Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 199 of 199
Found at i:57895811 original size:21 final size:21
Alignment explanation
Indices: 57895787--57895832 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
57895777 TGTTTATTTT
57895787 TCAACAAAGATTC-AAAATCTA
1 TCAACAAAGA-TCAAAAATCTA
* *
57895808 TCAACTAAGATCAAAAATCTT
1 TCAACAAAGATCAAAAATCTA
57895829 TCAA
1 TCAA
57895833 AATAATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.50, C:0.20, G:0.04, T:0.26
Consensus pattern (21 bp):
TCAACAAAGATCAAAAATCTA
Found at i:57900726 original size:32 final size:32
Alignment explanation
Indices: 57900681--57900752 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
57900671 AGGAATATTG
* *
57900681 TATCATTTAACAAAAT-TAAAGTTGATAGTT-GT
1 TATCATTTAAC-AAATGAAAAGGTGATA-TTAGT
*
57900713 TATCATTTCACAAATGAAAAGGTGATATTAGT
1 TATCATTTAACAAATGAAAAGGTGATATTAGT
57900745 TATCATTT
1 TATCATTT
57900753 TATAGAACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 6 0.17
32 29 0.83
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.40
Consensus pattern (32 bp):
TATCATTTAACAAATGAAAAGGTGATATTAGT
Found at i:57901833 original size:52 final size:52
Alignment explanation
Indices: 57901776--57901879 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
57901766 TAATAGTTAG
*
57901776 ACGCAACGTGCCTTAGACAGTACCAATGGTATGTG-AGGTCCCAGAGGCTTCC
1 ACGCAACGTGCCTTAGACAGTACCAATGGTATGTGCA-GTCCCAAAGGCTTCC
*
57901828 ACGCAACGTGCCTTAGACAGTACCAATGGTGTGTGCAGTCCCAAAGGCTTCC
1 ACGCAACGTGCCTTAGACAGTACCAATGGTATGTGCAGTCCCAAAGGCTTCC
57901880 CTGTCGTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 48 0.98
53 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (52 bp):
ACGCAACGTGCCTTAGACAGTACCAATGGTATGTGCAGTCCCAAAGGCTTCC
Found at i:57911657 original size:6 final size:6
Alignment explanation
Indices: 57911641--57911680 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
57911631 CTTGGTTATT
* * *
57911641 GTCTTC TTCTTC GTCTTC GTCGTC GTCTTC GTCATC GTCT
1 GTCTTC GTCTTC GTCTTC GTCTTC GTCTTC GTCTTC GTCT
57911681 GGGCTTTCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.03, C:0.33, G:0.17, T:0.47
Consensus pattern (6 bp):
GTCTTC
Found at i:57912431 original size:12 final size:13
Alignment explanation
Indices: 57912402--57912435 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
57912392 TTATCCAACT
57912402 CAACCCAATTACC
1 CAACCCAATTACC
57912415 CAACCCAATTA-C
1 CAACCCAATTACC
57912427 CAACCCAAT
1 CAACCCAAT
57912436 AAAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (13 bp):
CAACCCAATTACC
Found at i:57912522 original size:38 final size:38
Alignment explanation
Indices: 57912417--57912532 Score: 169
Period size: 38 Copynumber: 3.0 Consensus size: 38
57912407 CAATTACCCA
* *
57912417 ACCCAATTACCAACCCAATAAAATTAAAACTAAAGTTT
1 ACCCAATTACCAACCCAATAAAAATAAAACTAAAGTCT
*
57912455 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCT
* * *
57912494 GCCCAATTATCAACCCAATAAAAATAAAATTAAAGTCT
1 ACCCAATTACCAACCCAATAAAAATAAAACTAAAGTCT
57912532 A
1 A
57912533 ACTCTAAGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
38 35 0.50
39 35 0.50
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (38 bp):
ACCCAATTACCAACCCAATAAAAATAAAACTAAAGTCT
Found at i:57912685 original size:17 final size:17
Alignment explanation
Indices: 57912665--57912725 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
57912655 ATTTCAAGAC
57912665 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
57912682 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
57912701 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
57912719 TTATGTA
1 TTATGTA
57912726 GTGATCCAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 16 0.50
18 4 0.12
19 4 0.12
20 8 0.25
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:57912701 original size:37 final size:37
Alignment explanation
Indices: 57912660--57912730 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
57912650 TGTTAATTTC
*
57912660 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
57912697 AAGACTTATGTAATATTTTTAATTATGTAGTGAT
1 AAGACTTATGTAATATTTTTAATTATGTAGTGAT
57912731 CCAATTCGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
Found at i:57917441 original size:21 final size:22
Alignment explanation
Indices: 57917398--57917442 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
57917388 GGCCCGGCCC
57917398 ATTTTTTTAATAAACACAAAAA
1 ATTTTTTTAATAAACACAAAAA
*
57917420 ATTTATTTTAA-AAATA-AAAAA
1 ATTT-TTTTAATAAACACAAAAA
57917441 AT
1 AT
57917443 AAAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 8 0.38
23 6 0.29
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
ATTTTTTTAATAAACACAAAAA
Found at i:57921896 original size:37 final size:40
Alignment explanation
Indices: 57921800--57921938 Score: 140
Period size: 40 Copynumber: 3.5 Consensus size: 40
57921790 AACACACCAG
* * **
57921800 TTTGGCACCCAGTGCCTTATCAGATAATTCGAAGTAATAA
1 TTTGGCACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
* * *
57921840 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGGCACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
* *
57921878 -TTGGCACCCAGTGCCTCATCGAATATATCCGAAGTAATAA
1 TTTGGCACCCAGTGCCTCATCGGATA-AACCGAAGTAATAA
* * *
57921918 TTTGACACCTAGTGTCTCATC
1 TTTGGCACCCAGTGCCTCATC
57921939 AACTCGAAGT
Statistics
Matches: 80, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
37 21 0.26
38 10 0.12
39 2 0.03
40 30 0.38
41 17 0.21
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (40 bp):
TTTGGCACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
Found at i:57922118 original size:15 final size:15
Alignment explanation
Indices: 57922071--57922120 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
57922061 CAATTCAAAT
*
57922071 AATCAATATATATTC
1 AATCAATATAAATTC
57922086 AAT-ATATATACCAATTC
1 AATCA-ATATA--AATTC
57922103 AATCAATATAAATTC
1 AATCAATATAAATTC
57922118 AAT
1 AAT
57922121 AAATTCATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (15 bp):
AATCAATATAAATTC
Found at i:57922143 original size:24 final size:24
Alignment explanation
Indices: 57922098--57922144 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
57922088 TATATATACC
57922098 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
57922122 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
57922145 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:57929703 original size:2 final size:2
Alignment explanation
Indices: 57929698--57929740 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
57929688 TTTTTTTCGA
* *
57929698 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AT AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
57929740 A
1 A
57929741 TGTTCCCCTG
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:0.51, C:0.44, G:0.00, T:0.05
Consensus pattern (2 bp):
AC
Found at i:57932042 original size:41 final size:41
Alignment explanation
Indices: 57931985--57932090 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
57931975 AATGAGATAA
* * *
57931985 TTCAGACTTTACGTCTAGTAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
* *
57932026 TTCAGACTTTACGTCTAGCAGGCTTGACGCTGGTGAATTAT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
57932067 TTCAGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
57932091 AATTGCCAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
Found at i:57938640 original size:25 final size:24
Alignment explanation
Indices: 57938603--57938654 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
57938593 TTAGGTCCCA
57938603 AAATTATTATTTTATAAATTTTAT
1 AAATTATTATTTTATAAATTTTAT
* * * *
57938627 AAATTCTTAATTTTTTATATTTTTT
1 AAATTATT-ATTTTATAAATTTTAT
57938652 AAA
1 AAA
57938655 AATAAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
