Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 404 of 410
Found at i:121933367 original size:6 final size:6
Alignment explanation
Indices: 121933356--121933394 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
121933346 CAATTTAATT
* *
121933356 TTTTTC TTTTTC TTTTTC TTTTTT TATTTTC CTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TT
121933395 CTTCCCCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:121933379 original size:20 final size:20
Alignment explanation
Indices: 121933354--121933391 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
121933344 AACAATTTAA
* *
121933354 TTTTTTTCTTTTTCTTTTTC
1 TTTTTTTATTTTCCTTTTTC
121933374 TTTTTTTATTTTCCTTTT
1 TTTTTTTATTTTCCTTTT
121933392 CTTCTTCCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTATTTTCCTTTTTC
Found at i:121945139 original size:41 final size:41
Alignment explanation
Indices: 121945064--121945141 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
121945054 ATAGTGATAT
* *
121945064 TCGGGCTTTAAGCCTAGCAAGCATGGTGCTGGTGAATGTAA
1 TCGGGCTTTAAGCCTAGCAAGCATAGTGCCGGTGAATGTAA
* * * *
121945105 TCGGGCTTTATGCCTAGCAGGCTTATTGCCGGTGAAT
1 TCGGGCTTTAAGCCTAGCAAGCATAGTGCCGGTGAAT
121945142 ATAAAATCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (41 bp):
TCGGGCTTTAAGCCTAGCAAGCATAGTGCCGGTGAATGTAA
Found at i:121951522 original size:26 final size:26
Alignment explanation
Indices: 121951486--121951595 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
121951476 TGATACAAAT
121951486 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
121951512 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
121951538 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
121951564 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
121951590 TGATAA
1 TGATAA
121951596 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:121960863 original size:21 final size:21
Alignment explanation
Indices: 121960821--121960863 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
121960811 AAATGTAAAC
*
121960821 TTACTAATAGTTTAGTGATAT
1 TTACTAATAGTTTAGTCATAT
*
121960842 TTACT-ATAGTTTAAGTCTTAT
1 TTACTAATAGTTT-AGTCATAT
121960863 T
1 T
121960864 GGTGTAGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (21 bp):
TTACTAATAGTTTAGTCATAT
Found at i:121968773 original size:2 final size:2
Alignment explanation
Indices: 121968766--121968810 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
121968756 ACAATGAAAG
121968766 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
121968808 AT A
1 AT A
121968811 CCAAATAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:121969359 original size:11 final size:11
Alignment explanation
Indices: 121969338--121969371 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
121969328 TCTAATAAAA
121969338 ATAATAATATAC
1 ATAA-AATATAC
121969350 ATAAAATATAC
1 ATAAAATATAC
*
121969361 ATAATATATAC
1 ATAAAATATAC
121969372 GTATATAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAAAATATAC
Found at i:121969366 original size:20 final size:18
Alignment explanation
Indices: 121969332--121969368 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
121969322 AATATGTCTA
121969332 ATAAAAATAATAATATAC
1 ATAAAAATAATAATATAC
121969350 ATAAAATATACATAATATA
1 ATAAAA-ATA-ATAATATA
121969369 TACGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAAATAATAATATAC
Found at i:121969501 original size:3 final size:3
Alignment explanation
Indices: 121969493--121969561 Score: 120
Period size: 3 Copynumber: 22.3 Consensus size: 3
121969483 AATATATATT
121969493 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
121969539 ATA ATA ATA ATA ATA CATA ATA A
1 ATA ATA ATA ATA ATA -ATA ATA A
121969562 CAAGATTGAA
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
3 58 0.91
4 6 0.09
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:121969908 original size:19 final size:20
Alignment explanation
Indices: 121969871--121969916 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
121969861 AATCCAATTC
121969871 TTGA-TCTGATTTCCTTGTT
1 TTGATTCTGATTTCCTTGTT
*
121969890 TTGTTTCTGATTT-CTTGTT
1 TTGATTCTGATTTCCTTGTT
121969909 TTGATTCT
1 TTGATTCT
121969917 CGGTCTATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.09, C:0.13, G:0.15, T:0.63
Consensus pattern (20 bp):
TTGATTCTGATTTCCTTGTT
Found at i:121970532 original size:8 final size:8
Alignment explanation
Indices: 121970519--121970549 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
121970509 TTTCTCATTT
121970519 GTTCTTTG
1 GTTCTTTG
121970527 GTTCTTTG
1 GTTCTTTG
121970535 GTTCTTTG
1 GTTCTTTG
121970543 GTTCTTT
1 GTTCTTT
121970550 TTAACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.23, T:0.65
Consensus pattern (8 bp):
GTTCTTTG
Found at i:121975339 original size:50 final size:50
Alignment explanation
Indices: 121975281--121975385 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
121975271 TTTTAATGTG
121975281 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
121975330 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
121975380 AGTATT
1 AGTATT
121975386 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:121976986 original size:44 final size:46
Alignment explanation
Indices: 121976874--121976993 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
121976864 TGAGACGAAG
* *
121976874 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTTCGAGATGTTA
1 GCTAGTGTAAGACATGTCTGGGACATGCGTCGACTACGAGATGTTA
* *
121976920 GCCAGTGTCAGACATGTCTGGGACATGCGTCGACTACGAGATG-T-
1 GCTAGTGTAAGACATGTCTGGGACATGCGTCGACTACGAGATGTTA
121976964 GCTAGTGTAAGACATGTCTGGGACATGCGT
1 GCTAGTGTAAGACATGTCTGGGACATGCGT
121976994 TAGCACGGTT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 28 0.41
45 1 0.01
46 39 0.57
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCGTCGACTACGAGATGTTA
Found at i:121979831 original size:20 final size:18
Alignment explanation
Indices: 121979806--121979842 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
121979796 ATTGCTAAGT
121979806 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
121979826 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
121979843 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:121981689 original size:50 final size:50
Alignment explanation
Indices: 121981631--121981735 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
121981621 TTTTAATGTG
*
121981631 AGTA-TGTAATATTATGATTTAGCCAAAGGTATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
121981680 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
121981730 AGTATT
1 AGTATT
121981736 AGTCATGTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 4 0.07
50 50 0.93
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:121984708 original size:2 final size:2
Alignment explanation
Indices: 121984701--121984737 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
121984691 AAATTATAAT
*
121984701 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
121984738 TTGAGTTGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:121984883 original size:23 final size:24
Alignment explanation
Indices: 121984842--121984886 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
121984832 TTGATTCGGA
*
121984842 TAAAAATTTTAAAACTAAATATAC
1 TAAAAATATTAAAACTAAATATAC
121984866 TAAAAATATTAAAA-TAAATAT
1 TAAAAATATTAAAACTAAATAT
121984887 TTCCCAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAAATATTAAAACTAAATATAC
Found at i:121985223 original size:2 final size:2
Alignment explanation
Indices: 121985216--121985242 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
121985206 CCAACTCTTT
121985216 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 T
121985243 TGGAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:121991947 original size:5 final size:5
Alignment explanation
Indices: 121991937--121991961 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
121991927 TTACTATCAG
121991937 CTGTA CTGTA CTGTA CTGTA CTGTA
1 CTGTA CTGTA CTGTA CTGTA CTGTA
121991962 ATGGTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTA
Found at i:121994879 original size:21 final size:23
Alignment explanation
Indices: 121994835--121994883 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
121994825 TTTAAAGTAT
121994835 TAAAT-TTCAAATTATATTTAAA
1 TAAATCTTCAAATTATATTTAAA
*
121994857 TAAATCTT-AAATT-TATTTTAA
1 TAAATCTTCAAATTATATTTAAA
121994878 TAAATC
1 TAAATC
121994884 AATTATAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 13 0.52
22 10 0.40
23 2 0.08
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAATCTTCAAATTATATTTAAA
Found at i:121994944 original size:29 final size:29
Alignment explanation
Indices: 121994911--121994973 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
121994901 TTATTACCCG
* *
121994911 ACTATGAAAAGTTACAAAATAGTCACTC-A
1 ACTATAAAAAATTACAAAATAGTCA-TCGA
*
121994940 ACTATAAAAAATTACAAAATGGTCATCGA
1 ACTATAAAAAATTACAAAATAGTCATCGA
121994969 ACTAT
1 ACTAT
121994974 TCAATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (29 bp):
ACTATAAAAAATTACAAAATAGTCATCGA
Found at i:121995682 original size:23 final size:23
Alignment explanation
Indices: 121995650--121995696 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
121995640 GTGCCACATG
121995650 TACCTATTGCTAATATACAACAA
1 TACCTATTGCTAATATACAACAA
*
121995673 TACCTCTTGCTAATATACAACAA
1 TACCTATTGCTAATATACAACAA
121995696 T
1 T
121995697 CAATTTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.32
