Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 342 of 345
Found at i:101906912 original size:43 final size:43
Alignment explanation
Indices: 101906856--101907010 Score: 240
Period size: 43 Copynumber: 3.6 Consensus size: 43
101906846 GCTGGTATTA
* *
101906856 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGTCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
101906899 TATTCGATCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGTCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
101906942 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCAGTGATGTG
1 TATTCGGTCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
101906985 TATTCGGGT-CTTCGTGCCTAGCAGGC
1 TATTC-GGTCCTTCGTGCCTAGCAGGC
101907011 GTAATGCTTG
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 100 0.98
44 2 0.02
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGTCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:101907407 original size:45 final size:42
Alignment explanation
Indices: 101907340--101907447 Score: 137
Period size: 45 Copynumber: 2.5 Consensus size: 42
101907330 TTGACTTGAT
* *
101907340 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
*
101907385 TATTCGGGCCTTCGAGCCTAGCAAGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
101907427 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
101907448 ACAGGCAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.22
44 7 0.12
45 35 0.60
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:101909191 original size:13 final size:13
Alignment explanation
Indices: 101909151--101909191 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
101909141 AAAGCATATA
101909151 AATATTTAAACAT
1 AATATTTAAACAT
101909164 AAT-TCTTCAAA-AT
1 AATAT-TT-AAACAT
101909177 AATATTTAAACAT
1 AATATTTAAACAT
101909190 AA
1 AA
101909192 AATAGATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.17
13 16 0.67
14 4 0.17
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATTTAAACAT
Found at i:101909745 original size:2 final size:2
Alignment explanation
Indices: 101909738--101909765 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
101909728 AGTAGTGTAC
101909738 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101909766 TTAAATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101912766 original size:12 final size:12
Alignment explanation
Indices: 101912721--101912771 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
101912711 TGTGTTAAAA
*
101912721 TATATATTAAAT
1 TATATATTATAT
101912733 TAT-TATTATA-
1 TATATATTATAT
**
101912743 T-TATGGTATAT
1 TATATATTATAT
101912754 TATATATTATAT
1 TATATATTATAT
101912766 TATATA
1 TATATA
101912772 AATAAGTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
9 1 0.03
10 6 0.19
11 7 0.23
12 17 0.55
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:101912797 original size:10 final size:10
Alignment explanation
Indices: 101912782--101912829 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
101912772 AATAAGTAAA
101912782 GAAACAGAAT
1 GAAACAGAAT
101912792 GAAACAGAAT
1 GAAACAGAAT
*
101912802 GAAAGCA-AAC
1 GAAA-CAGAAT
*
101912812 GAAACAGAGAA
1 GAAACAGA-AT
101912823 GAAACAG
1 GAAACAG
101912830 GGAGAAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 2 0.06
10 21 0.64
11 10 0.30
ACGTcount: A:0.60, C:0.12, G:0.23, T:0.04
Consensus pattern (10 bp):
GAAACAGAAT
Found at i:101914106 original size:18 final size:19
Alignment explanation
Indices: 101914085--101914123 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
101914075 ATATATAGAT
101914085 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
101914103 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
101914122 AT
1 AT
101914124 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:101914473 original size:39 final size:39
Alignment explanation
Indices: 101914363--101914497 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
101914353 GACCTCGAGT
* * * *
101914363 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
101914404 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
101914442 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
101914481 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
101914498 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:101914641 original size:18 final size:19
Alignment explanation
Indices: 101914620--101914660 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
101914610 AATGAAATGA
101914620 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
101914638 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
101914657 GAAA
1 GAAA
101914661 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:101919171 original size:5 final size:5
Alignment explanation
Indices: 101919150--101919197 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
101919140 TGTTAAAATA
* *
101919150 TATAT TAAAT TATTAT TATAT TATAG TATATT ATATAT TATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATA-T -TATAT TATAT TATAT
101919198 AAATAAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 27 0.75
6 5 0.14
7 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:101919191 original size:12 final size:12
Alignment explanation
Indices: 101919148--101919198 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
101919138 TGTGTTAAAA
*
101919148 TATATATTAAAT
1 TATATATTATAT
101919160 TAT-TATTATA-
1 TATATATTATAT
*
101919170 T-TATAGTATAT
1 TATATATTATAT
101919181 TATATATTATAT
1 TATATATTATAT
101919193 TATATA
1 TATATA
101919199 AATAAGTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 1 0.03
10 7 0.21
11 7 0.21
12 18 0.55
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:101920537 original size:18 final size:19
Alignment explanation
Indices: 101920516--101920554 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
101920506 ATATATAGAT
101920516 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
101920534 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
101920553 AT
1 AT
101920555 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:101920904 original size:39 final size:39
Alignment explanation
Indices: 101920794--101920928 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
101920784 GACCTCGAGT
* * * *
101920794 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
101920835 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
101920873 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
101920912 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
101920929 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:101921072 original size:18 final size:19
Alignment explanation
Indices: 101921051--101921091 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
101921041 AATGAAATGA
101921051 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
101921069 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
101921088 GAAA
1 GAAA
101921092 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:101934747 original size:35 final size:35
Alignment explanation
Indices: 101934703--101934774 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
101934693 ATTTGACCAA
*
101934703 TAAATTTGTATTAAAAGAAATTCTCATTAAATTCT
1 TAAATTTGTATTAAAAGAAACTCTCATTAAATTCT
101934738 TAAATTTGTATTAAAAGAAACTCTCATTAAATTCT
1 TAAATTTGTATTAAAAGAAACTCTCATTAAATTCT
101934773 TA
1 TA
101934775 CATGTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.42
Consensus pattern (35 bp):
TAAATTTGTATTAAAAGAAACTCTCATTAAATTCT
Found at i:101940540 original size:26 final size:26
Alignment explanation
Indices: 101940511--101940562 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
101940501 TGTCTTTAGT
101940511 TTTGGACTAGATTATTAAAACTAAAA
1 TTTGGACTAGATTATTAAAACTAAAA
101940537 TTTGGACTAGATTATTAAAACTAAAA
1 TTTGGACTAGATTATTAAAACTAAAA
101940563 ACAAAGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (26 bp):
TTTGGACTAGATTATTAAAACTAAAA
Found at i:101945752 original size:27 final size:27
Alignment explanation
Indices: 101945704--101945844 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
101945694 GTGACGAAGT
*
101945704 CACCAGATATAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
*
101945731 CACTAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
101945758 CACCAGATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
101945785 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* * *
101945812 CACCAGATCAGATA-ATTGTGGTATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
101945839 CACCAG
1 CACCAG
101945845 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 88 0.88
28 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:101945779 original size:54 final size:54
Alignment explanation
Indices: 101945704--101945844 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
101945694 GTGACGAAGT
* * *
101945704 CACCAGATATAGAT-ATTGTGGCAGAGCCACTAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
101945758 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
101945812 CACCAGATCAGATAATTGTGGTATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
101945845 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 4 0.05
54 76 0.95
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:101947080 original size:26 final size:26
