATACATACAG
112068250 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
112068267 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
112068286 TACTAATT
1 TAATAATT
112068294 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:112070757 original size:10 final size:10
Alignment explanation
Indices: 112070742--112070773 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
112070732 TAAATACATT
112070742 TAATTAAAGA
1 TAATTAAAGA
112070752 TAATTAAAGA
1 TAATTAAAGA
112070762 TAATTAAA-A
1 TAATTAAAGA
112070771 TAA
1 TAA
112070774 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:112070785 original size:19 final size:18
Alignment explanation
Indices: 112070761--112070804 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
112070751 ATAATTAAAG
112070761 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
112070781 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
112070798 ATAATTA
1 ATAATTA
112070805 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:112070800 original size:28 final size:27
Alignment explanation
Indices: 112070769--112070833 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
112070759 AGATAATTAA
112070769 AATAAAATCCTAAAATTTAAATAATCCT
1 AATAAAATCCTAAAATTT-AATAATCCT
* * * *
112070797 AATAATTATCTTAATATTTAATTATCCT
1 AATAA-AATCCTAAAATTTAATAATCCT
112070825 AATATAAAT
1 AATA-AAAT
112070834 AAAATGGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAAATCCTAAAATTTAATAATCCT
Found at i:112070820 original size:16 final size:16
Alignment explanation
Indices: 112070799--112070829 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112070789 ATAATCCTAA
*
112070799 TAATTATCTTAATATT
1 TAATTATCCTAATATT
112070815 TAATTATCCTAATAT
1 TAATTATCCTAATAT
112070830 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATCCTAATATT
Found at i:112072822 original size:39 final size:39
Alignment explanation
Indices: 112072588--112072820 Score: 256
Period size: 39 Copynumber: 5.9 Consensus size: 39
112072578 TCGTTCAAAC
* * * ** *
112072588 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATAATTCGCACAATT
* * *
112072628 GCCTTCGGGACTTAACCCGGATATCACAACTT-GCACAATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAA-TTCGCACAATT
* * *
112072668 GCCTTCGGGCTTAGCCTGGATATCAT-ATCTTGGACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAAT-TCGCACAATT
* *
112072707 GCCTTCAGGCTTAGCCCGAATATCAT-ATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAAT-TCGCACAATT
* *
112072746 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATTT
1 GCCTTCGGGCTTAGCCCGGATATCATAATTCGCACAATT
112072785 GCCTTCGGGCTTAGCCCGGATATCATAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCATAATTCGCACA
112072821 TTCATACACA
Statistics
Matches: 165, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
37 1 0.01
38 2 0.01
39 121 0.73
40 41 0.25
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAATTCGCACAATT
Found at i:112074590 original size:10 final size:10
Alignment explanation
Indices: 112074575--112074607 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
112074565 ATTAATATGA
112074575 TTTTTTTCTT
1 TTTTTTTCTT
112074585 TTTTTTTC--
1 TTTTTTTCTT
112074593 TTTTTTTCTT
1 TTTTTTTCTT
112074603 TTTTT
1 TTTTT
112074608 AATAGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:112075627 original size:13 final size:12
Alignment explanation
Indices: 112075601--112075639 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
112075591 ATCTGAAAAT
*
112075601 AATAAATAATAA
1 AATAAAAAATAA
*
112075613 AATAATAAGATAA
1 AATAA-AAAATAA
112075626 AATAAAAAATAA
1 AATAAAAAATAA
112075638 AA
1 AA
112075640 ATTGGGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:112079330 original size:10 final size:10
Alignment explanation
Indices: 112079315--112079346 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
112079305 TAAATACATT
112079315 TAATTAAAGA
1 TAATTAAAGA
112079325 TAATTAAAGA
1 TAATTAAAGA
112079335 TAATTAAA-A
1 TAATTAAAGA
112079344 TAA
1 TAA
112079347 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:112079358 original size:19 final size:18
Alignment explanation
Indices: 112079334--112079377 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
112079324 ATAATTAAAG
112079334 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
112079354 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
112079371 ATAATTA
1 ATAATTA
112079378 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:112079373 original size:28 final size:27
Alignment explanation
Indices: 112079342--112079406 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
112079332 AGATAATTAA
112079342 AATAAAATCCTAAAATTTAAATAATCCT
1 AATAAAATCCTAAAATTT-AATAATCCT
* * * *
112079370 AATAATTATCTTAATATTTAATTATCCT
1 AATAA-AATCCTAAAATTTAATAATCCT
112079398 AATATAAAT
1 AATA-AAAT
112079407 AAAATGGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAAATCCTAAAATTTAATAATCCT
Found at i:112079393 original size:16 final size:16
Alignment explanation
Indices: 112079372--112079402 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112079362 ATAATCCTAA
*
112079372 TAATTATCTTAATATT
1 TAATTATCCTAATATT
112079388 TAATTATCCTAATAT
1 TAATTATCCTAATAT
112079403 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATCCTAATATT
Found at i:112090037 original size:22 final size:22
Alignment explanation
Indices: 112090010--112090056 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
112090000 TCTATCTATT
112090010 TATCTATTTATCTATGCATATA
1 TATCTATTTATCTATGCATATA
112090032 TATCTATTTATCTATGCATATA
1 TATCTATTTATCTATGCATATA
112090054 TAT
1 TAT
112090057 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (22 bp):
TATCTATTTATCTATGCATATA
Found at i:112090056 original size:2 final size:2
Alignment explanation
Indices: 112090049--112090090 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
112090039 TTATCTATGC
112090049 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
112090091 GGTAATGCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112091403 original size:31 final size:30
Alignment explanation
Indices: 112091357--112091428 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 30
112091347 GGAGGGTTGC
*
112091357 TAAAATAGAAATAATTTAAAATGTGAGTGAT
1 TAAAATA-AAATAATTTAAAATGTGAATGAT
*
112091388 TAAAATAAAATTAATTTAAAATGTTAATGAT
1 TAAAATAAAA-TAATTTAAAATGTGAATGAT
*
112091419 TAAATTAAAA
1 TAAAATAAAA
112091429 ATATAATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 3 0.08
31 34 0.92
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.35
Consensus pattern (30 bp):
TAAAATAAAATAATTTAAAATGTGAATGAT
Found at i:112096809 original size:24 final size:24
Alignment explanation
Indices: 112096797--112096870 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 24
112096787 ATCTTATTTT
112096797 TTAT-TTATTTATATAATTATTCA
1 TTATATTATTTATATAATTATTCA
* *
112096820 TTATATTATTTATATTATTATACA
1 TTATATTATTTATATAATTATTCA
112096844 -T-T-TTATTTATA-AATT-TT-A
1 TTATATTATTTATATAATTATTCA
112096862 TTATATTAT
1 TTATATTAT
112096871 ATATTTTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.02
19 2 0.05
20 4 0.09
21 13 0.30
22 1 0.02