AAATTATTATTTTATAAATTTTAT
Found at i:57941666 original size:36 final size:36
Alignment explanation
Indices: 57941619--57941693 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
57941609 TTAACTCAAT
*
57941619 ATACATGGTATGAAACAGGGGTATTATCTATTTCTA
1 ATACATGGTATGAAACAGGGATATTATCTATTTCTA
*
57941655 ATACATGGTATGAAACTGGGATATTATCTATTTCTA
1 ATACATGGTATGAAACAGGGATATTATCTATTTCTA
57941691 ATA
1 ATA
57941694 GTTTAATGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (36 bp):
ATACATGGTATGAAACAGGGATATTATCTATTTCTA
Found at i:57946207 original size:5 final size:5
Alignment explanation
Indices: 57946197--57946232 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
57946187 AGGAATTTCT
57946197 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
57946233 GTATCATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:57946468 original size:26 final size:26
Alignment explanation
Indices: 57946438--57946504 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
57946428 ATTAATTTTT
* *
57946438 AATATTATTTAATATACATAT-TTATT
1 AATATTATTTAATATA-ATATATAATA
* *
57946464 TATATT-TAATAATATAATATATAATA
1 AATATTAT-TTAATATAATATATAATA
57946490 AATATTATTTAATAT
1 AATATTATTTAATAT
57946505 TTTAACAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
25 5 0.16
26 26 0.81
27 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (26 bp):
AATATTATTTAATATAATATATAATA
Found at i:57946477 original size:36 final size:36
Alignment explanation
Indices: 57946437--57946547 Score: 101
Period size: 34 Copynumber: 3.1 Consensus size: 36
57946427 TATTAATTTT
57946437 TAATATTATTTAATATACATATTTATTT-ATA-TTTAA
1 TAATATTATTTAATATA-ATA-TTATTTAATATTTTAA
*
57946473 TAATATAATATATAATA-AATATTATTTAATATTTTAA
1 TAATAT--TATTTAATATAATATTATTTAATATTTTAA
*
57946510 CAA-ATTATTTAATATAA-A--ATTCTAATATTTATAA
1 TAATATTATTTAATATAATATTATT-TAATATTT-TAA
57946544 TAAT
1 TAAT
57946548 TTTAAATTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
32 3 0.05
33 8 0.13
34 14 0.22
35 8 0.13
36 14 0.22
37 8 0.13
38 8 0.13
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.50
Consensus pattern (36 bp):
TAATATTATTTAATATAATATTATTTAATATTTTAA
Found at i:57948138 original size:114 final size:115
Alignment explanation
Indices: 57947938--57948160 Score: 360
Period size: 114 Copynumber: 1.9 Consensus size: 115
57947928 AGTAAAAAAA
* * * *
57947938 TTTTTACTTTTTTTCGTGTCAGTATCAGGTATCAGTATACGAAAAAAGGTAAAAAAAAATTTTGT
1 TTTTTACTTTTTTTCGTGTCAATAGCAGGTATCAGTATACGAAAAAAGGTAAAAAAAAAATTGGT
*
57948003 GGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGGTGGAAAAAAAATATTT
66 GGTGGCCTGCCAATGGCCGGCACCACC-TTTTTGGAGGAAAAAAAATATTT
57948054 TTTTTAC-TTTTTTCGTGTCAATAGCAGGTATCAGTATACGAAAAAA-GTAAAAAAAAAATTGGT
1 TTTTTACTTTTTTTCGTGTCAATAGCAGGTATCAGTATACGAAAAAAGGTAAAAAAAAAATTGGT
* *
57948117 GGTGGCTTGTCAATGGCCGGCACCACCTTTTTGGAGGAAAAAAA
66 GGTGGCCTGCCAATGGCCGGCACCACCTTTTTGGAGGAAAAAAA
57948161 TTTCGGGCAT
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
113 16 0.16
114 40 0.40
115 37 0.37
116 7 0.07
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (115 bp):
TTTTTACTTTTTTTCGTGTCAATAGCAGGTATCAGTATACGAAAAAAGGTAAAAAAAAAATTGGT
GGTGGCCTGCCAATGGCCGGCACCACCTTTTTGGAGGAAAAAAAATATTT
Found at i:57948767 original size:52 final size:53
Alignment explanation
Indices: 57948688--57948864 Score: 268
Period size: 53 Copynumber: 3.3 Consensus size: 53
57948678 AACGAAAATG
* * *
57948688 AAAAAAGGGTGTTAGATGTA-TACAAAAATCTGAAATAAATGAGATTGAATG-A
1 AAAAAAGGGTGTTAGATGTAGGA-AAAAATTTAAAATAAATGAGATTGAATGAA
57948740 AAAAAAGGGTGTTAGATGTAGGAAAAAATTTAAAATAAATGAGATTGAATGAA
1 AAAAAAGGGTGTTAGATGTAGGAAAAAATTTAAAATAAATGAGATTGAATGAA
* *
57948793 AAAAAATGGTGTTAGATGTAGGAAAAAATTTAAAATAAATGAGACTGAATGAA
1 AAAAAAGGGTGTTAGATGTAGGAAAAAATTTAAAATAAATGAGATTGAATGAA
*
57948846 AAAAATAGAGTGTTAGATG
1 AAAAA-AGGGTGTTAGATG
57948865 GCATTGTTCA
Statistics
Matches: 115, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
52 46 0.40
53 58 0.50
54 11 0.10
ACGTcount: A:0.51, C:0.02, G:0.22, T:0.25
Consensus pattern (53 bp):
AAAAAAGGGTGTTAGATGTAGGAAAAAATTTAAAATAAATGAGATTGAATGAA
Found at i:57951000 original size:13 final size:13
Alignment explanation
Indices: 57950982--57951006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57950972 GATCGCGACG
57950982 ATTTTAATTTTTT
1 ATTTTAATTTTTT
57950995 ATTTTAATTTTT
1 ATTTTAATTTTT
57951007 ACTTTCTTAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:57951879 original size:5 final size:6
Alignment explanation
Indices: 57951863--57951888 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
57951853 AAAAATATTT
57951863 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
57951889 TTTTTAAAGT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:57951920 original size:12 final size:13
Alignment explanation
Indices: 57951903--57951934 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
57951893 TAAAGTATTT
57951903 TAAAAATAAAA-A
1 TAAAAATAAAACA
57951915 TAAAAATAAAACA
1 TAAAAATAAAACA
57951928 -AAAAATA
1 TAAAAATA
57951935 TATATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 18 0.95
13 1 0.05
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAACA
Found at i:57956881 original size:22 final size:23
Alignment explanation
Indices: 57956856--57956900 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
57956846 ATAGCAACGT
57956856 ATTTATGATTA-ATTTA-TATAAA
1 ATTTATGA-TACATTTATTATAAA
*
57956878 ATTTATTATACATTTATTATAAA
1 ATTTATGATACATTTATTATAAA
57956901 GATCAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 12 0.60
23 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTTATGATACATTTATTATAAA
Found at i:57962541 original size:41 final size:41
Alignment explanation
Indices: 57962479--57962562 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
57962469 CGGATGATCC
57962479 TTAAGCTTGTTTTATTATATCTTGATTTCTACTTATTGAAA
1 TTAAGCTTGTTTTATTATATCTTGATTTCTACTTATTGAAA
*
57962520 TTAATCTTGTTTTATTATATCTTGATTTCTACTTATTGAAA
1 TTAAGCTTGTTTTATTATATCTTGATTTCTACTTATTGAAA
57962561 TT
1 TT
57962563 GGGAAAGGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (41 bp):
TTAAGCTTGTTTTATTATATCTTGATTTCTACTTATTGAAA
Found at i:57979971 original size:22 final size:23
Alignment explanation
Indices: 57979943--57979985 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
57979933 GCAATCGTAG
57979943 ATATGA-TATGTAATCTTAGAAA
1 ATATGATTATGTAATCTTAGAAA
*
57979965 ATATGATTTTGTAATCTTAGA
1 ATATGATTATGTAATCTTAGA
57979986 GATTTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (23 bp):
ATATGATTATGTAATCTTAGAAA
Found at i:57984525 original size:21 final size:21
Alignment explanation
Indices: 57984500--57984541 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
57984490 TGGTCATTTT
57984500 ACCACCTAAGGTTAAACTATC
1 ACCACCTAAGGTTAAACTATC
57984521 ACCACCTAAGGTTAAACTATC
1 ACCACCTAAGGTTAAACTATC
57984542 CCAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.24
Consensus pattern (21 bp):
ACCACCTAAGGTTAAACTATC
Found at i:57985332 original size:19 final size:19
Alignment explanation
Indices: 57985284--57985334 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
57985274 ATATAATTTG
57985284 ATAATTTTACTAACAATTA
1 ATAATTTTACTAACAATTA
*
57985303 ATACA----ATTAACAATTA
1 ATA-ATTTTACTAACAATTA
57985319 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
57985335 AATGTTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 1 0.04
16 13 0.52
19 10 0.40
20 1 0.04
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATTTTACTAACAATTA
Found at i:57985349 original size:93 final size:95
Alignment explanation
Indices: 57985252--57985438 Score: 281
Period size: 96 Copynumber: 2.0 Consensus size: 95
57985242 AACAATTAAT
*