Alignment explanation
Indices: 101947049--101947156 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
101947039 TGAAATTCCC
*
101947049 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
101947075 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
101947101 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
101947127 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
101947153 ATCA
1 ATCA
101947157 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:101948947 original size:23 final size:21
Alignment explanation
Indices: 101948905--101948956 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
101948895 CGTACGGTAC
101948905 TAGAGAGAGAAAGGGGGAGAG
1 TAGAGAGAGAAAGGGGGAGAG
*
101948926 TAGAGAGAGAAAGGGGTAGAG
1 TAGAGAGAGAAAGGGGGAGAG
101948947 -AGAGA-AGAAA
1 TAGAGAGAGAAA
101948957 ACAAAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 5 0.17
20 5 0.17
21 20 0.67
ACGTcount: A:0.48, C:0.00, G:0.46, T:0.06
Consensus pattern (21 bp):
TAGAGAGAGAAAGGGGGAGAG
Found at i:101951902 original size:13 final size:12
Alignment explanation
Indices: 101951870--101951895 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
101951860 TATGCGTTTA
101951870 ATCTTTGTTTTT
1 ATCTTTGTTTTT
101951882 ATCTTTGTTTTT
1 ATCTTTGTTTTT
101951894 AT
1 AT
101951896 TGTTTGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (12 bp):
ATCTTTGTTTTT
Found at i:101960106 original size:4 final size:4
Alignment explanation
Indices: 101960097--101960135 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
101960087 TGATGGTAGC
* *
101960097 TATG TATG TATG TATG TATG TTTG CATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
101960136 TACATTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:101961419 original size:96 final size:101
Alignment explanation
Indices: 101961271--101961466 Score: 255
Period size: 96 Copynumber: 2.0 Consensus size: 101
101961261 AGTTTTTTTT
*
101961271 AATTAATAACTCTTTAATTTATAAAATCAAATAATAAATATGTAATTATATAT-T-AAAATATAT
1 AATTAATAACTCTTTAATTTATAAAATCAAATAATAAATATATAATTATATATATAAAAATATAT
* *
101961334 -ATTTT-ATATATATTATTATGTTAAA-ATATTTGA
66 AATTTTGATATATATCATTATATTAAATATATTTGA
*
101961367 AATTAATAACTCCTTT-ATTTATATAAAT-AAATTAATAATTATAATAATTATATA-ATAAAAAT
1 AATTAATAACT-CTTTAATTTATA-AAATCAAA-TAATAAATAT-ATAATTATATATATAAAAAT
*
101961429 ATATAATTTTGATATTTATCATTATATTAAATATATTT
62 ATATAATTTTGATATATATCATTATATTAAATATATTT
101961467 TATTTTTTAA
Statistics
Matches: 86, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
96 21 0.24
97 17 0.20
98 11 0.13
99 9 0.10
100 5 0.06
101 17 0.20
102 6 0.07
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (101 bp):
AATTAATAACTCTTTAATTTATAAAATCAAATAATAAATATATAATTATATATATAAAAATATAT
AATTTTGATATATATCATTATATTAAATATATTTGA
Found at i:101961954 original size:13 final size:13
Alignment explanation
Indices: 101961936--101961960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101961926 AAATATATTT
101961936 ATTAATTAAAAAC
1 ATTAATTAAAAAC
101961949 ATTAATTAAAAA
1 ATTAATTAAAAA
101961961 TAAAAAATTG
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:101970259 original size:40 final size:40
Alignment explanation
Indices: 101970214--101970300 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
101970204 ATCAGATCGA
101970214 ATCTAAATAGAGGGAAATGCCCGTAAATCTCTTACGTTTG
1 ATCTAAATAGAGGGAAATGCCCGTAAATCTCTTACGTTTG
101970254 ATCTAAATAGAGGGAAATGCCCGTAAATCTCTTACGTTTG
1 ATCTAAATAGAGGGAAATGCCCGTAAATCTCTTACGTTTG
*
101970294 AACTAAA
1 ATCTAAA
101970301 CTTAAACTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (40 bp):
ATCTAAATAGAGGGAAATGCCCGTAAATCTCTTACGTTTG
Found at i:101974148 original size:3 final size:3
Alignment explanation
Indices: 101974142--101974188 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
101974132 AAAACTGTAT
101974142 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
101974189 GATGGGTTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:101974502 original size:25 final size:23
Alignment explanation
Indices: 101974473--101974534 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
101974463 ATATGAATAT
* *
101974473 ATGATTTATAATTGATATGCTAAAA
1 ATGATATATAATTGA-ATG-AAAAA
101974498 ATGATATATAACTTGAATGAAAAA
1 ATGATATATAA-TTGAATGAAAAA
* *
101974522 ATTATGTATAATT
1 ATGATATATAATT
101974535 TAAATTGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 13 0.41
25 13 0.41
26 4 0.12
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (23 bp):
ATGATATATAATTGAATGAAAAA
Found at i:101981346 original size:28 final size:28
Alignment explanation
Indices: 101981306--101981361 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
101981296 ATACGTCGCA
101981306 CCGTAGGCATTAATGGTGCTTCTGTTGT
1 CCGTAGGCATTAATGGTGCTTCTGTTGT
*
101981334 CCGTAGGCATTAATGGTGTTTCTGTTGT
1 CCGTAGGCATTAATGGTGCTTCTGTTGT
101981362 TCAACTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.14, C:0.16, G:0.29, T:0.41
Consensus pattern (28 bp):
CCGTAGGCATTAATGGTGCTTCTGTTGT
Found at i:101983581 original size:37 final size:37
Alignment explanation
Indices: 101983531--101983653 Score: 237
Period size: 37 Copynumber: 3.3 Consensus size: 37
101983521 TTATTACGAA
*
101983531 GTCTTACCCGGACATAATCTCTACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
101983568 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
101983605 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
101983642 GTCTTACCCGGA
1 GTCTTACCCGGA
101983654 ATATATTTCC
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 85 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:101983754 original size:48 final size:48
Alignment explanation
Indices: 101983698--101983823 Score: 225
Period size: 48 Copynumber: 2.6 Consensus size: 48
101983688 TGTTACAACA
*
101983698 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
101983746 TTCACATTAGCCATTTGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
101983794 TTCACATTAGCCATTCGGCTTTACCACATA
1 TTCACATTAGCCATTCGGCTTTACCACATA
101983824 ATTACACTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:101985349 original size:13 final size:13
Alignment explanation
Indices: 101985331--101985355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101985321 CACTAAATTT
101985331 TCATGGATTCAAA
1 TCATGGATTCAAA
101985344 TCATGGATTCAA
1 TCATGGATTCAA
101985356 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:101993122 original size:9 final size:8
Alignment explanation
Indices: 101993072--101993119 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
101993062 GTTATTATAT
101993072 TTTTTTTA
1 TTTTTTTA
101993080 TTTTTTTA
1 TTTTTTTA
*
101993088 CTTTTTTA
1 TTTTTTTA
*
101993096 CTTTTTTAA
1 -TTTTTTTA
*
101993105 CTTTTTTA
1 TTTTTTTA
101993113 TTTTTTT
1 TTTTTTT
101993120 TATATTTTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
8 27 0.82
9 6 0.18
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTA
Found at i:101993127 original size:9 final size:9
Alignment explanation
Indices: 101993066--101993127 Score: 58
Period size: 9 Copynumber: 7.0 Consensus size: 9
101993056 TGTCAAGTTA
101993066 TTATATTTT
1 TTATATTTT
*
101993075 TTTTATTTT
1 TTATATTTT
101993084 TT-TACTTTT
1 TTATA-TTTT
*
101993093 TTA-CTTTT
1 TTATATTTT
101993101 TTA-ACTTTT
1 TTATA-TTTT
*
101993110 TTATTTTTT
1 TTATATTTT
101993119 TTATATTTT
1 TTATATTTT
101993128 GTCTCTTTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 9 0.20
9 35 0.80
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATATTTT
Found at i:101993127 original size:17 final size:16
Alignment explanation
Indices: 101993073--101993119 Score: 76
Period size: 17 Copynumber: 2.9 Consensus size: 16
101993063 TTATTATATT
101993073 TTTTTTATTTTTTTAC
1 TTTTTTATTTTTTTAC
*
101993089 TTTTTTACTTTTTTAAC
1 TTTTTTA-TTTTTTTAC
101993106 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
101993120 TATATTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTATTTTTTTAC
Found at i:101993162 original size:17 final size:17
Alignment explanation
Indices: 101993072--101993162 Score: 69
Period size: 17 Copynumber: 5.2 Consensus size: 17
101993062 GTTATTATAT
* *
101993072 TTTTTTTATTTTTTTAC
1 TTTTTTTCTTTTTTAAC
*
101993089 TTTTTTACTTTTTTAAC
1 TTTTTTTCTTTTTTAAC
*
101993106 TTTTTTATTTTTTTTATA-
1 TTTTTT-TCTTTTTTA-AC
* *
101993124 TTTTGTCTCTTTCTTAGA-
1 TTTT-TTTCTTTTTTA-AC
*
101993142 TTTTTTTCTTTTTTAAG
1 TTTTTTTCTTTTTTAAC
101993159 TTTT
1 TTTT
101993163 ATATTATTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
16 1 0.02
17 33 0.56
18 23 0.39
19 2 0.03
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTTCTTTTTTAAC
Found at i:101993211 original size:18 final size:17
Alignment explanation
Indices: 101993160--101993207 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
101993150 TTTTTTAAGT
*
101993160 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
101993178 TTTATCTTACTTATTTAA
1 TTTATATTA-TTATTTAA
101993196 TTTATATTATTA
1 TTTATATTATTA
101993208 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:101993946 original size:8 final size:8
Alignment explanation
Indices: 101993933--101993959 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
101993923 TAATAATATA
101993933 AAACATTT
1 AAACATTT
101993941 AAACATTT
1 AAACATTT
101993949 AAACATTT