Consensus pattern (23 bp):
TACCTATTGCTAATATACAACAA
Found at i:122001777 original size:9 final size:9
Alignment explanation
Indices: 122001750--122001784 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
122001740 ATTAATTGCT
122001750 AAAAATTTA
1 AAAAATTTA
*
122001759 AAAAA-ATA
1 AAAAATTTA
122001767 AAAAATTTA
1 AAAAATTTA
122001776 AAAAATTTA
1 AAAAATTTA
122001785 TAATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATTTA
Found at i:122006130 original size:14 final size:16
Alignment explanation
Indices: 122006113--122006145 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
122006103 ATGCTGTTAG
122006113 AAAAA-TTAAG-TATA
1 AAAAATTTAAGTTATA
122006127 AAAAATTTAAGTTATA
1 AAAAATTTAAGTTATA
122006143 AAA
1 AAA
122006146 TTTGTTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 5 0.29
16 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
AAAAATTTAAGTTATA
Found at i:122006205 original size:2 final size:2
Alignment explanation
Indices: 122006198--122006245 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
122006188 AAATTGTTTG
122006198 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
122006240 AT AT AT
1 AT AT AT
122006246 TTGAATTACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122009729 original size:131 final size:130
Alignment explanation
Indices: 122009356--122009993 Score: 577
Period size: 130 Copynumber: 4.9 Consensus size: 130
122009346 TTCAAAAACT
* * * * * * *
122009356 CTTTAAAACGAAGACGAGATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTT
1 CTTTAAAACGAAGGCAATATTCGATGTTTGACAATTCG-GGAATCGTGCCCTATCGTGTTGGGTT
* * *
122009421 GCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTT-TTAAAA
65 GCAATTTCTCGTTTGCTCAAAACAATCGAATATC-CTTCAAAATTTCACTCATGTCTTCTAAAAA
122009485 TC
129 TC
* * * *
122009487 CTTT-AAACGAAGGCGATATGCGATATTTGACAATTCGTGGAATCGTGCCCTAACGTGTTGGGTT
1 CTTTAAAACGAAGGCAATATTCGATGTTTGACAATTCG-GGAATCGTGCCCTATCGTGTTGGGTT
* * * *
122009551 GCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAA
65 GCAATTTCTCGTTTGCTCAAAACAATCGAATAT-CCTTCAAAATTTCACTCATGTCTTCTAAAAA
122009616 TC
129 TC
* * * *
122009618 CTTTAAAACGAAGGCAATACTCGGTGTTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGTTG
1 CTTTAAAACGAAGGCAATATTCGATGTTTGACAATTCGGGAATCGTGCCCTATCGTGTTGGGTTG
** * * *** *
122009683 TGATTTCTCGTTTGCTAAAAACAATCGAATACTCCTTTAGGTTTTCACTCATGT-TTATTAAAAA
66 CAATTTCTCGTTTGCTCAAAACAATCGAATA-TCCTTCAAAATTTCACTCATGTCTT-CTAAAAA
122009747 -C
129 TC
* * * * * * *
122009748 CTTTCAAAACAAAGG--ATGTTCGAGGTTTGGCGATTTGAGAATCGTGCCCTATCGTGTTGGGTT
1 CTTT-AAAACGAAGGCAATATTCGATGTTTGACAATTCGGGAATCGTGCCCTATCGTGTTGGGTT
** * * * * * * ** * *
122009811 GCGCTTTTTCATTTGTTCTAAACGATCGAAGATCCCTTCGGAATTTCACTCACGTTTTCTAAAAA
65 GCAATTTCTCGTTTGCTCAAAACAATCGAATAT-CCTTCAAAATTTCACTCATGTCTTCTAAAAA
*
122009876 CC
129 TC
* * * * * ** **
122009878 CTTTAAAATGAAAGAAATATTCGATGTTTGACAATTCGGGGAATAGTACTTTATCGTACTGGGTT
1 CTTTAAAACGAAGGCAATATTCGATGTTTGACAATTC-GGGAATCGTGCCCTATCGTGTTGGGTT
* * * *
122009943 GCAATTTCTCGTTTGTTCAAAATAATCAAATATCTCTTCGAAATTTCACTC
65 GCAATTTCTCGTTTGCTCAAAACAATCGAATATC-CTTCAAAATTTCACTC
122009994 GTATTTTCTA
Statistics
Matches: 414, Mismatches: 80, Indels: 25
0.80 0.15 0.05
Matches are distributed among these distances:
128 1 0.00
129 90 0.22
130 122 0.29
131 113 0.27
132 88 0.21
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (130 bp):
CTTTAAAACGAAGGCAATATTCGATGTTTGACAATTCGGGAATCGTGCCCTATCGTGTTGGGTTG
CAATTTCTCGTTTGCTCAAAACAATCGAATATCCTTCAAAATTTCACTCATGTCTTCTAAAAATC
Found at i:122015800 original size:34 final size:32
Alignment explanation
Indices: 122015731--122015802 Score: 81
Period size: 34 Copynumber: 2.2 Consensus size: 32
122015721 TCCGGAATTT
*
122015731 TTATTTTTATTTTTATTTTTTTCGTAATATAA
1 TTATTTTTATTTTTATTTTTTTAGTAATATAA
* * * *
122015763 TTATTTTTTTTGTTTATTTATTTTATTATTATTA
1 TTATTTTTATT-TTTATTT-TTTTAGTAATATAA
122015797 TTATTT
1 TTATTT
122015803 AATAAAAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 10 0.30
33 7 0.21
34 16 0.48
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.74
Consensus pattern (32 bp):
TTATTTTTATTTTTATTTTTTTAGTAATATAA
Found at i:122016550 original size:39 final size:39
Alignment explanation
Indices: 122016492--122016627 Score: 209
Period size: 39 Copynumber: 3.5 Consensus size: 39
122016482 TGATTTGAAA
* * *
122016492 CCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGTTAAACGGAAG
* *
122016531 CCCGAAGGCTAACTAAAGCACACAAGTGTTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGTTAAACGGAAG
* *
122016570 CCCGAATGCTAACTGAAGCACATAAGTGTTAAACGTAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGTTAAACGGAAG
122016609 CCCGAAGGCTAACTGAAGC
1 CCCGAAGGCTAACTGAAGC
122016628 TCATCAGAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (39 bp):
CCCGAAGGCTAACTGAAGCACATAAGTGTTAAACGGAAG
Found at i:122018628 original size:29 final size:29
Alignment explanation
Indices: 122018572--122018634 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
122018562 GCAATGTTGA
* * *
122018572 TTTTTGTATATTCACAGTGGAGTTTTTTT
1 TTTTTGTAGATTCACAATGGAGTATTTTT
* *
122018601 TTTTTGTAGATTGACAATGTAGTATTTTT
1 TTTTTGTAGATTCACAATGGAGTATTTTT
122018630 TTTTT
1 TTTTT
122018635 AAAGATTTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (29 bp):
TTTTTGTAGATTCACAATGGAGTATTTTT
Found at i:122020764 original size:6 final size:6
Alignment explanation
Indices: 122020730--122020757 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
122020720 CTTTTTTTTC
122020730 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
122020758 TAGTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:122021665 original size:30 final size:30
Alignment explanation
Indices: 122021629--122021690 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
122021619 ACTTATTTTA
*
122021629 TTATTAATTTTGTTATTATTTTAAAGGCAT
1 TTATTAATTTTATTATTATTTTAAAGGCAT
*
122021659 TTATTAATTTTATTATTATTTTAAAGGTAT
1 TTATTAATTTTATTATTATTTTAAAGGCAT
122021689 TT
1 TT
122021691 GCTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.60
Consensus pattern (30 bp):
TTATTAATTTTATTATTATTTTAAAGGCAT
Found at i:122022053 original size:2 final size:2
Alignment explanation
Indices: 122022042--122022082 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
122022032 ATAAAATTTC
122022042 AT AT -T 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
122022083 GATTGATGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:122025828 original size:59 final size:59
Alignment explanation
Indices: 122025736--122025852 Score: 207
Period size: 59 Copynumber: 2.0 Consensus size: 59
122025726 TTAAAACTCT
* *
122025736 AACCTATAGGATATAGGTAACCCTACTAAGCACACGACGCCCACATCCCTTGGTAAGCA
1 AACCTATAAGATATAGGTAACCCTACTAAGCACACGACGCCCACATCCCTAGGTAAGCA
*
122025795 AACCTATAAGATATAGGTAACCCTACTAGGCACACGACGCCCACATCCCTAGGTAAGC
1 AACCTATAAGATATAGGTAACCCTACTAAGCACACGACGCCCACATCCCTAGGTAAGC
122025853 CCCTGATTCT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.18
Consensus pattern (59 bp):
AACCTATAAGATATAGGTAACCCTACTAAGCACACGACGCCCACATCCCTAGGTAAGCA
Found at i:122029721 original size:26 final size:27
Alignment explanation
Indices: 122029673--122029723 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
122029663 ATTACAAGTG
122029673 TCTAATTATTTATCTTTTAAATTTAAC
1 TCTAATTATTTATCTTTTAAATTTAAC
* * *
122029700 TCTATTTA-TTATTTTTTTAATTTA
1 TCTAATTATTTATCTTTTAAATTTA
122029724 TTAACAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (27 bp):
TCTAATTATTTATCTTTTAAATTTAAC
Found at i:122031265 original size:23 final size:23
Alignment explanation
Indices: 122031216--122031263 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
122031206 CAAATATATT
122031216 TTATATTTAAATATTTTTTGCATAA
1 TTATATTTAAATATTTTTTG-A-AA
*
122031241 TTATGTTTAAATATTTTCTTGAA
1 TTATATTTAAATATTTT-TTGAA
122031264 TTTAAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 17 0.81
26 3 0.14
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (23 bp):
TTATATTTAAATATTTTTTGAAA
Found at i:122034592 original size:8 final size:8
Alignment explanation
Indices: 122034579--122034609 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
122034569 GTGATTCTTA
122034579 TATTTTTT
1 TATTTTTT
122034587 TA-TTTTT
1 TATTTTTT
122034594 TATTTTTT
1 TATTTTTT
122034602 TATTTTTT
1 TATTTTTT
122034610 CTTATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TATTTTTT
Found at i:122034597 original size:15 final size:15
Alignment explanation
Indices: 122034579--122034609 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
122034569 GTGATTCTTA
122034579 TATTTTTTTATTTTT
1 TATTTTTTTATTTTT
122034594 TATTTTTTTATTTTT
1 TATTTTTTTATTTTT
122034609 T
1 T
122034610 CTTATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TATTTTTTTATTTTT
Found at i:122034757 original size:21 final size:21
Alignment explanation
Indices: 122034701--122034775 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
122034691 ACATTATTAA
* *
122034701 TTTTAAAAAATTTGTAATATAT
1 TTTTAAAAATTTTATAATAT-T
* *
122034723 ATTTAAAATGTTTTATAATATT
1 TTTTAAAA-ATTTTATAATATT
*
122034745 TTTTAAAAATTTTA-ATTATTT
1 TTTTAAAAATTTTATAATA-TT
122034766 TTTTAAAAAT
1 TTTTAAAAAT
122034776 ATTTTTTAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.07
21 17 0.39
22 15 0.34
23 9 0.20
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTAAAAATTTTATAATATT
Found at i:122034774 original size:22 final size:22
