Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 215 of 344
Found at i:71437117 original size:200 final size:201
Alignment explanation
Indices: 71436737--71437228 Score: 785
Period size: 201 Copynumber: 2.4 Consensus size: 201
71436727 TTATTTTGTG
* *
71436737 GTTTAGGGTTTAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTCTAAGGT
1 GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
* *
71436802 TTAAAGTATTGATTAATTAGTGTTATTATTTTGTGGTTTAAGGATCAGCGGATATAGTTTAGGGT
66 TTAGAGTATTGATTAATTAGTGTTATTATTTTGTGGTTTAAAGATCAGCGGATATAGTTTAGGGT
* *
71436867 TATGATTAATTCATACATTTTATGGTTAAGGCTTAGGGTTATTGTTTTGTGGTTTATGGTTAGGG
131 TATGATTAATTCATACATTTTATGGTTAAGGCTTAGGGTTATTATTTTGTGGTTTATGGTTAAGG
71436932 GATATA
196 GATATA
* * *
71436938 GTTTAGGGTTTAGGGGATATAATTTAGGGTACTTTAGTAGGGGATATAGTTTGATGGTTTAAAGT
1 GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
* *
71437003 TTAGAGTATTGATTAATTAGGGTTATTA-TTTGTGGTTTAAAGATCAGGGGATATAGTTTAGGGT
66 TTAGAGTATTGATTAATTAGTGTTATTATTTTGTGGTTTAAAGATCAGCGGATATAGTTTAGGGT
71437067 TATGATTAATTCATACATTTTATGGTTAAGGC-TAGGGGTTATTATTTTGTGGTTTATGGTTAAG
131 TATGATTAATTCATACATTTTATGGTTAAGGCTTA-GGGTTATTATTTTGTGGTTTATGGTTAAG
71437131 GGATATA
195 GGATATA
* * *
71437138 GTTTAGGGTTTAGGGGATATAGTTTAGAGT--TTAAGGTTATGGGGATATATTTTAATGGTTTAA
1 GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTA-G-TA-GGGGATATAGTTTAATGGTTTAA
*
71437201 GGTTTAGAGTTTTGATTAATTAGTGTTA
63 GGTTTAGAGTATTGATTAATTAGTGTTA
71437229 ATAATATTAA
Statistics
Matches: 268, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
198 3 0.01
199 3 0.01
200 130 0.49
201 132 0.49
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.43
Consensus pattern (201 bp):
GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
TTAGAGTATTGATTAATTAGTGTTATTATTTTGTGGTTTAAAGATCAGCGGATATAGTTTAGGGT
TATGATTAATTCATACATTTTATGGTTAAGGCTTAGGGTTATTATTTTGTGGTTTATGGTTAAGG
GATATA
Found at i:71437147 original size:20 final size:21
Alignment explanation
Indices: 71437118--71437173 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
71437108 TTATTTTGTG
*
71437118 GTTTATGG-TTAAGGGATATA
1 GTTTAGGGTTTAAGGGATATA
*
71437138 GTTTAGGGTTTAGGGGATATA
1 GTTTAGGGTTTAAGGGATATA
*
71437159 GTTTAGAGTTTAAGG
1 GTTTAGGGTTTAAGG
71437174 TTATGGGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 7 0.23
21 24 0.77
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (21 bp):
GTTTAGGGTTTAAGGGATATA
Found at i:71437170 original size:28 final size:28
Alignment explanation
Indices: 71437137--71437204 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
71437127 TAAGGGATAT
*
71437137 AGTTTAGGGTT-TAGGGGATATAGTTTAG
1 AGTTTAAGGTTAT-GGGGATATAGTTTAG
*
71437165 AGTTTAAGGTTATGGGGATATATTTTA-
1 AGTTTAAGGTTATGGGGATATAGTTTAG
71437192 ATGGTTTAAGGTT
1 A--GTTTAAGGTT
71437205 TAGAGTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 1 0.03
28 23 0.66
29 11 0.31
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (28 bp):
AGTTTAAGGTTATGGGGATATAGTTTAG
Found at i:71438834 original size:26 final size:24
Alignment explanation
Indices: 71438804--71438854 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
71438794 ATTTTATGAT
* *
71438804 TATTATATATTTATATATACTTTATA
1 TATTATAAAGTTATAT-TA-TTTATA
71438830 TATTATAAAGTTATATTATTTATA
1 TATTATAAAGTTATATTATTTATA
71438854 T
1 T
71438855 GAATCTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 2 0.09
26 14 0.61
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TATTATAAAGTTATATTATTTATA
Found at i:71440550 original size:210 final size:214
Alignment explanation
Indices: 71440293--71440733 Score: 703
Period size: 210 Copynumber: 2.1 Consensus size: 214
71440283 ATTTTAAATA
* *
71440293 TTTTA-TTTAATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTGAATATG
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATG
* *
71440357 TTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTTTT-TTTTA-TTTTTAAATTACC
66 TTATTTGATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
* *
71440420 TAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATA-G-TTTATTTGATTTTAATTTAATCA
131 TAATTAAATTAAATTGTAGTTAAAGTTTTATTTCTAATATGTTTTATTTGATTTTAATTTAATCA
*
71440483 CGGAAAATATTTTATCTAC
196 CGAAAAATATTTTATCTAC
* *
71440502 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATG
*
71440567 TTATTTGATTTTAATTTAATCACTAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
66 TTATTTGATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
* *
71440632 TAATTAAATTAAATTGTAGTTAAAGTTTTATTTCTAATATGTTATTTTATTTTATTTTATTTTAA
131 TAATTAAATTAAATTGTAGTTAAAGTTTTATTTCTAATATG---TTTTATTTGATTTTAATTTAA
*
71440697 TCACGAAAAATATTTTGTCTAC
193 TCACGAAAAATATTTTATCTAC
71440719 TTTTATTTTATTTTT
1 TTTTATTTTATTTTT
71440734 AATCTAATAA
Statistics
Matches: 211, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
209 5 0.02
210 97 0.46
211 5 0.02
212 50 0.24
213 1 0.00
217 53 0.25
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.56
Consensus pattern (214 bp):
TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATG
TTATTTGATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
TAATTAAATTAAATTGTAGTTAAAGTTTTATTTCTAATATGTTTTATTTGATTTTAATTTAATCA
CGAAAAATATTTTATCTAC
Found at i:71440557 original size:106 final size:106
Alignment explanation
Indices: 71440293--71440733 Score: 665
Period size: 106 Copynumber: 4.1 Consensus size: 106
71440283 ATTTTAAATA
* * *
71440293 TTTTA-TTTAATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTGAATA-T
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATAGT
* * *
71440356 GTTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTAC
66 -TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
71440398 TTTT-TTTTA-TTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATAGT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATAGT
* *
71440461 TTATTTGATTTTAATTTAATCACGGAAAATATTTTATCTAC
66 TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
* *
71440502 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATAGT
*
71440567 TTATTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
* *
71440608 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTAGTTAAAGTTTTATTTCTAATATG
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATA-G
* *
71440673 TTATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
65 ----TTTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
71440719 TTTTATTTTATTTTT
1 TTTTATTTTATTTTT
71440734 AATCTAATAA
Statistics
Matches: 308, Mismatches: 19, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
104 90 0.29
105 14 0.05
106 150 0.49
111 54 0.18
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.56
Consensus pattern (106 bp):
TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATAGT
TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
Found at i:71442642 original size:12 final size:12
Alignment explanation
Indices: 71442625--71442649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71442615 AAGATCGATG
71442625 GATGAATCTGAT
1 GATGAATCTGAT
71442637 GATGAATCTGAT
1 GATGAATCTGAT
71442649 G
1 G
71442650 GAGAGGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:71445089 original size:47 final size:47
Alignment explanation
Indices: 71444980--71445090 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
71444970 CCGGGATAAG
* * *
71444980 CACATAGTG-CTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGTC-TCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
71445027 CACAAAGTATTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGTCTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
71445074 CACATAGTGTCTCATCG
1 CACATAGTGTCTCATCG
71445091 ACTCAATGTC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
47 50 0.96
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATAGTGTCTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:71448434 original size:13 final size:14
Alignment explanation
Indices: 71448418--71448446 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71448408 TTCTAAATAT
71448418 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
71448431 TTATAATTGTTTAA
1 TTATAATTGTTTAA
71448445 TT
1 TT
71448447 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:71448913 original size:21 final size:21
Alignment explanation
Indices: 71448861--71448915 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
71448851 ACTTAGAGCG
*
71448861 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
71448882 -ACGGCAGCAGCGAGGGAGGCA
1 GA-GGCAGCAGCGAGGGAGGCA
71448903 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
71448916 TGGCAGCAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.49, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:71448924 original size:21 final size:21
Alignment explanation
Indices: 71448861--71448926 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
71448851 ACTTAGAGCG
* *
71448861 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGCAGGCA
*
71448882 -ACGGCAGCAGCGAGGGAGGCA
1 GA-GGCAGCAGCGAGGCAGGCA
71448903 GAGGCAGCAGCGATGGCA-GCA
1 GAGGCAGCAGCGA-GGCAGGCA
71448924 GAG
1 GAG
71448927 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.03
21 35 0.88
22 4 0.10
ACGTcount: A:0.30, C:0.20, G:0.48, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGCAGGCA
Found at i:71454097 original size:13 final size:13
Alignment explanation
Indices: 71454079--71454104 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71454069 TCCTAGTTGG
71454079 TTTTGGAGACTAC
1 TTTTGGAGACTAC
71454092 TTTTGGAGACTAC
1 TTTTGGAGACTAC
71454105 CAAACCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TTTTGGAGACTAC
Found at i:71456362 original size:22 final size:22
Alignment explanation
Indices: 71456337--71456379 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
71456327 TATCCAAATA
71456337 ATAACAAC-AAAATAGTAGCAAC
1 ATAA-AACTAAAATAGTAGCAAC
*
71456359 ATAATACTAAAATAGTAGCAA
1 ATAAAACTAAAATAGTAGCAA
71456380 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.58, C:0.14, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAAAACTAAAATAGTAGCAAC
Found at i:71457465 original size:29 final size:30
Alignment explanation
Indices: 71457419--71457482 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
71457409 TTACTTATAA
*
71457419 AAATTGAACTAAATTCAATA-TTCATGTATC
1 AAATTGAACTAAAATCAA-AGTTCATGTATC
*
71457449 AAATTGCA-TAAAATCAAAGTTCATGTATC
1 AAATTGAACTAAAATCAAAGTTCATGTATC
71457478 AAATT
1 AAATT
71457483 AAATATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 1 0.03
29 23 0.74
30 7 0.23
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.34
Consensus pattern (30 bp):
AAATTGAACTAAAATCAAAGTTCATGTATC
Found at i:71462102 original size:18 final size:18
Alignment explanation
Indices: 71462063--71462096 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71462053 AGAAGTTGTG
71462063 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
71462081 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
71462097 TTATAACTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:71476109 original size:42 final size:42
Alignment explanation
Indices: 71476002--71476110 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
71475992 TCGTTTCAAT
* * * ** *
71476002 GCCATATCCCCGATATGGTCTTACATGAAATATCATATTGAT
1 GCCATATCCCAGATATGGTCTTATAAGAAATATCATACCGAG
* * *
71476044 GCCATGTCCCTGACATGGTCTTATAAGAAATCA-CATACCGAG
1 GCCATATCCCAGATATGGTCTTATAAGAAAT-ATCATACCGAG
71476086 GCCATATCCCAGATATGGTCTTATA
1 GCCATATCCCAGATATGGTCTTATA
71476111 CGGAATCTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 54 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTATAAGAAATATCATACCGAG
Found at i:71480318 original size:49 final size:48
Alignment explanation
Indices: 71480265--71480719 Score: 353
Period size: 46 Copynumber: 9.6 Consensus size: 48
71480255 ATGTCGTGTT
*
71480265 CCAGACAGGTCTTACACT-GACTTTCATATATCGAGGCCGATGCCATGTC
1 CCAGACAGGTCTTACACTAG-CTCTCATATATCGAGGCCGATG-CATGTC
* * * * *
71480314 CCAGACAGGTCTTACACTGGCTCTCATCTATC-AGTGTCAATGCCATATC
1 CCAGACAGGTCTTACACTAGCTCTCATATATCGAG-GCCGATG-CATGTC
* * * *
71480363 CCAGACAGGTCTCATACTAGCTCTCATCTATCG-GTGTCGATGCCATGTC
1 CCAGACAGGTCTTACACTAGCTCTCATATATCGAG-GCCGATG-CATGTC
*
71480412 CCAGACAGGTCTTACACTAGCT-T-GTATATCCCGAGGCCGATGCATGTC
1 CCAGACAGGTCTTACACTAGCTCTCATATAT--CGAGGCCGATGCATGTC
* * * * * *
71480460 CCAGACATGTCTTATACTAGCTCTC--ATCTCAATGCCGGTGCATGTC
1 CCAGACAGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCATGTC
* * * * *
71480506 CCAGAAAGGTCTTACACTAGCTAGT-ATATCTCGAGGTCGACGCATGTC
1 CCAGACAGGTCTTACACTAGCT-CTCATATATCGAGGCCGATGCATGTC
* * * * * * * *
71480554 CCAGGCATGTTTTACACTAGCTCTC--ATCTCAATGCCGGTGTATGTC
1 CCAGACAGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCATGTC
* * * *
71480600 CCAGACATGTCTTATACTGGCTCTCATA-AT-GTGGCCGATGCATGTC
1 CCAGACAGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCATGTC
* * * *
71480646 CCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGTCGATGCATGTC
1 CCAGACAGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCATGTC
* * * *
71480692 CCAAACATGTCTTACACTGGCTCACATA
1 CCAGACAGGTCTTACACTAGCTCTCATA
71480720 CCACCCAATG
Statistics
Matches: 337, Mismatches: 55, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
46 150 0.45
47 7 0.02
48 67 0.20
49 111 0.33
50 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
CCAGACAGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCATGTC
Found at i:71480518 original size:46 final size:46
Alignment explanation
Indices: 71480211--71480714 Score: 288
Period size: 46 Copynumber: 10.6 Consensus size: 46
71480201 ATGCCGACAC
* * * *
71480211 CATGTCCCAGACATAGTCTTACACTAGCTAACACAT-T-AAAGTCGATG
1 CATGTCCCAGACA-GGTCTTACACTAGCT--CTCATCTCAATGCCGATG
* * * * * *
71480258 TCGTGTTCCAGACAGGTCTTACACT-GACTTTCATATATCGAGGCCGATG
1 -CATGTCCCAGACAGGTCTTACACTAG-CTCTC--ATCTCAATGCCGATG
* * * *
71480307 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCAATG
1 -CATGTCCCAGACAGGTCTTACACTAGCTCTCATC--TCAATGCCGATG
* * * ** *
71480356 CCATATCCCAGACAGGTCTCATACTAGCTCTCATCTATCGGTGTCGATG
1 -CATGTCCCAGACAGGTCTTACACTAGCTCTCATC--TCAATGCCGATG
* * * * *
71480405 CCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATG
1 -CATGTCCCAGACAGGTCTTACACTAGC-TCT-CATCTCAATGCCGATG
* * *
71480454 CATGTCCCAGACATGTCTTATACTAGCTCTCATCTCAATGCCGGTG
1 CATGTCCCAGACAGGTCTTACACTAGCTCTCATCTCAATGCCGATG
* * * * * * *
71480500 CATGTCCCAGAAAGGTCTTACACTAGCTAGTATATCTCGAGGTCGACG
1 CATGTCCCAGACAGGTCTTACACTAGCT-CT-CATCTCAATGCCGATG
* * * *
71480548 CATGTCCCAGGCATGTTTTACACTAGCTCTCATCTCAATGCCGGTG
1 CATGTCCCAGACAGGTCTTACACTAGCTCTCATCTCAATGCCGATG
* * * *
71480594 TATGTCCCAGACATGTCTTATACTGGCTCTCA--T-AATGTGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTCTCATCTCAA--T-GCCGATG
* * *
71480640 CATGTCCCAGACATGTCTTACACTGGCTCTCA--T-AATGTGGTCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTCTCATCTCAA--T-GCCGATG
* * *
71480686 CATGTCCCAAACATGTCTTACACTGGCTC
1 CATGTCCCAGACAGGTCTTACACTAGCTC
71480715 ACATACCACC
Statistics
Matches: 369, Mismatches: 72, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
43 2 0.01
44 1 0.00
45 2 0.01
46 151 0.41
47 20 0.05
48 71 0.19
49 116 0.31
50 3 0.01
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACAGGTCTTACACTAGCTCTCATCTCAATGCCGATG
Found at i:71480527 original size:94 final size:93
Alignment explanation
Indices: 71480308--71480672 Score: 353
Period size: 94 Copynumber: 3.9 Consensus size: 93
71480298 AGGCCGATGC
* * * * * * *
71480308 CATGTCCCAGACAGGTCTTACACTGGCTCTCATCTAT-C-AGTGTCAATGCCATATCCCAGACAG
1 CATGTCCCAGACAGGTCTTACACTAGCT-T-GTATATCCGAG-GCCGATG-CATGTCCCAGACAT
* * ** * *
71480371 GTCTCATACTAGCTCTCATCTATCGGTGTCGATG
62 GTCTTACACTAGCTCTCATC--TCAATGCCGGTG
71480405 CCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATGCATGTCCCAGACATGT
1 -CATGTCCCAGACAGGTCTTACACTAGCTTGTATAT-CCGAGGCCGATGCATGTCCCAGACATGT
*
71480470 CTTATACTAGCTCTCATCTCAATGCCGGTG
64 CTTACACTAGCTCTCATCTCAATGCCGGTG
* * * * * *
71480500 CATGTCCCAGAAAGGTCTTACACTAGCTAGTATATCTCGAGGTCGACGCATGTCCCAGGCATGTT
1 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATC-CGAGGCCGATGCATGTCCCAGACATGTC
71480565 TTACACTAGCTCTCATCTCAATGCCGGTG
65 TTACACTAGCTCTCATCTCAATGCCGGTG
* * * * * *
71480594 TATGTCCCAGACATGTCTTATACTGGCTCT-CATAAT--GTGGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACAGGTCTTACACTAGCT-TGTAT-ATCCGAGGCCGATGCATGTCCCAGACATGT
*
71480656 CTTACACTGGCTCTCAT
64 CTTACACTAGCTCTCAT
71480673 AATGTGGTCG
Statistics
Matches: 229, Mismatches: 32, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
92 37 0.16
93 1 0.00
94 110 0.48
95 10 0.04
96 4 0.02
97 32 0.14
98 33 0.14
99 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCGAGGCCGATGCATGTCCCAGACATGTCT
TACACTAGCTCTCATCTCAATGCCGGTG
Found at i:71483299 original size:42 final size:42
Alignment explanation
Indices: 71483253--71483370 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
71483243 TATTGTTTCA
* *
71483253 ATGCCATATCCTC-GATATGGTCTTACATGAAAT-ATCATATCG
1 ATGCCATATCC-CGGATATGGTCTTACACGAAATCA-CATACCG
* * * * *
71483295 ATGCCATGTCCCTGACATGGTGTTATACGAAATCACATACCG
1 ATGCCATATCCCGGATATGGTCTTACACGAAATCACATACCG
* * *
71483337 AGGCCATATCCCGGATATGGTCTTATACGGAATC
1 ATGCCATATCCCGGATATGGTCTTACACGAAATC
71483371 TTAATAACCT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCGGATATGGTCTTACACGAAATCACATACCG
Found at i:71486042 original size:38 final size:36
Alignment explanation
Indices: 71485961--71486043 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 36
71485951 CCAACGCTAT
*
71485961 ATAAATTTGACATCCAGTGTCTCATCGAATAAATAGA
1 ATAAA-TTGACATCCAGTGCCTCATCGAATAAATAGA
* * *
71485998 AGTAAATTGGCATCCAGTGCCTCATCGATTCAAAGTCGA
1 A-TAAATTGACATCCAGTGCCTCATCGAAT-AAA-TAGA
71486037 ATAAATT
1 ATAAATT
71486044 CCTGAACTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
37 22 0.56
38 13 0.33
39 4 0.10
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (36 bp):
ATAAATTGACATCCAGTGCCTCATCGAATAAATAGA
Found at i:71486868 original size:16 final size:15
Alignment explanation
Indices: 71486847--71486876 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
71486837 AAGCCTTGCG
71486847 TCTTTCTTTCTCTTTT
1 TCTTTCTTTC-CTTTT
71486863 TCTTTCTTTCCTTT
1 TCTTTCTTTCCTTT
71486877 CTGTTTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTTTCTTTCCTTTT
Found at i:71493835 original size:15 final size:15
Alignment explanation
Indices: 71493811--71493840 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71493801 ATTAACACAT
*
71493811 ATTCATTTCAATTAA
1 ATTCAATTCAATTAA
71493826 ATTCAATTCAATTAA
1 ATTCAATTCAATTAA
71493841 CTTTAAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTCAATTCAATTAA
Found at i:71495938 original size:5 final size:5
Alignment explanation
Indices: 71495928--71495953 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
71495918 TTTCAAAATC
71495928 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
71495954 CGTGAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:71499485 original size:84 final size:84
Alignment explanation
Indices: 71499339--71499524 Score: 268
Period size: 84 Copynumber: 2.2 Consensus size: 84
71499329 TTTCTTTTAG
*
71499339 CTCTTACGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAACTCTTTTAAGCTTCTATTCAA-C
1 CTCTTACGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAACTCTTCTAAGCTTCTATTCAATC
*
71499403 TCTTATGAGTTTCTGTTCAA
66 -CTTATGAGTTTCTATTCAA
* * *
71499423 CTCTTATGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTACT-AGCTTCTGTTCAAT
1 CTCTTACGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAACTCTT-CTAAGCTTCTATTCAAT
* * *
71499487 CCTTATGGGTTTCTATTTAG
65 CCTTATGAGTTTCTATTCAA
71499507 CTCTTACGAGCTTCTGTT
1 CTCTTACGAGCTTCTGTT
71499525 CAGCTTTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
84 89 0.98
85 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.45
Consensus pattern (84 bp):
CTCTTACGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAACTCTTCTAAGCTTCTATTCAATC
CTTATGAGTTTCTATTCAA
Found at i:71499499 original size:42 final size:42