1 AAACATTT
101993957 AAA
1 AAA
101993960 TTTTAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (8 bp):
AAACATTT
Found at i:101994073 original size:10 final size:9
Alignment explanation
Indices: 101994055--101994143 Score: 63
Period size: 10 Copynumber: 9.4 Consensus size: 9
101994045 TAAAATTTAA
101994055 AAAATATTT
1 AAAATATTT
101994064 AAAATCATTT
1 AAAAT-ATTT
*
101994074 AAAATATTAA
1 AAAATATT-T
101994084 AAAATATTT
1 AAAATATTT
*
101994093 TAAATCATTT
1 AAAAT-ATTT
* *
101994103 TAAATGTTTT
1 AAAAT-ATTT
* *
101994113 ATAATATTA
1 AAAATATTT
101994122 AAAATATATT
1 AAAATAT-TT
*
101994132 -TAATATTT
1 AAAATATTT
101994140 AAAA
1 AAAA
101994144 AATAATTTGA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
8 2 0.03
9 27 0.44
10 33 0.53
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (9 bp):
AAAATATTT
Found at i:101994079 original size:19 final size:18
Alignment explanation
Indices: 101994055--101994143 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 18
101994045 TAAAATTTAA
101994055 AAAATATTTAAAATCATTT
1 AAAATATTTAAAAT-ATTT
*
101994074 AAAATATTAAAAAATATTT
1 AAAATATT-TAAAATATTT
* * *
101994093 TAAATCATTTTAAATGTTTT
1 AAAAT-ATTTAAAAT-ATTT
* *
101994113 ATAATATTAAAAATATATT
1 AAAATATTTAAAATAT-TT
*
101994132 -TAATATTTAAAA
1 AAAATATTTAAAA
101994144 AATAATTTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 12 0.22
19 29 0.53
20 14 0.25
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (18 bp):
AAAATATTTAAAATATTT
Found at i:101994083 original size:29 final size:28
Alignment explanation
Indices: 101994045--101994157 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 28
101994035 AAATTCTATG
101994045 TAAAATTTAAAAAATATTTAAAATCATT
1 TAAAATTTAAAAAATATTTAAAATCATT
*
101994073 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAAT-TTAAAAAATATTTAAAATCATT
* ** * * *
101994102 TTAAATGTTTTATAATATTAAAAATATATT
1 TAAAAT-TTAAAAAATATTTAAAAT-CATT
*
101994132 TAATATTTAAAAAATAATTTGAAAAT
1 TAAAATTTAAAAAAT-ATTT-AAAAT
101994158 ATATTTTTAA
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 6 0.09
29 45 0.68
30 10 0.15
31 5 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
TAAAATTTAAAAAATATTTAAAATCATT
Found at i:101994160 original size:31 final size:34
Alignment explanation
Indices: 101994113--101994201 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
101994103 TAAATGTTTT
101994113 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
101994145 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTATAAAA
* *
101994179 AAATATATTATAAA-ATATTTTAA
1 ATA-ATATTAAAAATATATTTTAA
101994202 AAAATACATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
31 10 0.21
32 5 0.10
33 11 0.23
34 12 0.25
35 5 0.10
36 5 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:101994172 original size:33 final size:33
Alignment explanation
Indices: 101994113--101994201 Score: 103
Period size: 33 Copynumber: 2.7 Consensus size: 33
101994103 TAAATGTTTT
101994113 ATAATATTAAAAATATATTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTAATATTTATAAAA
*
101994145 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATT-AAAA-ATATATTTAATATTTATAAAA
*
101994179 AAATATATTATAAAATAT-TTTAA
1 ATA-ATATTA-AAAATATATTTAA
101994202 AAAATACATT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
31 2 0.04
32 9 0.18
33 15 0.31
34 11 0.22
35 7 0.14
36 5 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (33 bp):
ATAATATTAAAAATATATTTAATATTTATAAAA
Found at i:101994187 original size:25 final size:25
Alignment explanation
Indices: 101994153--101994205 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
101994143 AAATAATTTG
**
101994153 AAAATATATT-TTTAATATTTATAAA
1 AAAATATATTATAAAATATTT-TAAA
101994178 AAAATATATTATAAAATATTTTAAA
1 AAAATATATTATAAAATATTTTAAA
101994203 AAA
1 AAA
101994206 TACATTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AAAATATATTATAAAATATTTTAAA
Found at i:101997712 original size:30 final size:30
Alignment explanation
Indices: 101997660--101997752 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
101997650 GGTCAAATGG
* * *
101997660 ACTCAAACCGCCTATATCCGGGTGATATGA
1 ACTCAAACCACCCATGTCCGGGTGATATGA
*
101997690 ACTCGAACCACCCATGTCCGGGTGATATGA
1 ACTCAAACCACCCATGTCCGGGTGATATGA
* *
101997720 ACTCAAACCACCTATGTCCGGGTTATATGA
1 ACTCAAACCACCCATGTCCGGGTGATATGA
101997750 ACT
1 ACT
101997753 GCTCTGGAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (30 bp):
ACTCAAACCACCCATGTCCGGGTGATATGA
Found at i:102000755 original size:2 final size:2
Alignment explanation
Indices: 102000748--102000773 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
102000738 ATTATAATAA
102000748 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
102000774 TTAATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102000851 original size:21 final size:21
Alignment explanation
Indices: 102000823--102000866 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
102000813 TTAAAAAAAG
102000823 AATTT-AAAAATAATATT-TAA
1 AATTTAAAAAAT-ATATTATAA
102000843 AATTGTAAAAAATATATTATAA
1 AATT-TAAAAAATATATTATAA
102000865 AA
1 AA
102000867 CATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTTAAAAAATATATTATAA
Found at i:102001032 original size:25 final size:27
Alignment explanation
Indices: 102000988--102001052 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 27
102000978 TTTAAAAAAA
* *
102000988 TATTTAAAATATTATGATTTCTTATAT-
1 TATTTAAAA-ATTATAATTTCTTAAATG
*
102001015 TA-TTAAAAATTATAATTTTTTAAATG
1 TATTTAAAAATTATAATTTCTTAAATG
102001041 TATTTAAAAATT
1 TATTTAAAAATT
102001053 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 14 0.42
26 8 0.24
27 11 0.33
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (27 bp):
TATTTAAAAATTATAATTTCTTAAATG
Found at i:102001253 original size:19 final size:18
Alignment explanation
Indices: 102001226--102001269 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
102001216 ATAAAATAAT
*
102001226 ATTTAATATATATTTTTAAA
1 ATTT-ATATATATATTT-AA
*
102001246 ATTTATATTTATATTTAA
1 ATTTATATATATATTTAA
102001264 ATTTAT
1 ATTTAT
102001270 TAATATCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 10 0.45
20 4 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTATATATATATTTAA
Found at i:102001268 original size:25 final size:26
Alignment explanation
Indices: 102001202--102001269 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
102001192 AAAAAAAAAA
102001202 TATATTTAATATTTATAAAATAATATT
1 TATATTTAA-ATTTATAAAATAATATT
* * * *
102001229 TA-ATATATATTTTTAAAATTTATATT
1 TATATTTAAATTTATAAAA-TAATATT
102001255 TATATTTAAATTTAT
1 TATATTTAAATTTAT
102001270 TAATATCACA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
25 9 0.28
26 12 0.38
27 11 0.34
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TATATTTAAATTTATAAAATAATATT
Found at i:102001340 original size:7 final size:7
Alignment explanation
Indices: 102001328--102001354 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
102001318 TATATATTAA
102001328 TTTAAAC
1 TTTAAAC
102001335 TTTAAAC
1 TTTAAAC
102001342 TTTAAAC
1 TTTAAAC
102001349 TTTAAA
1 TTTAAA
102001355 TATATATACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (7 bp):
TTTAAAC
Found at i:102001566 original size:21 final size:21
Alignment explanation
Indices: 102001541--102001627 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 21
102001531 TAAAAAATAT
102001541 TTTTAAAAATAATAATTAAAA
1 TTTTAAAAATAATAATTAAAA
*
102001562 TTTTAAAAA-AATATTATAAAACA
1 TTTTAAAAATAATA--ATTAAA-A
*
102001585 TTTTAAATAT-AT-ATTACAAA
1 TTTTAAAAATAATAATTA-AAA
*
102001605 TTTTTTAAAATTAATAATATAAA
1 --TTTTAAAAATAATAAT-TAAA
102001628 TTAAATAAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
20 8 0.16
21 11 0.22
22 13 0.25
23 13 0.25
24 4 0.08
25 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTTAAAAATAATAATTAAAA
Found at i:102001628 original size:23 final size:22
Alignment explanation
Indices: 102001539--102001629 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
102001529 GTTAAAAAAT
*
102001539 ATTTTTAAAAATAATAAT-TAA
1 ATTTTTTAAAATAATAATATAA
* * *
102001560 A-ATTTTAAAAAAATATTATAAA
1 ATTTTTTAAAATAATAATAT-AA
** * *
102001582 ACATTTT-AAATATATATTACAA
1 ATTTTTTAAAATA-ATAATATAA
102001604 ATTTTTTAAAATTAATAATATAA
1 ATTTTTTAAAA-TAATAATATAA
102001627 ATT
1 ATT
102001630 AAATAAGCAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
20 12 0.22
21 2 0.04
22 14 0.26
23 24 0.44
24 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTTTAAAATAATAATATAA
Found at i:102001657 original size:36 final size:36
Alignment explanation
Indices: 102001617--102001689 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
102001607 TTTTAAAATT
* *
102001617 AATAATAT-AAA-TTAAATAAGCAAAATAAATTAAGAA
1 AATAATATAAAACTAAAAAAAG-AAAA-AAATTAAGAA
102001653 AATAATATAAAACTAAAAAAAGAAAAAAATTAAGAA
1 AATAATATAAAACTAAAAAAAGAAAAAAATTAAGAA
102001689 A
1 A
102001690 GAGACAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 19 0.58
37 7 0.21
38 7 0.21
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (36 bp):
AATAATATAAAACTAAAAAAAGAAAAAAATTAAGAA
Found at i:102001662 original size:18 final size:18
Alignment explanation
Indices: 102001612--102001663 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
102001602 AAATTTTTTA
*