Alignment explanation
Indices: 122034701--122034780 Score: 67
Period size: 22 Copynumber: 3.6 Consensus size: 22
122034691 ACATTATTAA
*
122034701 TTTTAAAAAATTTGTAA-TATAT
1 TTTTAAAAAATTT-TAATTATTT
* ** *
122034723 ATTTAAAATGTTTT-ATAATATT
1 TTTTAAAAAATTTTAATTAT-TT
122034745 TTTT-AAAAATTTTAATTATTT
1 TTTTAAAAAATTTTAATTATTT
122034766 TTTTAAAAATATTTT
1 TTTTAAAAA-ATTTT
122034781 TTAACTTTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
20 1 0.02
21 16 0.36
22 22 0.50
23 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (22 bp):
TTTTAAAAAATTTTAATTATTT
Found at i:122035064 original size:18 final size:17
Alignment explanation
Indices: 122035041--122035078 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
122035031 GTGACTATTA
122035041 ATAAA-TTTAAATATAAAT
1 ATAAATTTTAAA-A-AAAT
122035059 ATAAATTTTAAAAAAAT
1 ATAAATTTTAAAAAAAT
122035076 ATA
1 ATA
122035079 TTAAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAATTTTAAAAAAAT
Found at i:122035309 original size:26 final size:27
Alignment explanation
Indices: 122035260--122035322 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
122035250 TTTTAAATAC
* * *
122035260 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
122035287 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
122035313 AATATTTTAA
1 AATTTTTTAA
122035323 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:122035489 original size:21 final size:21
Alignment explanation
Indices: 122035406--122035493 Score: 56
Period size: 21 Copynumber: 4.1 Consensus size: 21
122035396 TTGTTTATTT
* * *
122035406 ATTTTATTAT-TAATTTTAAA
1 ATTTTATAATATATTTTTTAA
* * * *
122035426 ATTTTGTAATGTATATTTAAA
1 ATTTTATAATATATTTTTTAA
122035447 ATGTTTTATAATATATTTTTTACA
1 A--TTTTATAATATATTTTTTA-A
122035471 ATTTTA-AATAT-TATTTTTAA
1 ATTTTATAATATAT-TTTTTAA
122035491 ATT
1 ATT
122035494 CTTTTTTAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
20 13 0.24
21 20 0.36
22 5 0.09
23 15 0.27
24 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (21 bp):
ATTTTATAATATATTTTTTAA
Found at i:122038643 original size:30 final size:30
Alignment explanation
Indices: 122038607--122038727 Score: 145
Period size: 30 Copynumber: 4.0 Consensus size: 30
122038597 GTCCCAGAGC
* *
122038607 AGTTCATATAACCCAGATATAGGTGGTTCG
1 AGTTCATATCACCCAGACATAGGTGGTTCG
* * *
122038637 AGTTCATATCACCCGGACATGGGTAGTTCG
1 AGTTCATATCACCCAGACATAGGTGGTTCG
** *
122038667 AGTTCATATCACCTGGACATGGGTGGTTCG
1 AGTTCATATCACCCAGACATAGGTGGTTCG
*
122038697 AGTTCATATCACCCAGATATAGGCT-GTTCG
1 AGTTCATATCACCCAGACATAGG-TGGTTCG
122038727 A
1 A
122038728 ATCTATTTGA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
30 78 0.99
31 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATAGGTGGTTCG
Found at i:122042651 original size:93 final size:93
Alignment explanation
Indices: 122042539--122042710 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
122042529 CGCCCATAAG
* *
122042539 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
122042604 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
122042632 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
122042697 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
122042711 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:122042707 original size:46 final size:46
Alignment explanation
Indices: 122042532--122042707 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
122042522 TGTAACCCGC
* * *
122042532 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
122042578 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
122042628 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
122042671 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
122042708 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:122050227 original size:46 final size:45
Alignment explanation
Indices: 122050084--122050227 Score: 129
Period size: 46 Copynumber: 3.1 Consensus size: 45
122050074 CCCGCCCATA
*
122050084 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
122050133 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
122050176 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
122050223 AGTGA
1 AGTGA
122050228 CATGTCACTT
Statistics
Matches: 80, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 34 0.43
47 29 0.36
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:122050658 original size:30 final size:30
Alignment explanation
Indices: 122050624--122050683 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
122050614 ATTTAATACG
122050624 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
122050654 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
122050684 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:122052818 original size:31 final size:34
Alignment explanation
Indices: 122052756--122052830 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 34
122052746 AATGTTTTAT
122052756 AATATATATTTTTATAAATATTAAAAATATATTTTC
1 AATAT-TATTTTTATAAATATT-AAAATATATTTTC
*
122052792 AA-ATTATTTTT-TAAATATT-AAATATATTTTT
1 AATATTATTTTTATAAATATTAAAATATATTTTC
122052823 AATATTAT
1 AATATTAT
122052831 AAAACATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
31 13 0.35
32 5 0.14
33 8 0.22
34 7 0.19
35 2 0.05
36 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (34 bp):
AATATTATTTTTATAAATATTAAAATATATTTTC
Found at i:122052851 original size:10 final size:9
Alignment explanation
Indices: 122052804--122052935 Score: 86
Period size: 10 Copynumber: 13.9 Consensus size: 9
122052794 ATTATTTTTT
122052804 AAATA-TTA
1 AAATATTTA
*
122052812 AATATATTTT
1 AA-ATATTTA
*
122052822 TAATATTATA
1 AAATATT-TA
*
122052832 AAACATTTA
1 AAATATTTA
122052841 AAATGATTTA
1 AAAT-ATTTA
* *
122052851 ATATATTTT
1 AAATATTTA
*
122052860 TAATATTATA
1 AAATATT-TA
*
122052870 AAACATTTA
1 AAATATTTA
122052879 AAATGATTTA
1 AAAT-ATTTA
122052889 AAATGATTTA
1 AAAT-ATTTA
*
122052899 AAATATTTTT
1 AAATA-TTTA
* *
122052909 TAATATTTT
1 AAATATTTA
*
122052918 AAATGATTTT
1 AAAT-ATTTA
122052928 AAATATTT
1 AAATATTT
122052936 TTTAAATTTT
Statistics
Matches: 99, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
8 2 0.02
9 39 0.39
10 58 0.59
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (9 bp):
AAATATTTA
Found at i:122052859 original size:38 final size:38
Alignment explanation
Indices: 122052804--122052889 Score: 156
Period size: 38 Copynumber: 2.3 Consensus size: 38
122052794 ATTATTTTTT
*
122052804 AAAT-ATTAAATATATTTTTAATATTATAAAACATTTA
1 AAATGATTTAATATATTTTTAATATTATAAAACATTTA
122052841 AAATGATTTAATATATTTTTAATATTATAAAACATTTA
1 AAATGATTTAATATATTTTTAATATTATAAAACATTTA
122052879 AAATGATTTAA
1 AAATGATTTAA
122052890 AATGATTTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 4 0.09
38 43 0.91
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (38 bp):
AAATGATTTAATATATTTTTAATATTATAAAACATTTA
Found at i:122052877 original size:19 final size:19
Alignment explanation
Indices: 122052799--122052877 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
122052789 TTCAAATTAT
* *
122052799 TTTTTAAATATTA-AATATA
1 TTTTT-AATATTATAAAACA
122052818 TTTTTAATATTATAAAACA
1 TTTTTAATATTATAAAACA
** * *
122052837 TTTAAAATGATT-TAATATA
1 TTTTTAAT-ATTATAAAACA
122052856 TTTTTAATATTATAAAACA
1 TTTTTAATATTATAAAACA
122052875 TTT
1 TTT
122052878 AAAATGATTT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
18 10 0.21
19 34 0.72
20 3 0.06
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.51
Consensus pattern (19 bp):
TTTTTAATATTATAAAACA
Found at i:122052936 original size:19 final size:19
Alignment explanation
Indices: 122052836--122052935 Score: 80
Period size: 19 Copynumber: 5.2 Consensus size: 19
122052826 ATTATAAAAC
122052836 ATTTAAAATGA-TTTAATAT
1 ATTTAAAATGATTTTAA-AT
** * *
122052855 ATTTTTAAT-ATTATAAAAC
1 ATTTAAAATGATT-TTAAAT
*
122052874 ATTTAAAATGATTTAAAAT
1 ATTTAAAATGATTTTAAAT
*
122052893 GATTTAAAAT-ATTTTTTAAT
1 -ATTTAAAATGA-TTTTAAAT
*
122052913 ATTTTAAATGATTTTAAAT
1 ATTTAAAATGATTTTAAAT
122052932 ATTT
1 ATTT
122052936 TTTAAATTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
18 1 0.02
19 41 0.64
20 22 0.34
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (19 bp):
ATTTAAAATGATTTTAAAT
Found at i:122052964 original size:29 final size:29
Alignment explanation
Indices: 122052884--122052946 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
122052874 ATTTAAAATG
* *
122052884 ATTTAAAATGATTTAAAATATTTTTTAAT
1 ATTTTAAATGATTTTAAATATTTTTTAAT
122052913 ATTTTAAATGATTTTAAATATTTTTTAA-
1 ATTTTAAATGATTTTAAATATTTTTTAAT
122052941 ATTTTA
1 ATTTTA
122052947 CATAGAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (29 bp):
ATTTTAAATGATTTTAAATATTTTTTAAT
Found at i:122053787 original size:23 final size:22
Alignment explanation
Indices: 122053698--122053788 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
122053688 GTTAAAAAAT
* *
122053698 ATTTTTAAAAATAATAATTTAA
1 ATTTTTTAAAATAATAATATAA
* *
122053720 A-ATTTTAAAA-AATATTATAAA
1 ATTTTTTAAAATAATAATAT-AA
** * *
122053741 ACATTTT-AAATATATATTACAA
1 ATTTTTTAAAATA-ATAATATAA
122053763 ATTTTTTAAAATTAATAATATAA
1 ATTTTTTAAAA-TAATAATATAA
122053786 ATT
1 ATT
122053789 AAATAAGTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
20 6 0.11
21 13 0.24
22 14 0.26
23 19 0.35
24 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTTTTAAAATAATAATATAA
Found at i:122053858 original size:18 final size:18
Alignment explanation
Indices: 122053825--122053898 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 18
