Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 101 of 292
Found at i:30980923 original size:55 final size:58
Alignment explanation
Indices: 30980798--30980933 Score: 197
Period size: 61 Copynumber: 2.3 Consensus size: 58
30980788 AATTAGTAAC
*
30980798 AGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATTAGAATCAAAATTAGGT
1 AGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAAATTAGGT
* *
30980856 GACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGT
1 ---AGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAAATTAGGT
30980917 -G-A-CAGAATCAGAATCAA
1 AGAATCAGAATCAGAATCAA
30980934 AATGTGAATG
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 14 0.20
56 1 0.01
57 1 0.01
61 55 0.77
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (58 bp):
AGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAAATTAGGT
Found at i:30980931 original size:6 final size:6
Alignment explanation
Indices: 30980774--30980911 Score: 106
Period size: 6 Copynumber: 22.8 Consensus size: 6
30980764 AACCAAAATG
* * *
30980774 AGAATC AAAATC AGAATT AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * *
30980822 AGTAA-C AGAATC AGAATT AGAATC AAAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
30980871 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
30980912 TAGGTGACAG
Statistics
Matches: 103, Mismatches: 18, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
5 8 0.08
6 87 0.84
7 6 0.06
8 2 0.02
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:30981126 original size:27 final size:27
Alignment explanation
Indices: 30981054--30981127 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 27
30981044 AGCATGGCTG
* *
30981054 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
30981080 CCAG-ATACAGA-AACTATGGCAGAGCCA
1 CCAGAAT-CAGATAA-TGTGGCAGAGCCA
30981107 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
30981128 AACCCACCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 28 0.74
28 5 0.13
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:30981517 original size:27 final size:26
Alignment explanation
Indices: 30981438--30981520 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
30981428 TCGATCGATC
* * *
30981438 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
30981464 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
30981491 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
30981518 AAC
1 AAC
30981521 GCTTCCTCTG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:30981863 original size:81 final size:81
Alignment explanation
Indices: 30981735--30981887 Score: 234
Period size: 81 Copynumber: 1.9 Consensus size: 81
30981725 TTTACCCCAC
** * *
30981735 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTC
1 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGAAATTCTACCCTACAAGGGTATTTC
*
30981800 GATAATTCTATCCTAT
66 AATAATTCTATCCTAT
* * *
30981816 AAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTC
1 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGAAATTCTACCCTACAAGGGTATTTC
30981881 AATAATT
66 AATAATT
30981888 TCACAATCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (81 bp):
AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGAAATTCTACCCTACAAGGGTATTTC
AATAATTCTATCCTAT
Found at i:30981881 original size:27 final size:27
Alignment explanation
Indices: 30981719--30981880 Score: 198
Period size: 27 Copynumber: 6.0 Consensus size: 27
30981709 GGGGCAAAAT
* * *
30981719 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
30981746 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
30981773 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
30981800 GATAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
30981827 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
30981854 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
30981881 AATAATTTCA
Statistics
Matches: 117, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:30981930 original size:27 final size:27
Alignment explanation
Indices: 30981900--30982247 Score: 425
Period size: 27 Copynumber: 12.9 Consensus size: 27
30981890 ACAATCAAGA
30981900 GTAAAACGGTAATTCTATAAATCGAGG
1 GTAAAACGGTAATTCTATAAATCGAGG
* * *
30981927 GTAAAACGATAATTTTGTAAA-CTGAGG