Alignment explanation
Indices: 71499337--71499526 Score: 197
Period size: 42 Copynumber: 4.5 Consensus size: 42
71499327 CTTTTCTTTT
* *
71499337 AGCTCTTACGAGCTTCTGTTTAACTCATATGAGTTTCCGTTC
1 AGCTCTTACTAGCTTCTGTTCAACTCATATGAGTTTCCGTTC
* * * * *
71499379 AACTCTT-TTAAGCTTCTATTCAACTCTTATGAGTTTCTGTTC
1 AGCTCTTACT-AGCTTCTGTTCAACTCATATGAGTTTCCGTTC
* *
71499421 AACTCTTA-TGAGCTTCTGTTTAACTCATATGAGTTTCCGTTC
1 AGCTCTTACT-AGCTTCTGTTCAACTCATATGAGTTTCCGTTC
* * ** *
71499463 AGCTCTTACTAGCTTCTGTTCAA-TCCTTATGGGTTTCTATTT
1 AGCTCTTACTAGCTTCTGTTCAACT-CATATGAGTTTCCGTTC
*
71499505 AGCTCTTACGAGCTTCTGTTCA
1 AGCTCTTACTAGCTTCTGTTCA
71499527 GCTTTCGAGT
Statistics
Matches: 124, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 122 0.98
43 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (42 bp):
AGCTCTTACTAGCTTCTGTTCAACTCATATGAGTTTCCGTTC
Found at i:71499529 original size:21 final size:21
Alignment explanation
Indices: 71499339--71499526 Score: 164
Period size: 21 Copynumber: 9.0 Consensus size: 21
71499329 TTTCTTTTAG
* *
71499339 CTCTTACGAGCTTCTGTTTAA
1 CTCTTATGAGCTTCTGTTCAA
* * *
71499360 CTCATATGAGTTTCCGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
* * *
71499381 CTCTTTTAAGCTTCTATTCAA
1 CTCTTATGAGCTTCTGTTCAA
*
71499402 CTCTTATGAGTTTCTGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
*
71499423 CTCTTATGAGCTTCTGTTTAA
1 CTCTTATGAGCTTCTGTTCAA
* * * *
71499444 CTCATATGAGTTTCCGTTCAG
1 CTCTTATGAGCTTCTGTTCAA
71499465 CTCTTACT-AGCTTCTGTTCAA
1 CTCTTA-TGAGCTTCTGTTCAA
* * * * *
71499486 -TCCTTATGGGTTTCTATTTAG
1 CT-CTTATGAGCTTCTGTTCAA
*
71499507 CTCTTACGAGCTTCTGTTCA
1 CTCTTATGAGCTTCTGTTCA
71499527 GCTTTCGAGT
Statistics
Matches: 127, Mismatches: 36, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
20 2 0.02
21 123 0.97
22 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAA
Found at i:71509083 original size:20 final size:22
Alignment explanation
Indices: 71509032--71509085 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
71509022 ATGTAATTAA
71509032 AAATATAATATTTAAAAAAACT
1 AAATATAATATTTAAAAAAACT
71509054 AAATATAATATTT-AAAAAACT
1 AAATATAATATTTAAAAAAACT
*
71509075 AATTA-AATATT
1 AAATATAATATT
71509086 ACACATGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 6 0.19
21 12 0.39
22 13 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATAATATTTAAAAAAACT
Found at i:71509890 original size:23 final size:23
Alignment explanation
Indices: 71509840--71509884 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
71509830 CTTTATTTCT
* *
71509840 TAAATTTTATTTTAATTTTTTAG
1 TAAATTTAATTTTAATTTTTAAG
*
71509863 TAAATTTAATTTTAGTTTTTAA
1 TAAATTTAATTTTAATTTTTAA
71509885 AGAAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TAAATTTAATTTTAATTTTTAAG
Found at i:71510278 original size:3 final size:3
Alignment explanation
Indices: 71510270--71510299 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
71510260 AAATTTTCTA
71510270 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
71510300 AATACTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:71516515 original size:14 final size:15
Alignment explanation
Indices: 71516496--71516524 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
71516486 CTTTAACCTT
71516496 ATTTTAAT-ATAAAA
1 ATTTTAATCATAAAA
71516510 ATTTTAATCATAAAA
1 ATTTTAATCATAAAA
71516525 CTTAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAATCATAAAA
Found at i:71517601 original size:14 final size:14
Alignment explanation
Indices: 71517582--71517611 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
71517572 ATTACATTAA
71517582 TATCCTTTGAATAT
1 TATCCTTTGAATAT
71517596 TATCCTTTGAATAT
1 TATCCTTTGAATAT
71517610 TA
1 TA
71517612 CATCGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (14 bp):
TATCCTTTGAATAT
Found at i:71518980 original size:18 final size:20
Alignment explanation
Indices: 71518960--71518996 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
71518950 GTAGTAGAAA
*
71518960 TTTATTTT-TTAGAATAAAT
1 TTTATTTTCTGAGAATAAAT
71518979 TTTATTTTCTGAGAATAA
1 TTTATTTTCTGAGAATAA
71518997 TAATTTTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
TTTATTTTCTGAGAATAAAT
Found at i:71521584 original size:41 final size:42
Alignment explanation
Indices: 71521520--71521599 Score: 103
Period size: 41 Copynumber: 1.9 Consensus size: 42
71521510 ATGCATGGGA
71521520 CACACGGTCTATCAACATGCCCATGTG-CAAGCCGTGTGTCT
1 CACACGGTCTATCAACATGCCCATGTGACAAGCCGTGTGTCT
* *
71521561 CACACGGTCTGATC-ACACT-CCCATTTGACATGCCGTGTG
1 CACACGGTCT-ATCAACA-TGCCCATGTGACAAGCCGTGTG
71521600 GACTCAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 20 0.59
42 14 0.41
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (42 bp):
CACACGGTCTATCAACATGCCCATGTGACAAGCCGTGTGTCT
Found at i:71522311 original size:18 final size:18
Alignment explanation
Indices: 71522288--71522327 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
71522278 TAATAGTAAT
71522288 AGTAACAGCAACAATAAC
1 AGTAACAGCAACAATAAC
* *
71522306 AGTAACAGTAACAATAGC
1 AGTAACAGCAACAATAAC
71522324 AGTA
1 AGTA
71522328 TCGGTACACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (18 bp):
AGTAACAGCAACAATAAC
Found at i:71527579 original size:13 final size:13
Alignment explanation
Indices: 71527561--71527599 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
71527551 CGGCCATGAG
71527561 AGCCACATGGGCT
1 AGCCACATGGGCT
*
71527574 AGCCACATGAGCT
1 AGCCACATGGGCT
*
71527587 AGCCACACGGGCT
1 AGCCACATGGGCT
71527600 TGTGCCCCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.13
Consensus pattern (13 bp):
AGCCACATGGGCT
Found at i:71532489 original size:19 final size:19
Alignment explanation
Indices: 71532465--71532504 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
71532455 AAACAAGGAG
*
71532465 TTTATCAACTAGGACCAAC
1 TTTATCAACTAAGACCAAC
*
71532484 TTTATCAACTAAGACCGAC
1 TTTATCAACTAAGACCAAC
71532503 TT
1 TT
71532505 GCCTAGAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (19 bp):
TTTATCAACTAAGACCAAC
Found at i:71534467 original size:13 final size:13
Alignment explanation
Indices: 71534449--71534473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71534439 CCAAACACAC
71534449 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
71534462 GCCCGTGTCCCT
1 GCCCGTGTCCCT
71534474 CACACGACTT
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:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:71534622 original size:30 final size:30
Alignment explanation
Indices: 71534587--71534898 Score: 316
Period size: 30 Copynumber: 10.3 Consensus size: 30
71534577 CCATGTGCTA
71534587 GGCCGTGTCCTCCACACGGTTGAGATACAC
1 GGCCGTGTCCTCCACACGGTTGAGATACAC
71534617 GGCCGTGTCCTCCACACGGTTGAGATACAC
1 GGCCGTGTCCTCCACACGGTTGAGATACAC
71534647 GGCCGTGTCCTCCACACGGTTGAGATACAC
1 GGCCGTGTCCTCCACACGGTTGAGATACAC
*
71534677 GGCCGTGTCCTCCACACGGTTGAGATACAT
1 GGCCGTGTCCTCCACACGGTTGAGATACAC
*
71534707 GGCCGTGTCCTCCACACGGTTGAGACACAC
1 GGCCGTGTCCTCCACACGGTTGAGATACAC
* ** * *
71534737 GGCCATGTCTCTGCC-CGTGTGTTTA-TTAC-C
1 GGCCGTGTC-CT-CCACACG-GTTGAGATACAC
* ** *** *
71534767 ATGCAAACG-G-CCAAGGCACAC-GCCCATG-TGCTA-
1 -GGC---CGTGTCC--TCCACACGGTTGA-GATAC-AC
71534800 GGCCGTGTCCTCCACACGGTTGAGATACAC
1 GGCCGTGTCCTCCACACGGTTGAGATACAC
*
71534830 GGCCGTGTCCTCCACACGGTTGAGATACAT
1 GGCCGTGTCCTCCACACGGTTGAGATACAC
*
71534860 GGCCGTGTCCTCCACACGGTTGAGACACAC
1 GGCCGTGTCCTCCACACGGTTGAGATACAC
*
71534890 GGCCATGTC
1 GGCCGTGTC
71534899 TCTGCCCGTG
Statistics
Matches: 233, Mismatches: 30, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
29 9 0.04
30 196 0.84
31 13 0.06
32 12 0.05
33 2 0.01
34 1 0.00
ACGTcount: A:0.20, C:0.33, G:0.26, T:0.21
Consensus pattern (30 bp):
GGCCGTGTCCTCCACACGGTTGAGATACAC
Found at i:71534925 original size:153 final size:153
Alignment explanation
Indices: 71534647--71534927 Score: 562
Period size: 153 Copynumber: 1.8 Consensus size: 153
71534637 TGAGATACAC
71534647 GGCCGTGTCCTCCACACGGTTGAGATACACGGCCGTGTCCTCCACACGGTTGAGATACATGGCCG
1 GGCCGTGTCCTCCACACGGTTGAGATACACGGCCGTGTCCTCCACACGGTTGAGATACATGGCCG
71534712 TGTCCTCCACACGGTTGAGACACACGGCCATGTCTCTGCCCGTGTGTTTATTACCATGCAAACGG
66 TGTCCTCCACACGGTTGAGACACACGGCCATGTCTCTGCCCGTGTGTTTATTACCATGCAAACGG
71534777 CCAAGGCACACGCCCATGTGCTA
131 CCAAGGCACACGCCCATGTGCTA
71534800 GGCCGTGTCCTCCACACGGTTGAGATACACGGCCGTGTCCTCCACACGGTTGAGATACATGGCCG
1 GGCCGTGTCCTCCACACGGTTGAGATACACGGCCGTGTCCTCCACACGGTTGAGATACATGGCCG
71534865 TGTCCTCCACACGGTTGAGACACACGGCCATGTCTCTGCCCGTGTGTTTATTACCATGCAAAC
66 TGTCCTCCACACGGTTGAGACACACGGCCATGTCTCTGCCCGTGTGTTTATTACCATGCAAAC
71534928 TGACCTAAAA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 128 1.00
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.22
Consensus pattern (153 bp):
GGCCGTGTCCTCCACACGGTTGAGATACACGGCCGTGTCCTCCACACGGTTGAGATACATGGCCG
TGTCCTCCACACGGTTGAGACACACGGCCATGTCTCTGCCCGTGTGTTTATTACCATGCAAACGG
CCAAGGCACACGCCCATGTGCTA
Found at i:71536385 original size:18 final size:18
Alignment explanation
Indices: 71536362--71536399 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
71536352 TTATCATGCA
71536362 ATGAATATCTAAATTTTC
1 ATGAATATCTAAATTTTC
71536380 ATGAATATCTAAATTTTC
1 ATGAATATCTAAATTTTC
71536398 AT
1 AT
71536400 ACATTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (18 bp):
ATGAATATCTAAATTTTC
Found at i:71555816 original size:18 final size:19
Alignment explanation
Indices: 71555786--71555843 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
71555776 AAATTATGGT
*
71555786 ATTTTTATTAAAAATTCAA
1 ATTTTCATTAAAAATTCAA
* *
71555805 A-TTTCTTTAAAAATATAAA
1 ATTTTCATTAAAAAT-TCAA
*
71555824 ATTTTCATTAAATATTCAA
1 ATTTTCATTAAAAATTCAA
71555843 A
1 A
71555844 AAATTCCTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 11 0.35
19 9 0.29
20 11 0.35
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTTCATTAAAAATTCAA
Found at i:71555844 original size:20 final size:20
Alignment explanation
Indices: 71555786--71555844 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