122053815 CTATAAAACT
122053825 TAAAAAAGAAAAAAAATC
1 TAAAAAAGAAAAAAAATC
* * *
122053843 TAAAAAAGAGACAAAATA
1 TAAAAAAGAAAAAAAATC
**
122053861 TAAGAAAA-AAAGTAAAAAAG
1 TAA-AAAAGAAA--AAAAATC
122053881 TAAAAAAGTAAAAAAAAT
1 TAAAAAAG-AAAAAAAAT
122053899 ATAAGAACCT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
18 20 0.47
19 13 0.30
20 7 0.16
21 3 0.07
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (18 bp):
TAAAAAAGAAAAAAAATC
Found at i:122053885 original size:7 final size:8
Alignment explanation
Indices: 122053866--122053895 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
122053856 AAATATAAGA
122053866 AAAAAAGT
1 AAAAAAGT
122053874 AAAAAAGT
1 AAAAAAGT
122053882 AAAAAAGT
1 AAAAAAGT
122053890 AAAAAA
1 AAAAAA
122053896 AATATAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAAGT
Found at i:122053887 original size:39 final size:40
Alignment explanation
Indices: 122053826--122053905 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
122053816 TATAAAACTT
* *
122053826 AAAAAAGAAAAAAAATCTAAAAAAG-AGACAAAATATAAGA
1 AAAAAAGAAAAAAAATC-AAAAAAGTAAAAAAAATATAAGA
* *
122053866 AAAAAAGTAAAAAAGT-AAAAAAGTAAAAAAAATATAAGA
1 AAAAAAGAAAAAAAATCAAAAAAGTAAAAAAAATATAAGA
122053905 A
1 A
122053906 CCTGACAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 7 0.20
39 14 0.40
40 14 0.40
ACGTcount: A:0.76, C:0.03, G:0.10, T:0.11
Consensus pattern (40 bp):
AAAAAAGAAAAAAAATCAAAAAAGTAAAAAAAATATAAGA
Found at i:122058049 original size:3 final size:3
Alignment explanation
Indices: 122058041--122058068 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
122058031 TTAAATATGC
122058041 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
122058069 CTAAATGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:122058310 original size:23 final size:23
Alignment explanation
Indices: 122058245--122058310 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
122058235 TTTAAAAAAG
* * *
122058245 AATAAAATTATAGATTAATACATT
1 AATAAAATTATA-ATTTATTCCTT
* *
122058269 AATAAAATTGTACTTTATTCCTT
1 AATAAAATTATAATTTATTCCTT
122058292 AA-AAAATTATAATTCTATT
1 AATAAAATTATAATT-TATT
122058311 ATGATCCTCT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 10 0.29
23 13 0.38
24 11 0.32
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (23 bp):
AATAAAATTATAATTTATTCCTT
Found at i:122061759 original size:22 final size:22
Alignment explanation
Indices: 122061734--122061777 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
122061724 TCTAGAGTGA
*
122061734 AGTTAGAAAATAAATTTTAAAG
1 AGTTAGAAAATAAATTATAAAG
**
122061756 AGTTCTAAAATAAATTATAAAG
1 AGTTAGAAAATAAATTATAAAG
122061778 TTTAAAGGGT
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:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (22 bp):
AGTTAGAAAATAAATTATAAAG
Found at i:122063043 original size:4 final size:4
Alignment explanation
Indices: 122063034--122063093 Score: 111
Period size: 4 Copynumber: 15.0 Consensus size: 4
122063024 GTGTTGCTAG
*
122063034 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT TTGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
122063082 ATGT ATGT ATGT
1 ATGT ATGT ATGT
122063094 GTCGTTTCTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (4 bp):
ATGT
Found at i:122063603 original size:31 final size:31
Alignment explanation
Indices: 122063566--122063640 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
122063556 AATCTATACT
* * *
122063566 AATTGGTACTTCAATTTAGCTTCAATGTTCT
1 AATTGGTACTTAAATTTAGCTTCAATATTCA
* * * *
122063597 ATTTGGTGCCTAAATTTGGCTTCAATATTCA
1 AATTGGTACTTAAATTTAGCTTCAATATTCA
122063628 AATTGGTACTTAA
1 AATTGGTACTTAA
122063641 GTTATTTTCC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (31 bp):
AATTGGTACTTAAATTTAGCTTCAATATTCA
Found at i:122072625 original size:4 final size:4
Alignment explanation
Indices: 122072608--122072638 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
122072598 TTTAATGGAA
*
122072608 ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
122072639 AAATAATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:122072950 original size:44 final size:44
Alignment explanation
Indices: 122072895--122072990 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 44
122072885 TATAAATTTT
* * * *
122072895 AATACATTTAAAGTCAATAAATTATTGCATTTCTTGGATCAATC
1 AATATATTTAAAGGCAATAAATTATTACATTTCTTGGACCAATC
* * *
122072939 AATATATTTAAAGGCAATAGATTATTACATTTCTTGTACCTATC
1 AATATATTTAAAGGCAATAAATTATTACATTTCTTGGACCAATC
122072983 AATATATT
1 AATATATT
122072991 ACACCATAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (44 bp):
AATATATTTAAAGGCAATAAATTATTACATTTCTTGGACCAATC
Found at i:122073698 original size:23 final size:23
Alignment explanation
Indices: 122073672--122073743 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
122073662 AAATATTAAG
122073672 AATATTAATTAAAGTATATAAAA
1 AATATTAATTAAAGTATATAAAA
* **** *
122073695 AATA-GATATGGGGGCA-ATAAAA
1 AATATTA-ATTAAAGTATATAAAA
122073717 AATATTAATTAAAGTATATAAAA
1 AATATTAATTAAAGTATATAAAA
122073740 AATA
1 AATA
122073744 GATATGGGGG
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
22 15 0.44
23 19 0.56
ACGTcount: A:0.58, C:0.01, G:0.11, T:0.29
Consensus pattern (23 bp):
AATATTAATTAAAGTATATAAAA
Found at i:122073714 original size:22 final size:22
Alignment explanation
Indices: 122073689--122073764 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
122073679 ATTAAAGTAT
122073689 ATAAAAAATAGATATGGGGGCA
1 ATAAAAAATAGATATGGGGGCA
* **** *
122073711 ATAAAAAATA-TTAATTAAAGTA
1 ATAAAAAATAGAT-ATGGGGGCA
122073733 TATAAAAAATAGATATGGGGGCA
1 -ATAAAAAATAGATATGGGGGCA
122073756 ATAAAAAAT
1 ATAAAAAAT
122073765 GTACAATCAA
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
21 1 0.03
22 23 0.59
23 14 0.36
24 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.17, T:0.24
Consensus pattern (22 bp):
ATAAAAAATAGATATGGGGGCA
Found at i:122073723 original size:45 final size:45
Alignment explanation
Indices: 122073672--122073764 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
122073662 AAATATTAAG
122073672 AATATTAATTAAAGTATATAAAAAATAGATATGGGGGCAATAAAA
1 AATATTAATTAAAGTATATAAAAAATAGATATGGGGGCAATAAAA
122073717 AATATTAATTAAAGTATATAAAAAATAGATATGGGGGCAATAAAA
1 AATATTAATTAAAGTATATAAAAAATAGATATGGGGGCAATAAAA
122073762 AAT
1 AAT
122073765 GTACAATCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (45 bp):
AATATTAATTAAAGTATATAAAAAATAGATATGGGGGCAATAAAA
Found at i:122076755 original size:21 final size:23
Alignment explanation
Indices: 122076713--122076755 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
122076703 AAAACCGCAA
*
122076713 AAAAATCCTTTTCAACCTTTTTT
1 AAAAATCCTTTTCAACCCTTTTT
122076736 AAAAA-CCTTTT-AACCCTTTT
1 AAAAATCCTTTTCAACCCTTTT
122076756 AATCCCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAAATCCTTTTCAACCCTTTTT
Found at i:122078909 original size:6 final size:6
Alignment explanation
Indices: 122078898--122078923 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
122078888 CGATATTTAC
122078898 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
122078924 TCATGTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:122079582 original size:13 final size:15
Alignment explanation
Indices: 122079552--122079590 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
122079542 TTTTGTTGTT
122079552 TTTTTTTGCTGGAAAA
1 TTTTTTTGCTGG-AAA
122079568 TTTTTTTGCT-G-AA
1 TTTTTTTGCTGGAAA
122079581 TTTTTTTGCT
1 TTTTTTTGCT
122079591 CTTTTTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.52
15 1 0.04
16 10 0.43
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:122079881 original size:30 final size:29
Alignment explanation
Indices: 122079830--122079930 Score: 112
Period size: 30 Copynumber: 3.4 Consensus size: 29
122079820 ATTTAGGGTT
*
122079830 AAAATGCAATTTAAAAAAGTTTAAAGGTC
1 AAAATGAAATTTAAAAAAGTTTAAAGGTC
* * *
122079859 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAA-AAAGTTTAAAGGTC
* **
122079889 AAAATGAAATTTAGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTA-AAAAAGTTTAAAGGTC
*
122079919 AAAATGTAATTT
1 AAAATGAAATTT
122079931 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 12 0.20
30 48 0.79
31 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.30
Consensus pattern (29 bp):
AAAATGAAATTTAAAAAAGTTTAAAGGTC
Found at i:122079955 original size:24 final size:24
Alignment explanation
Indices: 122079927--122079972 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
122079917 TCAAAATGTA
122079927 ATTTTTATTTTTTAAAAATTTTTT
1 ATTTTTATTTTTTAAAAATTTTTT
*
122079951 ATTTTTATTTTTTTAAAATTTT
1 ATTTTTATTTTTTAAAAATTTT
122079973 GAAAGTTAAA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (24 bp):
ATTTTTATTTTTTAAAAATTTTTT
Found at i:122080251 original size:78 final size:76
Alignment explanation
Indices: 122080162--122080444 Score: 272
Period size: 78 Copynumber: 3.7 Consensus size: 76
122080152 GACCCGAAGT
*
122080162 TCAACTTACCTCTCG-AATTATGAGTTGATCTTTTGAAAAAGCAAAAAATTGAAAATACCTCAGC
1 TCAACTCACCTCTCGCAA-TATGAGTTGAT-TTTTGAAAAAGCAAAAAATTGAAAATACCTCAGC
122080226 GTGTGACCTGAGGC
64 GTGTG-CCTGAGGC
* ** * **
122080240 TTAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAG-ACAGAAATTGAAAATACCTCAATG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGCA-AAAAATTGAAAATACCTCAGCG
*
122080304 TGT-CTTGAGGC
65 TGTGCCTGAGGC
** ** ** * *
122080315 TCAACTCATTTCTCGCAATATGAGTTGACTTTTAAAAAAAAAAAAAGGAATTGAAATTATCTCAG