57985252 ACAATTAACAATTAACATTTTGATATAATTTGATAA-TT-TTACTAACAATTAATA-CAATTAAC
1 ACAATTAACAATTAACAATTTGATATAATTTGATAATTTATTACTAACAATTAATATC-ATTAAC
57985314 AATTAATAATTTTACTAACAAAATGTTAGTA
65 AATTAATAATTTTACTAACAAAATGTTAGTA
* * *
57985345 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTATTAGTAACAATTAATATCATTAAC
1 ACAATTAACAATTAACAATTTGATATAATTTGATAA-TTTATTACTAACAATTAATATCATTAAC
* *
57985410 AATTACTAATTTTACTAGCAAAATGTTAG
65 AATTAATAATTTTACTAACAAAATGTTAG
57985439 ATTTTACAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
93 33 0.39
95 2 0.02
96 48 0.57
97 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (95 bp):
ACAATTAACAATTAACAATTTGATATAATTTGATAATTTATTACTAACAATTAATATCATTAACA
ATTAATAATTTTACTAACAAAATGTTAGTA
Found at i:57987839 original size:2 final size:2
Alignment explanation
Indices: 57987832--57987901 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
57987822 AAAACAAGCA
57987832 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
57987874 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
57987902 CTCTCAATTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:57991286 original size:16 final size:16
Alignment explanation
Indices: 57991265--57991304 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
57991255 TCAAGTTGAG
*
57991265 AAAATTATTTAATTAT
1 AAAATTAATTAATTAT
57991281 AAAATTAATTAA-T-T
1 AAAATTAATTAATTAT
57991295 AAAATTAATT
1 AAAATTAATT
57991305 TATAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.48
15 1 0.04
16 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATTAATTAATTAT
Found at i:57998350 original size:3 final size:3
Alignment explanation
Indices: 57998342--57998373 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
57998332 TCCCTCACTG
*
57998342 CTT CTT CTT CAT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
57998374 AATTCTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:58002077 original size:16 final size:16
Alignment explanation
Indices: 58002056--58002088 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58002046 ACTAGCCTTA
58002056 GTCAACAAGGGAAAAT
1 GTCAACAAGGGAAAAT
58002072 GTCAACAAGGGAAAAT
1 GTCAACAAGGGAAAAT
58002088 G
1 G
58002089 ATTGTCTACA
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:0.48, C:0.12, G:0.27, T:0.12
Consensus pattern (16 bp):
GTCAACAAGGGAAAAT
Found at i:58005650 original size:25 final size:25
Alignment explanation
Indices: 58005612--58005672 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
58005602 AAAAACTTAC
* *
58005612 ACGGTGATGCAGCAGAGGAGTGTCG
1 ACGGCGATGCAGCAAAGGAGTGTCG
*
58005637 ACGGCGATGTAGCAAAGGAGTGTCG
1 ACGGCGATGCAGCAAAGGAGTGTCG
*
58005662 ACGACGATGCA
1 ACGGCGATGCA
58005673 ACAGATAGTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.28, C:0.18, G:0.39, T:0.15
Consensus pattern (25 bp):
ACGGCGATGCAGCAAAGGAGTGTCG
Found at i:58005868 original size:40 final size:40
Alignment explanation
Indices: 58005813--58005953 Score: 192
Period size: 40 Copynumber: 3.5 Consensus size: 40
58005803 AAAATGATAC
58005813 TTTGCGGCATTTTTCTCATAGCGTCGCTAATGCTTGACCT
1 TTTGCGGCATTTTTCTCATAGCGTCGCTAATGCTTGACCT
* *
58005853 TTTGCGGCATTTTTCTCATAGTGTCGCTAATGCTTGACAT
1 TTTGCGGCATTTTTCTCATAGCGTCGCTAATGCTTGACCT
* * * * *
58005893 TTTGCGTCGTTTGTCTCATAAACGTTGCTAATGCTTGACCT
1 TTTGCGGCATTTTTCTCAT-AGCGTCGCTAATGCTTGACCT
**
58005934 TTTGCGGTGTTTTTCTCATA
1 TTTGCGGCATTTTTCTCATA
58005954 AACGCCGCTG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 55 0.62
41 33 0.38
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (40 bp):
TTTGCGGCATTTTTCTCATAGCGTCGCTAATGCTTGACCT
Found at i:58008744 original size:12 final size:12
Alignment explanation
Indices: 58008727--58008776 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
58008717 TTTTGTAAAA
58008727 TATATATTTAAT
1 TATATATTTAAT
58008739 TATATATTTAA-
1 TATATATTTAAT
58008750 TAT-TAATTT-AT
1 TATAT-ATTTAAT
*
58008761 TTTATATTTTAAT
1 TATATA-TTTAAT
58008774 TAT
1 TAT
58008777 TTTAATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
10 2 0.06
11 10 0.32
12 15 0.48
13 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATATATTTAAT
Found at i:58008751 original size:23 final size:24
Alignment explanation
Indices: 58008725--58008782 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
58008715 AATTTTGTAA
58008725 AATATATATTTAATTATATA-TTT
1 AATATATATTTAATTATATATTTT
*
58008748 AATAT-TAATTT-ATTTTATATTTT
1 AATATAT-ATTTAATTATATATTTT
58008771 AAT-TAT-TTTAAT
1 AATATATATTTAAT
58008783 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
21 3 0.10
22 11 0.37
23 16 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
AATATATATTTAATTATATATTTT
Found at i:58008784 original size:17 final size:17
Alignment explanation
Indices: 58008727--58008780 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 17
58008717 TTTTGTAAAA
58008727 TATATATTTAATTATATATT
1 TATAT-TTTAATT-TAT-TT
*
58008747 TA-ATATTAATTTATTT
1 TATATTTTAATTTATTT
58008763 TATATTTTAA-TTATTT
1 TATATTTTAATTTATTT
58008779 TA
1 TA
58008781 ATATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 12 0.39
17 9 0.29
18 6 0.19
19 2 0.06
20 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATATTTTAATTTATTT
Found at i:58016702 original size:6 final size:7
Alignment explanation
Indices: 58016687--58016711 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58016677 TCCACAAGCT
58016687 AAAATAA
1 AAAATAA
58016694 AAAATAA
1 AAAATAA
58016701 AAAATAA
1 AAAATAA
58016708 AAAA
1 AAAA
58016712 GAGAGAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:58023510 original size:59 final size:59
Alignment explanation
Indices: 58023433--58023551 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
58023423 CAAGAATAAC
58023433 TCAAACTCATCAATGGTATAACCTAAAATGTTTGATGATTTTACAAATTAGTCTTTGGG
1 TCAAACTCATCAATGGTATAACCTAAAATGTTTGATGATTTTACAAATTAGTCTTTGGG
*
58023492 TCAAACTCATCAATGGTATAATCTAAAATGTTTGATGATTTTACAAATTAGTCTTTGGG
1 TCAAACTCATCAATGGTATAACCTAAAATGTTTGATGATTTTACAAATTAGTCTTTGGG
58023551 T
1 T
58023552 TAGCTAAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.39
Consensus pattern (59 bp):
TCAAACTCATCAATGGTATAACCTAAAATGTTTGATGATTTTACAAATTAGTCTTTGGG
Found at i:58030483 original size:12 final size:12
Alignment explanation
Indices: 58030466--58030492 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
58030456 TCTTCTTTCC
58030466 CTTTGGGCCGAG
1 CTTTGGGCCGAG
58030478 CTTTGGGCCGAG
1 CTTTGGGCCGAG
58030490 CTT
1 CTT
58030493 CAGGAGGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.26, G:0.37, T:0.30
Consensus pattern (12 bp):
CTTTGGGCCGAG
Found at i:58031185 original size:43 final size:43
Alignment explanation
Indices: 58031127--58031210 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
58031117 GGTGCAGCCA
*
58031127 GGGTAAGAACAGGCTCGAAATTTTA-TCATGCTATCACTTAGTG
1 GGGTAAGAACAGGCTCAAAATTTTACT-ATGCTATCACTTAGTG
* *
58031170 GGGTAGGAACCGGCTCAAAATTTTACTATGCTATCACTTAG
1 GGGTAAGAACAGGCTCAAAATTTTACTATGCTATCACTTAG
58031211 GGCCCATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
GGGTAAGAACAGGCTCAAAATTTTACTATGCTATCACTTAGTG
Found at i:58034676 original size:10 final size:10
Alignment explanation
Indices: 58034663--58034708 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
58034653 CTGTGACTAA
*
58034663 ATGTGATTGT
1 ATGTGATTAT
*
58034673 ATGTAATTAT
1 ATGTGATTAT
*
58034683 ATGTGCTTAT
1 ATGTGATTAT
58034693 ATGTGATTGAT
1 ATGTGATT-AT
58034704 ATGTG
1 ATGTG
58034709 TCGGAATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 23 0.77
11 7 0.23
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (10 bp):
ATGTGATTAT
Found at i:58035507 original size:20 final size:21
Alignment explanation
Indices: 58035450--58035507 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
58035440 TTGATTTTCC