102001612 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
102001630 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
102001648 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
102001664 ACTAAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:102003598 original size:2 final size:2
Alignment explanation
Indices: 102003591--102003625 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
102003581 TAAACTTAAA
102003591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
102003626 ACTTGATATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:102007723 original size:10 final size:10
Alignment explanation
Indices: 102007710--102007812 Score: 64
Period size: 10 Copynumber: 9.5 Consensus size: 10
102007700 CAAAAATTAC
102007710 AAAAAAATTT
1 AAAAAAATTT
*
102007720 AAAATAATTT
1 AAAAAAATTT
**
102007730 TTAAAAATTAT
1 AAAAAAATT-T
*
102007741 AAAACTTATATTTT
1 AAAA---A-AATTT
*
102007755 TAAAAAATTAT
1 AAAAAAATT-T
102007766 AATAAAAATTCT
1 AA-AAAAATT-T
*
102007778 AAAAAATATGT
1 AAAAAA-ATTT
102007789 AAAAAAATTT
1 AAAAAAATTT
102007799 -AAAAAATTT
1 AAAAAAATTT
102007808 AAAAA
1 AAAAA
102007813 TTTCTAAAAC
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
9 9 0.13
10 25 0.35
11 17 0.24
12 12 0.17
14 5 0.07
15 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:102007761 original size:25 final size:22
Alignment explanation
Indices: 102007711--102007811 Score: 79
Period size: 22 Copynumber: 4.6 Consensus size: 22
102007701 AAAAATTACA
102007711 AAAAAATT-TAAAATAATTTTT
1 AAAAAATTATAAAATAATTTTT
102007732 -AAAAATTATAAAACTTATATTTTT
1 AAAAAATTATAAAA--TA-ATTTTT
* *
102007756 AAAAAATTATAATAA-AAATTCT
1 AAAAAATTATAA-AATAATTTTT
* *
102007778 AAAAAATATGTAAAA-AA-ATTT
1 AAAAAAT-TATAAAATAATTTTT
102007799 AAAAAATT-TAAAA
1 AAAAAATTATAAAA
102007812 ATTTCTAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
19 5 0.07
20 8 0.12
21 14 0.21
22 15 0.22
23 7 0.10
24 6 0.09
25 11 0.16
26 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (22 bp):
AAAAAATTATAAAATAATTTTT
Found at i:102007793 original size:12 final size:10
Alignment explanation
Indices: 102007756--102007812 Score: 62
Period size: 11 Copynumber: 5.4 Consensus size: 10
102007746 TTATATTTTT
102007756 AAAAAATTATA
1 AAAAAATT-TA
102007767 ATAAAAATTCTA
1 A-AAAAATT-TA
*
102007779 AAAAATATGTA
1 AAAAA-ATTTA
102007790 AAAAAATTT-
1 AAAAAATTTA
102007799 AAAAAATTTA
1 AAAAAATTTA
102007809 AAAA
1 AAAA
102007813 TTTCTAAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 9 0.22
10 7 0.17
11 12 0.30
12 12 0.30
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:102007821 original size:10 final size:9
Alignment explanation
Indices: 102007753--102007812 Score: 57
Period size: 9 Copynumber: 5.9 Consensus size: 9
102007743 AACTTATATT
102007753 TTTAAAAAA
1 TTTAAAAAA
102007762 TTATAATAAAAA
1 TT-T-A-AAAAA
102007774 TTCTAAAAAA
1 TT-TAAAAAA
102007784 TATGTAAAAAAA
1 T-T-T-AAAAAA
102007796 TTTAAAAAA
1 TTTAAAAAA
102007805 TTTAAAAA
1 TTTAAAAA
102007813 TTTCTAAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
9 16 0.36
10 8 0.18
11 5 0.11
12 15 0.34
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:102007867 original size:2 final size:2
Alignment explanation
Indices: 102007860--102007884 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
102007850 ATTAATTATG
102007860 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
102007885 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:102008842 original size:10 final size:10
Alignment explanation
Indices: 102008827--102008862 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
102008817 TTTTAATGAC
102008827 CAATTTAATT
1 CAATTTAATT
102008837 CAATTTAA-T
1 CAATTTAATT
102008846 CAA-TTAATT
1 CAATTTAATT
102008855 CAATTTAA
1 CAATTTAA
102008863 ACCTCGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.17
9 8 0.33
10 12 0.50
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (10 bp):
CAATTTAATT
Found at i:102008842 original size:23 final size:19
Alignment explanation
Indices: 102008802--102008860 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 19
102008792 TCGATAAATA
102008802 TTTAATCAA--AATT-AAT
1 TTTAATCAATTAATTCAAT
102008818 TTTAATGACCAATTTAATTCAA-
1 TTTAAT---CAA-TTAATTCAAT
102008840 TTTAATCAATTAATTCAAT
1 TTTAATCAATTAATTCAAT
102008859 TT
1 TT
102008861 AAACCTCGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
16 6 0.17
18 9 0.26
19 8 0.23
22 10 0.29
23 2 0.06
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (19 bp):
TTTAATCAATTAATTCAAT
Found at i:102014218 original size:16 final size:16
Alignment explanation
Indices: 102014197--102014229 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
102014187 GGATTTTTCT
102014197 GGTCAAGTCATTATAA
1 GGTCAAGTCATTATAA
102014213 GGTCAAGTCATTATAA
1 GGTCAAGTCATTATAA
102014229 G
1 G
102014230 TTTAGATCAT
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:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (16 bp):
GGTCAAGTCATTATAA
Found at i:102016309 original size:2 final size:2
Alignment explanation
Indices: 102016302--102016339 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
102016292 TGACATGTAC
102016302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102016340 TTAAATTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102021506 original size:20 final size:19
Alignment explanation
Indices: 102021476--102021514 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
102021466 TAATATTTTA
102021476 TAAAAAATCAACAAATTAT
1 TAAAAAATCAACAAATTAT
102021495 TAAAAAATTCAACAAATTAT
1 TAAAAAA-TCAACAAATTAT
102021515 AAAGAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAAATCAACAAATTAT
Found at i:102021517 original size:19 final size:18
Alignment explanation
Indices: 102021473--102021517 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
102021463 ACATAATATT
102021473 TTATAAAAAATCAACAAA
1 TTATAAAAAATCAACAAA
102021491 TTATTAAAAAATTCAACAAA
1 TTA-TAAAAAA-TCAACAAA
102021511 TTATAAA
1 TTATAAA
102021518 GAAAAAGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.12
19 11 0.44
20 11 0.44
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (18 bp):
TTATAAAAAATCAACAAA
Found at i:102022258 original size:26 final size:26
Alignment explanation
Indices: 102022204--102022260 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
102022194 ATTTTATTTT
*
102022204 TATTTTTTAAAATATTTAAAATATTA
1 TATTTTTTAAAATATTTAAAATATCA
*
102022230 TATTTTTTAATAT-TATTAAACATA-CA
1 TATTTTTTAAAATAT-TTAAA-ATATCA
102022256 TATTT
1 TATTT
102022261 AATTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 23 0.85
27 3 0.11
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTTTTTAAAATATTTAAAATATCA
Found at i:102022338 original size:20 final size:20
Alignment explanation
Indices: 102022282--102022343 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
102022272 TTTAGTCATA
*
102022282 TAATAAATTA-TTAATATAAT
1 TAATAAATTATTTAATAT-TT
* *
102022302 AAATAAA--ATTTATTATTT
1 TAATAAATTATTTAATATTT
102022320 TAATAAATTATTTAATATTT
1 TAATAAATTATTTAATATTT
102022340 TAAT
1 TAAT
102022344 TTTATTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 20 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATAAATTATTTAATATTT
Found at i:102022440 original size:15 final size:15
Alignment explanation
Indices: 102022406--102022474 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
102022396 ATATTATTGA
102022406 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
102022419 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
102022434 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
102022453 AAATATATTAATAAT
1 AAATATTTTAATAAT
102022468 AAATATT
1 AAATATT
102022475 CATAAGTCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 4 0.09
14 6 0.14
15 17 0.39
16 2 0.05
17 4 0.09
18 1 0.02
19 10 0.23
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:102025300 original size:3 final size:3
Alignment explanation
Indices: 102025292--102025346 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
102025282 AAATCATAAG
102025292 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
102025340 TAT TAT T
1 TAT TAT T
102025347 TAAACGAACT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:102025898 original size:5 final size:5
Alignment explanation
Indices: 102025888--102025925 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
102025878 AATAATTAAG
102025888 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
102025926 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:102027518 original size:2 final size:2
Alignment explanation
Indices: 102027513--102027544 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
102027503 CAAAAAAAAA
*
102027513 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102027545 GTACATAAAA
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:102027738 original size:24 final size:25
Alignment explanation
Indices: 102027686--102027739 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
102027676 GAATATATAC
* *
102027686 ATAAGAAATATATAACTAATGGCAT
1 ATAAAAAATATATAACTAATGACAT
102027711 -TAAAAAATATAT-ACATAAT-ACAT
1 ATAAAAAATATATAAC-TAATGACAT
102027734 ATAAAA
1 ATAAAA
102027740 TACCTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (25 bp):