71555776 AAATTATGGT
*
71555786 ATTTTTATTAAAAATTC-AA
1 ATTTTCATTAAAAATTCAAA
*
71555805 A-TTTCTTTAAAAATAT-AAA
1 ATTTTCATTAAAAAT-TCAAA
*
71555824 ATTTTCATTAAATATTCAAA
1 ATTTTCATTAAAAATTCAAA
71555844 A
1 A
71555845 AATTCCTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 11 0.34
19 6 0.19
20 15 0.47
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTTCATTAAAAATTCAAA
Found at i:71556141 original size:18 final size:18
Alignment explanation
Indices: 71556113--71556182 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 18
71556103 TTTTTATCAA
71556113 TTTTTATATTTAATGATTT
1 TTTTTA-ATTTAATGATTT
** *
71556132 TTTTTAATTTTCTTACTTT
1 TTTTTAATTTAATGA-TTT
*
71556151 TTTTTAAATTTAA-GATCCT
1 TTTTT-AATTTAATGAT-TT
*
71556170 TTTTTACTTTAAT
1 TTTTTAATTTAAT
71556183 TGACAGGTGG
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
18 13 0.33
19 21 0.54
20 5 0.13
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTTAATTTAATGATTT
Found at i:71557218 original size:30 final size:30
Alignment explanation
Indices: 71557163--71557220 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
71557153 AATTTTTTGT
*
71557163 AATTTTCTAAAATTTGATTATATTTTTAAA
1 AATTTTCTAAAATTTGATGATATTTTTAAA
71557193 AATTTTCTAAATATTCTG-TGA-ATTTTTA
1 AATTTTCTAAA-ATT-TGATGATATTTTTA
71557221 TATTTTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 18 0.72
31 5 0.20
32 2 0.08
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (30 bp):
AATTTTCTAAAATTTGATGATATTTTTAAA
Found at i:71561786 original size:30 final size:30
Alignment explanation
Indices: 71561750--71561809 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
71561740 TTATTATGTG
71561750 CATGATCTTACATAAACAATCACTTACCTT
1 CATGATCTTACATAAACAATCACTTACCTT
71561780 CATGATCTTACATAAACAATCACTTACCTT
1 CATGATCTTACATAAACAATCACTTACCTT
71561810 TTATGCACCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (30 bp):
CATGATCTTACATAAACAATCACTTACCTT
Found at i:71570179 original size:10 final size:10
Alignment explanation
Indices: 71570164--71570197 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
71570154 GAAGTCTTAG
71570164 AAATATTGAT
1 AAATATTGAT
*
71570174 AAATATTTAT
1 AAATATTGAT
*
71570184 ATATATTGAT
1 AAATATTGAT
71570194 AAAT
1 AAAT
71570198 CTTTAAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (10 bp):
AAATATTGAT
Found at i:71570191 original size:20 final size:20
Alignment explanation
Indices: 71570166--71570292 Score: 76
Period size: 20 Copynumber: 6.6 Consensus size: 20
71570156 AGTCTTAGAA
*
71570166 ATATTGATAAATATTTATAT
1 ATATTGATAAATATTTAAAT
*
71570186 ATATTGATAAATCTTTAAAT
1 ATATTGATAAATATTTAAAT
* *
71570206 ATTCTTG-TAAATGA--TCAAT
1 A-TATTGATAAAT-ATTTAAAT
*
71570225 -T-TTGATAAA-AGCTTAGAA-
1 ATATTGATAAATA-TTTA-AAT
*
71570243 ATATTGATAAATCTTTAAA-
1 ATATTGATAAATATTTAAAT
*
71570262 ATATT-AGTAAA-ATTTAGAT
1 ATATTGA-TAAATATTTAAAT
71570281 ATATTGATAAAT
1 ATATTGATAAAT
71570293 CATTAAAACA
Statistics
Matches: 83, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
15 1 0.01
16 3 0.04
17 5 0.06
18 7 0.08
19 27 0.33
20 36 0.43
21 4 0.05
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (20 bp):
ATATTGATAAATATTTAAAT
Found at i:71570286 original size:38 final size:38
Alignment explanation
Indices: 71570237--71570310 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
71570227 TGATAAAAGC
* *
71570237 TTAGAAATATTGATAAATCTTTAAAATATTAGTAAAAT
1 TTAGAAATATTGATAAATCATTAAAACATTAGTAAAAT
*
71570275 TTAGATATATTGATAAATCATTAAAACATTAGTAAA
1 TTAGAAATATTGATAAATCATTAAAACATTAGTAAA
71570311 TTCTTTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (38 bp):
TTAGAAATATTGATAAATCATTAAAACATTAGTAAAAT
Found at i:71573515 original size:45 final size:45
Alignment explanation
Indices: 71573413--71573517 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
71573403 AATGATTAAG
* * * * *
71573413 ACCATAGTTAAAAGACACTATGGCACTATACCAAAAATAAATAAT
1 ACCATAGCTGAAAGACACTATGGCACCATACCAAAAACAAATAAA
* * * *
71573458 ACCATAGTTGAAAGACACTATGGCACCATACCAGAAACGAGTAAA
1 ACCATAGCTGAAAGACACTATGGCACCATACCAAAAACAAATAAA
*
71573503 ACTATAGCTGAAAGA
1 ACCATAGCTGAAAGA
71573518 TGCTATCGCA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (45 bp):
ACCATAGCTGAAAGACACTATGGCACCATACCAAAAACAAATAAA
Found at i:71573689 original size:45 final size:46
Alignment explanation
Indices: 71573581--71573708 Score: 168
Period size: 46 Copynumber: 2.8 Consensus size: 46
71573571 CATCACAAAT
* * * * *
71573581 AAAATAAATAAGACCATAGTTGAAAAACATTATAGCAACACGACGA
1 AAAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGA
* *
71573627 AAAATGAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACG-
1 AAAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGA
* *
71573672 AGAATAAATAAGACCATGGTTGAAAGACACCATGGCA
1 AAAATAAATAAGACCATGGTTGAAAGACACTATGGCA
71573709 CTCTCCAATC
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
45 34 0.47
46 38 0.53
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (46 bp):
AAAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGA
Found at i:71577720 original size:46 final size:46
Alignment explanation
Indices: 71577660--71578026 Score: 565
Period size: 46 Copynumber: 8.0 Consensus size: 46
71577650 TTTGGCATGA
* * * * * *
71577660 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
71577706 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
71577752 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
71577798 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
71577844 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
71577890 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
71577936 TGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
71577982 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
71578027 GAGCACACTC
Statistics
Matches: 302, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
45 4 0.01
46 298 0.99
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:71584762 original size:43 final size:44
Alignment explanation
Indices: 71584681--71584838 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 44
71584671 CAATACCATA
* * ** * * *
71584681 TCCCAGATATGGT-ATTACATGTTATCAC-ATATCGATGCCACTA
1 TCCCAGACATGGTCTTTACATGAAATCACAATA-CAATGCCAATG
* * *
71584724 TCCCAGACAGGGTCTTTA-ATGAAATC-GATTAACAATGCCAATG
1 TCCCAGACATGGTCTTTACATGAAATCACAAT-ACAATGCCAATG
* *
71584767 TCCTAGACATGGTC-TTACATGTAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTTACATGAAATCACAATACAATGCCAATG
*
71584810 TCCCAGACATGGTC-TTACATGTAATCACA
1 TCCCAGACATGGTCTTTACATGAAATCACA
71584839 TCTCGGTAAC
Statistics
Matches: 94, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
42 3 0.03
43 85 0.90
44 6 0.06
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (44 bp):
TCCCAGACATGGTCTTTACATGAAATCACAATACAATGCCAATG
Found at i:71587905 original size:38 final size:38
Alignment explanation
Indices: 71587858--71587937 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
71587848 CATGTTGAAG
*
71587858 GCCCGTGTGGCTCACACGACCTGAACATA-ATGGGACAC
1 GCCCATGTGGCTCACACGACCTGAACATATA-GGGACAC
*
71587896 GCCCATGTGGCTCACACGGCCTGAACATATAGGGACAC
1 GCCCATGTGGCTCACACGACCTGAACATATAGGGACAC
71587934 GCCC
1 GCCC
71587938 GTGTCCCCAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
38 38 0.97
39 1 0.03
ACGTcount: A:0.25, C:0.34, G:0.26, T:0.15
Consensus pattern (38 bp):
GCCCATGTGGCTCACACGACCTGAACATATAGGGACAC
Found at i:71589208 original size:48 final size:48
Alignment explanation
Indices: 71589087--71589322 Score: 203
Period size: 48 Copynumber: 4.9 Consensus size: 48
71589077 TGGTAAGATT
* * * *
71589087 CCGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATATATTGGTA
1 CCGATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATAGTGG-A
* *
71589137 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGTGG-
1 CCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATAGTGGA
* * * * *
71589185 CCGATGCCATGTCCTAGATATGGTCTTACTCTAGCTCTCATATAAAT--A
1 CCGATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATAT-AGTGGA
* * * * *
71589233 CCGATGCCATATTCCAAACATGGTCTTACACTGGCTCTCATATAAAT--T
1 CCGATGCCAT-GTCCAAACATGGTCTTACACTAGCTCACATAT-AGTGGA
* *
71589281 TCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATA
71589323 ACCCTAGTAT
Statistics
Matches: 158, Mismatches: 22, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
47 3 0.02
48 110 0.70
49 4 0.03
50 40 0.25
51 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (48 bp):
CCGATGCCATGTCCAAACATGGTCTTACACTAGCTCACATATAGTGGA
Found at i:71589286 original size:96 final size:96
Alignment explanation
Indices: 71589087--71589322 Score: 260
Period size: 96 Copynumber: 2.4 Consensus size: 96
71589077 TGGTAAGATT
* * ** *
71589087 CCGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATATATTGGTACCGATGCCATGTTCC
1 CCGATGCCATGT-CCAAACATGGTCTTACACTAGCTCTCATATA-TAATACCGATGCCATATTCC
* **
71589152 AAACATGGTCTTACACTAGCTCACATGTCGTGG
64 AAACATGGTCTTACACTAGCTCACATATAATGG
* * *
71589185 CCGATGCCATGTCCTAGATATGGTCTTACTCTAGCTCTCATATA-AATACCGATGCCATATTCCA
1 CCGATGCCATGTCC-AAACATGGTCTTACACTAGCTCTCATATATAATACCGATGCCATATTCCA
* * *
71589249 AACATGGTCTTACACTGGCTCTCATATAAAT-T
65 AACATGGTCTTACACTAGCTCACATAT-AATGG
* * *
71589281 TCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCTCATA
71589323 ACCCTAGTAT
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
96 73 0.63
97 6 0.05
98 37 0.32
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (96 bp):
CCGATGCCATGTCCAAACATGGTCTTACACTAGCTCTCATATATAATACCGATGCCATATTCCAA
ACATGGTCTTACACTAGCTCACATATAATGG
Found at i:71592325 original size:6 final size:6
Alignment explanation
Indices: 71592314--71592341 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
71592304 AGTTACACGT
71592314 TCTCCC TCTCCC TCTCCC TCTCCC TCTC
1 TCTCCC TCTCCC TCTCCC TCTCCC TCTC
71592342 TAATTCTTTT
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:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
TCTCCC
Found at i:71593023 original size:21 final size:21