58035450 AGGCAGTATTGATACCATTTAA
1 AGGCAGTATTGATACCA-TTAA
* * *
58035472 AGGAAATATTGATACCA-TAG
1 AGGCAGTATTGATACCATTAA
*
58035492 AGGCAGTATCGATACC
1 AGGCAGTATTGATACC
58035508 TATGTAACAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 15 0.50
22 15 0.50
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (21 bp):
AGGCAGTATTGATACCATTAA
Found at i:58037179 original size:16 final size:16
Alignment explanation
Indices: 58037158--58037188 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58037148 CTATGCATGC
*
58037158 AAAATATAAAAGACAA
1 AAAATAAAAAAGACAA
58037174 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
58037189 GAATAGTGAA
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:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAGACAA
Found at i:58041332 original size:44 final size:44
Alignment explanation
Indices: 58041284--58041387 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 44
58041274 ACCCCTCTGG
* *
58041284 CCAACTTGCCGAAGGTGTACAACAGTTTGACACCACTCC-TCCAA
1 CCAACTTGCCGATGGTGTACAACAGTTCGACACCAC-CCATCCAA
* ** *
58041328 CCAACTT-CCGATGGTGTTCAATGGTTCGGCACCACCCATCCAA
1 CCAACTTGCCGATGGTGTACAACAGTTCGACACCACCCATCCAA
*
58041371 CCAACTTGTCGATGGTG
1 CCAACTTGCCGATGGTG
58041388 CCCAATAGTC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
42 2 0.04
43 34 0.67
44 15 0.29
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (44 bp):
CCAACTTGCCGATGGTGTACAACAGTTCGACACCACCCATCCAA
Found at i:58046927 original size:33 final size:33
Alignment explanation
Indices: 58046890--58046953 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
58046880 AATACATTGG
*
58046890 AAATCAGCATGCAGATGGTTTAAATACTATTCC
1 AAATCAGCATGCAGATGGTGTAAATACTATTCC
58046923 AAATCAGCATGCAGATGGTGTAAATACTATT
1 AAATCAGCATGCAGATGGTGTAAATACTATT
58046954 TCAACTGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (33 bp):
AAATCAGCATGCAGATGGTGTAAATACTATTCC
Found at i:58047101 original size:2 final size:2
Alignment explanation
Indices: 58047094--58047125 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
58047084 CTAAATGTTC
*
58047094 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58047126 GTTTATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:58047130 original size:10 final size:10
Alignment explanation
Indices: 58047094--58047133 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
58047084 CTAAATGTTC
*
58047094 ATATATATAT
1 ATATTTATAT
*
58047104 ATATATATAT
1 ATATTTATAT
58047114 ATATTTATAT
1 ATATTTATAT
*
58047124 ATGTTTATAT
1 ATATTTATAT
58047134 TAGATGTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (10 bp):
ATATTTATAT
Found at i:58052954 original size:42 final size:42
Alignment explanation
Indices: 58052908--58052987 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
58052898 ACCTTCGAAC
*
58052908 TAGGGACACACGGCCATGTCCCAGCCCATGTAACTCTCTGAG
1 TAGGGACACACGCCCATGTCCCAGCCCATGTAACTCTCTGAG
* ** * *
58052950 TAGGGTCACACGCCCATGTGTCAGGCCGTGTAACTCTC
1 TAGGGACACACGCCCATGTCCCAGCCCATGTAACTCTC
58052988 AAAATTGCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.21, C:0.33, G:0.25, T:0.21
Consensus pattern (42 bp):
TAGGGACACACGCCCATGTCCCAGCCCATGTAACTCTCTGAG
Found at i:58057852 original size:17 final size:17
Alignment explanation
Indices: 58057830--58057870 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
58057820 ATCTCCGACA
* *
58057830 AGCTTCCAATCTAATTG
1 AGCTTCCAATCCAATCG
58057847 AGCTTCCAATCCAATCG
1 AGCTTCCAATCCAATCG
58057864 AGCTTCC
1 AGCTTCC
58057871 GATAATCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (17 bp):
AGCTTCCAATCCAATCG
Found at i:58061574 original size:20 final size:20
Alignment explanation
Indices: 58061487--58061575 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 20
58061477 GTCTATTGTT
* *
58061487 AGGGTTTAAAATTTAGGGTTCA
1 AGGGTTT-AAGTTAAGGGTT-A
* *
58061509 AGGGTTAAAGGTTAAGGTTTA
1 AGGGTTTAA-GTTAAGGGTTA
*
58061530 A-GG-TTAGGATTAAGGGTTTA
1 AGGGTTTAAG-TTAAGGG-TTA
58061550 A-GGTTTAAGTTAAGGGTTA
1 AGGGTTTAAGTTAAGGGTTA
58061569 AGGGTTT
1 AGGGTTT
58061576 TGGGTTGGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
18 1 0.02
19 12 0.22
20 20 0.37
21 8 0.15
22 13 0.24
ACGTcount: A:0.30, C:0.01, G:0.33, T:0.36
Consensus pattern (20 bp):
AGGGTTTAAGTTAAGGGTTA
Found at i:58061581 original size:27 final size:27
Alignment explanation
Indices: 58061520--58061575 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
58061510 GGGTTAAAGG
58061520 TTAAGGTTTAAGGTTAGGATTAAGGGT
1 TTAAGGTTTAAGGTTAGGATTAAGGGT
*
58061547 TTAAGGTTTAA-GTTAAGGGTTAAGGGT
1 TTAAGGTTTAAGGTT-AGGATTAAGGGT
58061574 TT
1 TT
58061576 TGGGTTGGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (27 bp):
TTAAGGTTTAAGGTTAGGATTAAGGGT
Found at i:58061651 original size:27 final size:27
Alignment explanation
Indices: 58061612--58061668 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
58061602 AAGGTTAGGG
* *
58061612 TTAAGGGTCAAGG-TGAAGGTTAAAGGC
1 TTAAAGGTCAAGGCT-AAAGTTAAAGGC
* *
58061639 TTAAAGGTTAAGGCTAAAGTTAATGGC
1 TTAAAGGTCAAGGCTAAAGTTAAAGGC
58061666 TTA
1 TTA
58061669 GGGCTTTAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (27 bp):
TTAAAGGTCAAGGCTAAAGTTAAAGGC
Found at i:58061653 original size:14 final size:14
Alignment explanation
Indices: 58061627--58061668 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
58061617 GGTCAAGGTG
58061627 AAGGTTAAAGGCTTA
1 AAGGTT-AAGGCTTA
58061642 AAGGTTAAGGC-TA
1 AAGGTTAAGGCTTA
58061655 AA-GTTAATGGCTTA
1 AAGGTTAA-GGCTTA
58061669 GGGCTTTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.20
13 7 0.28
14 7 0.28
15 6 0.24
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (14 bp):
AAGGTTAAGGCTTA
Found at i:58061813 original size:14 final size:14
Alignment explanation
Indices: 58061788--58061841 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
58061778 AGATTTCAAT
58061788 TTTTATGGTTTTGAG
1 TTTTA-GGTTTTGAG
*
58061803 TTTTAGGTTTTAAG
1 TTTTAGGTTTTGAG
* *
58061817 -TTTAGAGTTTAGTG
1 TTTTAG-GTTTTGAG
58061831 TTTTAGGTTTT
1 TTTTAGGTTTT
58061842 ATGGTTAGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 5 0.16
14 17 0.53
15 10 0.31
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (14 bp):
TTTTAGGTTTTGAG
Found at i:58061824 original size:21 final size:21
Alignment explanation
Indices: 58061795--58061840 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
58061785 AATTTTTATG
*
58061795 GTTTTGAGTTTTAG-GTTTTAA
1 GTTTAGAG-TTTAGTGTTTTAA
*
58061816 GTTTAGAGTTTAGTGTTTTAG
1 GTTTAGAGTTTAGTGTTTTAA
58061837 GTTT
1 GTTT
58061841 TATGGTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (21 bp):
GTTTAGAGTTTAGTGTTTTAA
Found at i:58065460 original size:1 final size:1
Alignment explanation
Indices: 58065449--58065497 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
58065439 ACTGGAGGGG
* * * * *
58065449 TTTTTTGTTTTTTTTTTGTTTTTCTTTTTGTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58065498 GCGTTTGTGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:58065504 original size:20 final size:20
Alignment explanation
Indices: 58065467--58065505 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
58065457 TTTTTTTTTG
**
58065467 TTTTTCTTTTTGTTTTTGTT
1 TTTTTCTTTTTGCGTTTGTT
*
58065487 TTTTTTTTTTTGCGTTTGT
1 TTTTTCTTTTTGCGTTTGT
58065506 GTGTGAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.00, C:0.05, G:0.13, T:0.82
Consensus pattern (20 bp):
TTTTTCTTTTTGCGTTTGTT
Found at i:58067843 original size:12 final size:11
Alignment explanation
Indices: 58067825--58067854 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
58067815 TATGTGTTTG
58067825 TAAAAAAAATA
1 TAAAAAAAATA
58067836 TGAAAAAAAATA
1 T-AAAAAAAATA
58067848 TAAAAAA
1 TAAAAAA
58067855 CGTACGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