23 5 0.12
24 17 0.40
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATATTATTTATATAATTATTCA
Found at i:112096848 original size:17 final size:15
Alignment explanation
Indices: 112096800--112096878 Score: 60
Period size: 17 Copynumber: 5.3 Consensus size: 15
112096790 TTATTTTTTA
112096800 TTTATTTA-TATAA-
1 TTTATTTATTATAAT
* *
112096813 -TTATTCATTATATT
1 TTTATTTATTATAAT
112096827 ATTTATATTATTATACAT
1 -TTTAT-TTATTATA-AT
112096845 TTTATTTA-TA-AAT
1 TTTATTTATTATAAT
112096858 TTTATTATATTATATAT
1 TTTATT-TATTATA-AT
112096875 TTTA
1 TTTA
112096879 CTACGTACAT
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
12 6 0.12
13 12 0.23
14 3 0.06
15 4 0.08
16 8 0.15
17 18 0.35
18 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATTTATTATAAT
Found at i:112096870 original size:21 final size:22
Alignment explanation
Indices: 112096797--112096870 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 22
112096787 ATCTTATTTT
112096797 TTAT-TTATTTATATAATTATTCA
1 TTATATTATTTATA-AATTATT-A
112096820 TTATATTATTTAT--ATTATTA
1 TTATATTATTTATAAATTATTA
* *
112096840 TACATTTTATTTATAAATT-TTA
1 T-TATATTATTTATAAATTATTA
112096862 TTATATTAT
1 TTATATTAT
112096871 ATATTTTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 2 0.05
21 22 0.51
22 4 0.09
23 7 0.16
24 8 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATATTATTTATAAATTATTA
Found at i:112098601 original size:15 final size:16
Alignment explanation
Indices: 112098583--112098883 Score: 82
Period size: 16 Copynumber: 18.9 Consensus size: 16
112098573 TAATTTCAAA
*
112098583 ATATATAAT-AATAAT
1 ATATAAAATAAATAAT
112098598 ATATAAAATAAATAAT
1 ATATAAAATAAATAAT
* * * *
112098614 TTACATAGTAAATAA-
1 ATATAAAATAAATAAT
* *
112098629 A-AT-AATTATATAAT
1 ATATAAAATAAATAAT
* *
112098643 ATATAATATAAA-AGT
1 ATATAAAATAAATAAT
*** *
112098658 ATATAGGTTCAA-AAT
1 ATATAAAATAAATAAT
* * *
112098673 -TACAATAATATATAGT
1 ATATAA-AATAAATAAT
*
112098689 ATAT-AAATAATTAAT
1 ATATAAAATAAATAAT
112098704 -TAATAAAAT--ATAAT
1 AT-ATAAAATAAATAAT
*
112098718 AGT-TAAGGAT-AATAAT
1 A-TATAA-AATAAATAAT
112098734 ATAT--A-TAAATAAT
1 ATATAAAATAAATAAT
112098747 AATATAAAATACTAAT-AT
1 -ATATAAAATA--AATAAT
* *
112098765 GTATAAAATATATAAT
1 ATATAAAATAAATAAT
* *
112098781 AAATAATATGTAATAATAAT
1 ATATAA-A-AT-A-AATAAT
*
112098801 ATATAAAATAAATAAC
1 ATATAAAATAAATAAT
*
112098817 ATATAATA-AAATAAT
1 ATATAAAATAAATAAT
*
112098832 CATATAACATATAATATAAGA
1 -ATATAA-A-ATAA-ATAA-T
*
112098853 AAATAAAATAAATAAT
1 ATATAAAATAAATAAT
112098869 -TATAAAAATAAATAA
1 ATAT-AAAATAAATAA
112098884 AACATAGGGC
Statistics
Matches: 204, Mismatches: 49, Indels: 65
0.64 0.15 0.20
Matches are distributed among these distances:
12 1 0.00
13 13 0.06
14 17 0.08
15 46 0.23
16 72 0.35
17 19 0.09
18 9 0.04
19 8 0.04
20 19 0.09
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (16 bp):
ATATAAAATAAATAAT
Found at i:112098603 original size:7 final size:7
Alignment explanation
Indices: 112098582--112098849 Score: 83
Period size: 7 Copynumber: 36.9 Consensus size: 7
112098572 ATAATTTCAA
112098582 AATATAT
1 AATATAT
112098589 AATA-AT
1 AATATAT
112098595 AATATAT
1 AATATAT
*
112098602 AAAATA-
1 AATATAT
*
112098608 AATAATTT
1 AAT-ATAT
112098616 ACATAGTA-
1 A-ATA-TAT
*
112098624 AATAAAAT
1 AAT-ATAT
112098632 AATTATAT
1 AA-TATAT
112098640 AATATAT
1 AATATAT
*
112098647 AATATAA
1 AATATAT
112098654 AAGTATAT
1 AA-TATAT
* *
112098662 AGGT-TCAA
1 A-ATAT-AT
*
112098670 AATTACAAT
1 AA-TA-TAT
112098679 AATATAT
1 AATATAT
*
112098686 AGTATAT
1 AATATAT
112098693 AA-ATAATT
1 AATAT-A-T
112098701 AAT-TAAT
1 AATAT-AT
*
112098708 AAAATAT
1 AATATAT
112098715 AATAGT-T
1 AATA-TAT
*
112098722 AAGGATAAT
1 AA-TAT-AT
112098731 AATATAT
1 AATATAT
*
112098738 -ATAAAT
1 AATATAT
112098744 AATAATAT
1 AAT-ATAT
*
112098752 AAAATACT
1 AATATA-T
*
112098760 AATATGT
1 AATATAT
112098767 -ATA-A-
1 AATATAT
112098771 AATATAT
1 AATATAT
*
112098778 AATAAAT
1 AATATAT
*
112098785 AATATGT
1 AATATAT
112098792 AATA-AT
1 AATATAT
112098798 AATATAT
1 AATATAT
*
112098805 AAAATAAAT
1 --AATATAT
*
112098814 AACATAT
1 AATATAT
*
112098821 AATAAAAT
1 AAT-ATAT
112098829 AATCATAT
1 AAT-ATAT
*
112098837 AACATAT
1 AATATAT
112098844 AATATA
1 AATATA
112098850 AGAAAATAAA
Statistics
Matches: 190, Mismatches: 39, Indels: 64
0.65 0.13 0.22
Matches are distributed among these distances:
5 3 0.02
6 24 0.13
7 93 0.49
8 54 0.28
9 16 0.08
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (7 bp):
AATATAT
Found at i:112098648 original size:20 final size:20
Alignment explanation
Indices: 112098582--112098653 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
112098572 ATAATTTCAA
112098582 AATATATAATAATAA-TATAT
1 AATATATAA-AATAATTATAT
*
112098602 AA-A-AT-AAATAATTTACAT
1 AATATATAAAATAA-TTATAT
* *
112098620 AGTAAATAAAATAATTATAT
1 AATATATAAAATAATTATAT
*
112098640 AATATATAATATAA
1 AATATATAAAATAA
112098654 AAGTATATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 5 0.12
17 1 0.02
18 7 0.17
19 2 0.05
20 20 0.49
21 6 0.15
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (20 bp):
AATATATAAAATAATTATAT
Found at i:112098762 original size:29 final size:27
Alignment explanation
Indices: 112098729--112098849 Score: 97
Period size: 29 Copynumber: 4.3 Consensus size: 27
112098719 GTTAAGGATA
112098729 ATAATATATATAAATAATAATATAAAAT
1 ATAATATATATAAATAAT-ATATAAAAT
*
112098757 ACTAATATGTAT-AA-AATATATAATAA-
1 A-TAATATATATAAATAATATATAA-AAT
*
112098783 ATAATATGTA-ATAATAATATATAAAAT
1 ATAATATATATA-AATAATATATAAAAT
* *
112098810 AAATAACATATAATAAAATAATCATATAACAT
1 --ATAATATAT-AT-AAATAAT-ATATAAAAT
112098842 ATAATATA
1 ATAATATA
112098850 AGAAAATAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
25 9 0.12
26 11 0.14
27 14 0.18
28 3 0.04
29 16 0.21
30 8 0.11
31 6 0.08
32 9 0.12
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (27 bp):
ATAATATATATAAATAATATATAAAAT
Found at i:112098764 original size:25 final size:25
Alignment explanation
Indices: 112098728--112098879 Score: 106
Period size: 25 Copynumber: 6.2 Consensus size: 25
112098718 AGTTAAGGAT
112098728 AATAATATATATAAATAATAATATAA
1 AATAATA-ATATAAATAATAATATAA
* ** *
112098754 AATACTAATATGTATAA-AATATAT
1 AATAATAATATAAATAATAATATAA
* *
112098778 AATAAATAATATGTAATAATAATATAT
1 AAT-AATAATAT-AAATAATAATATAA
112098805 AA-AATAA-ATAACAT-AT-A-ATAA
1 AATAATAATATAA-ATAATAATATAA
*
112098826 AATAATCATATAACAT-ATAATATAA
1 AATAATAATATAA-ATAATAATATAA
* *
112098851 GAA-AATAAAATAAATAATTATA-AA
1 -AATAATAATATAAATAATAATATAA
112098875 AATAA
1 AATAA
112098880 ATAAAACATA
Statistics
Matches: 102, Mismatches: 13, Indels: 24
0.73 0.09 0.17
Matches are distributed among these distances:
21 5 0.05
22 5 0.05
23 14 0.14
24 20 0.20
25 37 0.36
26 12 0.12
27 9 0.09
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (25 bp):
AATAATAATATAAATAATAATATAA
Found at i:112098780 original size:47 final size:49
Alignment explanation
Indices: 112098680--112098781 Score: 119
Period size: 47 Copynumber: 2.2 Consensus size: 49
112098670 AATTACAATA
*
112098680 ATAT-ATAGTATATAAATAATTAATTAATAAAATATAATAGTTAAGGAT
1 ATATAATAGTATATAAATAATTAATTAATAAAATATAATAGTTAAGAAT