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAGCAAAA--AATTGAAAATACCTCAG
*
122080380 CGTGT-CCCGAGGC
63 CGTGTGCCTGAGGC
* * * *
122080393 TCAACTCACCTCTCGTAATATAAATTGATTTTTGAAAAA-C-ATAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGCAAAAAATTGAAAA
122080445 ACGAAAATCG
Statistics
Matches: 167, Mismatches: 32, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
73 8 0.05
75 34 0.20
76 11 0.07
77 41 0.25
78 71 0.43
79 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (76 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGCAAAAAATTGAAAATACCTCAGCGT
GTGCCTGAGGC
Found at i:122080333 original size:75 final size:77
Alignment explanation
Indices: 122080126--122080444 Score: 242
Period size: 78 Copynumber: 4.2 Consensus size: 77
122080116 AAAACAAAAA
* ** * * * * *
122080126 AAAAAATTGAAAATAGCTCGGGATGCGACCCGAAGTTCAACTTACCTCTCG-AATTATGAGTTGA
1 AAAAAATTGAAAATACCTC-ACATGTGACCTGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGA
*
122080190 TCTTTTGAAAAAGC
64 TTTTTTGAAAAAGC
* *
122080204 AAAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGAT
1 AAAAAATTGAAAATACCTCA-CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
122080269 TTTTT-TAAAAG-
65 TTTTTGAAAAAGC
* * * ** *
122080280 ACAGAAATTGAAAATACCTCA-ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAC
1 A-AAAAATTGAAAATACCTCACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
** **
122080344 TTTTAAAAAAAAA
65 TTTTTGAAAAAGC
* * * * * * *
122080357 AAAAGGAATTGAAATTATCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGTAATATAAATTG
1 AAAA--AATTGAAAATACCTCA-CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
122080420 A-TTTTTGAAAAA-C
63 ATTTTTTGAAAAAGC
*
122080433 -ATAAATTGAAAA
1 AAAAAATTGAAAA
122080445 ACGAAAATCG
Statistics
Matches: 194, Mismatches: 38, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
73 8 0.04
75 42 0.22
76 7 0.04
77 33 0.17
78 102 0.53
79 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (77 bp):
AAAAAATTGAAAATACCTCACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTGAAAAAGC
Found at i:122080500 original size:87 final size:88
Alignment explanation
Indices: 122080363--122080761 Score: 492
Period size: 87 Copynumber: 4.6 Consensus size: 88
122080353 AAAAAAAAGG
* * * * *
122080363 AATTGAAATTATCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATAAATTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGA
122080428 AAAACATAAATTGAAAAACGA-A
66 AAAACATAAATTGAAAAACGAGA
* * * *
122080450 AATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGA
* * **
122080515 AAAAAATAGATTGGAAAAAATAGA
66 AAAACATAAATT-GAAAAACGAGA
* *
122080539 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTT-A
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGA
* *
122080601 AAAACAGT-CATT-AAGAAC-AGA
66 AAAACA-TAAATTGAAAAACGAGA
*
122080622 AATT-AGAAATACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAATTGATTTTTG
1 AATTGA-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTG
* * *
122080686 CAAAATATAAATTGAAAAAC-ATA
65 AAAAACATAAATTGAAAAACGAGA
* **
122080709 AATTGAAATTACCTCAGTATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
122080762 GTCGACTTTT
Statistics
Matches: 269, Mismatches: 33, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
82 1 0.00
83 56 0.21
84 4 0.01
85 4 0.01
86 17 0.06
87 124 0.46
88 8 0.03
89 55 0.20
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (88 bp):
AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGA
AAAACATAAATTGAAAAACGAGA
Found at i:122080674 original size:172 final size:174
Alignment explanation
Indices: 122080284--122080763 Score: 544
Period size: 172 Copynumber: 2.8 Consensus size: 174
122080274 TAAAAGACAG
* * * ** * *
122080284 AAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGACTTTT-
1 AAATAGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTG
* * *
122080348 ----AAA-AAA---AAAAAA-AGGAATTGAAATTATCTCAGCGTGTCCCGAGGCTCAACTCACCT
66 AAAAAAATAAATTGAAAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
* * *
122080404 CTCGTAATATAAATTGATTTTTGAAAAACATAAATTGAAAAACGA
131 CTCGCAATATGAGTTGA-TTTTGAAAAACATAAATTGAAAAACGA
* * *
122080449 AAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATAGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTG
* * *
122080514 AAAAAAATAGATTGGAAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATC
66 AAAAAAATAAATT-GAAAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
* *
122080579 TCTCGCAATATGAGTTGA-TTT-AAAAACAGT-CATT-AAGAACAGA
130 TCTCGCAATATGAGTTGATTTTGAAAAACA-TAAATTGAAAAAC-GA
* * *
122080622 AATTAG-AAATACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAATTGATTTTTG
1 AAATAGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTG
* * **
122080686 CAAAATATAAATTGAAAAACAT--AAATTGAAATTACCTCAGTATGTCCTGAGGCTCAACTCACC
66 AAAAAAATAAATTGAAAAA-ATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
122080749 TCTCGCAATATGAGT
130 TCTCGCAATATGAGT
122080764 CGACTTTTTT
Statistics
Matches: 270, Mismatches: 31, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
165 57 0.21
170 55 0.20
171 8 0.03
172 71 0.26
173 16 0.06
174 4 0.01
175 6 0.02
176 53 0.20
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (174 bp):
AAATAGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTG
AAAAAAATAAATTGAAAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTGAAAAACATAAATTGAAAAACGA
Found at i:122080709 original size:14 final size:14
Alignment explanation
Indices: 122080687--122080716 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
122080677 TGATTTTTGC
*
122080687 AAAATATAAATTGA
1 AAAACATAAATTGA
122080701 AAAACATAAATTGA
1 AAAACATAAATTGA
122080715 AA
1 AA
122080717 TTACCTCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:122080736 original size:259 final size:254
Alignment explanation
Indices: 122080282--122080772 Score: 684
Period size: 259 Copynumber: 1.9 Consensus size: 254
122080272 TTTAAAAGAC
* * *
122080282 AGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGACTTT
1 AGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGAC-TT
* * *
122080347 TAAAAAAAAAAAAAGGAATTGAAATTATCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAAT
65 TAAAAAAAAAAAAAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
*
122080412 ATAAATTGATTTTTGAAAAACATAAATTGAAAAACGAAAATCGAAAATACCTCAACGTGTCCTGA
130 ATAAATTGATTTTTGAAAAACATAAATTGAAAAACGAAAATCGAAAATACCTCAACATGTCCTGA
* *
122080477 GGCTCAATTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAAATAGATTGGAAAAAAT
195 GGCTCAACTCACCTCTCGCAATATGAGTCGACTTTTTGAAAAAAATAGATTGGAAAAAAT
*
122080536 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTT
1 AGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGACTTT
* * *
122080600 AAAAACAGTCATTAAGAACAGAAATTAGAAA-TACCTCAGCGTGTCCTGAGGTTCAACTCACCTC
66 AAAAA-A---A--AA-AAAAGAAATT-GAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTC
* * * * * **
122080664 TCGCAATATGAATTGATTTTTGCAAAATATAAATTGAAAAAC-ATAAATTGAAATTACCTCAGTA
123 TCGCAATATAAATTGATTTTTGAAAAACATAAATTGAAAAACGA-AAATCGAAAATACCTCAACA
122080728 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTTT
187 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTTT
122080773 TTTTACAAAC
Statistics
Matches: 207, Mismatches: 20, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
252 8 0.04
253 1 0.00
254 57 0.28
256 1 0.00
258 3 0.01
259 128 0.62
260 9 0.04
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (254 bp):
AGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGACTTT
AAAAAAAAAAAAAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
TAAATTGATTTTTGAAAAACATAAATTGAAAAACGAAAATCGAAAATACCTCAACATGTCCTGAG
GCTCAACTCACCTCTCGCAATATGAGTCGACTTTTTGAAAAAAATAGATTGGAAAAAAT
Found at i:122089196 original size:4 final size:4
Alignment explanation
Indices: 122089146--122089177 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
122089136 TGGGATATGC
*
122089146 AATG AGTG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG
122089178 CATAAATGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:122092539 original size:10 final size:10
Alignment explanation
Indices: 122092510--122092548 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
122092500 AAGAATCGAT
*
122092510 TTATTTAATA
1 TTATTTAAAA
122092520 TTAGTTTAAAA
1 TTA-TTTAAAA
122092531 TTATTTAAAA
1 TTATTTAAAA
122092541 TATATTTA
1 T-TATTTA
122092549 TATTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 11 0.42
11 15 0.58
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (10 bp):
TTATTTAAAA
Found at i:122095367 original size:2 final size:2
Alignment explanation
Indices: 122095362--122095403 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
122095352 ATCATAATGC
122095362 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
122095404 GTGTGTGTGT
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:122095408 original size:2 final size:2
Alignment explanation
Indices: 122095403--122095445 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
122095393 TATATATATA
* *
122095403 TG TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TA TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
122095445 T
1 T
122095446 ATATATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.05, C:0.00, G:0.44, T:0.51
Consensus pattern (2 bp):
TG
Found at i:122095422 original size:18 final size:18
Alignment explanation