TAAAAAAAATA
Found at i:58068065 original size:13 final size:14
Alignment explanation
Indices: 58068049--58068091 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
58068039 AATAAAAAAT
58068049 AATAATAATAG-TA
1 AATAATAATAGATA
58068062 AATAATAATAGCATA
1 AATAATAATAG-ATA
58068077 ATATAATAAT-GATA
1 A-ATAATAATAGATA
58068091 A
1 A
58068092 TGATGTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 11 0.41
14 4 0.15
15 4 0.15
16 8 0.30
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (14 bp):
AATAATAATAGATA
Found at i:58069544 original size:44 final size:43
Alignment explanation
Indices: 58069467--58069577 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 43
58069457 TCTGCTCCGT
* * * *
58069467 TGCAACCTCAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGAT-TGTGGCTTTAATACACTCCAC
* * *
58069511 TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATATACTCCAC
1 TGCAACTTCAGGGAGATAAGATT-GTGGCTTTAATACACTCCAC
*
58069555 TGCAACTTCAGAGAGATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
58069578 CGCCATCTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 56 0.98
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (43 bp):
TGCAACTTCAGGGAGATAAGATTGTGGCTTTAATACACTCCAC
Found at i:58069719 original size:44 final size:44
Alignment explanation
Indices: 58069655--58069774 Score: 177
Period size: 44 Copynumber: 2.7 Consensus size: 44
58069645 ACCAGTATGG
* *
58069655 GAAGTCAAGATCTGCTATCTTTGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACAT
*
58069699 GAAGACAAGATCTGCCATCTTCGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACAT
* * * *
58069743 GAAGATAATATCTGTTTTCTTCGATCTACTTC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC
58069775 GCCACCAGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.34
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACAT
Found at i:58069810 original size:133 final size:129
Alignment explanation
Indices: 58069625--58070650 Score: 802
Period size: 133 Copynumber: 7.8 Consensus size: 129
58069615 ATAAGACTTG
* *** * *
58069625 TATCTTCAATCTACTTCGCCACCAGTATGGGAAGTCAAGATCTGCTATCTTTGATCTACTTCATG
1 TATCTTCGATCTACTTC-CCACCAGTACATGAAGACAAGATCTGCT-TCTTCGATCTACTTC--G
* * * *
58069690 CCAATACATGAAGACAAGATCTGCCATCTTCGATCTACTTCATGCCAATACATGAAGATAATATC
62 CCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
*
58069755 TGT
127 TGC
* *** * * *
58069758 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTCCTTTGATCTGC-T-ACC
1 TATCTTCGATCTACTTC-CCACCAGTACATGAAGACAAGATCTGCTT-CTTCGATCTACTTCGCC
* * * ** * * * * *
58069821 --T--TTG-A-TCTACTTCATGC---CGTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGAT
64 AATACATGAAGACAAGATC-TGCTATC-TTCGATCTACTTC-ACGCCAATACATGAAGACAAGAT
58069877 CTGC
126 CTGC
* * *** * * *
58069881 TATCTTTGATATACTTCATGCCAATACATGAAGACAAGATCTGTCATCTTCGATCTATTTCATGC
1 TATCTTCGATCTACTTCCCACCAGTACATGAAGACAAGATCTG-CTTCTTCGATCTACTTC--GC
* * * * * * * *
58069946 TAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATC
63 CAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATC
58070011 TGC
127 TGC
* * *
58070014 TACCTTTGATCTACTT--CATGCAGATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC
1 TATCTTCGATCTACTTCCCA-CCAG-TACATGAAGACAAGATCTGC-TTCTTCGATCTACTTCGC
*** *
58070077 CACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGA
63 CA--A-TACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
58070142 TCTGC
125 TCTGC
* * *
58070147 TATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCC
1 TATCTTCGATCTACTTCCCACCAGTACATGAAGACAAGATCTGC-TTCTTCGATCTACTTCGCCA
* * * *
58070212 TTAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCTAATGCATGAAGACAAGATC
65 ATA-CAT--GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
58070277 TGC
127 TGC
* * * * *
58070280 TATCTTTGATCTACTTCACGCCAAG-ACATGAAGACAAGATCTACTTTTTTCGATCTACTTCGCC
1 TATCTTCGATCTACTTCCCACC-AGTACATGAAGACAAGATCTGC-TTCTTCGATCTACTTCGCC
* * * *
58070344 ACTAGTATGGGAAGACAAGATTTGCTATCTTCGATCTACTTCACGCCAATATATGAAGACAAGAT
64 AATA-CAT--GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
58070409 CTGC
126 CTGC
** * * * *
58070413 TATCTTTAATTTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 TATCTTCGATCTACTTCCCACCAGTACATGAAGACAAGATCTGC-TTCTTCGATCTACTTCGCCA
* * * * * *
58070478 CTAGAATGGGAAGACAAGATCTACTATTTTTGATCTACTTCATGCCAATACATGAAGACAAGATC
65 ATA-CAT--GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
* *
58070543 CGT
127 TGC
* * * * * * * *
58070546 TTTCTTCGATCTATTTCACGCCAATACATGAAGACAAGATCTGCTACCTTTGATCTATTTCATGC
1 TATCTTCGATCTACTTCCCACCAGTACATGAAGACAAGATCTGCT-TCTTCGATCTACTTC--GC
* * * *
58070611 CGATACATGAAGACAAGATTTTCTTTCTTCGATCTACTTC
63 CAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTC
58070651 GCCACTAGTA
Statistics
Matches: 748, Mismatches: 111, Indels: 69
0.81 0.12 0.07
Matches are distributed among these distances:
121 1 0.00
122 40 0.05
123 39 0.05
124 4 0.01
125 2 0.00
126 1 0.00
127 1 0.00
128 1 0.00
129 2 0.00
130 4 0.01
131 7 0.01
132 38 0.05
133 563 0.75
134 38 0.05
135 7 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (129 bp):
TATCTTCGATCTACTTCCCACCAGTACATGAAGACAAGATCTGCTTCTTCGATCTACTTCGCCAA
TACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
Found at i:58069815 original size:14 final size:14
Alignment explanation
Indices: 58069796--58069833 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
58069786 GGGAAGACAA
58069796 GATCTGCTTCCTTT
1 GATCTGCTTCCTTT
*
58069810 GATCTGCTACCTTT
1 GATCTGCTTCCTTT
*
58069824 GATCTACTTC
1 GATCTGCTTC
58069834 ATGCCGTTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.13, C:0.29, G:0.13, T:0.45
Consensus pattern (14 bp):
GATCTGCTTCCTTT
Found at i:58069930 original size:44 final size:44
Alignment explanation
Indices: 58069866--58070650 Score: 839
Period size: 44 Copynumber: 17.7 Consensus size: 44
58069856 ACCAGTATAG
* * *
58069866 GAAGACAAGATCTGCTATCTTTGATATACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * *
58069910 GAAGACAAGATCTG-TCATCTTCGATCTATTTCATGCTAATACAT
1 GAAGACAAGATCTGCT-ATCTTCGATCTACTTCACGCCAATACAT
* * * * * * *
58069954 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
* * *
58069999 GAAGACAAGATCTGCTACCTTTGATCTACTTCATG-CAGATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA-ATACAT
* * * * ***
58070043 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
*
58070088 GAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
58070132 GAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* ** *
58070176 GAAGACAAGATCTGCTTTCTTCGATCTACTT--CGCCCTTAGTAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA-CAT
* *
58070219 GGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCTAATGCAT
1 --GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
58070265 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAAGACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * *
58070309 GAAGACAAGATCTACTTTTTTCGATCTACTT--CGCCACTAGTAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA-CAT
* *
58070352 GGGAAGACAAGATTTGCTATCTTCGATCTACTTCACGCCAATATAT
1 --GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
** *
58070398 GAAGACAAGATCTGCTATCTTTAATTTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * *
58070442 GAAGACAAGATCTGCTTTCTTCGATCTACTT--CGCCACTAGAAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA-CAT
* * * *
58070485 GGGAAGACAAGATCTACTATTTTTGATCTACTTCATGCCAATACAT
1 --GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * *
58070531 GAAGACAAGATCCGTTTTCTTCGATCTATTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * *
58070575 GAAGACAAGATCTGCTACCTTTGATCTATTTCATGCCGATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * *
58070619 GAAGACAAGATTTTCTTTCTTCGATCTACTTC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC
58070651 GCCACTAGTA
Statistics
Matches: 614, Mismatches: 106, Indels: 42
0.81 0.14 0.06
Matches are distributed among these distances:
42 18 0.03
43 9 0.01
44 410 0.67
45 151 0.25
46 9 0.01
47 17 0.03
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:58070008 original size:89 final size:89
Alignment explanation
Indices: 58069866--58070650 Score: 750
Period size: 89 Copynumber: 8.9 Consensus size: 89
58069856 ACCAGTATAG
* * * ***
58069866 GAAGACAAGATCTGCTATCTTTGATATACTTC-ATGCCAATACATGAAGACAAGATCTG-TCATC
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGCT-ATC
* * *
58069929 TTCGATCTATTTCATGCTAATACAT
65 TTCGATCTACTTCACGCCAATACAT
* * * * *
58069954 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTACCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGCTATCT
* *
58070019 TTGATCTACTTCATG-CAGATACAT
66 TCGATCTACTTCACGCCA-ATACAT
* ***
58070043 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGCTATCT
*
58070108 TCGATCTACTTCACACCAATACAT
66 TCGATCTACTTCACGCCAATACAT
* * *
58070132 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGCTATCT
** *
58070196 TCGATCTACTT--CGCCCTTAGTAT
66 TCGATCTACTTCACGCCAATA-CAT
* * * * *
58070219 GGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCTAATGCATGAAGACAAGATCTGCTAT
1 --GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGCTAT
* *
58070283 CTTTGATCTACTTCACGCCAAGACAT
64 CTTCGATCTACTTCACGCCAATACAT
* * * * *** *
58070309 GAAGACAAGATCTACTTTTTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATTTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGCTATCT
*
58070374 TCGATCTACTTCACGCCAATATAT
66 TCGATCTACTTCACGCCAATACAT
* ** * * * *
58070398 GAAGACAAGATCTGCTATCTTTAATTTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGCTATCT
* *
58070462 TCGATCTACTT--CGCCACTAGAAT
66 TCGATCTACTTCACGCCAATA-CAT
* * *** * * *
58070485 GGGAAGACAAGATCTACTATT-TTTGATCTACTTC-ATGCCAATACATGAAGACAAGATCCGTTT
1 --GAAGACAAGATCTGCT-TTCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGCTA
*
58070548 TCTTCGATCTATTTCACGCCAATACAT
63 TCTTCGATCTACTTCACGCCAATACAT
** * * *** * * * *
58070575 GAAGACAAGATCTGCTACCTTTGATCTATTTC-ATGCCGATACATGAAGACAAGATTTTCTTTCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGCTATCT
58070639 TCGATCTACTTC
66 TCGATCTACTTC
58070651 GCCACTAGTA
Statistics
Matches: 589, Mismatches: 91, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
86 12 0.02
87 4 0.01
88 194 0.33
89 359 0.61
90 8 0.01
91 12 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (89 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATACATGAAGACAAGATCTGCTATCT
TCGATCTACTTCACGCCAATACAT
Found at i:58070668 original size:133 final size:132
Alignment explanation
Indices: 58069840--58070675 Score: 919
Period size: 133 Copynumber: 6.3 Consensus size: 132
58069830 CTTCATGCCG
* * *
58069840 TTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTATCTTTGATATACTTCATGCCAA
1 TTCGATCTACTTCGCCACTA-TATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAA
* * * * *
58069905 TACATGAAGACAAGATCTG-TCATCTTCGATCTATTTCATGCTAATA-CAT-GAAGACAAGATCT
65 TACATGAAGACAAGATCTGCT-TTCTTCGATCTACTTC--GCCACTAGTATGGAAGACAAGATCT
* *
58069967 ACTTTC
127 GCTATC
* * *
58069973 TTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTACCTTTGATCTACTTCATG-CAG
1 TTCGATCTACTTCGCCACTA-TATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCA-
*
58070037 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
64 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAGTAT-GGAAGACAAGATCTG
58070102 CTATC
128 CTATC
* * * * * *
58070107 TTCGATCTACTTC-ACACCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAA
1 TTCGATCTACTTCGCCA-CTATATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAA
58070171 TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC-CTTAGTATGGGAAGACAAGATCTG
65 TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC-TAGTAT-GGAAGACAAGATCTG
58070235 CTATC
128 CTATC
* * *
58070240 TTCGATCTACTTC-ACGCTA-ATGCATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCA
1 TTCGATCTACTTCGCCACTATAT--AGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCA
* * * *
58070303 AGACATGAAGACAAGATCTACTTTTTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATTTG
64 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAGTAT-GGAAGACAAGATCTG
58070368 CTATC
128 CTATC
* * *
58070373 TTCGATCTACTTCACGCCA--ATATATGAAGACAAGATCTGCTATCTTTAATTTACTTCACGCCA
1 TTCGATCTACTT--CGCCACTATATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCA
* *
58070436 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAGAATGGGAAGACAAGATCTA
64 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAGTAT-GGAAGACAAGATCTG
*
58070501 CTATT
128 CTATC
* * * * * * * *
58070506 TTTGATCTACTTCATGCCA--ATACATGAAGACAAGATCCGTTTTCTTCGATCTATTTCACGCCA
1 TTCGATCTACTTC--GCCACTATATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCA
** * * * *
58070569 ATACATGAAGACAAGATCTGCTACCTTTGATCTATTTCATGCCGA-TA-CAT-GAAGACAAGATT
64 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC--GCC-ACTAGTATGGAAGACAAGATC
* *
58070631 TTCTTTC
126 TGCTATC
*
58070638 TTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATC
1 TTCGATCTACTTCGCCACTA-TATAGGAAGACAAGATC
58070676 ATGAATGCCA
Statistics
Matches: 619, Mismatches: 61, Indels: 46
0.85 0.08 0.06
Matches are distributed among these distances:
130 4 0.01
131 6 0.01
132 35 0.06
133 525 0.85
134 39 0.06
135 8 0.01
136 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (132 bp):
TTCGATCTACTTCGCCACTATATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAAT
ACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAGTATGGAAGACAAGATCTGCTA
TC
Found at i:58072779 original size:4 final size:4
Alignment explanation
Indices: 58072772--58072798 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
58072762 TATAAATAAC
58072772 ATGA ATGA ATGA ATGA ATGA ATGA ATG
1 ATGA ATGA ATGA ATGA ATGA ATGA ATG
58072799 GTTTGGCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (4 bp):
ATGA
Found at i:58072833 original size:18 final size:18
Alignment explanation
Indices: 58072807--58072849 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
58072797 TGGTTTGGCA
*
58072807 GAAAAAATCCTAAAGAAT
1 GAAAGAATCCTAAAGAAT
*
58072825 GAAAGAATCGTAAAGAAT
1 GAAAGAATCCTAAAGAAT
58072843 GAAAGAA
1 GAAAGAA
58072850 CATTTGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.60, C:0.07, G:0.19, T:0.14
Consensus pattern (18 bp):
GAAAGAATCCTAAAGAAT
Found at i:58079991 original size:17 final size:17
Alignment explanation
Indices: 58079969--58080005 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
58079959 TACTTCACTT
*
58079969 GAAAAAAGAAACGAAAA
1 GAAAAAAGAAAAGAAAA
58079986 GAAAAAAGAAAAGAAAA
1 GAAAAAAGAAAAGAAAA
58080003 GAA
1 GAA
58080006 TAGCAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (17 bp):
GAAAAAAGAAAAGAAAA
Found at i:58079997 original size:22 final size:23
Alignment explanation
Indices: 58079972--58080021 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
58079962 TTCACTTGAA
*
58079972 AAAAGAAACGAAAAG-AAAAAAG
1 AAAAGAAAAGAAAAGCAAAAAAG
* *
58079994 AAAAGAAAAGAATAGCAAAAAGG
1 AAAAGAAAAGAAAAGCAAAAAAG
58080017 AAAAG
1 AAAAG
58080022 GAGAGGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.74, C:0.04, G:0.20, T:0.02
Consensus pattern (23 bp):
AAAAGAAAAGAAAAGCAAAAAAG
Found at i:58081359 original size:50 final size:49
Alignment explanation
Indices: 58081305--58081848 Score: 216
Period size: 50 Copynumber: 10.9 Consensus size: 49
58081295 TACGATGGCG
* *
58081305 AATCTTGCTTCCTTGGTATTGTAATTAAATAGATTGAAGCCGCAACGGCA
1 AATCTTGCTTCC-TGGCATTGTAATTAAATAGATTGAAGCCACAACGGCA
* * ** * *
58081355 AATCTTACTTTCCTGGCGA-TGT-AGTGGATCAGATTGAAGCTACAACGGCG