1 GTAAAACGGTAATTCTATAAATC-GAGG
* * *
30981954 GTAAACCAGTAATTCTATAAATCAAGG
1 GTAAAACGGTAATTCTATAAATCGAGG
* *
30981981 GTAAAACGGTAATTTTACAAATCGAGG
1 GTAAAACGGTAATTCTATAAATCGAGG
*
30982008 GTAAAACGGTAATTCTGTAAATCGAGG
1 GTAAAACGGTAATTCTATAAATCGAGG
* *
30982035 GTAAAACAGTAATTCTGTAAA-CTGAGG
1 GTAAAACGGTAATTCTATAAATC-GAGG
*
30982062 GTAAAACGGTAATTCTATAAATCAAGG
1 GTAAAACGGTAATTCTATAAATCGAGG
* *
30982089 GTAAAATGGTAATTCTGTAAA-CTGAGG
1 GTAAAACGGTAATTCTATAAATC-GAGG
30982116 GTAAAACGGTAATTCTATAAATCGAGG
1 GTAAAACGGTAATTCTATAAATCGAGG
**
30982143 GTAAAATAGTAATTCTATAAA-CTGAGG
1 GTAAAACGGTAATTCTATAAATC-GAGG
* * *
30982170 GTAAAATGGTAATTCTGTAAATCGATG
1 GTAAAACGGTAATTCTATAAATCGAGG
* *
30982197 GTAAAACGGTAATTTTAAAAATCGAGG
1 GTAAAACGGTAATTCTATAAATCGAGG
* *
30982224 GTAAAACGGTAATTTTGTAAATCG
1 GTAAAACGGTAATTCTATAAATCG
30982248 GGAGTACTTT
Statistics
Matches: 275, Mismatches: 38, Indels: 16
0.84 0.12 0.05
Matches are distributed among these distances:
26 4 0.01
27 267 0.97
28 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAAAACGGTAATTCTATAAATCGAGG
Found at i:30985074 original size:19 final size:19
Alignment explanation
Indices: 30985040--30985078 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
30985030 GAGTTCGTAC
*
30985040 TTTGGCCCATTTTCTCAGTT
1 TTTGGCCCAGTTTCTC-GTT
30985060 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
30985078 T
1 T
30985079 CTTTCGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.05, C:0.26, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:30989024 original size:54 final size:55
Alignment explanation
Indices: 30988947--30989068 Score: 140
Period size: 54 Copynumber: 2.2 Consensus size: 55
30988937 GTTAATTTAA
* * * *
30988947 CAGGTTCGACTACGGATGTTCCACACGGGCGTGTCGA-ACGCCCGTGCTATTTT-G
1 CAGGCTCGACCACGGATCTTCCACACGAGCGTGTC-ACACGCCCGTGCTATTTTGG
* * * *
30989001 CAGGCTCGACCACGGTTCTTCCACACGAGCGTGTCACACGCCCTTGTTGTTTTGG
1 CAGGCTCGACCACGGATCTTCCACACGAGCGTGTCACACGCCCGTGCTATTTTGG
*
30989056 TAGGCTCGACCAC
1 CAGGCTCGACCAC
30989069 AGCCATATCG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.02
54 43 0.75
55 13 0.23
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.25
Consensus pattern (55 bp):
CAGGCTCGACCACGGATCTTCCACACGAGCGTGTCACACGCCCGTGCTATTTTGG
Found at i:30993679 original size:30 final size:30
Alignment explanation
Indices: 30993645--30993812 Score: 189
Period size: 30 Copynumber: 5.7 Consensus size: 30
30993635 AGCTGAAGCT
30993645 ATCCCTTTTCATAATTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
**
30993675 ATCCCTTTTCATTGTT-GATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
* * * * *
30993704 ATCCCTTTTCATAATTCAATAGCCG-AAGCT
1 ATCCCTTTTCATAATTCGATGGTCGTCA-CC
* * * *
30993734 ATCCCTTTTCATATTTCAATGGTCATCACT
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
*
30993764 ATCCCTTTTCATTATT-GATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
*
30993793 ATCCCTTTTCATAGTTCGAT
1 ATCCCTTTTCATAATTCGAT
30993813 AGTTGATGCT
Statistics
Matches: 113, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
29 52 0.46
30 60 0.53
31 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATGGTCGTCACC
Found at i:30993756 original size:89 final size:89
Alignment explanation
Indices: 30993603--30993833 Score: 347
Period size: 89 Copynumber: 2.6 Consensus size: 89
30993593 TGGAATCACA
* * *
30993603 ATGGTTGTCACCATCCCTTTGCATAGTTCAATAGCTGAAGCTATCCCTTTTCATAATTCGATGGT
1 ATGGTCGTCACCATCCCTTTTCATAGTTCAATAGCTGAAGCTATCCCTTTTCATAATTCAATGGT
* *
30993668 CGTCACCATCCCTTTTCATTGTTG
66 CATCACCATCCCTTTTCATTATTG
* * *
30993692 ATGGTCGTCACCATCCCTTTTCATAATTCAATAGCCGAAGCTATCCCTTTTCATATTTCAATGGT
1 ATGGTCGTCACCATCCCTTTTCATAGTTCAATAGCTGAAGCTATCCCTTTTCATAATTCAATGGT
*
30993757 CATCACTATCCCTTTTCATTATTG
66 CATCACCATCCCTTTTCATTATTG
* * *
30993781 ATGGTCGTCACCATCCCTTTTCATAGTTCGATAGTTGATGCTAT-CCTTTTCAT
1 ATGGTCGTCACCATCCCTTTTCATAGTTCAATAGCTGAAGCTATCCCTTTTCAT
30993834 TGGTCGATGA
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
88 9 0.07
89 119 0.93
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (89 bp):
ATGGTCGTCACCATCCCTTTTCATAGTTCAATAGCTGAAGCTATCCCTTTTCATAATTCAATGGT
CATCACCATCCCTTTTCATTATTG
Found at i:31002162 original size:6 final size:6
Alignment explanation
Indices: 31002134--31002203 Score: 72