112098728 A-ATAATA-TATATAAATAA-TAA-T-ATAAAATACTAATATGTATAA-AAT
1 ATATAATAGTATATAAATAATTAATTAATAAAATA-TAATA-GT-TAAGAAT
112098774 ATATAATA
1 ATATAATA
112098782 AATAATATGT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
44 8 0.17
45 6 0.12
46 8 0.17
47 22 0.46
48 4 0.08
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (49 bp):
ATATAATAGTATATAAATAATTAATTAATAAAATATAATAGTTAAGAAT
Found at i:112098786 original size:38 final size:35
Alignment explanation
Indices: 112098729--112098837 Score: 96
Period size: 38 Copynumber: 3.0 Consensus size: 35
112098719 GTTAAGGATA
* *
112098729 ATAATATATATAAATAATAATATAAAATACTAATATGT
1 ATAAAATATATAAA-AATAATATAAAATAATAATA--T
**
112098767 ATAAAATATATAATAAATAATATGTAATAATAATAT
1 ATAAAATATATAA-AAATAATATAAAATAATAATAT
* * *
112098803 ATAAAATAAAT-AACAT-ATAATAAAATAATCATAT
1 ATAAAATATATAAAAATAAT-ATAAAATAATAATAT
112098837 A
1 A
112098838 ACATATAATA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
33 2 0.03
34 16 0.27
35 1 0.02
36 11 0.18
38 29 0.48
39 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (35 bp):
ATAAAATATATAAAAATAATATAAAATAATAATAT
Found at i:112099569 original size:13 final size:13
Alignment explanation
Indices: 112099551--112099575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112099541 GATTGCTTGC
112099551 AATAAAATAAAAA
1 AATAAAATAAAAA
112099564 AATAAAATAAAA
1 AATAAAATAAAA
112099576 GTAGAAAGAG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:112101213 original size:25 final size:25
Alignment explanation
Indices: 112101185--112101234 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
112101175 GAATATCATG
112101185 TCCAATCATGCTGGATGTGATGTTC
1 TCCAATCATGCTGGATGTGATGTTC
112101210 TCCAATCATGCTGGATGTGATGTTC
1 TCCAATCATGCTGGATGTGATGTTC
112101235 GCATTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (25 bp):
TCCAATCATGCTGGATGTGATGTTC
Found at i:112104830 original size:25 final size:25
Alignment explanation
Indices: 112104796--112104845 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
112104786 GAATATCGTG
112104796 TCCAATCATGCTGGATGTGATGTTC
1 TCCAATCATGCTGGATGTGATGTTC
112104821 TCCAATCATGCTGGATGTGATGTTC
1 TCCAATCATGCTGGATGTGATGTTC
112104846 GCATTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (25 bp):
TCCAATCATGCTGGATGTGATGTTC
Found at i:112107840 original size:763 final size:765
Alignment explanation
Indices: 112106199--112108004 Score: 2605
Period size: 763 Copynumber: 2.4 Consensus size: 765
112106189 GGCATTGGGT
* * * *
112106199 AGTTTCGAAAAATAGCCCCTGTTTCACTATTTAATGAGTTTCTATCAAGTTTTAGGATCGTTTTC
1 AGTTTCGAAAAACAGCCCATGTTTCACAATTTAATGAGTTTCTATCAAGTTTTAGGATTGTTTTC
* * * *
112106264 ACACACCTGATAGCGAGATTAATCCACCAC-ATAGTCATACACATAAAATCCTATAAACGGCACC
66 ACACACCTGATAGCGAGATTAATCCACCACGA-AGTCATACACTTAAAATCCTACAAAAGGAACC
* *** *
112106328 AAAACCAACGATTA-AACTTCGATTTAACACGAACATTACCACCTT-ATTTTTTTCTTTTCTTAA
130 AAAACCAACGATTACAACTTCGATTTAACACGAACATTACCA-CTTAAATTCACTC-TTTCTCAA
* *
112106391 AGAAATAGTTCCTATATTCATAAACAAGTAGTTACCACAAACCTGCAGCAACTACTCCAAAACCT
193 AGAAATAGTCCCTATATTCATAAACAAGTAGTTACCACAAACTTGCAGCAACTACTCCAAAACCT
* * *
112106456 TAATTTTTCGGAGGGTTGTCTATCACTATGTGCTCTTCTCCTATCCACAACAACCAGCCACAACA
258 TAATTTGTCGGAGGGTTGTCTATCACCACGTGCTCTTCTCCTATCCACAACAACCAGCCACAACA
* *
112106521 CTATATCAATCATAAAATCATTAATCTATGGATTTTTTTTCTTAAAATAACAAAACCCCAACCTT
323 CTATATCAATCATAAAATCATTAATCTACGGAATTTTTTTCTTAAAATAACAAAACCCCAACCTT
**
112106586 ATTAAGAACTAATCTTCCACACAACTTACCAACACAACCAAGCCACCATGAGGACAAAAAAGAAA
388 ATTAAGAACTAATCTT-CACACAACTTACCAACACAACCAAGCCACCACAAGGACAAAAAAGAAA
* * *
112106651 CTAGCGAACAACAGAATCATAACAAGCCTCAACAGTGTTCTCACGCAACTAAAGAAAGATTTTGC
452 CAAGCGAACAACAGAATCATAACAAGCCTCAACAGTGTTCTCACGCAACAAAAAAAAGATTTTGC
*
112106716 AATTGGCACAATAACAAAAGGAGTCGGCGTTGACAAGGCAAAAAATAAGGAAAGAAAGAAGAAAA
517 AATTGGCACAATAACAAAAGGAGTCGGCATTGACAAGGCAAAAAATAAGGAAAGAAAGAAGAAAA
* ** * * *
112106781 GAAAGAAAAAAATGTAAAACAAAGTTGAAAGATGGGAAAGAAACGTGCAACCAAAGAGAAGTTGG
582 AAAAGAAAAAAATGTAAAACAAAAATGAAAAAAGGGAAAGAAACGTGCAACAAAAGAGAAGTTGG
* * *
112106846 TTTGATGGTTGCCGAAAGAGAAAAATAATAGGGATTTTATTTAAAAGAATAAAATTACACAGCTG
647 TTTGATGGTTGCCGAAAGAGAAAAATAATAGGGATTTGATTTAAAAAAATAAAATTACACAGCCG
*** * * * * *
112106911 TGTGGTGTACACAATCTACTATACGGCCTGACACACGACCGTGTGGCACTGGAA
712 TGTGGCACACACAACCTACCACACAGCCTGACACACGACCGTGTGACACTGGAA
* * * * * *
112106965 AGTTTCAAAAAACAACCCATGTTTCACGATTTAATGAGTTTCTATCGAGTTTTAGTATTGTTTCC
1 AGTTTCGAAAAACAGCCCATGTTTCACAATTTAATGAGTTTCTATCAAGTTTTAGGATTGTTTTC
* * * * * *
112107030 ACACACTTGATTA-CGAGATTAATCCATCATGCAGTCGTACTCTTAAAATCCTACAAAAGGAACC
66 ACACACCTGA-TAGCGAGATTAATCCACCACGAAGTCATACACTTAAAATCCTACAAAAGGAACC
* ** * *
112107094 AAAACCAACGATTACAACTTCAATTTAACACGAAGGTTAGCACTTAAATTCGCTCTTTCTCAAAG
130 AAAACCAACGATTACAACTTCGATTTAACACGAACATTACCACTTAAATTCACTCTTTCTCAAAG
* *
112107159 AAACAGTCCCTATATTCATAAACAAGTAGTTACCACAAACTTGCAACAACTACTCCAAAACCTTA
195 AAATAGTCCCTATATTCATAAACAAGTAGTTACCACAAACTTGCAGCAACTACTCCAAAACCTTA
** *
112107224 ATTTGTCAAAGGGTTGTCTATCACCACGTGCTCTTCTCCTATCCACAACAACTAGCCACAACACT
260 ATTTGTCGGAGGGTTGTCTATCACCACGTGCTCTTCTCCTATCCACAACAACCAGCCACAACACT
112107289 ATATCAATCATAAAATCATTAATCTACGGAATTTTTTTCTTAAAATAACAAAACCCCAACCTTAT
325 ATATCAATCATAAAATCATTAATCTACGGAATTTTTTTCTTAAAATAACAAAACCCCAACCTTAT
*
112107354 TAAGAACTAATCTT-GCACAAC-TACCAACACAACCAAGCCACCACAAGGA-AAAGAAAGAAACA
390 TAAGAACTAATCTTCACACAACTTACCAACACAACCAAGCCACCACAAGGACAAA-AAAGAAACA
* *
112107416 AGCGAACAACAGAATCATAACAAGCCTCAACAGTGTTCTTACGCAGCAAAAAAAAGATTTTGCAA
454 AGCGAACAACAGAATCATAACAAGCCTCAACAGTGTTCTCACGCAACAAAAAAAAGATTTTGCAA
* *
112107481 TTGGCACAATAATAAAAGGAGTCGGCATTGGCAAGGCAAAAAATAAGGAAAGAAAGAA-AAAAAA
519 TTGGCACAATAACAAAAGGAGTCGGCATTGACAAGGCAAAAAATAAGGAAAGAAAGAAGAAAAAA
112107545 AAGAAAAAAATGTAAAACAAAAATGAAAAAAGGGAAAGAAACGTGCAACAAAAGAGAAGTTGGTT
584 AAGAAAAAAATGTAAAACAAAAATGAAAAAAGGGAAAGAAACGTGCAACAAAAGAGAAGTTGGTT
*
112107610 TGACT-GTTGCCGAAAGAGAAAAATAATAGGGATTTGATTTTAAAAAAATAAAATTACACGGCCG
649 TGA-TGGTTGCCGAAAGAGAAAAATAATAGGGATTTGA-TTTAAAAAAATAAAATTACACAGCCG
**
112107674 TGTGGCACACACAACCTACCACACAGCCTGACACACGGTCGTGTGACACTAGG-A
712 TGTGGCACACACAACCTACCACACAGCCTGACACACGACCGTGTGACACT-GGAA
*
112107728 AGCTTT-GAAAAACAGCCCATGCTTT-ACAATTTAATGAGTTTCTATCTAGTTTTAGGATTGTTT
1 AG-TTTCGAAAAACAGCCCATG-TTTCACAATTTAATGAGTTTCTATCAAGTTTTAGGATTGTTT
* * * *
112107791 TCACACACCTGACAGGGAGATTAATCCACCACGAATTCATACACTTAAAATCCTAC-AAATGACA
64 TCACACACCTGATAGCGAGATTAATCCACCACGAAGTCATACACTTAAAATCCTACAAAAGGA-A
* * *
112107855 CCAAAACCAACGATTACAACGTCGATTTAGCACGAACATTACCACTTAAATTCACTATTTTCTCA
128 CCAAAACCAACGATTACAACTTCGATTTAACACGAACATTACCACTTAAATTCACT-CTTTCTC-
* * * *
112107920 AAAAAAATAGTCCCTATATTCATAAACAAGCAGTTACTACAAACTTACAGCAACTACTCCAGAAA
191 AAAGAAATAGTCCCTATATTCATAAACAAGTAGTTACCACAAACTTGCAGCAACTACTCCA-AAA
*
112107985 -TTTAATTTGTCGGAGGGTTG
255 CCTTAATTTGTCGGAGGGTTG
112108005 AAAGAAGGGA
Statistics
Matches: 921, Mismatches: 104, Indels: 31
0.87 0.10 0.03
Matches are distributed among these distances:
762 108 0.12
763 359 0.39
764 20 0.02
765 72 0.08
766 332 0.36
767 30 0.03