1 AATCTTGC-TTCCTGGC-ATTGTAATTAAAT-AGATTGAAGCCACAACGGCA
*** *
58081405 AATCTTG-TTCCCCAACATTGTAATTAAAGAGATTGAAGCCACAACGGCA
1 AATCTTGCTT-CCTGGCATTGTAATTAAATAGATTGAAGCCACAACGGCA
** ** ** * * * *
58081454 AATCTCACTTTCCTGGCA--GTACAGTGGAGCAGATTAAAACTACGACGGCA
1 AATCTTGC-TTCCTGGCATTGTA-A-TTAAATAGATTGAAGCCACAACGGCA
* * * * *
58081504 AATCTTGCTTCCCTGGTATTGCAATTAAA-AGGATTGAAGCCGCAACAGCG
1 AATCTTGCTT-CCTGGCATTGTAATTAAATA-GATTGAAGCCACAACGGCA
* * ** * * *
58081554 AATCTTACTTTCCTGGCGA-TG-AAGTGGATCAGATTGAAGCTACAACGACG
1 AATCTTGC-TTCCTGGC-ATTGTAATTAAAT-AGATTGAAGCCACAACGGCA
* * * *
58081604 AATTTTG-TTCCCTGACATTGTAATTAAAGAGATTGAAGCCACAACGGCG
1 AATCTTGCTT-CCTGGCATTGTAATTAAATAGATTGAAGCCACAACGGCA
** ** ** * * *
58081653 AATCTCACTTCCCTGGCA--GTACAGTGGAGCAGATTAAAGCTACGACGGCA
1 AATCTTGCTT-CCTGGCATTGTA-A-TTAAATAGATTGAAGCCACAACGGCA
* * * * *
58081703 AATCTTGCTTTCCTGGTATTGCAATTAAAAAGATTGAAGCCGCAACGGCG
1 AATCTTGC-TTCCTGGCATTGTAATTAAATAGATTGAAGCCACAACGGCA
* * * * ** * *
58081753 AATATTACTTTCCTGGCGA-TG-CAGTGGATCAGATTGAAGCTACAACGGCG
1 AATCTTGC-TTCCTGGC-ATTGTAATTAAAT-AGATTGAAGCCACAACGGCA
* * * *
58081803 AATCTTG-TTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACG
1 AATCTTGCTT-CCTGGCATTGTAATTAAATAGATTGAAGCCACAACG
58081849 ACGAATCTCA
Statistics
Matches: 354, Mismatches: 108, Indels: 65
0.67 0.20 0.12
Matches are distributed among these distances:
48 15 0.04
49 96 0.27
50 223 0.63
51 16 0.05
52 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (49 bp):
AATCTTGCTTCCTGGCATTGTAATTAAATAGATTGAAGCCACAACGGCA
Found at i:58081614 original size:199 final size:198
Alignment explanation
Indices: 58081262--58082271 Score: 1451
Period size: 199 Copynumber: 5.1 Consensus size: 198
58081252 ATGAAGTTAC
* * * * *
58081262 CTTTCCTGGAAGTATAGTGGAGCAGATTAAAGCTACGATGGCGAATCTTGCTTCCTTGGTATTGT
1 CTTTCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGC
* *
58081327 AATTAAATAGATTGAAGCCGCAACGGCAAATCTTACTTTCCTGGCGATGTAGTGGATCAGATTGA
66 AATTAAA-AGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGA
* * *
58081392 AGCTACAACGGCGAATCTTGTTCCCCAACATTGTAATTAAAGAGATTGAAGCCACAACGGCAAAT
130 AGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAAT
58081457 CTCA
195 CTCA
* *
58081461 CTTTCCTGGCAGTACAGTGGAGCAGATTAAAACTACGACGGCAAATCTTGCTTCCCTGGTATTGC
1 CTTTCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGC
* *
58081526 AATTAAAAGGATTGAAGCCGCAACAGCGAATCTTACTTTCCTGGCGATGAAGTGGATCAGATTGA
66 AATTAAAA-GATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGA
* * * *
58081591 AGCTACAACGACGAATTTTGTTCCCTGACATTGTAATTAAAGAGATTGAAGCCACAACGGCGAAT
130 AGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAAT
58081656 CTCA
195 CTCA
* * *
58081660 CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCAAATCTTGCTTTCCTGGTATTGC
1 CTTTCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGC
*
58081725 AATTAAAAAGATTGAAGCCGCAACGGCGAATATTACTTTCCTGGCGATGCAGTGGATCAGATTGA
66 AATT-AAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGA
*
58081790 AGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGACGAAT
130 AGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAAT
58081855 CTCA
195 CTCA
*
58081859 C-TT-C---C----C--T-G-GCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGT
1 CTTTCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGC
*
58081911 AATTAAAAAGATTGAAGCCGCAACGGCAAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGA
66 AATT-AAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGA
* * *
58081976 AGCTACAACGGTGAATCTTATTCCCCGACATTGCAATTAAAGAGATTGAAGCCGCAACGGCGAAT
130 AGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAAT
58082041 CTCA
195 CTCA
* * **
58082045 CTTCCCTGGTAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGC
1 CTTTCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGC
* * * * *
58082110 AATTTAAAAGATTGAAGCCGCAACGGTGAATCTTAC-TTCCTTAGTGGTGCAGTCGGA-CTGATT
66 AA-TTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCC-TGGCGATGCAGT-GGATCAGATT
* *
58082173 GAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTGA
128 GAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGA
58082238 ATCTCA
193 ATCTCA
*
58082244 CTTCTCCCTAAGCAGT--AGTGGAGCAGAT
1 CTT-T-CCT-GGCAGTACAGTGGAGCAGAT
58082272 CACATCCAGT
Statistics
Matches: 735, Mismatches: 55, Indels: 41
0.88 0.07 0.05
Matches are distributed among these distances:
186 170 0.23
187 2 0.00
188 2 0.00
190 1 0.00
194 1 0.00
195 1 0.00
197 2 0.00
198 7 0.01
199 521 0.71
200 21 0.03
201 3 0.00
202 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (198 bp):
CTTTCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGC
AATTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAA
GCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATC
TCA
Found at i:58081891 original size:37 final size:37
Alignment explanation
Indices: 58081832--58081904 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
58081822 GCAATTAAAG
*
58081832 AGATTGAAGCCACAACGACGAATCTCACTTCCCTGGC
1 AGATTAAAGCCACAACGACGAATCTCACTTCCCTGGC
* * * **
58081869 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGG
1 AGATTAAAGCCACAACGACGAATCTCACTTCCCTGG
58081905 TATTGTAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (37 bp):
AGATTAAAGCCACAACGACGAATCTCACTTCCCTGGC
Found at i:58081935 original size:87 final size:86
Alignment explanation
Indices: 58081782--58081955 Score: 231
Period size: 87 Copynumber: 2.0 Consensus size: 86
58081772 TGCAGTGGAT
* *
58081782 CAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAA
1 CAGATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAA
*
58081847 CGACGAATCTCACTTCCCTGG
66 CGACAAATCTCACTTCCCTGG
* * ** * *
58081868 CAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGTAATTAAAAAGATTGAAGCCGCA
1 CAGATTAAAGCTACAACGGCGAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * *
58081933 ACGGCAAATCTTACTTTCCTGG
65 ACGACAAATCTCACTTCCCTGG
58081955 C
1 C
58081956 GATGCAGTGG
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
86 26 0.35
87 49 0.65
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (86 bp):
CAGATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAA
CGACAAATCTCACTTCCCTGG
Found at i:58081944 original size:50 final size:50
Alignment explanation
Indices: 58081883--58082247 Score: 223
Period size: 50 Copynumber: 7.3 Consensus size: 50
58081873 TAAAGCTACG
* *
58081883 ACGGCGAATCTTGCTTCCCTGGTATTGTAATTAAAAAGATTGAAGCCGCA
1 ACGGCGAATCTTACTTCCCTGGTATTGCAATTAAAAAGATTGAAGCCGCA
* * * * ** ** **
58081933 ACGGCAAATCTTACTTTCCTGGCGA-TGCAGTGGATCAGATTGAAGCTACA
1 ACGGCGAATCTTACTTCCCTGG-TATTGCAATTAAAAAGATTGAAGCCGCA
* * ** *
58081983 ACGGTGAATCTTA-TTCCCCGACATTGCAATTAAAGAGATTGAAGCCGCA
1 ACGGCGAATCTTACTTCCCTGGTATTGCAATTAAAAAGATTGAAGCCGCA
* * * * ** ** * ** *
58082032 ACGGCGAATCTCACTTCCCTGGTAGTACAGTGGAGCAGATTAAAGCTACG
1 ACGGCGAATCTTACTTCCCTGGTATTGCAATTAAAAAGATTGAAGCCGCA
* ** *
58082082 ACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAAAGATTGAAGCCGCA
1 ACGGCGAATCTTACTTCCCTGGTATTGCAATTAAAAAGATTGAAGCCGCA
* * * ** * *** ** **
58082132 ACGGTGAATCTTACTTCCTTAGTGGTGCAGTCGGACTGATTGAAGCTACA
1 ACGGCGAATCTTACTTCCCTGGTATTGCAATTAAAAAGATTGAAGCCGCA
* * ** *
58082182 ACGGCGAATCTT-GTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
1 ACGGCGAATCTTACTTCCCTGGTATTGCAATTAAAAAGATTGAAGCCGCA
* *
58082231 ACGGTGAATCTCACTTC
1 ACGGCGAATCTTACTTC
58082248 TCCCTAAGCA
Statistics
Matches: 222, Mismatches: 89, Indels: 8
0.70 0.28 0.03
Matches are distributed among these distances:
48 1 0.00
49 66 0.30
50 154 0.69
51 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (50 bp):
ACGGCGAATCTTACTTCCCTGGTATTGCAATTAAAAAGATTGAAGCCGCA
Found at i:58082062 original size:385 final size:390
Alignment explanation