Alignment explanation
Indices: 71592978--71593033 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
71592968 CACGGCCTGT
*
71592978 TCACACGACCGTGTCCCTATT
1 TCACACGACCGTGTCCCTATG
* * *
71592999 TCACACGAGCGTGTGCCTCTG
1 TCACACGACCGTGTCCCTATG
* *
71593020 TCACATGGCCGTGT
1 TCACACGACCGTGT
71593034 GCGGACCCTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.34, G:0.23, T:0.27
Consensus pattern (21 bp):
TCACACGACCGTGTCCCTATG
Found at i:71600688 original size:25 final size:25
Alignment explanation
Indices: 71600660--71600711 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
71600650 AAACTACATT
71600660 GCACTTGTAGAGAACTGAAACCTAA
1 GCACTTGTAGAGAACTGAAACCTAA
*
71600685 GCACTTGTAGAGAATTGAAACCTAA
1 GCACTTGTAGAGAACTGAAACCTAA
71600710 GC
1 GC
71600712 CTAAGCTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (25 bp):
GCACTTGTAGAGAACTGAAACCTAA
Found at i:71601342 original size:19 final size:19
Alignment explanation
Indices: 71601304--71601342 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
71601294 AAAGAGTGAG
*
71601304 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
71601323 AATTCTATTTTCT-AGAATA
1 AATT-TATTTTCTAAGAATA
71601342 A
1 A
71601343 CAATTCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:71604320 original size:42 final size:42
Alignment explanation
Indices: 71604211--71604330 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 42
71604201 CTGTACCAAT
*
71604211 GCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGAT
1 GCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGAA
*
71604253 GCCA-ATTGCCCAGCTATGGTCTTACATG-AATTCTCATATCGAA
1 GCCATA-T-CCCAGATATGGTCTTACATGTAA-TCTCATATCGAA
* *
71604296 GCCATATCCCAGATATGGTCTTACACGTTATCTCA
1 GCCATATCCCAGATATGGTCTTACATGTAATCTCA
71604331 ATAACCCTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.44
43 36 0.53
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGAA
Found at i:71610635 original size:28 final size:28
Alignment explanation
Indices: 71610604--71610660 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
71610594 TGTGTAAGTT
71610604 TCAATTTTAGGAACTAAATTGGATAAAC
1 TCAATTTTAGGAACTAAATTGGATAAAC
71610632 TCAATTTTAGGAACTAAATTGGATAAAC
1 TCAATTTTAGGAACTAAATTGGATAAAC
71610660 T
1 T
71610661 GTAAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (28 bp):
TCAATTTTAGGAACTAAATTGGATAAAC
Found at i:71611252 original size:29 final size:29
Alignment explanation
Indices: 71611150--71611255 Score: 106
Period size: 29 Copynumber: 3.6 Consensus size: 29
71611140 GTCATTAGGG
* *
71611150 TTTATCAGGCACTAAGTGCCCATGATTATA
1 TTTATCAGGCACTATGTGCCGATG-TTATA
* * * *
71611180 TTTATTAGGTATACTTTGTACCG-TGTTATA
1 TTTATCAGG--CACTATGTGCCGATGTTATA
*
71611210 TTTATTAGGCACTATGTGCCGATGTTATA
1 TTTATCAGGCACTATGTGCCGATGTTATA
*
71611239 TTTATCAGGTACTATGT
1 TTTATCAGGCACTATGT
71611256 ACCAGTGGTG
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
28 9 0.15
29 22 0.35
30 22 0.35
31 2 0.03
32 7 0.11
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (29 bp):
TTTATCAGGCACTATGTGCCGATGTTATA
Found at i:71612733 original size:25 final size:26
Alignment explanation
Indices: 71612705--71612758 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
71612695 TTTAAGTGAT
*
71612705 TTTTGTTATTTAATAA-AAAGGTTAA
1 TTTTGGTATTTAATAATAAAGGTTAA
71612730 TTTTGGTATTTAATAATTAAAGGTTAA
1 TTTTGGTATTTAATAA-TAAAGGTTAA
71612757 TT
1 TT
71612759 ATAATAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 15 0.58
27 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (26 bp):
TTTTGGTATTTAATAATAAAGGTTAA
Found at i:71615603 original size:46 final size:46
Alignment explanation
Indices: 71615543--71615770 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
71615533 TTTGACATGA
* * * * * *
71615543 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
71615589 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
71615635 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
71615681 TGCCATGGTCTCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
71615727 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
71615771 AGAGCACACT
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 163 0.98
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:71617935 original size:11 final size:11
Alignment explanation
Indices: 71617919--71617970 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
71617909 TATACTAAAT
71617919 AAATAATAATA
1 AAATAATAATA
71617930 AAATAATAATA
1 AAATAATAATA
* *
71617941 AACAT-CTCATA
1 AA-ATAATAATA
*
71617952 AAATATTAATA
1 AAATAATAATA
71617963 AAATAATA
1 AAATAATA
71617971 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 2 0.06
11 30 0.88
12 2 0.06
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATAATAATA
Found at i:71628909 original size:13 final size:13
Alignment explanation
Indices: 71628891--71628956 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
71628881 AATTTAAAAT
71628891 TATTTAGTGATAA
1 TATTTAGTGATAA
71628904 TATTTA---A-AA
1 TATTTAGTGATAA
71628913 TTATTTAGTGATAA
1 -TATTTAGTGATAA
*
71628927 TATTTA-AGAT--
1 TATTTAGTGATAA
71628937 TATTTAGTGATAA
1 TATTTAGTGATAA
71628950 TATTTAG
1 TATTTAG
71628957 GAAAATCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
9 2 0.05
10 13 0.30
11 3 0.07
12 3 0.07
13 20 0.47
14 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:71628909 original size:23 final size:23
Alignment explanation
Indices: 71628882--71628955 Score: 139
Period size: 23 Copynumber: 3.2 Consensus size: 23
71628872 GATTTTTAAA
71628882 ATTTAAAATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
71628905 ATTTAAAATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
*
71628928 ATTTAAGATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
71628951 ATTTA
1 ATTTA
71628956 GGAAAATCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATTTAAAATTATTTAGTGATAAT
Found at i:71630120 original size:16 final size:16
Alignment explanation
Indices: 71630101--71630132 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
71630091 TTTTCATAAA
71630101 AAAAAATCTTAATTAT
1 AAAAAATCTTAATTAT
*
71630117 AAAATATCTTAATTAT
1 AAAAAATCTTAATTAT
71630133 TTTTTTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAAAATCTTAATTAT
Found at i:71630773 original size:25 final size:25
Alignment explanation
Indices: 71630745--71630811 Score: 91
Period size: 24 Copynumber: 2.7 Consensus size: 25
71630735 CATAGTTTTG
*
71630745 TGGTTTTATTTTGTCCCCAATTTCA
1 TGGTTTTATTTTGTCCACAATTTCA
* *
71630770 TGGTTTGA-TTTGTCCACATTTTCA
1 TGGTTTTATTTTGTCCACAATTTCA
71630794 TGGTTTTTATTTTGTCCA
1 TGG-TTTTATTTTGTCCA
71630812 TTTTGTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 17 0.47
25 11 0.31
26 8 0.22
ACGTcount: A:0.15, C:0.16, G:0.15, T:0.54
Consensus pattern (25 bp):
TGGTTTTATTTTGTCCACAATTTCA
Found at i:71631284 original size:20 final size:21
Alignment explanation
Indices: 71631238--71631284 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
71631228 ATTTAAGGTG
71631238 ATTTT-TATCGTTTGTACTAT
1 ATTTTATATCGTTTGTACTAT
* *
71631258 ATATTATATC-TTTGTATTAT
1 ATTTTATATCGTTTGTACTAT
*
71631278 TTTTTAT
1 ATTTTAT
71631285 GATTCCAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.64
Consensus pattern (21 bp):
ATTTTATATCGTTTGTACTAT
Found at i:71636182 original size:21 final size:21
Alignment explanation
Indices: 71636154--71636208 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
71636144 AATAGCGGTG
*
71636154 GCAGTGAGATTAGTTACTGTA
1 GCAGTGAGATTAGGTACTGTA
* * *
71636175 GCGGTGAGATTGGGTATTGTA
1 GCAGTGAGATTAGGTACTGTA
71636196 GCAGTGAGATTAG
1 GCAGTGAGATTAG
71636209 AAACAGCAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.36, T:0.31
Consensus pattern (21 bp):
GCAGTGAGATTAGGTACTGTA
Found at i:71636344 original size:19 final size:18
Alignment explanation
Indices: 71636320--71636375 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
71636310 TAGAAATTTT
71636320 TAAAATTATTTAACAATTA
1 TAAAATTA-TTAACAATTA
*
71636339 TAAAATTAATAA-ATGATTA
1 TAAAATTATTAACA--ATTA
71636358 -AAAATTATT-ACAATTA
1 TAAAATTATTAACAATTA
71636374 TA
1 TA
71636376 TTTATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 3 0.10
18 12 0.39
19 12 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAAATTATTAACAATTA
Found at i:71643465 original size:41 final size:41
Alignment explanation
Indices: 71643408--71643490 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
71643398 GTATGGCTAA
*
71643408 CACTTAGGCTATTTTCCAAGCCTTCATGTTTCCCATAAACC
1 CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
71643449 CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
1 CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
71643490 C
1 C
71643491 TTACAACCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.33
Consensus pattern (41 bp):
CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
Found at i:71645146 original size:50 final size:50
Alignment explanation
Indices: 71645033--71645309 Score: 376
Period size: 50 Copynumber: 5.5 Consensus size: 50
71645023 CTGGTATGCA
* * * * *
71645033 TAGTAGCCTGCACTTAATACTACACATGTGACC-AACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
71645082 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* *
71645132 TAGTAGCCTACACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * * *
71645182 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATTTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * **
71645232 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACATA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
*
71645284 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
71645310 TGTATCCTCA
Statistics
Matches: 201, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
49 31 0.15
50 136 0.68
52 34 0.17
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:71645309 original size:150 final size:148
Alignment explanation
Indices: 71645033--71645311 Score: 416
Period size: 150 Copynumber: 1.9 Consensus size: 148
71645023 CTGGTATGCA