ATAAAAAATATATAACTAATGACAT
Found at i:102028250 original size:26 final size:24
Alignment explanation
Indices: 102028203--102028250 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
102028193 GTTAGGTGGC
*
102028203 TAGGTTTTTTTTATCTTTTTTTGT
1 TAGGTTTTTTTTATCTTCTTTTGT
*
102028227 TAGGTTTTTCTTTTTTCTTCTTTT
1 TAGG-TTTT-TTTTATCTTCTTTT
102028251 TTTTTTGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 4 0.20
26 12 0.60
ACGTcount: A:0.06, C:0.08, G:0.10, T:0.75
Consensus pattern (24 bp):
TAGGTTTTTTTTATCTTCTTTTGT
Found at i:102028286 original size:16 final size:17
Alignment explanation
Indices: 102028249--102028286 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
102028239 TTTTCTTCTT
*
102028249 TTTTTTTTGGGGGTTAG
1 TTTTTTTTGGGGGTAAG
*
102028266 GTTTTTTT-GGGGTAAG
1 TTTTTTTTGGGGGTAAG
102028282 TTTTT
1 TTTTT
102028287 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.61
Consensus pattern (17 bp):
TTTTTTTTGGGGGTAAG
Found at i:102028304 original size:17 final size:17
Alignment explanation
Indices: 102028282--102028317 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
102028272 TTGGGGTAAG
102028282 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
102028299 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
102028316 TT
1 TT
102028318 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:102028312 original size:12 final size:11
Alignment explanation
Indices: 102028282--102028315 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
102028272 TTGGGGTAAG
102028282 TTTTTCTTTTTC
1 TTTTT-TTTTTC
102028294 TTTTTTTTTTC
1 TTTTTTTTTTC
102028305 TTTGTTTTTTT
1 TTT-TTTTTTT
102028316 TTGGGTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:102029070 original size:88 final size:83
Alignment explanation
Indices: 102028963--102029543 Score: 301
Period size: 88 Copynumber: 7.0 Consensus size: 83
102028953 AACAGACATT
** * *
102028963 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
102029028 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * * ** *
102029051 AAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
102029115 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * * ** *** *
102029134 AAATTAAAAGA--CT-CAACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
*
102029195 ATGAGTTGAATTTTTTTTGAAAAA--A
60 ATGAGTTG-A--TTTTTTGAAAAACTG
** * *
102029220 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
102029285 TTGA-TTTTTGAAAACAGAATTTG
65 TTGATTTTTTG--AA-A-AA-CTG
* * * * * *
102029308 AAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
102029373 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** *** * *
102029391 --ATA-A-ATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
102029451 GTTGATTTTTTTG--AAA--G
64 GTTGA-TTTTTTGAAAAACTG
* * * * * * *
102029468 ATAGA-A-A--TTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
102029529 TTGATTTTTTGAAAA
65 TTGATTTTTTGAAAA
102029544 CAGAAATTGA
Statistics
Matches: 386, Mismatches: 71, Indels: 82
0.72 0.13 0.15
Matches are distributed among these distances:
76 9 0.02
77 47 0.12
78 2 0.01
79 58 0.15
80 3 0.01
81 8 0.02
82 3 0.01
83 9 0.02
84 46 0.12
85 45 0.12
86 8 0.02
87 16 0.04
88 126 0.33
90 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:102029167 original size:30 final size:30
Alignment explanation
Indices: 102029131--102029192 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
102029121 TTTTGAAAAA
102029131 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
102029161 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
102029191 CA
1 CA
102029193 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:102029314 original size:14 final size:14
Alignment explanation
Indices: 102029291--102029325 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
102029281 TGAGTTGATT
102029291 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
102029304 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
102029318 TTTGAAAA
1 TTTGAAAA
102029326 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:102029626 original size:72 final size:73
Alignment explanation
Indices: 102029343--102029874 Score: 413
Period size: 72 Copynumber: 6.8 Consensus size: 73
102029333 ACATGTAACC
* * * *
102029343 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATAC
* *
102029408 CTCAGTGTGTGAT
62 CTCAGCGTGT-CT
* * *
102029421 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
102029486 TCAGCGCATGAGC-
63 TCAGCG--TG-TCT
* * *
102029499 CAAGGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
102029564 ACGTGTCT
66 GCGTGTCT
* ** * * *
102029572 TGAGGCTCAACTCATTTCTCACAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
102029636 GCGTGTCT
66 GCGTGTCT
*
102029644 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTTTGAAATGCAGAAATTGAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-------TTTTTTGAAA-ACAGAAATTG---
** ** *
102029709 AATGGAAATTGAAAATACCTCGACGTGTGAT
55 -A---AAA-T--ACCT-CAGC---GTGT-CT
* * *
102029740 CTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTGACAACAGAAATTGAAATTACCT
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCT
102029805 CAGCGTGTC-
64 CAGCGTGTCT
* *
102029814 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAA
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAA
102029875 ACGGAAATTG
Statistics
Matches: 368, Mismatches: 54, Indels: 67
0.75 0.11 0.14
Matches are distributed among these distances:
72 66 0.18
73 29 0.08
74 43 0.12
75 32 0.09
76 14 0.04
77 41 0.11
78 5 0.01
79 51 0.14
80 10 0.03
81 9 0.02
82 1 0.00
83 2 0.01
85 1 0.00
86 1 0.00
88 2 0.01
89 1 0.00
90 9 0.02
91 11 0.03
92 2 0.01
95 4 0.01
96 2 0.01
97 32 0.09
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCT
Found at i:102029827 original size:171 final size:168
Alignment explanation
Indices: 102029540--102030017 Score: 711
Period size: 165 Copynumber: 2.9 Consensus size: 168
102029530 TGATTTTTTG
* * * ** * *
102029540 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
102029603 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGT-CTCGAGGCTCAACTCACCTCTCGC
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGC
* *
102029666 AATATGAGTTGATTTTTTTTTTTTTGAAATGCAGAAATTGA
130 AATATGAGTTGA--TTTTTTTTTTTGAAAGGCAAAAATTGA
*
102029707 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
102029772 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
102029837 AATATGAGTTGA----TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
* * * *
102029872 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
102029937 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
102030002 AATATGAGTTGATTTT
130 AATATGAGTTGATTTT
102030018 GAAAAAGTAG
Statistics
Matches: 284, Mismatches: 18, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
165 157 0.55
167 27 0.10
168 1 0.00
169 30 0.11
171 67 0.24
172 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (168 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
Found at i:102029836 original size:74 final size:75
Alignment explanation
Indices: 102029713--102029874 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
102029703 TTGAAAAATG
*
102029713 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
102029778 TTTTGACAACA
65 TTTTGACAACA
* * *
102029789 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
102029852 TTTTGA-AAGGCA
65 TTTTGACAA--CA
*
102029864 AAAATTGAAAA
1 GAAATTGAAAA
102029875 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:102030003 original size:74 final size:75
Alignment explanation
Indices: 102029878--102030017 Score: 219
Period size: 74 Copynumber: 1.9 Consensus size: 75
102029868 TTGAAAAACG
* *
102029878 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
102029943 TTTTGACAACA
65 TTTTGACAACA
* * *
102029954 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
102030018 GAAAAAGTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 37 0.63
76 22 0.37
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:102030216 original size:72 final size:71
Alignment explanation
Indices: 102030082--102030247 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
102030072 TGAACAACGT
* * * *
102030082 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
102030147 GAGTTG
66 GAGTTG
*
102030153 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
102030218 TGAGTTG
65 TGAGTTG
**
102030225 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
102030248 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:102030342 original size:122 final size:124
Alignment explanation
Indices: 102030122--102030882 Score: 648
Period size: 141 Copynumber: 6.0 Consensus size: 124
102030112 GCGTGACCTG
*
102030122 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTGAAAATACCTCAGCG
102030187 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * *
102030247 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACT-AATAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTGAA-AATACCTCAGC
* *
102030308 GTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAA
65 GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATT-AAA
** * * * * * * * *
102030369 ATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAAT
1 A-GGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGT-TGA---AATTAAAACACAAAAAC
102030434 TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA
50 TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAA
102030499 CAAAAATTAAA
114 CAAAAATTAAA
* * * *
102030510 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATT-------TAAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTGAAAATACCTCAGCG
* * *
102030566 TGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATT-AAA
** * * * * * * * *
102030626 ATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAAT
1 A-GGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGT-TGA---AATTAAAACACAAAAAC
102030691 TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA
50 TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAA
102030756 CAAAAATTAAA
114 CAAAAATTAAA
* * * *
102030767 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATT-------TAAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTGAAAATACCTCAGCG
* * * *
102030823 TGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAACAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
102030882 A
1 A
102030883 ATACCTCAAC
Statistics
Matches: 511, Mismatches: 75, Indels: 110
0.73 0.11 0.16
Matches are distributed among these distances:
115 27 0.05
116 124 0.24
117 5 0.01
120 2 0.00
121 14 0.03
122 65 0.13
123 19 0.04
124 4 0.01
125 30 0.06
126 4 0.01
127 3 0.01
128 1 0.00
129 3 0.01
130 6 0.01
131 7 0.01
132 8 0.02
133 7 0.01
134 6 0.01
136 1 0.00
137 4 0.01
140 16 0.03
141 129 0.25
142 26 0.05
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTGAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:102030392 original size:71 final size:71
Alignment explanation
Indices: 102030247--102030510 Score: 347
Period size: 70 Copynumber: 3.7 Consensus size: 71
102030237 AAAAATTAAA
* * * * * *
102030247 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAATAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
102030310 GCCCCG
66 GCCCCG
* *
102030316 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
102030381 GTCTTG
66 GCCCCG
* * *
102030387 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
102030450 TGCCCCG
65 TGCCCCG
*
102030457 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
102030511 GGCTTAACTC
Statistics
Matches: 166, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 57 0.34
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:102030468 original size:70 final size:68
Alignment explanation
Indices: 102030247--102030510 Score: 321
Period size: 71 Copynumber: 3.8 Consensus size: 68
102030237 AAAAATTAAA
* ** * * *
102030247 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAATAATACCTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAA-AATACCTCAGCGTGC
102030312 CCCG
65 CCCG
* * *
102030316 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATT-AAAATACCTCAGCGT
* **
102030381 GTCTTG
63 GCCCCG
*
102030387 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATT-AAAATACCTCAGCGTG
102030452 CCCCG
64 CCCCG
*
102030457 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
102030511 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 21, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 61 0.37
72 13 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (68 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAATACCTCAGCGTGCC
CCG
Found at i:102030598 original size:116 final size:115
Alignment explanation
Indices: 102030436--102030882 Score: 435
Period size: 116 Copynumber: 3.6 Consensus size: 115
102030426 ACAAAAATTG
102030436 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
1 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACA
102030501 AAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
65 AAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
* * *
102030552 AAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAA
1 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAA
** * ** * ** * *** * ** *
102030617 AAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAA
66 AAATT-AAAA-GGCTTAAC-TCACCT--CTCGCAA-T-ATGAGT--CAAT-TTA--AAACT--A
102030681 ACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
1 A------------AAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
102030746 TTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
54 TTTTG-AAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
* * *
102030809 AAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAA
1 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAA
*
102030874 CAATTAAAA
66 AAATTAAAA
102030883 ATACCTCAAC
Statistics
Matches: 262, Mismatches: 42, Indels: 55
0.73 0.12 0.15
Matches are distributed among these distances:
115 27 0.10
116 113 0.43
117 5 0.02
118 3 0.01
120 4 0.02
121 1 0.00
122 3 0.01
124 4 0.02
125 2 0.01
127 2 0.01
128 2 0.01
129 2 0.01
130 2 0.01
132 2 0.01
133 4 0.02
135 3 0.01
136 1 0.00
137 4 0.02
139 3 0.01
140 5 0.02
141 58 0.22
142 12 0.05
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (115 bp):
AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAA
AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
Found at i:102030666 original size:71 final size:70
Alignment explanation
Indices: 102030545--102030767 Score: 315
Period size: 70 Copynumber: 3.1 Consensus size: 70
102030535 GAGTCAATTT
*
102030545 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG
1 AAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTG
102030610 AAAACA
65 AAAACA
* ** *
102030616 AAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTA
1 AAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTG
102030679 AAACACA
65 AAA-ACA
* * *
102030686 AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG
1 AAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTG
102030751 AAAAACA
65 -AAAACA
102030758 AAAATTAAAA
1 AAAATTAAAA
102030768 GGCTTAACTC
Statistics
Matches: 133, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
69 5 0.04
70 56 0.42
71 54 0.41
72 15 0.11
73 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (70 bp):
AAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTGA
AAACA
Found at i:102030679 original size:257 final size:257
Alignment explanation
Indices: 102030085--102030934 Score: 1547
Period size: 257 Copynumber: 3.3 Consensus size: 257
102030075 ACAACGTAAA
* * * * * *
102030085 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
102030150 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
102030215 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
*
102030280 TTAAAACATAAACTAATAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TTAAAAC-T--A--AA-AATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
102030345 TGATT
253 TGATT
102030350 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
102030415 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
102030480 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
102030545 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
102030607 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
102030672 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
102030737 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
102030802 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
* *
102030864 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAAGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
102030929 TTGATT
66 TTGATT
102030935 TTCCTTGAAA
Statistics
Matches: 576, Mismatches: 9, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
257 378 0.66
258 2 0.00
260 1 0.00
262 1 0.00
263 132 0.23
265 62 0.11
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:102033627 original size:195 final size:195
Alignment explanation
Indices: 102033295--102033684 Score: 762
Period size: 195 Copynumber: 2.0 Consensus size: 195
102033285 TTAATCAATT
102033295 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
1 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
102033360 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
66 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
102033425 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
131 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
*
102033490 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAGTCCCCGTACACC
1 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
102033555 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
66 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
*
102033620 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCTGTCTGGTGATA
131 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
102033685 CCAGGATTGC
Statistics
Matches: 193, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 193 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (195 bp):
TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
Found at i:102036166 original size:12 final size:12
Alignment explanation
Indices: 102036146--102036181 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
102036136 ATGGATATGC
*
102036146 AATGTATGAATG
1 AATGCATGAATG
102036158 AATGCATGAATG
1 AATGCATGAATG
102036170 AATGCATGAATG
1 AATGCATGAATG