Period size: 6 Copynumber: 11.3 Consensus size: 6
31002124 CACTTTTTCC
*
31002134 TTTCTT TTTCTCT ATTT-TCT TTTCTT TTTCTT TTTCATT CTT-TT TTTCTT
1 TTTCTT TTTCT-T -TTTCT-T TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT
*
31002184 TTTCTT TTTCTT TTGCTT TT
1 TTTCTT TTTCTT TTTCTT TT
31002204 CAACAGATTG
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
5 4 0.07
6 40 0.71
7 9 0.16
8 3 0.05
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:31002174 original size:10 final size:9
Alignment explanation
Indices: 31002135--31002189 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 9
31002125 ACTTTTTCCT
31002135 TTCTTTTTC
1 TTCTTTTTC
31002144 -TCTATTTTC
1 TTCT-TTTTC
31002153 TT-TTCTTT-
1 TTCTT-TTTC
31002161 TTCTTTTTC
1 TTCTTTTTC
31002170 ATTCTTTTT-
1 -TTCTTTTTC
31002179 TTCTTTTTC
1 TTCTTTTTC
31002188 TT
1 TT
31002190 TTTCTTTTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
8 17 0.44
9 13 0.33
10 9 0.23
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:31002177 original size:36 final size:37
Alignment explanation
Indices: 31002126--31002203 Score: 106
Period size: 36 Copynumber: 2.1 Consensus size: 37
31002116 ACTTTTCTCA
* *
31002126 CTTTTTCCTTTCTTTTTCTCTATTTTC-TTTTCTTTTT
1 CTTTTTCCATTCTTTTTCTCT-TTTTCTTTTTCTTTTG
*
31002163 CTTTTT-CATTCTTTTTTTCTTTTTCTTTTTCTTTTG
1 CTTTTTCCATTCTTTTTCTCTTTTTCTTTTTCTTTTG
31002199 CTTTT
1 CTTTT
31002204 CAACAGATTG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 5 0.14
36 26 0.70
37 6 0.16
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (37 bp):
CTTTTTCCATTCTTTTTCTCTTTTTCTTTTTCTTTTG
Found at i:31010403 original size:50 final size:48
Alignment explanation
Indices: 31010284--31010522 Score: 216
Period size: 50 Copynumber: 4.8 Consensus size: 48
31010274 CGAAGCTATC
* * * * *
31010284 TGATACGCATAGTAGCCTGTACTTAGTACTACACATGCGA-TCAA-CAAT
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACT-AATC-AT
** *
31010332 CCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCAT
1 TGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAATCAT
*
31010382 CTGATACACGTAGTAGTCTGCACTTAGTACTACACACGTGA-TGGAAGTCAT
1 -TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACT--AA-TCAT
* * * *
31010433 TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-CAGT
1 TGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC-TAATCA-T
*
31010483 ATGATACACGTAGTAGCCTACACTTAGTACTACACACGTG
1 -TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
31010523 TATTCACAAT
Statistics
Matches: 156, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
48 2 0.01
49 34 0.22
50 75 0.48
51 44 0.28
53 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (48 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAATCAT
Found at i:31011573 original size:40 final size:40
Alignment explanation
Indices: 31011529--31011610 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
31011519 AATTTCATAC
31011529 TAAAAACTTCTAGAATGCAAGTTTTGCAAATTATTAGATT
1 TAAAAACTTCTAGAATGCAAGTTTTGCAAATTATTAGATT
31011569 TAAAAACTTCTAGAATGCAAGTTTTGCAAATTATTAGATT
1 TAAAAACTTCTAGAATGCAAGTTTTGCAAATTATTAGATT
31011609 TA
1 TA
31011611 GTCCCTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (40 bp):
TAAAAACTTCTAGAATGCAAGTTTTGCAAATTATTAGATT
Found at i:31013578 original size:15 final size:15
Alignment explanation
Indices: 31013558--31013586 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31013548 TCAATATACC
31013558 TCTCGAAGGTCTTGG
1 TCTCGAAGGTCTTGG
31013573 TCTCGAAGGTCTTG
1 TCTCGAAGGTCTTG
31013587 AAGGTCGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.31, T:0.34
Consensus pattern (15 bp):
TCTCGAAGGTCTTGG
Found at i:31019027 original size:32 final size:31
Alignment explanation
Indices: 31018991--31019052 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
31018981 ACGAAGTCAC
* *
31018991 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATA-TGTGGCAAAGCCACCAGAA
* *
31019023 CAGATATATATATGTGGCAAAGCCACCAGA
1 CAGATACAGATATGTGGCAAAGCCACCAGA
31019053 TTGCAGCGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (31 bp):
CAGATACAGATATGTGGCAAAGCCACCAGAA
Found at i:31019863 original size:81 final size:81
Alignment explanation
Indices: 31019767--31019918 Score: 259