*
71645033 TAGTAGCCTGCACTTAATACTACACATGTGACCAACAATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAATACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTGCACTTA
* * *
71645098 GTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACATGA
66 GTACTACACACGTGACCTAACCATCTGAAACACATAGTAGCCTACACATAGTACTA-ACACATGA
71645163 CCTAACCATCTGATACACG
130 CCTAACCATCTGATACACG
* * **
71645182 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATTTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAATACTACACATGCGACC-AACAATCCGGTACACGTAGTAGCCTGCACTT
* * *
71645247 AGTACTACACACGTGACCTAAAACCATCTTAAACATATAGTAGCCTGCACATAGTACT-ACACAT
65 AGTACTACACACGTGACCT--AACCATCTGAAACACATAGTAGCCTACACATAGTACTAACACAT
71645311 G
128 G
71645312 TATCCTCACA
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
149 31 0.27
150 54 0.47
152 31 0.27
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (148 bp):
TAGTAGCCTGCACTTAATACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTGAAACACATAGTAGCCTACACATAGTACTAACACATGAC
CTAACCATCTGATACACG
Found at i:71651490 original size:22 final size:22
Alignment explanation
Indices: 71651462--71651508 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
71651452 AGTATATTGA
71651462 CTTAGACACATCTTTATGGTGT
1 CTTAGACACATCTTTATGGTGT
71651484 CTTAGACACATCTTTATGGTGT
1 CTTAGACACATCTTTATGGTGT
71651506 CTT
1 CTT
71651509 GTAACACCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (22 bp):
CTTAGACACATCTTTATGGTGT
Found at i:71655591 original size:6 final size:6
Alignment explanation
Indices: 71655582--71655622 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
71655572 GAAGGATTGA
71655582 GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GAGGG
1 GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GAGGG
71655623 ATAAATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.00, G:0.68, T:0.15
Consensus pattern (6 bp):
GAGGGT
Found at i:71656163 original size:17 final size:16
Alignment explanation
Indices: 71656123--71656166 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
71656113 ATTTATTCAT
71656123 AATTAACAATAAGTATA
1 AATTAACAA-AAGTATA
71656140 AATTAACAAAAGTAATTA
1 AATTAACAAAAGT-A-TA
71656158 AA-TAACAAA
1 AATTAACAAA
71656167 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.16
17 17 0.68
18 4 0.16
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (16 bp):
AATTAACAAAAGTATA
Found at i:71657083 original size:146 final size:144
Alignment explanation
Indices: 71656831--71657103 Score: 333
Period size: 146 Copynumber: 1.9 Consensus size: 144
71656821 GTTACATATC
*
71656831 ATTAATAGTTTACATTAATTATATAATGTTAATTTTATATTATTATAATCTACCATAAAGTTAGT
1 ATTAATAGTTTACATTAATTATATAATGCTAATTTTATATTATTATAATCTACCATAAAGTTAG-
* *
71656896 TACATGTTTAGGGTTTAAGTTTACATATATAAAAATGTACATTATAAT-ATCATAATTGTATATT
65 T-CA-GTTTAGGGTTTAAGCTTACATATATAAAAATATACATTATAATAAT-ATAATTGTATATT
71656960 ATGTTATATATCATTAAT
127 ATGTTATATATCATTAAT
* *
71656978 ATTAAT-GATTTACTTTAATTATATAATGCTAATTGTT-TA-TATTATAATCTACCATAAAATTT
1 ATTAATAG-TTTACATTAATTATATAATGCTAATT-TTATATTATTATAATCTACCAT-AAAGTT
* * *
71657040 AG-GA-TTTATGGTTTAAGCTTACATATTAATAGAAAAATATACATTATAATAATATAGTTGTAT
63 AGTCAGTTTAGGGTTTAAGCTTACATA-T-AT--AAAAATATACATTATAATAATATAATTGTAT
71657103 A
124 A
71657104 CAGGATTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
142 19 0.17
143 1 0.01
144 3 0.03
146 44 0.40
147 41 0.37
148 2 0.02
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.45
Consensus pattern (144 bp):
ATTAATAGTTTACATTAATTATATAATGCTAATTTTATATTATTATAATCTACCATAAAGTTAGT
CAGTTTAGGGTTTAAGCTTACATATATAAAAATATACATTATAATAATATAATTGTATATTATGT
TATATATCATTAAT
Found at i:71657172 original size:24 final size:22
Alignment explanation
Indices: 71657125--71657166 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
71657115 ATCATTAATG
71657125 ATATACCTTAATTATATAATTA
1 ATATACCTTAATTATATAATTA
71657147 ATATACCTTAATTATATAAT
1 ATATACCTTAATTATATAAT
71657167 GTTAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATACCTTAATTATATAATTA
Found at i:71662435 original size:36 final size:37
Alignment explanation
Indices: 71662382--71662483 Score: 118
Period size: 36 Copynumber: 2.7 Consensus size: 37
71662372 AATTCGAAGT
* *
71662382 AGTAAATTGACATCCAGTGTCTCATCGATTAAA-CGA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAAACCGA
*
71662418 AGTAAATTGGA-ACCCAGTGCCTCATCGAATAAATCCGA
1 AGTAAATT-GACACCCAGTGTCTCATCGAATAAA-CCGA
71662456 AGTAATAAATTGACACCCAGTGTCTCAT
1 AG---TAAATTGACACCCAGTGTCTCAT
71662484 TGACTCGAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
36 27 0.49
37 2 0.04
38 5 0.09
40 2 0.04
41 19 0.35
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (37 bp):
AGTAAATTGACACCCAGTGTCTCATCGAATAAACCGA
Found at i:71672836 original size:16 final size:17
Alignment explanation
Indices: 71672817--71672849 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
71672807 AATCAATCAA
71672817 TTTTTT-GAAAACCCAT
1 TTTTTTAGAAAACCCAT
*
71672833 TTTTTTATAAAACCCAT
1 TTTTTTAGAAAACCCAT
71672850 AATCCACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.18, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTTTAGAAAACCCAT
Found at i:71678167 original size:421 final size:418
Alignment explanation
Indices: 71677383--71678217 Score: 1510
Period size: 421 Copynumber: 2.0 Consensus size: 418
71677373 GATGATGTTT
*
71677383 TCGTTTGTTTCTCTTGAAAATCGACTCATTAAGGATTTAAACATATAAATTAAGCCCCTAATTAA
1 TCGTTTGTTTCTCTTGAAAATAGACTCATTAAGGATTTAAACATATAAATTAAGCCCCTAATTAA
* *
71677448 TTTTTTTACAATTTTTGATGATTTTCCAAATTTAAAATAGGAGAACCAAAAATCATTTTGACCTT
66 TTTTTTTACAACTTTTGATGATTCTCCAAATTTAAAATAGGAGAACCAAAAATCATTTTGACCTT
71677513 ATCTCACAAACTTTATTATATCTCATAATTTACAATTCCATTCTTACACTATTTATTCCATGAAA
131 ATCTCACAAACTTTATTATATCTCATAATTTACAATTCCATTCTTACACTATTTATTCCATGAAA
*
71677578 AACTAGACTCAATAAACTTTAATTTCATATTTTATTCAACCTAACTCAATTTTCACTATTTTTTA
196 AACTAGACTCAAAAAACTTTAATTTCATATTTTATTCAACCTAACTCAATTTTCACTATTTTTTA
*
71677643 TGATTTTTCAAAGTTAGACTATTGTTGCTGTCCAAAACTATTTTAGTGCAAAATGTTTATTTCCA
261 TGATTTTTCAAAGTTAGACTATTGTTGCTGTCCAAAACTATTTTAGTGCAAAATGTTGATTTCCA
71677708 AGGTTATAACACCCTTATTTCCTTTCTCTACAATTTTTTTCACATCATTTTTTTCTTATTTCTCT
326 AGGTTATAACACCCTTATTTCCTTTCTCTACAATTTTTTTCACATCA--TTTTT-TTATTTCTCT
*
71677773 TATTTCTCGACAGCAAGCAATTTCAGCAATC
388 TATTTCTCGACAACAAGCAATTTCAGCAATC
71677804 TCGTTTGTTTCTCTTGAAAATAGACTCATTAAGGATTTAAACATATAAATTAAGCCCCTAATTAA
1 TCGTTTGTTTCTCTTGAAAATAGACTCATTAAGGATTTAAACATATAAATTAAGCCCCTAATTAA
*
71677869 TTTTTTTACAACTTTTGATGATTCTCCAAATTTAAAATA-GAGGAACCAGAAATCATTTTGACCT
66 TTTTTTTACAACTTTTGATGATTCTCCAAATTTAAAATAGGA-GAACCAAAAATCATTTTGACCT
*
71677933 TGTCTCACAAACTTTATTATATCTCATAATTTACAATTCCATTCTTACACTATTTATTCCATGAA
130 TATCTCACAAACTTTATTATATCTCATAATTTACAATTCCATTCTTACACTATTTATTCCATGAA
*
71677998 AAACTAGACTCAAAAAACTTTAATTTCATATTTTATTCAACCTAACTTAATTTTCACTATTTTTT
195 AAACTAGACTCAAAAAACTTTAATTTCATATTTTATTCAACCTAACTCAATTTTCACTATTTTTT
* *
71678063 ATGATTTTTCAAAGTTAGACTATTGTTGCTGTTCAAAACTATTTTAGTGCAAAATGTTGATTTTC
260 ATGATTTTTCAAAGTTAGACTATTGTTGCTGTCCAAAACTATTTTAGTGCAAAATGTTGATTTCC
*
71678128 AAGGTTATAACACCCTTATTTCCTTTCTCTACAATTTTTTTCATATCATTTTTTTATTTCTCTTA
325 AAGGTTATAACACCCTTATTTCCTTTCTCTACAATTTTTTTCACATCATTTTTTTATTTCTCTTA
*
71678193 TTTGTCGACAACAAGCAATTTCAGC
390 TTTCTCGACAACAAGCAATTTCAGC
71678218 TTTTTGTCAA
Statistics
Matches: 400, Mismatches: 13, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
418 35 0.09
419 5 0.01
420 2 0.00
421 358 0.89
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.43
Consensus pattern (418 bp):
TCGTTTGTTTCTCTTGAAAATAGACTCATTAAGGATTTAAACATATAAATTAAGCCCCTAATTAA
TTTTTTTACAACTTTTGATGATTCTCCAAATTTAAAATAGGAGAACCAAAAATCATTTTGACCTT
ATCTCACAAACTTTATTATATCTCATAATTTACAATTCCATTCTTACACTATTTATTCCATGAAA
AACTAGACTCAAAAAACTTTAATTTCATATTTTATTCAACCTAACTCAATTTTCACTATTTTTTA
TGATTTTTCAAAGTTAGACTATTGTTGCTGTCCAAAACTATTTTAGTGCAAAATGTTGATTTCCA
AGGTTATAACACCCTTATTTCCTTTCTCTACAATTTTTTTCACATCATTTTTTTATTTCTCTTAT
TTCTCGACAACAAGCAATTTCAGCAATC
Found at i:71678671 original size:3 final size:3
Alignment explanation
Indices: 71678659--71678691 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
71678649 GGTAGAGGAG
71678659 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
71678692 AACGTCAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:71685747 original size:13 final size:15
Alignment explanation
Indices: 71685718--71685754 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
71685708 TTTTAATTTC
71685718 AATATTATTTGTATT
1 AATATTATTTGTATT
71685733 AATA-TATTT-TATT
1 AATATTATTTGTATT
*
71685746 AATGTTATT
1 AATATTATT
71685755 ATTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 9 0.45
15 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
AATATTATTTGTATT
Found at i:71686007 original size:22 final size:21
Alignment explanation
Indices: 71685977--71686024 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
71685967 ATTATGTTTC
*
71685977 TATTAATATATTATACATATA
1 TATTAATATATAATACATATA
*
71685998 GTATTTATATATAATACATATA
1 -TATTAATATATAATACATATA
71686020 TATTA
1 TATTA
71686025 TGTATGTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTAATATATAATACATATA
Found at i:71686769 original size:19 final size:19
Alignment explanation
Indices: 71686747--71686803 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
71686737 GTTCCTAATA
*
71686747 TATATTGTATATGTTTATT
1 TATATTGTATATATTTATT
*
71686766 TATATTATGTATATATATATT
1 TATA-T-TGTATATATTTATT
71686787 TAGTA-TGTATATATTTA
1 TA-TATTGTATATATTTA
71686804 GTATTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 15 0.47
20 1 0.03
21 14 0.44
22 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (19 bp):
TATATTGTATATATTTATT
Found at i:71686802 original size:15 final size:15
Alignment explanation
Indices: 71686774--71686807 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
71686764 TTTATATTAT
71686774 GTATATATATATTTA
1 GTATATATATATTTA
*
71686789 GTATGTATATATTTA
1 GTATATATATATTTA
71686804 GTAT