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (765 bp):
AGTTTCGAAAAACAGCCCATGTTTCACAATTTAATGAGTTTCTATCAAGTTTTAGGATTGTTTTC
ACACACCTGATAGCGAGATTAATCCACCACGAAGTCATACACTTAAAATCCTACAAAAGGAACCA
AAACCAACGATTACAACTTCGATTTAACACGAACATTACCACTTAAATTCACTCTTTCTCAAAGA
AATAGTCCCTATATTCATAAACAAGTAGTTACCACAAACTTGCAGCAACTACTCCAAAACCTTAA
TTTGTCGGAGGGTTGTCTATCACCACGTGCTCTTCTCCTATCCACAACAACCAGCCACAACACTA
TATCAATCATAAAATCATTAATCTACGGAATTTTTTTCTTAAAATAACAAAACCCCAACCTTATT
AAGAACTAATCTTCACACAACTTACCAACACAACCAAGCCACCACAAGGACAAAAAAGAAACAAG
CGAACAACAGAATCATAACAAGCCTCAACAGTGTTCTCACGCAACAAAAAAAAGATTTTGCAATT
GGCACAATAACAAAAGGAGTCGGCATTGACAAGGCAAAAAATAAGGAAAGAAAGAAGAAAAAAAA
GAAAAAAATGTAAAACAAAAATGAAAAAAGGGAAAGAAACGTGCAACAAAAGAGAAGTTGGTTTG
ATGGTTGCCGAAAGAGAAAAATAATAGGGATTTGATTTAAAAAAATAAAATTACACAGCCGTGTG
GCACACACAACCTACCACACAGCCTGACACACGACCGTGTGACACTGGAA
Found at i:112109629 original size:23 final size:22
Alignment explanation
Indices: 112109586--112109643 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
112109576 AAAAGGTATC
* *
112109586 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
112109607 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
112109630 TGCATATCATATCT
1 TACAAATCATATCT
112109644 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:112109646 original size:19 final size:19
Alignment explanation
Indices: 112109622--112109658 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
112109612 AATCATATCT
112109622 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
112109641 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
112109659 TAAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:112109666 original size:17 final size:19
Alignment explanation
Indices: 112109625--112109666 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
112109615 CATATCTTCT
*
112109625 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCA
112109644 AAGATTGCATATCAT-T-A
1 AAGATTGCATATCATATCA
112109661 AAGATT
1 AAGATT
112109667 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCA
Found at i:112109814 original size:21 final size:20
Alignment explanation
Indices: 112109777--112109815 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
112109767 TTGGACTTCA
**
112109777 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
112109797 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
112109816 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:112110070 original size:45 final size:45
Alignment explanation
Indices: 112110014--112110280 Score: 220
Period size: 45 Copynumber: 5.9 Consensus size: 45
112110004 CGATGCCCGC
* * * * * *
112110014 TATCTTTGATCTGCTACTCGTCTAATTCAGAGATGCCAAATTTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATCTGT
* **
112110059 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTAC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATCTGT
* * *
112110104 T-TCTTCAATCTACTCCCTGTCTAATACAGAGATACCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATCTGT
* * * *
112110148 TATCTCCGATTTGCTCCCCATCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATCTGT
* * * * * * * *
112110193 CATCTTGGATCTGCT--TCGATGTAA-ACACATGA-AGGTCAGATCTGC
1 TATCTTCGATCTGCTCCCCG-TCTAATACAGA-GATA--CCAAATCTGT
* *
112110238 TATGTTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 TAT-CTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATC
112110281 ATCTTGGATC
Statistics
Matches: 169, Mismatches: 43, Indels: 19
0.73 0.19 0.08
Matches are distributed among these distances:
43 5 0.03
44 44 0.26
45 93 0.55
46 15 0.09
47 6 0.04
48 6 0.04
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATCTGT
Found at i:112110126 original size:44 final size:44
Alignment explanation
Indices: 112110061--112110190 Score: 134
Period size: 44 Copynumber: 2.9 Consensus size: 44
112110051 AAATTTGTTA
* *
112110061 TCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTACT
1 TCTTCAATCTACTCCCCGTCTAATACAGAGACACCAAATCTACT
* * **
112110105 TCTTCAATCTACTCCCTGTCTAATACAGAGATACCAAATCTGTT
1 TCTTCAATCTACTCCCCGTCTAATACAGAGACACCAAATCTACT
* * * * * **
112110149 ATCTCCGATTTGCTCCCCATCTAATACAGAGATGCCAAATCT
1 -TCTTCAATCTACTCCCCGTCTAATACAGAGACACCAAATCT
112110191 GTCATCTTGG
Statistics
Matches: 72, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 38 0.53
45 34 0.47
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (44 bp):
TCTTCAATCTACTCCCCGTCTAATACAGAGACACCAAATCTACT
Found at i:112110459 original size:78 final size:78
Alignment explanation
Indices: 112110221--112110591 Score: 550
Period size: 78 Copynumber: 4.8 Consensus size: 78
112110211 ATGTAAACAC
*
112110221 ATGAAGGTCAGATCTGCTATGT-TTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
112110285 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * *
112110298 ATGAAGGTTCA-ATCTGTTAT-TCTTTGTTTTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGG-TCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
112110361 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
112110375 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
112110440 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
112110453 ATGAAGGTCAGATCTACTGTGTCTTCGATCTGTTCCCCATCTAATACGGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
112110518 TGGATCTGGTTCA
66 TGGATCTGCTTCA
* * * ** *
112110531 ATGAAGGTCATATCTGCTGTGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGGCAAATC
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
112110592 TGTTTCTTCT
Statistics
Matches: 268, Mismatches: 22, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
76 4 0.01
77 81 0.30
78 183 0.68
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:112118214 original size:17 final size:18
Alignment explanation
Indices: 112118182--112118215 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
112118172 GATATGATAC
*
112118182 TAAAATTATTTAAAAAAT
1 TAAAATTATATAAAAAAT
112118200 TAAAA-TATATAAAAAA
1 TAAAATTATATAAAAAA
112118216 AATTAGGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATTATATAAAAAAT
Found at i:112118507 original size:22 final size:21
Alignment explanation
Indices: 112118472--112118529 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
112118462 AAAAGGTATC
* *
112118472 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
112118493 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCATATC-TCTAAGAT
* *
112118516 TTCATATCATATCT
1 TACAAATCATATCT
112118530 AAGATTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.40
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:112118561 original size:19 final size:19
Alignment explanation
Indices: 112118508--112118580 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
112118498 AATCATATCT
* *
112118508 TCTAATATTTCATATCATA
1 TCTAAGATTGCATATCATA
112118527 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
112118544 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
112118563 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
112118581 TGAAGAGTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.34
19 33 0.66
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:112118736 original size:21 final size:20