102036182 TCAAATGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:102038250 original size:23 final size:23
Alignment explanation
Indices: 102038195--102038251 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
102038185 TTAAGAATAT
*
102038195 ATACATA-AGAAATATATAACTA
1 ATACATATAAAAATATATAACTA
*
102038217 ATGGCAT-TAAAAATATAT-ACATA
1 AT-ACATATAAAAATATATAAC-TA
102038240 ATACATATAAAA
1 ATACATATAAAA
102038252 TACCTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.28
Consensus pattern (23 bp):
ATACATATAAAAATATATAACTA
Found at i:102038794 original size:16 final size:16
Alignment explanation
Indices: 102038773--102038807 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
102038763 TTTGGGGTAG
102038773 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
102038789 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
102038805 TTT
1 TTT
102038808 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:102043943 original size:39 final size:39
Alignment explanation
Indices: 102043889--102043965 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
102043879 GAGTAGAAGA
102043889 AAATACAAAAATTTTTGTAGTAGAAAAGTCTTTTGAGAC
1 AAATACAAAAATTTTTGTAGTAGAAAAGTCTTTTGAGAC
102043928 AAATACAAAAATTTTTGTAGTAGAAAAGTCTTTTGAGA
1 AAATACAAAAATTTTTGTAGTAGAAAAGTCTTTTGAGA
102043966 TCAATAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (39 bp):
AAATACAAAAATTTTTGTAGTAGAAAAGTCTTTTGAGAC
Found at i:102047512 original size:12 final size:13
Alignment explanation
Indices: 102047489--102047513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102047479 ACCTTAGGCC
102047489 AATACAAAAAAAG
1 AATACAAAAAAAG
102047502 AATACAAAAAAA
1 AATACAAAAAAA
102047514 CTTATGGCTA
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:0.80, C:0.08, G:0.04, T:0.08
Consensus pattern (13 bp):
AATACAAAAAAAG
Found at i:102049925 original size:18 final size:18
Alignment explanation
Indices: 102049902--102049939 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
102049892 TGGTAATTTA
102049902 TTTATTATTTTATTTTGT
1 TTTATTATTTTATTTTGT
* *
102049920 TTTATTGTTTTGTTTTGT
1 TTTATTATTTTATTTTGT
102049938 TT
1 TT
102049940 GGATGCTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (18 bp):
TTTATTATTTTATTTTGT
Found at i:102062156 original size:26 final size:26
Alignment explanation
Indices: 102062127--102062234 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
102062117 TGGTACAAAT
*
102062127 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
102062153 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
102062179 TAATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
102062205 TGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
102062231 TGAT
1 TGAT
102062235 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:102062186 original size:52 final size:52
Alignment explanation
Indices: 102062129--102062231 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
102062119 GTACAAATTG
102062129 ATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATA
1 ATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATA
*
102062181 ATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATATTCCAT
1 ATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCAT
102062232 GATGGGCATT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (52 bp):
ATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATA
Found at i:102063753 original size:26 final size:26
Alignment explanation
Indices: 102063724--102063776 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
102063714 TACAATTTTA
102063724 CCCCTAGGAGATAAATT-ACCGAAATG
1 CCCCTAGG-GATAAATTGACCGAAATG
* *
102063750 CCCCTAGGGTTAAATTGACCTAAATG
1 CCCCTAGGGATAAATTGACCGAAATG
102063776 C
1 C
102063777 ATGTTTGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (26 bp):
CCCCTAGGGATAAATTGACCGAAATG
Found at i:102068434 original size:20 final size:20
Alignment explanation
Indices: 102068409--102068448 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
102068399 ACAGCATTGA
*
102068409 ATAGCTAATCTTTAGGGATT
1 ATAGCTAATCTTTAGAGATT
* *
102068429 ATAGCTGATTTTTAGAGATT
1 ATAGCTAATCTTTAGAGATT
102068449 CTAATTAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.42
Consensus pattern (20 bp):
ATAGCTAATCTTTAGAGATT
Found at i:102076233 original size:24 final size:25
Alignment explanation
Indices: 102076200--102076250 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
102076190 TTTTCTCTAT
* *
102076200 TTTTTAAATAGTTTTATTTTAT-GAA
1 TTTTTAAATA-ATTTATTTGATCGAA
102076225 TTTTT-AATAATTTATTTGATCGAA
1 TTTTTAAATAATTTATTTGATCGAA
102076249 TT
1 TT
102076251 GAAAAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 9 0.39
25 5 0.22
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (25 bp):
TTTTTAAATAATTTATTTGATCGAA
Found at i:102076756 original size:12 final size:11
Alignment explanation
Indices: 102076728--102076789 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 11
102076718 TTTATTATTA
102076728 AATATAA-TTT
1 AATATAATTTT
102076738 -A-ATAATTCTT
1 AATATAATT-TT
102076748 AATATAATTATT
1 AATATAATT-TT
102076760 --TATAATATTT
1 AATATAAT-TTT
102076770 AATAATAATTTT
1 AAT-ATAATTTT
102076782 AATATAAT
1 AATATAAT
102076790 ATTGTTATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
8 4 0.09
9 2 0.05
10 10 0.23
11 7 0.16
12 15 0.35
13 5 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (11 bp):
AATATAATTTT
Found at i:102077225 original size:27 final size:27
Alignment explanation
Indices: 102077137--102077225 Score: 90
Period size: 27 Copynumber: 3.1 Consensus size: 27
102077127 TAAAAAATCG
*
102077137 AAACTCATAATTCTTTATGTTATTCAA
1 AAACTCATAATTTTTTATGTTATTCAA
* *
102077164 AAAC-CATATTACTTGATTTTATGTTATTTAG
1 AAACTCATA--A-TT--TTTTATGTTATTCAA
*
102077195 AAACTCATAATTTTTTATCTTATTCAA
1 AAACTCATAATTTTTTATGTTATTCAA
102077222 AAAC
1 AAAC
102077226 ATGAAGAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
26 4 0.08
27 20 0.40
28 1 0.02
29 4 0.08
30 1 0.02
31 16 0.32
32 4 0.08
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.45
Consensus pattern (27 bp):
AAACTCATAATTTTTTATGTTATTCAA
Found at i:102078413 original size:30 final size:29
Alignment explanation
Indices: 102078348--102078451 Score: 122
Period size: 30 Copynumber: 3.6 Consensus size: 29
102078338 TTCACATACC
* * *
102078348 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
102078376 T-TCATATGGCCCTATTAGGCCCAAATCACC
1 TGT-ATATGGCCC-ATTAGGCCCAAATCACA
102078406 TGTATATGGCCCATTAGGCCCAAAATCACA
1 TGTATATGGCCCATTAGGCCC-AAATCACA
*
102078436 TTTATATGGCCCATTA
1 TGTATATGGCCCATTA
102078452 TGTCTAGTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
27 1 0.02
28 9 0.14
29 17 0.26
30 37 0.57
31 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:102080017 original size:17 final size:17
Alignment explanation
Indices: 102079982--102080265 Score: 74
Period size: 19 Copynumber: 14.8 Consensus size: 17
102079972 TATTCTTTTT
102079982 AATTAAATTCTATTTTTTAA
1 AATTAAATT-TA--TTTTAA
102080002 AATTAAATTTATTTTAAA
1 AATTAAATTTATTTT-AA
* *
102080020 CTTTAATTAATTTTGATTTTTTA
1 ----AATTAAATTT-A-TTTTAA
* *
102080043 AATTAAATTAAATTTTTTA
1 AATTAAATT-TA-TTTTAA
102080062 AATTAAATTTATTTTAA
1 AATTAAATTTATTTTAA
*
102080079 ACTTTAATTCATTTATTTTCAA
1 A-ATTAA---ATTTATTTT-AA
*
102080101 CTTTAATTAATTTTGATTTTTAA
1 ----AATTAAATTT-A-TTTTAA
* *
102080124 AATTTTATTTTATTTTTTAA
1 AA-TTAAATTTA--TTTTAA
102080144 AATTAAATTTATTTTAA
1 AATTAAATTTATTTTAA
* *
102080161 AATTTAATTAATTTATTTCATT
1 AA-TT-A--AATTTATTTTA-A
*
102080183 AATTAATTTTTATTGTT--
1 AATTAA-ATTTATT-TTAA
*
102080200 --TTAAATAT-TTTTAA
1 AATTAAATTTATTTTAA
102080214 AATTAAATTTATTTTAA
1 AATTAAATTTATTTTAA
*
102080231 ACTTTAATTAATTTATTTTAA
1 A-ATT-A--AATTTATTTTAA
*
102080252 AATTTAATTTATTT
1 AATTAAATTTATTT
102080266 ATTTATTTAT
Statistics
Matches: 205, Mismatches: 22, Indels: 77
0.67 0.07 0.25
Matches are distributed among these distances:
12 2 0.01
13 2 0.01
14 2 0.01
15 4 0.02
16 7 0.03
17 34 0.17
18 12 0.06
19 45 0.22
20 29 0.14
21 34 0.17
22 16 0.08
23 5 0.02
24 8 0.04
25 4 0.02
26 1 0.00
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (17 bp):
AATTAAATTTATTTTAA
Found at i:102080062 original size:14 final size:14
Alignment explanation
Indices: 102080045--102080071 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
102080035 ATTTTTTAAA
102080045 TTAAATTAAATTTT
1 TTAAATTAAATTTT
102080059 TTAAATTAAATTT
1 TTAAATTAAATTT
102080072 ATTTTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAAATTAAATTTT
Found at i:102080067 original size:60 final size:60
Alignment explanation
Indices: 102079977--102080092 Score: 189
Period size: 60 Copynumber: 1.9 Consensus size: 60
102079967 TTAATTATTC
**
102079977 TTTTTAATTAAATTCTATTTTTTAAAATTAAATTTATTTTAAACTTTAATTAATTTTGAT
1 TTTTTAATTAAATTAAATTTTTTAAAATTAAATTTATTTTAAACTTTAATTAATTTTGAT
*
102080037 TTTTTAAATTAAATTAAATTTTTT-AAATTAAATTTATTTTAAACTTTAATTCATTT
1 TTTTT-AATTAAATTAAATTTTTTAAAATTAAATTTATTTTAAACTTTAATTAATTT
102080093 ATTTTCAACT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
60 36 0.69
61 16 0.31
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (60 bp):
TTTTTAATTAAATTAAATTTTTTAAAATTAAATTTATTTTAAACTTTAATTAATTTTGAT
Found at i:102080094 original size:21 final size:21
Alignment explanation