Indices: 122095401--122095445 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
122095391 TATATATATA
122095401 TATGTGTGTGTGTGTGTG
1 TATGTGTGTGTGTGTGTG
122095419 TATGTGTGTGTGTGTGTG
1 TATGTGTGTGTGTGTGTG
122095437 TATGTGTGT
1 TATGTGTGT
122095446 ATATATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.07, C:0.00, G:0.42, T:0.51
Consensus pattern (18 bp):
TATGTGTGTGTGTGTGTG
Found at i:122109275 original size:10 final size:10
Alignment explanation
Indices: 122109246--122109284 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
122109236 AGAAACCAAT
*
122109246 TTATTTAATA
1 TTATTTAAAA
122109256 TTAGTTTAAAA
1 TTA-TTTAAAA
122109267 TTATTTAAAA
1 TTATTTAAAA
122109277 TATATTTA
1 T-TATTTA
122109285 TATTTATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 11 0.42
11 15 0.58
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (10 bp):
TTATTTAAAA
Found at i:122109291 original size:21 final size:21
Alignment explanation
Indices: 122109243--122109291 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
122109233 CTAAGAAACC
*
122109243 AATTTATTTAATATTAGTTTA
1 AATTTATTTAAAATTAGTTTA
*
122109264 AAATTATTTAAAATATA-TTTA
1 AATTTATTTAAAAT-TAGTTTA
*
122109285 TATTTAT
1 AATTTAT
122109292 AATATGTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AATTTATTTAAAATTAGTTTA
Found at i:122112066 original size:13 final size:13
Alignment explanation
Indices: 122112048--122112076 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
122112038 ACGCATAATA
122112048 ATACTAAATATAC
1 ATACTAAATATAC
122112061 ATACTAAATATAC
1 ATACTAAATATAC
122112074 ATA
1 ATA
122112077 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
ATACTAAATATAC
Found at i:122112090 original size:19 final size:18
Alignment explanation
Indices: 122112041--122112093 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
122112031 AAAATGTACG
122112041 CATAATAATACTAAATATA
1 CATAATAATA-TAAATATA
* *
122112060 CATACTAAATATACATATA
1 CATAAT-AATATAAATATA
122112079 CATAATATATATAAA
1 CATAATA-ATATAAA
122112094 ATGAACATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 23 0.82
20 4 0.14
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
CATAATAATATAAATATA
Found at i:122112387 original size:21 final size:21
Alignment explanation
Indices: 122112348--122112387 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
122112338 TAACATTAAT
* *
122112348 AATAAATATAATAGGAATAAA
1 AATAAATAAAATAAGAATAAA
*
122112369 AATAAATAAAATAATAATA
1 AATAAATAAAATAAGAATA
122112388 TATACATAGT
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:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (21 bp):
AATAAATAAAATAAGAATAAA
Found at i:122112649 original size:18 final size:18
Alignment explanation
Indices: 122112626--122112727 Score: 52
Period size: 18 Copynumber: 5.7 Consensus size: 18
122112616 CTATGTACTA
* *
122112626 ATAATATTAATAATAAAT
1 ATAATAATAAAAATAAAT
*
122112644 ATAATAATAAAAATATAT
1 ATAATAATAAAAATAAAT
* * * *
122112662 ATGCATAAAAAAAACGAAAC
1 AT-AATAATAAAAA-TAAAT
*
122112682 AT--TAA-AAAACTAAAT
1 ATAATAATAAAAATAAAT
*
122112697 ATAAT-ATAACAAT-AAT
1 ATAATAATAAAAATAAAT
122112713 GATAATAATATAAAA
1 -ATAATAATA-AAAA
122112728 ATAATAGTGA
Statistics
Matches: 62, Mismatches: 14, Indels: 15
0.68 0.15 0.16
Matches are distributed among these distances:
15 5 0.08
16 8 0.13
17 13 0.21
18 20 0.32
19 12 0.19
20 4 0.06
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (18 bp):
ATAATAATAAAAATAAAT
Found at i:122115590 original size:15 final size:15
Alignment explanation
Indices: 122115570--122115601 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
122115560 TCAGCGAACC
122115570 CTACCAAGCACATAG
1 CTACCAAGCACATAG
122115585 CTACCAAGCACATAG
1 CTACCAAGCACATAG
122115600 CT
1 CT
122115602 TATAAGTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.34, G:0.12, T:0.16
Consensus pattern (15 bp):
CTACCAAGCACATAG
Found at i:122116620 original size:29 final size:28
Alignment explanation
Indices: 122116506--122116620 Score: 71
Period size: 29 Copynumber: 4.1 Consensus size: 28
122116496 TGAAATAAAA
122116506 TTATAATTTTTACGATAGTAAAAATATAATT
1 TTATAATTTTTA-GA-AGT-AAAATATAATT
* **
122116537 TTATCA--TTTA-AA-TAATCTAT-ATT
1 TTATAATTTTTAGAAGTAAAATATAATT
* * *
122116560 TTATAATTTTTAAAAAATTAAAT-TAATTT
1 TTATAATTTTT-AGAAGTAAAATATAA-TT
*
122116589 TTATCATTTTTAGAGAGTAAAATATAATT
1 TTATAATTTTTAGA-AGTAAAATATAATT
122116618 TTA
1 TTA
122116621 CCTTAATTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
23 8 0.12
24 5 0.08
25 4 0.06
26 2 0.03
27 4 0.06
28 6 0.09
29 27 0.42
30 3 0.05
31 5 0.08
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (28 bp):
TTATAATTTTTAGAAGTAAAATATAATT
Found at i:122125250 original size:3 final size:3
Alignment explanation
Indices: 122125242--122125270 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
122125232 CATGGCGAAA
122125242 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
122125271 TCACTTGATA
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:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:122127189 original size:15 final size:15
Alignment explanation
Indices: 122127169--122127199 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
122127159 CCTTCTTACA
122127169 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
122127184 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
122127199 A
1 A
122127200 AAAAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:122127329 original size:19 final size:20
Alignment explanation
Indices: 122127305--122127359 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
122127295 AAATTTTATT
*
122127305 TTTATAGATTTTTTTATA-A
1 TTTATAGATTTTTCTATATA
*
122127324 TTTATATATTTTTCTATATA
1 TTTATAGATTTTTCTATATA
**
122127344 TTT-TTTATTTTTCTAT
1 TTTATAGATTTTTCTAT
122127360 TTTTTAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 28 0.88
20 4 0.12
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTATAGATTTTTCTATATA
Found at i:122129721 original size:6 final size:6
Alignment explanation
Indices: 122129697--122129741 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
122129687 TGTTCAAATC
**
122129697 TTATAT TTAATAT AAATAT TTATAT TTATAT TTATAT TTATAT TT
1 TTATAT TT-ATAT TTATAT TTATAT TTATAT TTATAT TTATAT TT
122129742 GTTCGCTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 30 0.88
7 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TTATAT
Found at i:122131241 original size:16 final size:15
Alignment explanation
Indices: 122131220--122131267 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
122131210 GATGGGAATA
122131220 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
122131236 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
122131251 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
122131267 A
1 A
122131268 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:122131250 original size:8 final size:8
Alignment explanation
Indices: 122131216--122131267 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
122131206 CAATGATGGG
*
122131216 AATAATAA
1 AATATTAA
122131224 AATATATAA
1 AATAT-TAA
122131233 AATA-TAA
1 AATATTAA
122131240 AATATTAA
1 AATATTAA
*
122131248 AATATCAA
1 AATATTAA
*
122131256 AATATTAG
1 AATATTAA
122131264 AATA
1 AATA
122131268 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:122131267 original size:24 final size:24
Alignment explanation
Indices: 122131215--122131271 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
122131205 ACAATGATGG
*
122131215 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
122131239 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
122131263 GAATAATAA
1 GAATAATAA
122131272 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:122131482 original size:22 final size:24
Alignment explanation
Indices: 122131398--122131483 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
122131388 TACATATTTA
* *
122131398 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
122131421 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
122131446 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
122131469 -AAGATATATACATAA
1 AAAAATATATACATAA
122131484 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:122131533 original size:25 final size:25
Alignment explanation
Indices: 122131505--122131637 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
122131495 GAAAAAAAAT
122131505 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
122131530 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
122131555 ATATATATACGTAATATAA-ATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
122131580 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
122131602 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
122131625 AAATAT-AATAATA
1 ATATATAAATAATA
122131638 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 16
0.72 0.15 0.14
Matches are distributed among these distances:
21 4 0.05
22 18 0.21
23 12 0.14
24 10 0.12
25 29 0.35
26 5 0.06
27 6 0.07
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:122131570 original size:52 final size:46
Alignment explanation
Indices: 122131498--122131632 Score: 114
Period size: 52 Copynumber: 2.8 Consensus size: 46
122131488 ACATGTAGAA
122131498 AAAAAATATATATAAATAATATAATATTAAAGATATATAAATAAAATAGTAT
1 AAAAAATATATAT--ATAATATAATATT-AAGA-ATATAAATAAAATA-T-T
* ** *
122131550 AAAATATATATATACGTAATATAA-ATTTAA-AATATACCTAATATATT
1 AAAAAATATATATA--TAATATAATA-TTAAGAATATAAATAAAATATT