Alignment explanation
Indices: 112118698--112118737 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
112118688 CTTGGACTTC
**
112118698 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
112118718 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
112118738 TCTGGGCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:112118863 original size:18 final size:18
Alignment explanation
Indices: 112118840--112118876 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
112118830 AATACTTATA
112118840 AATATCGATACCAAATTG
1 AATATCGATACCAAATTG
112118858 AATATCGATACCAAATTG
1 AATATCGATACCAAATTG
112118876 A
1 A
112118877 TATTCTGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (18 bp):
AATATCGATACCAAATTG
Found at i:112119346 original size:2 final size:2
Alignment explanation
Indices: 112119334--112119368 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
112119324 ATTTAAACAT
*
112119334 TA TA TA GA 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 T
112119369 CACAACATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:112123328 original size:17 final size:17
Alignment explanation
Indices: 112123308--112123367 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
112123298 TTTTACCTTC
*
112123308 AAATTATTTTTGTAGTT
1 AAATGATTTTTGTAGTT
112123325 AAATGA-TTTT-TA-TT
1 AAATGATTTTTGTAGTT
*
112123339 CAAATTATTTTTGTAGTT
1 -AAATGATTTTTGTAGTT
112123357 AAATGATTTTT
1 AAATGATTTTT
112123368 ACTTATAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.06
15 7 0.19
16 8 0.22
17 17 0.47
18 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.57
Consensus pattern (17 bp):
AAATGATTTTTGTAGTT
Found at i:112123346 original size:32 final size:32
Alignment explanation
Indices: 112123305--112123368 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
112123295 CTATTTTACC
112123305 TTCAAATTATTTTTGTAGTTAAATGATTTTTA
1 TTCAAATTATTTTTGTAGTTAAATGATTTTTA
112123337 TTCAAATTATTTTTGTAGTTAAATGATTTTTA
1 TTCAAATTATTTTTGTAGTTAAATGATTTTTA
112123369 CTTATAAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (32 bp):
TTCAAATTATTTTTGTAGTTAAATGATTTTTA
Found at i:112123348 original size:15 final size:16
Alignment explanation
Indices: 112123305--112123368 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
112123295 CTATTTTACC
112123305 TTCAAATTATTTTTGTAG
1 TTCAAATTA-TTTT-TAG
*
112123323 TT-AAATGATTTTTA-
1 TTCAAATTATTTTTAG
112123337 TTCAAATTATTTTTGTAG
1 TTCAAATTA-TTTT-TAG
*
112123355 TT-AAATGATTTTTA
1 TTCAAATTATTTTTA
112123369 CTTATAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
14 2 0.05
15 9 0.23
16 12 0.31
17 12 0.31
18 4 0.10
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (16 bp):
TTCAAATTATTTTTAG
Found at i:112124628 original size:16 final size:16
Alignment explanation
Indices: 112124594--112124645 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
112124584 TTTAATATAT
*
112124594 TTTTTAA-ATATTTTTA
1 TTTTTAATATA-TTTAA
112124610 TTTTTAATATATTTAA
1 TTTTTAATATATTTAA
* **
112124626 TTTATGTTATATTTAA
1 TTTTTAATATATTTAA
112124642 TTTT
1 TTTT
112124646 GGTATTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 27 0.90
17 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTAATATATTTAA
Found at i:112126589 original size:28 final size:28
Alignment explanation
Indices: 112126557--112126671 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 28
112126547 TACATGTATC
* *
112126557 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
112126585 TGGCCCATTAGGCGCAAATCACCTGT-ATA
1 TGGCCCATTAGGC-CCAATCACAT-TCATA
* *
112126614 TGGCTCATTAGGCCCAAGTCACATTTATA
1 TGGCCCATTAGGCCCAA-TCACATTCATA
** *
112126643 TGGCCTGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
112126671 T
1 T
112126672 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 27 0.38
29 43 0.61
30 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:112131005 original size:28 final size:29
Alignment explanation
Indices: 112130973--112131087 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
112130963 TACATGTATC
*
112130973 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
*
112131001 TGGCCCATTAAGCCCAAATCAC-TTGTATA
1 TGGCCCATTAAGCCCAAATCACATT-CATA
*
112131030 TGGCCCATTAAGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
** * *
112131059 TGGCCTGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
112131087 T
1 T
112131088 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 29 0.38
29 46 0.60
30 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:112131168 original size:17 final size:18
Alignment explanation
Indices: 112131146--112131179 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
112131136 TGCCTACTAT
112131146 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
112131163 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
112131180 TCTGGCCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:112132558 original size:16 final size:16
Alignment explanation
Indices: 112132537--112132569 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
112132527 AAAAATTCAA
112132537 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
112132553 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
112132569 G
1 G
112132570 GGTGTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.33, T:0.48
Consensus pattern (16 bp):
GATTTCGGGATTTTTG
Found at i:112133391 original size:23 final size:22
Alignment explanation
Indices: 112133327--112133391 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 22
112133317 TCCTCTTAAT
* *
112133327 AACTCTTTGGAGTTACCTGTTA
1 AACTCTTAGGAGTTTCCTGTTA
* * * *
112133349 AGCTC-AATGAGCTTCCTGTTCA
1 AACTCTTAGGAGTTTCCTGTT-A
112133371 AACTCTTAGGAGTTTCCTGTT
1 AACTCTTAGGAGTTTCCTGTT
112133392 TAACCCGAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
21 10 0.32
22 9 0.29
23 12 0.39
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (22 bp):
AACTCTTAGGAGTTTCCTGTTA
Found at i:112134305 original size:24 final size:24
Alignment explanation
Indices: 112134277--112134331 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
112134267 TTTCTTAAAG
* *
112134277 ATTTATTATTTATTAGTATAATAT
1 ATTTATCATTTATTAGCATAATAT
* * *
112134301 ATTTAACATTTATTAGCATAGTTT
1 ATTTATCATTTATTAGCATAATAT
112134325 ATTTATC
1 ATTTATC
112134332 TTGCTAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (24 bp):
ATTTATCATTTATTAGCATAATAT
Found at i:112141599 original size:26 final size:25
Alignment explanation
Indices: 112141563--112141613 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
112141553 TTTATTATTT
*
112141563 TTTTAATAAAATATATTTAACAATAA
1 TTTTAATAAAATATA-ATAACAATAA
* *
112141589 TTTTATTAAAATTTAATAACAATAA
1 TTTTAATAAAATATAATAACAATAA
112141614 CAATAATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTTAATAAAATATAATAACAATAA
Found at i:112141790 original size:16 final size:16
Alignment explanation
Indices: 112141768--112141856 Score: 99
Period size: 16 Copynumber: 5.6 Consensus size: 16
112141758 TTGAATTACT
112141768 AATTACAGTTCTATTC
1 AATTACAGTTCTATTC
*
112141784 CATTACAGTTCTATTC
1 AATTACAGTTCTATTC