1 GTAT
71686808 TATTATGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Found at i:71686814 original size:21 final size:19
Alignment explanation
Indices: 71686752--71686823 Score: 72
Period size: 21 Copynumber: 3.6 Consensus size: 19
71686742 TAATATATAT
*
71686752 TGTATATGTTTATTTATATTA
1 TGTATATATTTA-TT-TATTA
* *
71686773 TGTATATATATATTTAGTA
1 TGTATATATTTATTTATTA
71686792 TGTATATATTTAGTATTATTA
1 TGTATATATTTA-T-TTATTA
*
71686813 TGTCTATATTT
1 TGTATATATTT
71686824 TTCATTCCTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 15 0.35
20 3 0.07
21 25 0.58
ACGTcount: A:0.31, C:0.01, G:0.10, T:0.58
Consensus pattern (19 bp):
TGTATATATTTATTTATTA
Found at i:71691863 original size:24 final size:22
Alignment explanation
Indices: 71691836--71691879 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
71691826 AGTTGTGGAT
71691836 GTGGTGGAAGAAGGATGAGAGAAG
1 GTGGTGGAAG-AGGA-GAGAGAAG
*
71691860 GTGGTGGTAGAGGAGAGAGA
1 GTGGTGGAAGAGGAGAGAGA
71691880 GGAAAGAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.34, C:0.00, G:0.52, T:0.14
Consensus pattern (22 bp):
GTGGTGGAAGAGGAGAGAGAAG
Found at i:71691951 original size:16 final size:17
Alignment explanation
Indices: 71691901--71691961 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
71691891 TTGTGGTGGA
71691901 GGTGGAGGAGGAGG-GG
1 GGTGGAGGAGGAGGAGG
* *
71691917 GGTTTGAGGAAGAAGGAGGAG
1 GG-TGGAGG-AGGAGGA-G-G
71691938 GGTGGAGGAGGAGGAGG
1 GGTGGAGGAGGAGGAGG
71691955 GGTGGAG
1 GGTGGAG
71691962 AGGCGTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 2 0.06
17 13 0.36
18 6 0.17
19 6 0.17
20 6 0.17
21 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.66, T:0.10
Consensus pattern (17 bp):
GGTGGAGGAGGAGGAGG
Found at i:71698320 original size:19 final size:19
Alignment explanation
Indices: 71698298--71698336 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
71698288 TAATACATGC
71698298 CAAGTAAAGATCCTCTCTA
1 CAAGTAAAGATCCTCTCTA
*
71698317 CAAGTAAAGGTCCTCTCTA
1 CAAGTAAAGATCCTCTCTA
71698336 C
1 C
71698337 TTACGTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (19 bp):
CAAGTAAAGATCCTCTCTA
Found at i:71700913 original size:5 final size:5
Alignment explanation
Indices: 71700903--71700933 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
71700893 AGTGTTTATA
71700903 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
71700934 GGAATCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:71706296 original size:22 final size:22
Alignment explanation
Indices: 71706268--71706312 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
71706258 TTAATAAAAA
71706268 AAAATATCTACA-ATATATTCCT
1 AAAATATCTACAGA-ATATTCCT
*
71706290 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAGAATATTCCT
71706312 A
1 A
71706313 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATATCTACAGAATATTCCT
Found at i:71710879 original size:22 final size:22
Alignment explanation
Indices: 71710854--71710898 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
71710844 TTTTAATAAA
71710854 AAAAAATCTACAAAATATTCCT
1 AAAAAATCTACAAAATATTCCT
* * *
71710876 AAAATATTTACAGAATATTCCT
1 AAAAAATCTACAAAATATTCCT
71710898 A
1 A
71710899 CAAATTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAATCTACAAAATATTCCT
Found at i:71711907 original size:18 final size:18
Alignment explanation
Indices: 71711884--71711921 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
71711874 TAAATAGAGG
71711884 TTACATAGGTTTTTATTC
1 TTACATAGGTTTTTATTC
71711902 TTACATAGGTTTTTATTC
1 TTACATAGGTTTTTATTC
71711920 TT
1 TT
71711922 GTAGAATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (18 bp):
TTACATAGGTTTTTATTC
Found at i:71720817 original size:258 final size:257
Alignment explanation
Indices: 71720361--71720876 Score: 1023
Period size: 258 Copynumber: 2.0 Consensus size: 257
71720351 TGGCATAAAA
71720361 GGGTTTGGGGATTTTTTGCTGAATAATGAGAATTTTGTAAAACCTAATGGAACTACTTTGTACAT
1 GGGTTTGGGGATTTTTTGCTGAATAATGAGAATTTTGTAAAACCTAATGGAACTACTTTGTACAT
71720426 TCTTGAAATTATGTATTTTGCTTTTTTTTTTTTTTGCTAGAACATGGGAATACGTAGTTACTTTA
66 TCTTGAAATTATGTATTTTGCTTTTTTTTTTTTTTGCTAGAACATGGGAATACGTAGTTACTTTA
71720491 GAACTAAGAGAAAGTAGGATAGGAATTTTGCTAATTCCATCTTATAAAACAAAACTAATTTATAG
131 GAACTAAGAGAAAGTAGGATAGGAATTTTGCTAATTCCATCTTATAAAACAAAACTAATTTATAG
71720556 TATTTGTGCCTCAAAAAAATTTGAGATTCACAGTGAACATGTTCTAACTTTATAGTATTTCT
196 TATTTGTGCCTCAAAAAAATTTGAGATTCACAGTGAACATGTTCTAACTTTATAGTATTTCT
71720618 GGGTTTGGGGATTTTTTGCTGAATAATGAGAATTTTGTAAAACCTAATGGAACTACTTTGTACAT
1 GGGTTTGGGGATTTTTTGCTGAATAATGAGAATTTTGTAAAACCTAATGGAACTACTTTGTACAT
71720683 TCTTGAAATTATGTATTTTGCTTTTTTTTTTTTTTTGCTAGAACATGGGAATACGTAGTTACTTT
66 TCTTGAAATTATGTATTTTGC-TTTTTTTTTTTTTTGCTAGAACATGGGAATACGTAGTTACTTT
71720748 AGAACTAAGAGAAAGTAGGATAGGAATTTTGCTAATTCCATCTTATAAAACAAAACTAATTTATA
130 AGAACTAAGAGAAAGTAGGATAGGAATTTTGCTAATTCCATCTTATAAAACAAAACTAATTTATA
71720813 GTATTTGTGCCTCAAAAAAATTTGAGATTCACAGTGAACATGTTCTAACTTTATAGTATTTCT
195 GTATTTGTGCCTCAAAAAAATTTGAGATTCACAGTGAACATGTTCTAACTTTATAGTATTTCT
71720876 G
1 G
71720877 CTTGATATAG
Statistics
Matches: 258, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
257 86 0.33
258 172 0.67
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (257 bp):
GGGTTTGGGGATTTTTTGCTGAATAATGAGAATTTTGTAAAACCTAATGGAACTACTTTGTACAT
TCTTGAAATTATGTATTTTGCTTTTTTTTTTTTTTGCTAGAACATGGGAATACGTAGTTACTTTA
GAACTAAGAGAAAGTAGGATAGGAATTTTGCTAATTCCATCTTATAAAACAAAACTAATTTATAG
TATTTGTGCCTCAAAAAAATTTGAGATTCACAGTGAACATGTTCTAACTTTATAGTATTTCT
Found at i:71735513 original size:18 final size:19
Alignment explanation
Indices: 71735490--71735534 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
71735480 TTTTTTACTA
71735490 ATAATTATAAATTAAAT-T
1 ATAATTATAAATTAAATAT
**
71735508 ATAATTAT-TTTTAAATAT
1 ATAATTATAAATTAAATAT
71735526 ATAATTATA
1 ATAATTATA
71735535 GTAACTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAATTATAAATTAAATAT
Found at i:71735583 original size:42 final size:44
Alignment explanation
Indices: 71735500--71735588 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 44
71735490 ATAATTATAA
* *
71735500 ATTAAATTATAATTATTTTTAAATATATAATTATAGTAACTTCT
1 ATTAAATTATAATTATTTTTAAATATATAACTATAGCAACTTCT
71735544 ATTAAATTATAATT-TTTTTAAA-ATATAACTATCA-CAACTTCT
1 ATTAAATTATAATTATTTTTAAATATATAACTAT-AGCAACTTCT
71735586 ATT
1 ATT
71735589 TTACATCAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
42 19 0.45
43 9 0.21
44 14 0.33
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.48
Consensus pattern (44 bp):
ATTAAATTATAATTATTTTTAAATATATAACTATAGCAACTTCT
Found at i:71753839 original size:16 final size:16
Alignment explanation
Indices: 71753818--71753858 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
71753808 CGTTTGGTTT
*
71753818 GCTGTAATTGAATAGA
1 GCTGTAATAGAATAGA
71753834 GCTGTAATAGAATAGA
1 GCTGTAATAGAATAGA
71753850 GCTGTAATA
1 GCTGTAATA
71753859 AGTAATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.29
Consensus pattern (16 bp):
GCTGTAATAGAATAGA
Found at i:71758665 original size:26 final size:27
Alignment explanation
Indices: 71758605--71758671 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
71758595 ACCTTTCTCT
71758605 GAGGCGCAAATGGTTGTGCCTATCCCA
1 GAGGCGCAAATGGTTGTGCCTATCCCA
71758632 GAGGCGCAAATGGTTGTGCCTAT-CCA
1 GAGGCGCAAATGGTTGTGCCTATCCCA
71758658 GAGGCGCAAATGGT
1 GAGGCGCAAATGGT
71758672 GGGGCCCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 17 0.43
27 23 0.57
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (27 bp):
GAGGCGCAAATGGTTGTGCCTATCCCA
Found at i:71764320 original size:42 final size:42
Alignment explanation
Indices: 71764234--71764347 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
71764224 ACCGCTATAG
* * ** * *
71764234 CAAACGTCGCTAAAGACCATAACCTTTAGCGGCTTCTTTTCA
1 CAAATGTCGCTAAAGACCATGACCTTTAGCAACTGCTTTCCA
*
71764276 CAAATGTCACTAAAGACCATGACCTTTAGCAAC-GCTTTCCCA
1 CAAATGTCGCTAAAGACCATGACCTTTAGCAACTGCTTT-CCA
* * *
71764318 CAAATGCCGTTAAAGACCATGACTTTTAGC
1 CAAATGTCGCTAAAGACCATGACCTTTAGC
71764348 GTCGCTTTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 4 0.07
42 56 0.93
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (42 bp):
CAAATGTCGCTAAAGACCATGACCTTTAGCAACTGCTTTCCA
Found at i:71765936 original size:168 final size:168
Alignment explanation
Indices: 71765653--71765994 Score: 639
Period size: 168 Copynumber: 2.0 Consensus size: 168
71765643 ATGGCATGTA
71765653 ACCACATTGCACCAATCTCGTTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
1 ACCACATTGCACCAATCTCGTTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
*
71765718 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATTAGACAGTTTGTAAATTTTCATTT
66 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATTAGACAGTTTGCAAATTTTCATTT
71765783 AAGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
131 AAGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
* * *
71765821 ACCATATTGCACCAATCTCGTTCCCTGATTTCAGCTTTTTTATTGAAAGAGAGAGCCTAACTTAG
1 ACCACATTGCACCAATCTCGTTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
71765886 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATTAGACAGTTTGCAAATTTTCATTT
66 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATTAGACAGTTTGCAAATTTTCATTT
*
71765951 AAGTTTAAATGATAAAAGAGCATATAGCAGAAGATCAT
131 AAGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
71765989 ACCACA
1 ACCACA
71765995 ATCAAATGCG
Statistics
Matches: 168, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (168 bp):
ACCACATTGCACCAATCTCGTTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATTAGACAGTTTGCAAATTTTCATTT
AAGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
Found at i:71768549 original size:93 final size:93
Alignment explanation
Indices: 71768390--71768575 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
71768380 GTCAAAACCC
*
71768390 CCAGAAGGAAAAACCACTCTAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
1 CCAGAAGGAAAAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