*
122131597 AAAAGA-ATATATATAATATAATATTAAGAAATATAA
1 AAAAAATATATATATAATATAATATTAAG-AATATAA
122131633 TAATAACAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
44 12 0.17
45 1 0.01
46 13 0.18
47 6 0.08
48 1 0.01
49 11 0.15
50 2 0.03
51 3 0.04
52 22 0.31
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (46 bp):
AAAAAATATATATATAATATAATATTAAGAATATAAATAAAATATT
Found at i:122131630 original size:22 final size:22
Alignment explanation
Indices: 122131566--122131637 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
122131556 TATATATACG
*
122131566 TAATATAA-ATTTA-AAATATA
1 TAATATAATATTAAGAAATATA
* *
122131586 CCTAATATATTA-AAAGAATATATA
1 --TAATATAATATTAAGAA-ATATA
122131610 TAATATAATATTAAGAAATATAA
1 TAATATAATATTAAGAAATAT-A
122131633 TAATA
1 TAATA
122131638 ACAAAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
22 21 0.52
23 14 0.35
24 5 0.12
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (22 bp):
TAATATAATATTAAGAAATATA
Found at i:122132154 original size:30 final size:30
Alignment explanation
Indices: 122132118--122132232 Score: 176
Period size: 30 Copynumber: 3.8 Consensus size: 30
122132108 TAGGTACAAG
* *
122132118 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
122132148 TGGTGGTGGAAAAAGAGTGGTTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
122132178 TGGTGGTGGAAAAGGTGTGGCTAGTGAAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
122132208 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
122132233 TGAGAAAAGT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 76 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:122132211 original size:60 final size:60
Alignment explanation
Indices: 122132118--122132232 Score: 194
Period size: 60 Copynumber: 1.9 Consensus size: 60
122132108 TAGGTACAAG
* * *
122132118 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGTTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGAAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
122132178 TGGTGGTGGAAAAGGTGTGGCTAGTGAAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGAAGTTGGTGGTGGAAAAAGAGTGGCTAGT
122132233 TGAGAAAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.26
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGAAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:122132999 original size:14 final size:14
Alignment explanation
Indices: 122132980--122133029 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
122132970 GAGTTGATTT
* *
122132980 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
122132994 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
122133009 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
122133023 TT-AAAAA
1 TTGAAAAA
122133030 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:122133142 original size:73 final size:73
Alignment explanation
Indices: 122133017--122133457 Score: 528
Period size: 73 Copynumber: 5.9 Consensus size: 73
122133007 AATTGAAAAG
* * ** *
122133017 CAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATATGAGTTAAT
1 CAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
122133082 TTTTAACAAA
64 TTTTAACAAA
* * *
122133092 CAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-AT
122133157 TTTTGAA-AAA
64 TTTT-AACAAA
* * * *
122133167 CAGAAATTTAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 CAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-A
*
122133232 TTTTTTACAAA
63 TTTTTAACAAA
* ** *
122133243 CAGAAATTGAAAAGACCTCAGCATGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
1 CAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
*
122133308 TTTTGACAAA
64 TTTTAACAAA
* *
122133318 CAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC-CACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTT
122133382 TTGAA-AAA
66 TT-AACAAA
* * * * *
122133390 CAGAAATTTAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATT
1 CAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
122133455 TTT
65 TTT
122133458 TTTACGAACA
Statistics
Matches: 323, Mismatches: 33, Indels: 21
0.86 0.09 0.06
Matches are distributed among these distances:
72 35 0.11
73 78 0.24
74 27 0.08
75 78 0.24
76 70 0.22
77 35 0.11
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (73 bp):
CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTT
TTAACAAA
Found at i:122133168 original size:75 final size:74
Alignment explanation
Indices: 122133009--122133458 Score: 559
Period size: 75 Copynumber: 6.0 Consensus size: 74
122132999 AAAACAGAAA
* * ** *
122133009 TTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
122133074 GAGTT-AATTT
64 GAGTTGATTTT
* * *
122133084 TT-AACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATG
1 TTGAA-AAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
122133148 AGTTGATTTTT
65 AGTTGA-TTTT
* *
122133159 TTGAAAAACAGAAATTTAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
122133224 AGTTGATTTTT
65 AGTTGA-TTTT
* * * * ** *
122133235 TTTACAAACAGAAATTGAAAAGACCTCAGCATGTGAGCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
122133300 GAGTT-AATTT
64 GAGTTGATTTT
* * *
122133310 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC-CACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
122133374 GTTGA-TTT
66 GTTGATTTT
* * *
122133382 TTGAAAAACAGAAATTTAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
122133447 AGTTGATTTT
65 AGTTGATTTT
122133457 TT
1 TT
122133459 TTACGAACAA
Statistics
Matches: 330, Mismatches: 34, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
72 36 0.11
73 78 0.24
74 24 0.07
75 86 0.26
76 71 0.22
77 35 0.11
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (74 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:122133535 original size:90 final size:89
Alignment explanation
Indices: 122133382--122133547 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 89
122133372 GAGTTGATTT
* *
122133382 TTGAAAAACAGAAATTTAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
122133447 AGTTGATTTTTTTTACGAACAAAA
66 AGTTAATTTTTTTTACGAACAAAA
* * *
122133471 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGTAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCATGT---CCTGAGGCTCAACTCACCTCTCGCAAT
122133534 ATGAGTTAATTTTT
63 ATGAGTTAATTTTT
122133548 GACAAACAGA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
88 18 0.26
89 13 0.19
90 35 0.51
91 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (89 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTTTTACGAACAAAA
Found at i:122133608 original size:73 final size:73
Alignment explanation
Indices: 122133471--122133694 Score: 313
Period size: 74 Copynumber: 3.0 Consensus size: 73
122133461 ACGAACAAAA
* * ** *
122133471 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGTAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
122133536 GAGTTAATTT
64 GAGTTGATTT
* * *
122133546 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
122133611 GTTGATTT
66 GTTGATTT
* * *
122133619 TTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
122133684 AGTTGATTT
65 AGTTGATTT
122133693 TT
1 TT
122133695 TTTTTACGAA
Statistics
Matches: 133, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
73 50 0.38
74 57 0.43
75 26 0.20
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:122133721 original size:14 final size:14
Alignment explanation
Indices: 122133702--122133729 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
122133692 TTTTTTTTAC
122133702 GAACAGAAATTGAA
1 GAACAGAAATTGAA
122133716 GAACAGAAATTGAA
1 GAACAGAAATTGAA
122133730 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:122133845 original size:166 final size:165
Alignment explanation
Indices: 122133552--122133860 Score: 467
Period size: 166 Copynumber: 1.9 Consensus size: 165
122133542 ATTTTTGACA
** * * * *
122133552 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAAGACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
* *
122133617 TTTTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
66 TTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
*
122133682 TGAGTTGATTTTTTTTTTACGAACAGAAATTGAAG
131 TGAGTCGATTTTTTTTTTACGAACAGAAATTGAAG
* *
122133717 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAAGACCTCAGC--GTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTA
* * *
122133782 ATTTTTGACAAACAGAAA-TTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
64 ATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
122133846 TATGAGTCGATTTTT
129 TATGAGTCGATTTTT
122133861 GAAAAACAGA
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
165 22 0.17
166 57 0.45
167 49 0.38
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (165 bp):
AACAGAAATTGAAAAGACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
TTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTCGATTTTTTTTTTACGAACAGAAATTGAAG
Found at i:122133846 original size:73 final size:73
Alignment explanation
Indices: 122133717--122133953 Score: 285
Period size: 73 Copynumber: 3.2 Consensus size: 73
122133707 GAAATTGAAG
* ** * *
122133717 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
122133782 ATTTTTGACA
64 ATTTTTGACA
* **
122133792 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
*
122133857 TTTTGAAA
66 TTTTGACA
* * * *
122133865 AACAGAAATTTAAAAATACCTTAGCGTGTCCTGAGGCTCAACTTACCTCTCGCAATATGAGTTGA
1 AACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A
* * *
122133930 TTTTTTTTACG
64 -ATTTTTGACA