*
112141800 AATTATAGCTT-TATTC
1 AATTACAG-TTCTATTC
*
112141816 AATTACAGCTCTATTC
1 AATTACAGTTCTATTC
* **
112141832 AATTATAGCCCTATTC
1 AATTACAGTTCTATTC
*
112141848 CATTACAGT
1 AATTACAGT
112141857 GAGACAAACG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
15 1 0.02
16 58 0.95
17 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (16 bp):
AATTACAGTTCTATTC
Found at i:112141815 original size:32 final size:32
Alignment explanation
Indices: 112141778--112141856 Score: 122
Period size: 32 Copynumber: 2.5 Consensus size: 32
112141768 AATTACAGTT
*
112141778 CTATTCCATTACAGTTCTATTCAATTATAGCT
1 CTATTCCATTACAGTTCTATTCAATTATAGCC
* * *
112141810 TTATTCAATTACAGCTCTATTCAATTATAGCC
1 CTATTCCATTACAGTTCTATTCAATTATAGCC
112141842 CTATTCCATTACAGT
1 CTATTCCATTACAGT
112141857 GAGACAAACG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (32 bp):
CTATTCCATTACAGTTCTATTCAATTATAGCC
Found at i:112143258 original size:26 final size:26
Alignment explanation
Indices: 112143229--112143338 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
112143219 TGATACAAAT
112143229 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
112143255 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112143281 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
112143307 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112143333 TGATAA
1 TGATAA
112143339 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112151820 original size:17 final size:17
Alignment explanation
Indices: 112151798--112151832 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
112151788 GAATGTTATG
112151798 TATGTGTATTGTATAAT
1 TATGTGTATTGTATAAT
112151815 TATGTGTATTGTATAAT
1 TATGTGTATTGTATAAT
112151832 T
1 T
112151833 TACATGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (17 bp):
TATGTGTATTGTATAAT
Found at i:112152000 original size:24 final size:23
Alignment explanation
Indices: 112151973--112152053 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
112151963 TAGCTCGAAA
112151973 GAGCATCCCGTTATTAGCTCTCTC
1 GAGCATCCCGTTATTAGCTCT-TC
* * * *
112151997 GAGCTTCCCATTATATGGTTCTTGC
1 GAGCATCCCGTTAT-TAGCTCTT-C
* *
112152022 GAGCTTCCCGTTAATAGCTCTTC
1 GAGCATCCCGTTATTAGCTCTTC
112152045 GGAGCATCC
1 -GAGCATCC
112152054 GGATCGGTCA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.02
24 26 0.58
25 18 0.40
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (23 bp):
GAGCATCCCGTTATTAGCTCTTC
Found at i:112152204 original size:25 final size:25
Alignment explanation
Indices: 112152176--112152227 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
112152166 TTCGCTTGAA
112152176 CTTCCCAA-TATATGGCTATTCGGAG
1 CTTCCCAATTA-ATGGCTATTCGGAG
** *
112152201 CTTCCTGATTAATGGCTCTTCGGAG
1 CTTCCCAATTAATGGCTATTCGGAG
112152226 CT
1 CT
112152228 ACTGGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
CTTCCCAATTAATGGCTATTCGGAG
Found at i:112158169 original size:63 final size:63
Alignment explanation
Indices: 112158047--112158170 Score: 158
Period size: 63 Copynumber: 2.0 Consensus size: 63
112158037 GCCATCTGGT
* * * * * * *
112158047 AAGCCATATAACTTATTATTTTGGAATTAGAGTCACACGGGTCAAAGACACGGATGTGTGTCC
1 AAGCCATATAACTCACTATCTTAGAATTAGAGTCACACGGGCCAAAAACACGGACGTGTGTCC
* * *
112158110 AAGCCATGTAACTCACTATCTTAGAATTAGAGTCACACGGGCCAAAAATACGGGCGTGTGT
1 AAGCCATATAACTCACTATCTTAGAATTAGAGTCACACGGGCCAAAAACACGGACGTGTGT
112158171 TAAGTCATGT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (63 bp):
AAGCCATATAACTCACTATCTTAGAATTAGAGTCACACGGGCCAAAAACACGGACGTGTGTCC
Found at i:112163066 original size:59 final size:59
Alignment explanation
Indices: 112162967--112163098 Score: 210
Period size: 59 Copynumber: 2.2 Consensus size: 59
112162957 TGTTGTTGTT
* * *
112162967 TACAAATTGCTTAACACTTGGTATACATGACTGCTGGTTAGAAAAGATAACAATTGATA
1 TACAAATTGCTTAACAATTGGTATACATGACTACTAGTTAGAAAAGATAACAATTGATA
* * *
112163026 TACAAATTGCTTAACAATTGGTATACATGGCTACTAGTTAGAAAAGATAACAGTTGGTA
1 TACAAATTGCTTAACAATTGGTATACATGACTACTAGTTAGAAAAGATAACAATTGATA
112163085 TACAAATTGCTTAA
1 TACAAATTGCTTAA
112163099 TAGTTGGATA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (59 bp):
TACAAATTGCTTAACAATTGGTATACATGACTACTAGTTAGAAAAGATAACAATTGATA
Found at i:112163526 original size:21 final size:21
Alignment explanation
Indices: 112163502--112163555 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
112163492 AACTTCTTGA
112163502 TGAGTTGGGGCAGTAGGT-AT
1 TGAGTTGGGGCAGTAGGTAAT
*
112163522 CTGAGTTGGGGTAGTAGGTAAT
1 -TGAGTTGGGGCAGTAGGTAAT
112163544 TGAGTTGGGGCA
1 TGAGTTGGGGCA
112163556 CCTTGTTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.20, C:0.06, G:0.44, T:0.30
Consensus pattern (21 bp):
TGAGTTGGGGCAGTAGGTAAT
Found at i:112164355 original size:43 final size:43
Alignment explanation
Indices: 112164261--112164438 Score: 238
Period size: 43 Copynumber: 4.2 Consensus size: 43
112164251 ATAAAAAAAC
* *
112164261 TCATTGCATGCATATTAAAAAATAGGCAAC-AC--ACCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
* *
112164301 TCATTGTATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
* *
112164344 TCATTACATGCATATTAAAAAATAGTCAACAACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
* * *
112164387 TCATTGCATACATATTAAAAAA-AGTCAATAACTTTCCAACAG
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
112164429 TCATTACATG
1 TCATTGCATG
112164439 TGATCAGCAA
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 28 0.23
41 1 0.01
42 25 0.21
43 66 0.55
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
Found at i:112164356 original size:83 final size:84
Alignment explanation
Indices: 112164261--112164438 Score: 243
Period size: 83 Copynumber: 2.1 Consensus size: 84
112164251 ATAAAAAAAC
* * *
112164261 TCATTGCATGCATATTAAAAAATAGGCAAC-AC-ACCAACAATCATTGTATGCATATTAAAAAAT
1 TCATTACATGCATATTAAAAAATAGGCAACAACTACCAACAATCATTGCATACATATTAAAAAA-
*
112164324 AGTCAACAGCTTTCCAACAA
65 AGTCAACAACTTTCCAACAA
* * *
112164344 TCATTACATGCATATTAAAAAATAGTCAACAACTTTCCAATAATCATTGCATACATATTAAAAAA
1 TCATTACATGCATATTAAAAAATAGGCAACAAC-TACCAACAATCATTGCATACATATTAAAAAA
* *
112164409 AGTCAATAACTTTCCAACAG
65 AGTCAACAACTTTCCAACAA
112164429 TCATTACATG
1 TCATTACATG
112164439 TGATCAGCAA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
83 28 0.34
84 2 0.02
85 27 0.33
86 26 0.31
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (84 bp):
TCATTACATGCATATTAAAAAATAGGCAACAACTACCAACAATCATTGCATACATATTAAAAAAA
GTCAACAACTTTCCAACAA
Found at i:112166104 original size:15 final size:15
Alignment explanation
Indices: 112166079--112166127 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
112166069 TCAGATGCAT
112166079 CACTGTCACTACCAGA
1 CACT-TCACTACCAGA
*
112166095 CACTTCACTACCAGT
1 CACTTCACTACCAGA
* *
112166110 TACATCACTACCAGA
1 CACTTCACTACCAGA
112166125 CAC
1 CAC
112166128 GTTTTCTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 24 0.86
16 4 0.14
ACGTcount: A:0.33, C:0.39, G:0.08, T:0.20
Consensus pattern (15 bp):
CACTTCACTACCAGA
Found at i:112166483 original size:62 final size:62
Alignment explanation
Indices: 112166412--112166646 Score: 362
Period size: 62 Copynumber: 3.8 Consensus size: 62