71768455 AAGAAAACCTAGAAAATAATTCCAATAA
66 AAGAAAACCTAGAAAATAATTCCAATAA
*
71768483 CCAGAAGGAACAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
1 CCAGAAGGAAAAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
71768548 AAGAAAACCTAGAAAATAATTCCAATAA
66 AAGAAAACCTAGAAAATAATTCCAATAA
71768576 AAAAGCCATA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.20
Consensus pattern (93 bp):
CCAGAAGGAAAAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
AAGAAAACCTAGAAAATAATTCCAATAA
Found at i:71769123 original size:42 final size:42
Alignment explanation
Indices: 71769076--71769175 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
71769066 TTTTAATGGC
* *
71769076 TTTTTGCGGCGTTTTCAACAAAAAGCGTCACTATAGTTTAA-T
1 TTTTTGCGGCGTTTTCAACAAAAA-CGCCACTATAATTTAATT
* * *
71769118 TTTTTGCGGCCTTTTTAATAAAAACGCCACTATAATTTAATT
1 TTTTTGCGGCGTTTTCAACAAAAACGCCACTATAATTTAATT
*
71769160 TTTTTGTGGCGTTTTC
1 TTTTTGCGGCGTTTTC
71769176 CTATTTAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 14 0.29
42 35 0.71
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (42 bp):
TTTTTGCGGCGTTTTCAACAAAAACGCCACTATAATTTAATT
Found at i:71769347 original size:6 final size:7
Alignment explanation
Indices: 71769337--71769364 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
71769327 ATATTTTAGT
71769337 TTTTTAA
1 TTTTTAA
71769344 TTTTTAA
1 TTTTTAA
71769351 TTTTTAA
1 TTTTTAA
71769358 TTTTTAA
1 TTTTTAA
71769365 AATTTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:71769347 original size:8 final size:8
Alignment explanation
Indices: 71769330--71769393 Score: 51
Period size: 9 Copynumber: 7.8 Consensus size: 8
71769320 ATATTAAATA
*
71769330 TTTTAGTT
1 TTTTAATT
71769338 TTTTAA-T
1 TTTTAATT
71769345 TTTTAA-T
1 TTTTAATT
71769352 TTTTAATT
1 TTTTAATT
*
71769360 TTTAAAATT
1 TTT-TAATT
71769369 TTTTGAATAT
1 TTTT-AAT-T
*
71769379 TTTTATAAT
1 TTTTA-ATT
71769388 TTTTAA
1 TTTTAA
71769394 ATTATCATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
7 14 0.30
8 10 0.21
9 17 0.36
10 6 0.13
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (8 bp):
TTTTAATT
Found at i:71769396 original size:8 final size:8
Alignment explanation
Indices: 71769323--71769396 Score: 55
Period size: 7 Copynumber: 8.9 Consensus size: 8
71769313 ATATTAAATA
71769323 TTAAATATT
1 TTAAAT-TT
*
71769332 TT-AGTTT
1 TTAAATTT
*
71769339 TTTAATTT
1 TTAAATTT
71769347 TT-AATTT
1 TTAAATTT
71769354 TT-AATTT
1 TTAAATTT
71769361 TTAAAATTTT
1 TT-AAA-TTT
71769371 TTGAATATTT
1 TT-AA-ATTT
71769381 TTATAATTT
1 TTA-AATTT
71769390 TTAAATT
1 TTAAATT
71769397 ATCATATAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
7 18 0.32
8 12 0.21
9 12 0.21
10 13 0.23
11 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:71769765 original size:29 final size:29
Alignment explanation
Indices: 71769728--71769796 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
71769718 TTTATATTGG
71769728 ATAAATATAAATATTTATGTATACAATAT
1 ATAAATATAAATATTTATGTATACAATAT
71769757 ATAAATATAAATATTTATGTATACAATAT
1 ATAAATATAAATATTTATGTATACAATAT
71769786 ATAAATATAAA
1 ATAAATATAAA
71769797 ATGACGTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (29 bp):
ATAAATATAAATATTTATGTATACAATAT
Found at i:71769812 original size:29 final size:29
Alignment explanation
Indices: 71769728--71769813 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
71769718 TTTATATTGG
* *
71769728 ATAAATATAAATATTTATGTATACAATAT
1 ATAAATATAAATATTGACGTATACAATAT
* *
71769757 ATAAATATAAATATTTATGTATACAATAT
1 ATAAATATAAATATTGACGTATACAATAT
71769786 ATAAATATAAA-A-TGACGTTATATCAATA
1 ATAAATATAAATATTGACG-TATA-CAATA
71769814 ATTGTGTTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
27 3 0.06
28 5 0.09
29 45 0.85
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (29 bp):
ATAAATATAAATATTGACGTATACAATAT
Found at i:71769974 original size:7 final size:7
Alignment explanation
Indices: 71769964--71770058 Score: 50
Period size: 7 Copynumber: 13.4 Consensus size: 7
71769954 CCCAAACCCC
71769964 TAAACCA
1 TAAACCA
71769971 TAAACCA
1 TAAACCA
*
71769978 TAATCCA
1 TAAACCA
*
71769985 TAAACCT
1 TAAACCA
71769992 TAAA--A
1 TAAACCA
71769997 TAACAACTCA
1 T-A-AAC-CA
* **
71770007 TACACTT
1 TAAACCA
*
71770014 TAAACCT
1 TAAACCA
71770021 TAAACCA
1 TAAACCA
* *
71770028 TATACCC
1 TAAACCA
*
71770035 TAAATCA
1 TAAACCA
*
71770042 TAAACCC
1 TAAACCA
*
71770049 TAAACTA
1 TAAACCA
71770056 TAA
1 TAA
71770059 TGATAATTAA
Statistics
Matches: 64, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
5 1 0.02
6 1 0.02
7 57 0.89
8 2 0.03
9 1 0.02
10 2 0.03
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:71770302 original size:15 final size:15
Alignment explanation
Indices: 71770278--71770312 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
71770268 AAACCACCAT
*
71770278 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
71770292 TAAACCCATAATCCA
1 TAAACCCATAATCCA
71770307 TAAACC
1 TAAACC
71770313 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:71770346 original size:21 final size:21
Alignment explanation
Indices: 71770322--71770372 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
71770312 CTTAAAATAG
71770322 TAACCATAAACAT-TAAACCCT
1 TAACCATAAAC-TGTAAACCCT
*
71770343 TAACCATATACTGTAAACCCT
1 TAACCATAAACTGTAAACCCT
* *
71770364 AAACTATAA
1 TAACCATAA
71770373 TGATAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.47, C:0.25, G:0.02, T:0.25
Consensus pattern (21 bp):
TAACCATAAACTGTAAACCCT
Found at i:71770791 original size:76 final size:76
Alignment explanation
Indices: 71770670--71770847 Score: 243
Period size: 76 Copynumber: 2.3 Consensus size: 76
71770660 ATTTTTTGTG
* * * * * *
71770670 GCGTTTTTCAAAAAGCGCTGCTATAGTCACTAAAAGCTCATTACAAAACG-CTGGCGTTTTGCAA
1 GCGTTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACGAC-AGCGTTTTGCAA
*
71770734 AATTCTTTTGCT
65 AATTCTTTTGCA
* *
71770746 GCGTTTTTTGAAAAA-CGCCGCTAAAGCCATTAAAAGCTCAATACAAAACGACAGTGTTTTGCAA
1 GCGTTTTTT-AAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACGACAGCGTTTTGCAA
71770810 AATTCTTTTGCA
65 AATTCTTTTGCA
71770822 GCGTTTTTTAAAAAGCGCCGCTAAAG
1 GCGTTTTTTAAAAAGCGCCGCTAAAG
71770848 GTGTACCTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
75 5 0.06
76 79 0.88
77 6 0.07
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (76 bp):
GCGTTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACGACAGCGTTTTGCAAA
ATTCTTTTGCA
Found at i:71770901 original size:40 final size:40
Alignment explanation
Indices: 71770811--71770948 Score: 143
Period size: 40 Copynumber: 3.5 Consensus size: 40
71770801 GTTTTGCAAA
* * * *
71770811 ATTCTTTTGCAGCGTTTTTTAAAAAGCGCCGCTAAAGGTGT
1 ATTCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCT-T
* * *
71770852 A-CCTATAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTT
1 ATTCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTT
* ** *
71770891 ATTCTTTAGCGGTGTTTTTCGAAAAGCGCCGCTAATGCTC
1 ATTCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTT
* *
71770931 ATTTTTTAACGGCGTTTT
1 ATTCTTTAGCGGCGTTTT
71770949 CATTTAAACG
Statistics
Matches: 79, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
39 2 0.03
40 76 0.96
41 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (40 bp):
ATTCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTT
Found at i:71772282 original size:9 final size:10
Alignment explanation
Indices: 71772250--71772298 Score: 64
Period size: 10 Copynumber: 4.7 Consensus size: 10
71772240 AAAAAGGTTA
71772250 CATTTTTTTT
1 CATTTTTTTT
71772260 CATTTTTTGATTT
1 CA-TTTTT--TTT
71772273 C-TTTTTTTT
1 CATTTTTTTT
71772282 CATTTTTTTT
1 CATTTTTTTT
71772292 CATTTTT
1 CATTTTT
71772299 GATTTTGCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 4 0.11
10 17 0.49
11 10 0.29
13 4 0.11
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (10 bp):
CATTTTTTTT
Found at i:71772774 original size:12 final size:12
Alignment explanation
Indices: 71772757--71772864 Score: 59
Period size: 12 Copynumber: 8.8 Consensus size: 12
71772747 TTTTTTGTTG
*
71772757 TTTATATTTTTA
1 TTTATATTATTA
71772769 TTTATATTATTA
1 TTTATATTATTA
71772781 TTAGTATCATTATTA
1 TT--TAT-ATTATTA
71772796 -TTATTATTATTA
1 TTTA-TATTATTA
71772808 -TTATTATTATCTCA
1 TTTA-TATTAT-T-A
*
71772822 GTTACTATTATTA
1 TTTA-TATTATTA
71772835 TTT-T-TTA-TA
1 TTTATATTATTA
71772844 -TTACTATTATT-
1 TTTA-TATTATTA
*
71772855 GTTATATTAT
1 TTTATATTAT
71772865 CACTATTTTT
Statistics
Matches: 81, Mismatches: 3, Indels: 25
0.74 0.03 0.23
Matches are distributed among these distances:
8 2 0.02
9 2 0.02
10 4 0.05
11 10 0.12
12 36 0.44
13 5 0.06
14 6 0.07
15 16 0.20
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:71772782 original size:18 final size:18
Alignment explanation
Indices: 71772773--71772918 Score: 88
Period size: 18 Copynumber: 8.1 Consensus size: 18
71772763 TTTTTATTTA
*
71772773 TATTATTATTAGTA-TCAT
1 TATTATTATTATTACT-AT
*
71772791 TATTATTATTATTATTAT
1 TATTATTATTATTACTAT
71772809 TATTATTATCTCAGTTACTAT
1 TATTATTAT-T-A-TTACTAT
71772830 TATTATT-TT-TTA-TAT
1 TATTATTATTATTACTAT
* *
71772845 TACTATTATTGTTA-TAT
1 TATTATTATTATTACTAT
* *
71772862 TATCACTATTTTTCTTACTAT
1 TAT---TATTATTATTACTAT
* **
71772883 TATTATTACTACAACTAT
1 TATTATTATTATTACTAT
* *
71772901 TATTACTATGATTA-TAT
1 TATTATTATTATTACTAT
71772918 T
1 T
71772919 TTCTTTTTAT
Statistics
Matches: 102, Mismatches: 16, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
15 9 0.09
16 5 0.05
17 12 0.12
18 43 0.42
19 3 0.03
20 11 0.11
21 19 0.19
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.58
Consensus pattern (18 bp):
TATTATTATTATTACTAT
Found at i:71772871 original size:20 final size:21
Alignment explanation
Indices: 71772846--71772885 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
71772836 TTTTTATATT
*
71772846 ACTATTATTGTTA-TATTATC
1 ACTATTATTCTTACTATTATC
*
71772866 ACTATTTTTCTTACTATTAT
1 ACTATTATTCTTACTATTAT
71772886 TATTACTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
ACTATTATTCTTACTATTATC
Done.