122133941 AACAGAAATTGAA
1 AACAGAAATTGAA
122133954 GAACAGAAAT
Statistics
Matches: 138, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
73 50 0.36
74 48 0.35
75 26 0.19
76 14 0.10
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
TTTTGACA
Found at i:122133925 original size:74 final size:73
Alignment explanation
Indices: 122133711--122133934 Score: 286
Period size: 74 Copynumber: 3.0 Consensus size: 73
122133701 CGAACAGAAA
* * * ** * *
122133711 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTTAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
122133776 GAGTTAATTT
64 GAGTTGATTT
* * *
122133786 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
*
122133851 GTCGATTT
66 GTTGATTT
* * *
122133859 TTGAAAAACAGAAATTTAAAAATACCTTAGCGTGTCCTGAGGCTCAACTTACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
122133924 AGTTGATTT
65 AGTTGATTT
122133933 TT
1 TT
122133935 TTTACGAACA
Statistics
Matches: 131, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
73 50 0.38
74 55 0.42
75 26 0.20
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (73 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:122133959 original size:14 final size:14
Alignment explanation
Indices: 122133940--122133967 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
122133930 TTTTTTTTAC
122133940 GAACAGAAATTGAA
1 GAACAGAAATTGAA
122133954 GAACAGAAATTGAA
1 GAACAGAAATTGAA
122133968 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:122134078 original size:238 final size:238
Alignment explanation
Indices: 122133241--122134173 Score: 1681
Period size: 238 Copynumber: 3.9 Consensus size: 238
122133231 TTTTTTTACA
*
122133241 AACAGAAATTGAAAAGACCTCAGCATGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
122133306 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC-CACCTCTCGCAAT
66 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
* *
122133370 ATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACC
131 ATGAGTCGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
*
122133435 TCTTGCAATATGAGTTGATTTTTTTTACGAACA-AAATTGAAG
196 TCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAAG
*
122133477 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGTAATATGAGTTA
1 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
*
122133542 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAAT
66 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
* *
122133607 ATGAGTTGATTTTTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
131 ATGAGTCGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
122133672 TCTCGCAATATGAGTTGATTTTTTTTTTACGAACAGAAATTGAAG
196 TCTCGCAATATGAGTTGA--TTTTTTTTACGAACAGAAATTGAAG
* *
122133717 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
122133782 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
66 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
* *
122133847 ATGAGTCGATTTTTGAAAAACAGAAATTTAAAAATACCTTAGCGTGTCCTGAGGCTCAACTTACC
131 ATGAGTCGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
122133912 TCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAAG
196 TCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAAG
*
122133955 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGTTA
1 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
122134020 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
66 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
*
122134085 ATGAGTCGATTTTTGAAAAACAGAATTTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
131 ATGAGTCGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
* * *
122134150 TCTTGCAATATGAGCTAATTTTTT
196 TCTCGCAATATGAGTTGATTTTTT
122134174 ATGAACATAA
Statistics
Matches: 670, Mismatches: 23, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
236 114 0.17
237 92 0.14
238 235 0.35
239 15 0.02
240 214 0.32
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (238 bp):
AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTCGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAAG
Found at i:122134085 original size:73 final size:72
Alignment explanation
Indices: 122133949--122134264 Score: 355
Period size: 73 Copynumber: 4.3 Consensus size: 72
122133939 CGAACAGAAA
* * ** *
122133949 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCACAATAT
1 TTGAA-AACAGAAATTAAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
122134014 GAGTTAATTT
63 GAGTTAATTT
* *
122134024 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
**
122134089 GTCGATTT
65 GTTAATTT
* * *
122134097 TTGAAAAACAGAATTTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATG
1 TTG-AAAACAGAA-ATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
*
122134162 AGCTAATTT
64 AGTTAATTT
* * * ** * *
122134171 TTTATGAACATAAATTAAAACCACTTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
*
122134236 GTTGATTTT
65 GTT-AATTT
122134245 TTGAAAATCAGAAA-TAAAAA
1 TTGAAAA-CAGAAATTAAAAA
122134265 CATCAAAATA
Statistics
Matches: 206, Mismatches: 29, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
73 106 0.51
74 73 0.35
75 26 0.13
76 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (72 bp):
TTGAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTAATTT
Found at i:122134135 original size:478 final size:476
Alignment explanation
Indices: 122133241--122134173 Score: 1695
Period size: 478 Copynumber: 2.0 Consensus size: 476
122133231 TTTTTTTACA
**
122133241 AACAGAAATTGAAAAGACCTCAGCATGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTA
122133306 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACCACCTCTCGCAATA
66 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACCACCTCTCGCAATA
*
122133371 TGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCT
131 TGAGTCGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCT
*
122133436 CTTGCAATATGAGTTGATTTTTTTTACGAACAAAATTGAAGAACAGAAATTGAAAAGACCTCAGC
196 CTCGCAATATGAGTTGATTTTTTTTACGAACAAAATTGAAGAACAGAAATTGAAAAGACCTCAGC
**
122133501 ATGTGAGCCGAGGCTCAACTCACCTCTCGTAATATGAGTTAATTTTTGACAAACAGAAATTGAAA
261 ATGTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTGACAAACAGAAATTGAAA
* * *
122133566 TTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAATAGA
326 TTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGA
* *
122133631 AATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
391 AATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTAATTTTTT
122133696 TTTTACGAACAGAAATTGAAG
456 TTTTACGAACAGAAATTGAAG
*
122133717 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTA
122133782 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
66 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC-CACCTCTCGCAAT
* * *
122133847 ATGAGTCGATTTTTGAAAAACAGAAATTTAAAAATACCTTAGCGTGTCCTGAGGCTCAACTTACC
130 ATGAGTCGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACC
122133912 TCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCA
195 TCTCGCAATATGAGTTGATTTTTTTTACGAACA-AAATTGAAGAACAGAAATTGAAAAGACCTCA
122133977 GCATGTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTGACAAACAGAAATTGA
259 GCATGTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTGACAAACAGAAATTGA
122134042 AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACA
324 AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACA
* *
122134107 GAATTTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGCTAATTTT
389 GAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTAATTTT
122134172 TT
454 TT
122134174 ATGAACATAA
Statistics
Matches: 438, Mismatches: 17, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
476 113 0.26
477 106 0.24
478 219 0.50
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (476 bp):
AACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTA
ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACCACCTCTCGCAATA
TGAGTCGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTTTTTACGAACAAAATTGAAGAACAGAAATTGAAAAGACCTCAGC
ATGTGAGCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTGACAAACAGAAATTGAAA
TTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGA
AATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTAATTTTTT
TTTTACGAACAGAAATTGAAG
Found at i:122142552 original size:12 final size:12
Alignment explanation
Indices: 122142532--122142567 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
122142522 TGGGATATGC
*
122142532 AATGTATGAATG
1 AATGCATGAATG
122142544 AATGCATGAATG
1 AATGCATGAATG
122142556 AATGCATGAATG
1 AATGCATGAATG
122142568 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:122144113 original size:16 final size:15
Alignment explanation
Indices: 122144092--122144139 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
122144082 TGATGGAATA
122144092 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
122144108 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
122144123 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
122144139 A
1 A
122144140 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:122144122 original size:8 final size:8
Alignment explanation
Indices: 122144088--122144139 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
122144078 ACAATGATGG
*
122144088 AATAATAA
1 AATATTAA
122144096 AATATATAA
1 AATAT-TAA
122144105 AATA-TAA
1 AATATTAA
122144112 AATATTAA
1 AATATTAA
*
122144120 AATATCAA
1 AATATTAA
*
122144128 AATATTAG
1 AATATTAA
122144136 AATA
1 AATA
122144140 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Done.