Indices: 58081266--58082247 Score: 1458
Period size: 385 Copynumber: 2.5 Consensus size: 390
58081256 AGTTACCTTT
* * *
58081266 CCTGGAAGTATAGTGGAGCAGATTAAAGCTACGATGGCGAATCTTGC-TTCCTTGGTATTGTAAT
1 CCTGGAAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTTCC-TGGTATTGCAAT
* * *
58081330 TAAATAGATTGAAGCCGCAACGGCAAATCTTACTTTCCTGGCGATGTAGTGGATCAGATTGAAGC
65 TAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGC
* * *
58081395 TACAACGGCGAATCTTGTTCCCCAACATTGTAATTAAAGAGATTGAAGCCACAACGGCAAATCTC
130 TACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTC
58081460 ACTTTCCTGGCAGTACAGTGGAGCAGATTAAAACTACGACGGCAAATCTTGCTTCCCTGGTATTG
195 AC-TT-C--GC---ACA-TGGAGCAGATTAAAACTACGACGGCAAATCTTGCTTCCCTGGTATTG
* *
58081525 CAATTAAAAGGATTGAAGCCGCAACAGCGAATCTTACTTTCCTGGCGATGAAGTGGATCAGATTG
252 CAATTAAAAAGATTGAAGCCGCAACAGCAAATCTTACTTTCCTGGCGATGAAGTGGATCAGATTG
* * * *
58081590 AAGCTACAACGACGAATTTTGTTCCCTGACATTGTAATTAAAGAGATTGAAGCCACAACGGCGAA
317 AAGCTACAACGACGAATCTTATTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAA
58081655 TCTCACTTC
382 TCTCACTTC
* *
58081664 CCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCAAATCTTGCTTTCCTGGTATTGCAATT
1 CCTGGAAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTTCCTGGTATTGCAATT
*
58081729 AAAAAGATTGAAGCCGCAACGGCGAATATTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCT
66 AAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCT
*
58081794 ACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGACGAATCTCA
131 ACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCA
* * *
58081859 CTTC-C-C-T-G-GCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGTAATTAAAA
196 CTTCGCACATGGAGCAGATTAAAACTACGACGGCAAATCTTGCTTCCCTGGTATTGCAATTAAAA
* *
58081919 AGATTGAAGCCGCAACGGCAAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAA
261 AGATTGAAGCCGCAACAGCAAATCTTACTTTCCTGGCGATGAAGTGGATCAGATTGAAGCTACAA
** *
58081984 CGGTGAATCTTATTCCCCGACATTGCAATTAAAGAGATTGAAGCCGCAACGGCGAATCTCACTTC
326 CGACGAATCTTATTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTC
* * **
58082049 CCTGGTAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATT
1 CCTGGAAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTTCCTGGTATTGCAATT
* * * * * *
58082114 TAAAAGATTGAAGCCGCAACGGTGAATCTTAC-TTCCTTAGTGGTGCAGTCGGA-CTGATTGAAG
66 AAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCC-TGGCGATGCAGT-GGATCAGATTGAAG
* *
58082177 CTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTGAATCT
129 CTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCT
58082242 CACTTC
194 CACTTC
58082248 TCCCTAAGCA
Statistics
Matches: 539, Mismatches: 42, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
384 4 0.01
385 343 0.64
386 4 0.01
387 1 0.00
389 1 0.00
393 1 0.00
396 1 0.00
397 2 0.00
398 178 0.33
399 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (390 bp):
CCTGGAAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTTCCTGGTATTGCAATT
AAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCT
ACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCA
CTTCGCACATGGAGCAGATTAAAACTACGACGGCAAATCTTGCTTCCCTGGTATTGCAATTAAAA
AGATTGAAGCCGCAACAGCAAATCTTACTTTCCTGGCGATGAAGTGGATCAGATTGAAGCTACAA
CGACGAATCTTATTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTC
Found at i:58082247 original size:99 final size:99
Alignment explanation
Indices: 58081867--58082247 Score: 453
Period size: 99 Copynumber: 3.8 Consensus size: 99
58081857 CACTTCCCTG
* * ** *
58081867 GCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGTAATTAAAAAGATTGAAGCCGC
1 GCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGC
* * * *
58081932 AACGGCAAATCTTACTTTCCTGGCGATGCAGTGGA
66 AACGGCGAATCTCAC-TTCCTGGTGGTGCAGTGGA
* * * * *
58081967 TCAGATTGAAGCTACAACGGTGAATCTT-ATTCCCCGACATTGCAATTAAAGAGATTGAAGCCGC
1 GCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGC
* *
58082031 AACGGCGAATCTCACTTCCCTGGTAGTACAGTGGA
66 AACGGCGAATCTCACTT-CCTGGTGGTGCAGTGGA
* ** * *
58082066 GCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAAAGATTGAAGCCGC
1 GCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGC
* * *
58082131 AACGGTGAATCTTACTTCCTTAGTGGTGCAGTCGGA
66 AACGGCGAATCTCACTTCC-TGGTGGTGCAGT-GGA
* * *
58082167 -CTGATTGAAGCTACAACGGCGAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTGAAGCCAC
1 GCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGC
*
58082230 AACGGTGAATCTCACTTC
66 AACGGCGAATCTCACTTC
58082248 TCCCTAAGCA
Statistics
Matches: 237, Mismatches: 40, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
98 2 0.01
99 129 0.54
100 103 0.43
101 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (99 bp):
GCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGC
AACGGCGAATCTCACTTCCTGGTGGTGCAGTGGA
Found at i:58082350 original size:44 final size:44
Alignment explanation
Indices: 58082300--58082438 Score: 158
Period size: 44 Copynumber: 3.2 Consensus size: 44
58082290 CCTAAGCAGT
58082300 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGC
1 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGC
* ** * * * ** *
58082344 AGTGGAGCGGA-TTAA-AACCACAGATCTTATCTCCCT-AAGCAGT
1 AGTGGAGCAGACGAAAGAAAC-CA-ATCCTATCTCCCTGGAGTTGC
58082387 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGC
1 AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGC
58082431 AGTGGAGC
1 AGTGGAGC
58082439 GGATTAAAAC
Statistics
Matches: 72, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
42 3 0.04
43 29 0.40
44 37 0.51
45 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (44 bp):
AGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGC
Found at i:58082401 original size:87 final size:87
Alignment explanation
Indices: 58082281--58082465 Score: 336
Period size: 87 Copynumber: 2.1 Consensus size: 87
58082271 TCACATCCAG
*
58082281 TCTTATCTTCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCAG
*
58082346 TGGAGCGGATTAAAACCACAGA
66 TGGAGCGGATTAAAACCACAAA
58082368 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCAG
58082433 TGGAGCGGATTAAAACCACAAA
66 TGGAGCGGATTAAAACCACAAA
*
58082455 TCTCATC-CCCT
1 TCTTATCTCCCT
58082466 GAAGGCACAG
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
86 4 0.04
87 91 0.96
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (87 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGGAGTTGCAG
TGGAGCGGATTAAAACCACAAA
Found at i:58082418 original size:43 final size:42
Alignment explanation
Indices: 58082246--58082422 Score: 146
Period size: 43 Copynumber: 4.2 Consensus size: 42
58082236 GAATCTCACT
* * * *
58082246 TCTCCCTAAGCAGTAGTGGAGCAGATC---ACATCCAGTCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAATCCTA
*
58082286 TCTTCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGACGAAA-AAACCAATCCTA
* ** * * ** * *
58082329 TCTCCCTGGAGTTGCAGTGGAGCGGA-TTAAAACCACAGATCTTA
1 TCTCCCT-AAGCAGTAGTGGAGCAGACGAAAAAAC-CA-ATCCTA
58082373 TCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGACGAAA-AAACCAATCCTA
58082416 TCTCCCT
1 TCTCCCT
58082423 GGAGTTGCAG
Statistics
Matches: 104, Mismatches: 24, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
39 1 0.01
40 24 0.23
42 4 0.04
43 43 0.41
44 29 0.28
45 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (42 bp):
TCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAACCAATCCTA
Found at i:58100215 original size:15 final size:15
Alignment explanation
Indices: 58100195--58100228 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
58100185 TGAACAGTTG
58100195 AAAGCACTGTTAACT
1 AAAGCACTGTTAACT
58100210 AAAGCACTGTTAACT
1 AAAGCACTGTTAACT
58100225 AAAG
1 AAAG
58100229 AATCAGTTCT
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:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (15 bp):
AAAGCACTGTTAACT
Done.