Period size: 81 Copynumber: 1.9 Consensus size: 81
31019757 CCCCACAAGG
* * *
31019767 GTATCTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCGGTA
1 GTATCTCGGCAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTA
31019832 ATTCTATCCTATAGAA
66 ATTCTATCCTATAGAA
* *
31019848 GTATTTCGGCAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTATAAGGGTATTTCGGTA
1 GTATCTCGGCAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTA
31019913 ATTCTA
66 ATTCTA
31019919 CAACTTATCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (81 bp):
GTATCTCGGCAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTA
ATTCTATCCTATAGAA
Found at i:31019916 original size:27 final size:27
Alignment explanation
Indices: 31019747--31019919 Score: 204
Period size: 27 Copynumber: 6.4 Consensus size: 27
31019737 AGGGCAAAAT
* * *
31019747 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31019774 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31019801 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31019828 GGTAATTCTATCCTA-TAGAAGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* *
31019855 GGCAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
31019882 AATAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
31019909 GGTAATTCTAC
1 GGTAATTCTAC
31019920 AACTTATCCA
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.02
27 117 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31027176 original size:27 final size:27
Alignment explanation
Indices: 31027146--31027316 Score: 216
Period size: 27 Copynumber: 6.3 Consensus size: 27
31027136 GGGGCAAAAT
* * *
31027146 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31027173 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31027200 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31027227 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31027254 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
31027281 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
31027308 GGTAATTCT
1 GGTAATTCT
31027317 TCAACTTATC
Statistics
Matches: 125, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31031353 original size:41 final size:41
Alignment explanation
Indices: 31031286--31031419 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
31031276 TTTCGCATAG
31031286 TAAGTGCCAATACATAGCTGAAGCTATTATAATCTCGCACAC
1 TAAGTGCC-ATACATAGCTGAAGCTATTATAATCTCGCACAC
* * ***
31031328 TAAGTGCCTTACGTAGCTGAAGCTATCT-CGGTCTCGCACAC
1 TAAGTGCCATACATAGCTGAAGCTAT-TATAATCTCGCACAC
* * *
31031369 TAAGCGCCATATATAGCCGAAGCTATTATGAA--TCGCACAC
1 TAAGTGCCATACATAGCTGAAGCTATTAT-AATCTCGCACAC
* *
31031409 GATGTGCCATA
1 TAAGTGCCATA
31031420 TATATATTTG
Statistics
Matches: 73, Mismatches: 16, Indels: 8
0.75 0.16 0.08
Matches are distributed among these distances:
40 17 0.23
41 47 0.64
42 9 0.12
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (41 bp):
TAAGTGCCATACATAGCTGAAGCTATTATAATCTCGCACAC
Found at i:31031673 original size:27 final size:27
Alignment explanation
Indices: 31031643--31031695 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
31031633 TAACTAATTA
*
31031643 AATCAAATATTTATTCAATTTAATCCT
1 AATCAAATATTTATTCAATTCAATCCT
*
31031670 AATCAACTATTTATTCAATTCAATCC
1 AATCAAATATTTATTCAATTCAATCC
31031696 AAAATATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (27 bp):
AATCAAATATTTATTCAATTCAATCCT
Found at i:31037898 original size:27 final size:27
Alignment explanation
Indices: 31037649--31037898 Score: 302
Period size: 27 Copynumber: 9.3 Consensus size: 27
31037639 CGACTTGTAA
* *
31037649 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
* * *
31037676 AATTACCATTTTACCCTCAGTTTATAG
1 AATTACCGTTTTACCCTCAATTTACAG
* *
31037703 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
*
31037730 AATTACCGTTTTACCCTCAGTTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
** * *
31037757 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
* * *
31037784 AATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
** * *
31037811 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCAATTTACAG
* *
31037838 AATTACTGTTTTACCCTCAGTTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
*
31037865 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
31037892 AATTACC
1 AATTACC