112166402 TAAGAGCTTG
* *
112166412 GATACAAACAATGACAGATATACACAATAAACATCAATTCAATAATGTATAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATGGCA
*
112166474 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATGGCA
* * * **
112166536 GATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATG-TA-TAATTTAATGGCA
* *
112166600 GATACAAACAATGGCAGATATACACAATAAAGATCAATTTGATAATG
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATG
112166647 ACATTCATAC
Statistics
Matches: 161, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
62 104 0.65
63 1 0.01
64 56 0.35
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.25
Consensus pattern (62 bp):
GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATGGCA
Found at i:112166675 original size:112 final size:111
Alignment explanation
Indices: 112166543--112166796 Score: 373
Period size: 112 Copynumber: 2.3 Consensus size: 111
112166533 GCAGATACAA
* **
112166543 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCAGATACAAA
1 ACAATGGCAGATATA-ACAATAAACATCAATTTAATAATGACATTCATACAATAACAGATACAAA
112166608 CAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
65 CAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
* * * * * *
112166655 ACAATGGCATATATATACAATAAAGATCAGTTTAATAATGGCATTCATATAATAATAGATACAAA
1 ACAATGGCAGATATA-ACAATAAACATCAATTTAATAATGACATTCATACAATAACAGATACAAA
* *
112166720 CAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCAT
65 CAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
*
112166767 ACAATGGCAGATACAACCAATAAACATCAA
1 ACAATGGCAGATATAA-CAATAAACATCAA
112166797 AATCAAAATC
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
111 1 0.01
112 124 0.99
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.25
Consensus pattern (111 bp):
ACAATGGCAGATATAACAATAAACATCAATTTAATAATGACATTCATACAATAACAGATACAAAC
AATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
Found at i:112166676 original size:48 final size:48
Alignment explanation
Indices: 112166607--112166703 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
112166597 GCAGATACAA
*
112166607 ACAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
1 ACAATGGCAGATATACACAATAAAGATCAATTTAATAATGACATTCAT
* * * *
112166655 ACAATGGCATATATATACAATAAAGATCAGTTTAATAATGGCATTCAT
1 ACAATGGCAGATATACACAATAAAGATCAATTTAATAATGACATTCAT
112166703 A
1 A
112166704 TAATAATAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (48 bp):
ACAATGGCAGATATACACAATAAAGATCAATTTAATAATGACATTCAT
Found at i:112166705 original size:34 final size:33
Alignment explanation
Indices: 112166657--112166771 Score: 91
Period size: 34 Copynumber: 3.5 Consensus size: 33
112166647 ACATTCATAC
112166657 AATGGCATATATATACAATAAAGATCAGTTTAAT
1 AATGGCAT-TATATACAATAAAGATCAGTTTAAT
*
112166691 AATGGCATTCATAT--AATAATAGATACA----AAC
1 AATGGCATT-ATATACAATAA-AGAT-CAGTTTAAT
* * *
112166721 AATGGCAGATATACACAATAAAGATCAGTTTGAT
1 AATGGCA-TTATATACAATAAAGATCAGTTTAAT
*
112166755 AATGGCATT-CATACAAT
1 AATGGCATTATATACAAT
112166772 GGCAGATACA
Statistics
Matches: 63, Mismatches: 8, Indels: 22
0.68 0.09 0.24
Matches are distributed among these distances:
30 14 0.22
31 5 0.08
32 16 0.25
33 6 0.10
34 22 0.35
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (33 bp):
AATGGCATTATATACAATAAAGATCAGTTTAAT
Found at i:112166723 original size:48 final size:48
Alignment explanation
Indices: 112166614--112166723 Score: 112
Period size: 48 Copynumber: 2.3 Consensus size: 48
112166604 CAAACAATGG
* * * **
112166614 CAGATATACACAATAAAGATCAATTTGATAATGACATTCATACAATGG
1 CAGATACAAACAATAAAGATCAATTTAATAATGACATTCATACAATAA
* * * * * *
112166662 CATATATATACAATAAAGATCAGTTTAATAATGGCATTCATATAATAA
1 CAGATACAAACAATAAAGATCAATTTAATAATGACATTCATACAATAA
*
112166710 TAGATACAAACAAT
1 CAGATACAAACAAT
112166724 GGCAGATATA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (48 bp):
CAGATACAAACAATAAAGATCAATTTAATAATGACATTCATACAATAA
Found at i:112166771 original size:32 final size:32
Alignment explanation
Indices: 112166669--112166771 Score: 90
Period size: 32 Copynumber: 3.2 Consensus size: 32
112166659 TGGCATATAT
112166669 ATACAATAAAGATCAGTTTAATAATGGCATTC
1 ATACAATAAAGATCAGTTTAATAATGGCATTC
* *
112166701 ATATAATAATAGATACA----AACAATGGCAGATAT-
1 ATACAATAA-AGAT-CAGTTTAATAATGGC--AT-TC
* *
112166733 ACACAATAAAGATCAGTTTGATAATGGCATTC
1 ATACAATAAAGATCAGTTTAATAATGGCATTC
112166765 ATACAAT
1 ATACAAT
112166772 GGCAGATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 20
0.67 0.09 0.25
Matches are distributed among these distances:
30 10 0.19
31 5 0.09
32 25 0.46
33 5 0.09
34 9 0.17
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (32 bp):
ATACAATAAAGATCAGTTTAATAATGGCATTC
Found at i:112166779 original size:64 final size:64
Alignment explanation
Indices: 112166655--112166787 Score: 194
Period size: 64 Copynumber: 2.1 Consensus size: 64
112166645 TGACATTCAT
* * * *
112166655 ACAATGGCATATATATACAATAAAGATCAGTTTAATAATGGCATTCATATAATAATAGATACAA
1 ACAATGGCAGATATACACAATAAAGATCAGTTTAATAATGGCATTCATACAATAACAGATACAA
* **
112166719 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
1 ACAATGGCAGATATACACAATAAAGATCAGTTTAATAATGGCATTCATACAATAACAGATACAA
*
112166783 CCAAT
1 ACAAT
112166788 AAACATCAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (64 bp):
ACAATGGCAGATATACACAATAAAGATCAGTTTAATAATGGCATTCATACAATAACAGATACAA
Found at i:112166955 original size:12 final size:12
Alignment explanation
Indices: 112166929--112167016 Score: 56
Period size: 12 Copynumber: 7.4 Consensus size: 12
112166919 AAATAACCCT
*
112166929 AAATC-AAATCT
1 AAATCGAAATCA
112166940 AAATCGAAATCA
1 AAATCGAAATCA
112166952 AAATC-AAATTC-
1 AAATCGAAA-TCA
* * *
112166963 TAATCCTAAATTA
1 AAAT-CGAAATCA
* *
112166976 AGATCGAAATCG
1 AAATCGAAATCA
*
112166988 AAATTGAAATCA
1 AAATCGAAATCA
* *
112167000 AAATCTAAATCT
1 AAATCGAAATCA
112167012 AAATC
1 AAATC
112167017 AGAATCAGTG
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
11 11 0.19
12 42 0.72
13 5 0.09
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.26
Consensus pattern (12 bp):
AAATCGAAATCA
Found at i:112166989 original size:42 final size:42
Alignment explanation
Indices: 112166926--112167022 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
112166916 TCAAAATAAC
* *
112166926 CCTAAATCAAATCTAAATCGAAATCAAAATCAAATTCT-AAT
1 CCTAAATCAAATCGAAATCGAAATCAAAATCAAAATCTAAAT
* **
112166967 CCTAAATTAAGATCGAAATCGAAATTGAAATCAAAATCTAAAT
1 CCTAAATCAA-ATCGAAATCGAAATCAAAATCAAAATCTAAAT
112167010 -CTAAATCAGAATC
1 CCTAAATCA-AATC
112167023 AGTGAGTTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
41 9 0.19
42 34 0.72
43 4 0.09
ACGTcount: A:0.51, C:0.18, G:0.06, T:0.26
Consensus pattern (42 bp):
CCTAAATCAAATCGAAATCGAAATCAAAATCAAAATCTAAAT
Found at i:112167017 original size:18 final size:18
Alignment explanation
Indices: 112166929--112167022 Score: 63
Period size: 18 Copynumber: 5.3 Consensus size: 18
112166919 AAATAACCCT
*
112166929 AAATC-AAATCTAAATCG
1 AAATCTAAATCTAAATCA
*
112166946 AAATCAAAATC-AAATTC-
1 AAATCTAAATCTAAA-TCA
* *
112166963 TAATCCTAAAT-TAAGATCG
1 AAAT-CTAAATCTAA-ATCA
*
112166982 AAATCGAAAT-TGAAATCA