Indices: 102080062--102080360 Score: 166
Period size: 21 Copynumber: 13.6 Consensus size: 21
102080052 AAATTTTTTA
*
102080062 AATTAAATTTATTTTAAACTTT
1 AATT-AATTTATTTTAAAATTT
* * *
102080084 AATTCATTTATTTTCAACTTT
1 AATTAATTTATTTTAAAATTT
102080105 AATTAATTTTGATTTTTAAAATTT
1 AATTAA-TTT-A-TTTTAAAATTT
* *
102080129 TATT--TTATTTTTTAAAA-TT
1 AATTAATT-TATTTTAAAATTT
102080148 -A--AATTTATTTTAAAATTT
1 AATTAATTTATTTTAAAATTT
* *
102080166 AATTAATTTATTTCATTAA-TT
1 AATTAATTTATTTTA-AAATTT
** *
102080187 AATTTTTATTGTTTTAAATATTTTT
1 AATTAAT-TTATTTTAAA-A--TTT
*
102080212 AAAATTAAATTTATTTTAAACTTT
1 --AATT-AATTTATTTTAAAATTT
102080236 AATTAATTTATTTTAAAATTT
1 AATTAATTTATTTTAAAATTT
* **
102080257 AATTTATTTA-TTTATTTATTT
1 AATTAATTTATTTTA-AAATTT
* *
102080278 AATT-TTGATTGTTTTAAATATTTTT
1 AATTAAT--TTATTTTAAA-A--TTT
*
102080303 AAAATTAAATTTATTTTAAACTTT
1 --AATT-AATTTATTTTAAAATTT
102080327 AATTAATTTATTTTAAAATTT
1 AATTAATTTATTTTAAAATTT
*
102080348 AATTTATTTATTT
1 AATTAATTTATTT
102080361 CTTTAATTAA
Statistics
Matches: 215, Mismatches: 32, Indels: 61
0.70 0.10 0.20
Matches are distributed among these distances:
17 9 0.04
18 5 0.02
19 3 0.01
20 13 0.06
21 101 0.47
22 27 0.13
23 6 0.03
24 18 0.08
25 5 0.02
27 26 0.12
28 1 0.00
29 1 0.00
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (21 bp):
AATTAATTTATTTTAAAATTT
Found at i:102080280 original size:38 final size:39
Alignment explanation
Indices: 102080208--102080373 Score: 140
Period size: 38 Copynumber: 4.0 Consensus size: 39
102080198 TTTTAAATAT
* **
102080208 TTTTAAAATTAAATTTATTT-TAAACTTTAATTAATTTA
1 TTTTAAAATTTAATTTATTTATTTACTTTAATTAATTTA
*
102080246 TTTTAAAATTTAATTTATTTATTTA-TTTATTTAATTTTGA
1 TTTTAAAATTTAATTTATTTATTTACTTTAATTAA-TTT-A
*
102080286 TTGTTTTAAATATTTTTAAAATTAAATTTATTTTAAACTTTAATTAATTTA
1 ---TTTTAAA-A--TTT--AATT-TATTTA-TTT--ACTTTAATTAATTTA
102080337 TTTTAAAATTTAATTTATTTATTT-CTTTAATTAATTT
1 TTTTAAAATTTAATTTATTTATTTACTTTAATTAATTT
102080374 TGATTGTTTT
Statistics
Matches: 105, Mismatches: 7, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
38 40 0.38
39 5 0.05
40 1 0.01
41 3 0.03
42 5 0.05
43 11 0.10
44 1 0.01
45 3 0.03
46 3 0.03
47 1 0.01
48 11 0.10
49 5 0.05
50 3 0.03
51 1 0.01
52 4 0.04
53 8 0.08
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (39 bp):
TTTTAAAATTTAATTTATTTATTTACTTTAATTAATTTA
Found at i:102080308 original size:53 final size:51
Alignment explanation
Indices: 102080246--102080410 Score: 142
Period size: 53 Copynumber: 3.4 Consensus size: 51
102080236 AATTAATTTA
*
102080246 TTTTAAAATTTAATTTATTTATTTATTTATTTAATTTTGATTGTTTTAAATAT
1 TTTTAAAATTAAATTTATTT-TTTATTTA-TTAATTTTGATTGTTTTAAATAT
**
102080299 TTTTAAAATTAAATTTATTTTAAACTTTAATTAA-TTT-A---TTTTAAA-A-
1 TTTTAAAATTAAATTTATTTTTTA-TTT-ATTAATTTTGATTGTTTTAAATAT
* *
102080345 -TTT--AATT-TATTTATTTCTTTA--A-TTAATTTTGATTGTTTTAAATAT
1 TTTTAAAATTAAATTTATTT-TTTATTTATTAATTTTGATTGTTTTAAATAT
102080390 TTTTAAAATTAAATTTATTTT
1 TTTTAAAATTAAATTTATTTT
102080411 AAACTTTAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 33
0.69 0.06 0.25
Matches are distributed among these distances:
38 4 0.04
39 3 0.03
40 1 0.01
42 8 0.09
43 13 0.14
44 1 0.01
45 3 0.03
46 3 0.03
47 1 0.01
48 12 0.13
49 8 0.09
51 1 0.01
52 5 0.06
53 26 0.29
54 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (51 bp):
TTTTAAAATTAAATTTATTTTTTATTTATTAATTTTGATTGTTTTAAATAT
Found at i:102080413 original size:17 final size:17
Alignment explanation
Indices: 102080299--102080356 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
102080289 TTTTAAATAT
102080299 TTTTAAAATTAAATTTA
1 TTTTAAAATTAAATTTA
*
102080316 TTTTAAACTTTAATTAATTTA
1 TTTTAAA-ATT-A--AATTTA
*
102080337 TTTTAAAATTTAATTTA
1 TTTTAAAATTAAATTTA
102080354 TTT
1 TTT
102080357 ATTTCTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 16 0.47
18 2 0.06
19 1 0.03
20 2 0.06
21 13 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTAAAATTAAATTTA
Found at i:102080465 original size:91 final size:91
Alignment explanation
Indices: 102080144--102080427 Score: 507
Period size: 91 Copynumber: 3.1 Consensus size: 91
102080134 TATTTTTTAA
* *
102080144 AATTAAATTTATTTTAAAATTTAATTAATTTATTTCA-TTAATTAATTTTTATTGTTTTAAATAT
1 AATT-AATTTATTTTAAAATTTAATTTATTTATTT-ATTTAATTAATTTTGATTGTTTTAAATAT
102080208 TTTTAAAATTAAATTTATTTTAAACTTT
64 TTTTAAAATTAAATTTATTTTAAACTTT
*
102080236 AATTAATTTATTTTAAAATTTAATTTATTTATTTATTTATTTAATTTTGATTGTTTTAAATATTT
1 AATTAATTTATTTTAAAATTTAATTTATTTATTTATTTAATTAATTTTGATTGTTTTAAATATTT
102080301 TTAAAATTAAATTTATTTTAAACTTT
66 TTAAAATTAAATTTATTTTAAACTTT
*
102080327 AATTAATTTATTTTAAAATTTAATTTATTTATTTCTTTAATTAATTTTGATTGTTTTAAATATTT
1 AATTAATTTATTTTAAAATTTAATTTATTTATTTATTTAATTAATTTTGATTGTTTTAAATATTT
102080392 TTAAAATTAAATTTATTTTAAACTTT
66 TTAAAATTAAATTTATTTTAAACTTT
102080418 AATTAATTTA
1 AATTAATTTA
102080428 CTTCTTTAAT
Statistics
Matches: 186, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
90 1 0.01
91 181 0.97
92 4 0.02
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (91 bp):
AATTAATTTATTTTAAAATTTAATTTATTTATTTATTTAATTAATTTTGATTGTTTTAAATATTT
TTAAAATTAAATTTATTTTAAACTTT
Found at i:102080473 original size:20 final size:18
Alignment explanation
Indices: 102080415--102080469 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
102080405 TATTTTAAAC
*
102080415 TTTAATT-AATT-TACTTC
1 TTTAATTAAATTATA-TTT
102080432 TTTAATT--ATT-TATTT
1 TTTAATTAAATTATATTT
102080447 TTTAATTAAATTATATTT
1 TTTAATTAAATTATATTT
102080465 TTTAA
1 TTTAA
102080470 AATTTAATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
15 9 0.26
16 5 0.15
17 10 0.29
18 10 0.29
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTAATTAAATTATATTT
Found at i:102080476 original size:91 final size:90
Alignment explanation
Indices: 102080144--102080474 Score: 491
Period size: 91 Copynumber: 3.7 Consensus size: 90
102080134 TATTTTTTAA
*
102080144 AATTAAATTTATTTTAAAATTTAATTAATTTATTTCA-TTAATTAATTTTTATTGTTTTAAATAT
1 AATT-AATTTATTTTAAAATTTAATTTATTTATTT-ATTTAATTAA-TTTTATTGTTTTAAATAT
102080208 TTTTAAAATTAAATTTATTTTAAACTTT
63 TTTTAAAATTAAATTTATTTTAAACTTT
*
102080236 AATTAATTTATTTTAAAATTTAATTTATTTATTTATTTATTTAATTTTGATTGTTTTAAATATTT
1 AATTAATTTATTTTAAAATTTAATTTATTTATTTATTTAATTAATTTT-ATTGTTTTAAATATTT
102080301 TTAAAATTAAATTTATTTTAAACTTT
65 TTAAAATTAAATTTATTTTAAACTTT
*
102080327 AATTAATTTATTTTAAAATTTAATTTATTTATTTCTTTAATTAATTTTGATTGTTTTAAATATTT
1 AATTAATTTATTTTAAAATTTAATTTATTTATTTATTTAATTAATTTT-ATTGTTTTAAATATTT
102080392 TTAAAATTAAATTTATTTTAAACTTT
65 TTAAAATTAAATTTATTTTAAACTTT
* * *
102080418 AATTAATTTA-CTT---CTTTAA-TTATTTATTT-TTTAATTAAATTATATT-TTTTAAA-ATTT
1 AATTAATTTATTTTAAAATTTAATTTATTTATTTATTTAATT-AATTTTATTGTTTTAAATATTT
102080475 AATTCAATTT
Statistics
Matches: 229, Mismatches: 7, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
83 4 0.02
84 7 0.03
85 10 0.04
86 15 0.07
87 5 0.02
90 7 0.03
91 177 0.77
92 4 0.02
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (90 bp):
AATTAATTTATTTTAAAATTTAATTTATTTATTTATTTAATTAATTTTATTGTTTTAAATATTTT
TAAAATTAAATTTATTTTAAACTTT
Found at i:102080478 original size:20 final size:19
Alignment explanation
Indices: 102080432--102080469 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
102080422 AATTTACTTC
102080432 TTTAATTATTTATTTTTTAA
1 TTTAATTA-TTATTTTTTAA
*
102080452 TTAAATTA-TATTTTTTAA
1 TTTAATTATTATTTTTTAA
102080470 AATTTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTAATTATTATTTTTTAA
Found at i:102080617 original size:19 final size:19
Alignment explanation
Indices: 102080579--102080617 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
102080569 TTATCATTAG
* *
102080579 ATACAAAATTGATTTGCAA
1 ATACAAAATTGATCTACAA
*
102080598 ATACAATATTGATCTACAA
1 ATACAAAATTGATCTACAA
102080617 A
1 A
102080618 GATAAATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.31
Consensus pattern (19 bp):
ATACAAAATTGATCTACAA
Found at i:102081151 original size:72 final size:72
Alignment explanation
Indices: 102081034--102081177 Score: 261
Period size: 72 Copynumber: 2.0 Consensus size: 72
102081024 CGGTCCAAGT
102081034 TAAAACTGTAACACCCCTCGCCCGCATCCGACACCGGGACGGGGTTCAAGGTGCTACCTGACTTT
1 TAAAACTGTAACACCCCTCGCCCGCATCCGACACCGGGACGGGGTTCAAGGTGCTACCTGACTTT
102081099 TACTAAC
66 TACTAAC
* * *
102081106 TAAAACTGTGACACCCCTCGCCCGCATCCGACGCCGGGACGGGGTTCGAGGTGCTACCTGACTTT
1 TAAAACTGTAACACCCCTCGCCCGCATCCGACACCGGGACGGGGTTCAAGGTGCTACCTGACTTT
102081171 TACTAAC
66 TACTAAC
102081178 ACTTCCATAC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.21
Consensus pattern (72 bp):
TAAAACTGTAACACCCCTCGCCCGCATCCGACACCGGGACGGGGTTCAAGGTGCTACCTGACTTT
TACTAAC
Found at i:102083086 original size:46 final size:46
Alignment explanation
Indices: 102083019--102083193 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
102083009 TGTAACCCGC
*
102083019 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCATAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
102083065 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * ** * *
102083115 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
102083158 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
102083194 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.58
47 25 0.23
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Done.