1 AAATCTAAATCT-AAATCA
112167000 AAATCTAAATCTAAATCA
1 AAATCTAAATCTAAATCA
*
112167018 GAATC
1 AAATC
112167023 AGTGAGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
17 11 0.18
18 44 0.71
19 7 0.11
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATCTAAATCTAAATCA
Found at i:112167638 original size:31 final size:29
Alignment explanation
Indices: 112167602--112167674 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 29
112167592 GGTAACTGTT
*
112167602 AGTTAGTGACTGTTTTGTCACTTTTTTATA
1 AGTTAGTGACTGTTTTGTCACTTTTTGA-A
* *
112167632 ACGTTAGTGACCGTTTTGTTACTTTTTGAA
1 A-GTTAGTGACTGTTTTGTCACTTTTTGAA
112167662 AGTTAAGTGACTG
1 AGTT-AGTGACTG
112167675 AAATGAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 3 0.08
30 10 0.27
31 24 0.65
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.47
Consensus pattern (29 bp):
AGTTAGTGACTGTTTTGTCACTTTTTGAA
Found at i:112180494 original size:2 final size:2
Alignment explanation
Indices: 112180487--112180527 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
112180477 TTTAATAAGT
112180487 TA 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 TA T
112180528 TGTATTGAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112182562 original size:22 final size:23
Alignment explanation
Indices: 112182532--112182574 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
112182522 TATATAAAAA
*
112182532 TATTCTTTATT-AATTATTTTTT
1 TATTCTTTATTCAATAATTTTTT
*
112182554 TATTTTTTATTCAATAATTTT
1 TATTCTTTATTCAATAATTTT
112182575 AAATTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTCTTTATTCAATAATTTTTT
Found at i:112186796 original size:16 final size:17
Alignment explanation
Indices: 112186769--112186800 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
112186759 AAATGTAGAC
112186769 GAGAAGAAGAAAAATCA
1 GAGAAGAAGAAAAATCA
112186786 GAGAA-AAGAAAAATC
1 GAGAAGAAGAAAAATC
112186801 TTGTGTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.66, C:0.06, G:0.22, T:0.06
Consensus pattern (17 bp):
GAGAAGAAGAAAAATCA
Found at i:112186973 original size:25 final size:25
Alignment explanation
Indices: 112186919--112186974 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
112186909 CTAAACGCAT
* *
112186919 CATTTT-ATTTAAACTGAAACTCCT
1 CATTTTGATTGAAACTGAAACTCCC
*
112186943 CGTTTTGATTGAAACTGAAACTCCC
1 CATTTTGATTGAAACTGAAACTCCC
112186968 CATTTTG
1 CATTTTG
112186975 TTTATTCGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (25 bp):
CATTTTGATTGAAACTGAAACTCCC
Found at i:112190577 original size:25 final size:25
Alignment explanation
Indices: 112190546--112190598 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
112190536 AAATATTAAG
112190546 TTTAATAA--TTATTTAATATTATTAT
1 TTTAATAATGTTA-TTAAT-TTATTAT
112190571 TTTAATAATGTTATTAATTTATTAT
1 TTTAATAATGTTATTAATTTATTAT
112190596 TTT
1 TTT
112190599 TATACTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 18 0.69
26 5 0.19
27 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTAATAATGTTATTAATTTATTAT
Found at i:112190664 original size:24 final size:24
Alignment explanation
Indices: 112190611--112190771 Score: 109
Period size: 21 Copynumber: 7.2 Consensus size: 24
112190601 TACTTAAATT
*
112190611 TTTTAATAATTTTGAA-ATTA--A
1 TTTTAATAATTTTTAATATTATTA
* *
112190632 GTTTCATAATTTTTAATATTATTA
1 TTTTAATAATTTTTAATATTATTA
112190656 TTTTAATAATGTTATTAAT-TTATTA
1 TTTTAATAAT-TT-TTAATATTATTA
* **
112190681 TTTT--TTATGCTT-A-A--ATT-
1 TTTTAATAATTTTTAATATTATTA
*
112190698 TTTTAATAATTTTGAA-ATTA--A
1 TTTTAATAATTTTTAATATTATTA
*
112190719 GTTTAATAATTTTTAATATTATTA
1 TTTTAATAATTTTTAATATTATTA
112190743 TTTTAATAATTTTGATAAT-TTATTA
1 TTTTAATAATTTT--TAATATTATTA
112190768 TTTT
1 TTTT
112190772 TTATGCTTAG
Statistics
Matches: 108, Mismatches: 15, Indels: 30
0.71 0.10 0.20
Matches are distributed among these distances:
17 4 0.04
18 3 0.03
19 4 0.04
20 3 0.03
21 29 0.27
22 9 0.08
23 3 0.03
24 22 0.20
25 22 0.20
26 9 0.08
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTTAATAATTTTTAATATTATTA
Found at i:112190700 original size:86 final size:87
Alignment explanation
Indices: 112190540--112190839 Score: 478
Period size: 87 Copynumber: 3.4 Consensus size: 87
112190530 GAAAAAAAAT
*
112190540 ATTAAGTTTAATAATTATTTAATATTATTATTTTAATAATGTTATTAATTTATTA-TTTTTATAC
1 ATTAAGTTTAATAATT-TTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTTATGC
112190604 TTAAATTTTTTAATAATTTTGAA
65 TTAAATTTTTTAATAATTTTGAA
*
112190627 ATTAAGTTTCATAATTTTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTTATGCT
1 ATTAAGTTTAATAATTTTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTTATGCT
112190692 TAAATTTTTTAATAATTTTGAA
66 TAAATTTTTTAATAATTTTGAA
*
112190714 ATTAAGTTTAATAATTTTTAATATTATTATTTTAATAATTTTGA-TAATTTATTATTTTTTATGC
1 ATTAAGTTTAATAATTTTTAATATTATTATTTTAATAATGTT-ATTAATTTATTATTTTTTATGC
* * *
112190778 TTAGATTTTTTAATATTTTTAAA
65 TTAAATTTTTTAATAATTTTGAA
* * *
112190801 ATTAAGTCTAATAATTTTTTAGTATTATTAATTTAATAA
1 ATTAAGTTTAATAA-TTTTTAATATTATTATTTTAATAA
112190840 ATTTTTATTG
Statistics
Matches: 200, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
86 38 0.19
87 139 0.69
88 23 0.12
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (87 bp):
ATTAAGTTTAATAATTTTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTTATGCT
TAAATTTTTTAATAATTTTGAA
Found at i:112190725 original size:21 final size:22
Alignment explanation
Indices: 112190699--112190762 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 22
112190689 GCTTAAATTT
112190699 TTTAATAATTTTGAAATTA-AG
1 TTTAATAATTTTGAAATTATAG
* *
112190720 TTTAATAATTTTTAATATTATTAT
1 TTTAATAATTTTGAA-ATTA-TAG
112190744 TTTAATAATTTTGATAATT
1 TTTAATAATTTTGA-AATT
112190763 TATTATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 14 0.39
22 4 0.11
24 17 0.47
25 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTAATAATTTTGAAATTATAG
Found at i:112194416 original size:27 final size:27
Alignment explanation
Indices: 112194384--112194488 Score: 165
Period size: 27 Copynumber: 3.9 Consensus size: 27
112194374 TATGGGCCCC
* *
112194384 ACCATTTGCGCCTCTGAGATAGGCCCC
1 ACCATTTGCGCCTCTGAGATAGGCACA
112194411 ACCATTTGCGCCTCTGAGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCACA
*
112194438 ATCATTTGCGCCTCTGAGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCACA
* *
112194465 ACCATTTGCGCCTTTGAGAAAGGC
1 ACCATTTGCGCCTCTGAGATAGGC
112194489 TCGATTAGTC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (27 bp):
ACCATTTGCGCCTCTGAGATAGGCACA
Found at i:112194503 original size:54 final size:54
Alignment explanation
Indices: 112194391--112194506 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
112194381 CCCACCATTT
* * * * *
112194391 GCGCCTCTGAGATAGGCCCCACCATTTGCGCCTCTGAGATAGGCACAATCATTT
1 GCGCCTCTGAGATAGGCACAACCATTTGCGCCTCTGAGAAAGGCACAATCAGTC
* * * *
112194445 GCGCCTCTGAGATAGGCACAACCATTTGCGCCTTTGAGAAAGGCTCGATTAGTC
1 GCGCCTCTGAGATAGGCACAACCATTTGCGCCTCTGAGAAAGGCACAATCAGTC
112194499 GCGCCTCT
1 GCGCCTCT
112194507 CAGGTAGGTG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (54 bp):
GCGCCTCTGAGATAGGCACAACCATTTGCGCCTCTGAGAAAGGCACAATCAGTC
Done.