31037899 AAAATACCCT
Statistics
Matches: 190, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCAATTTACAG
Found at i:31037906 original size:27 final size:27
Alignment explanation
Indices: 31037660--31037988 Score: 84
Period size: 27 Copynumber: 12.2 Consensus size: 27
31037650 ATTACCATTT
* ***
31037660 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * *****
31037687 TACCCTCAGTTTATAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
31037714 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ***
31037741 TACCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * *****
31037768 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * * ***
31037795 TCCCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * *****
31037822 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
31037849 TACCCTCAGTTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
*
31037876 TACCTTCAATTTACAGAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** * * *
31037903 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
* ** * *
31037930 TACCC-CTAGTTTGTAAAATTACTAAAA
1 TACCCTC-AATTTACAGAATTACCAAAA
*** *
31037957 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
31037984 TACCC
1 TACCC
31037989 CTGGTTTGTA
Statistics
Matches: 246, Mismatches: 54, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
27 246 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCAAAA
Found at i:31037915 original size:54 final size:54
Alignment explanation
Indices: 31037649--31037898 Score: 383
Period size: 54 Copynumber: 4.6 Consensus size: 54
31037639 CGACTTGTAA
* * *
31037649 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTATAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
31037703 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* * *
31037757 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* *
31037811 AATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** * *
31037865 AATTACCGTTTTACCTTCAATTTACAGAATTACC
1 AATTACTATTTTACCCTCGATTTACAGAATTACC
31037899 AAAATACCCT
Statistics
Matches: 179, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 179 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:31037917 original size:81 final size:81
Alignment explanation
Indices: 31037649--31037899 Score: 362
Period size: 81 Copynumber: 3.1 Consensus size: 81
31037639 CGACTTGTAA
* *
31037649 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTATAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTTTACAGAATTACTGTTT
*
31037714 TACCCTCGATTTACAG
66 TACCCTCAATTTACAG
* *
31037730 AATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTATCCTC-GATTTACAGAATTACTGT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTACTATTTTACCCTCAG-TTTACAGAATTACTGT
* *
31037793 TTTCCCCTCAGTTTACAG
64 TTTACCCTCAATTTACAG
* * * *
31037811 AATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTTTACAGAATTACTGTTT
*
31037876 TACCTTCAATTTACAG
66 TACCCTCAATTTACAG
31037892 AATTACCA
1 AATTACCA
31037900 AAATACCCTT
Statistics
Matches: 149, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 145 0.97
82 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTTTACAGAATTACTGTTT
TACCCTCAATTTACAG
Found at i:31037993 original size:27 final size:27
Alignment explanation
Indices: 31037892--31038045 Score: 209
Period size: 27 Copynumber: 5.7 Consensus size: 27
31037882 CAATTTACAG
31037892 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * * *
31037919 AATCACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
31037946 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
31037973 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
31038000 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
31038027 AATTACCGAAATACCCTTG
1 AATTACCAAAATACCCTTG
31038046 TAGGGTAGAA
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:31038045 original size:81 final size:81
Alignment explanation
Indices: 31037885--31038045 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
31037875 TTACCTTCAA
* * *
31037885 TTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTTTATAAAATT
*
31037950 ACTAAAATACCCTTGG
66 ACCAAAATACCCTTGG
* * * * *
31037966 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTTTATAAAATT
*
31038031 ACCGAAATACCCTTG
66 ACCAAAATACCCTTG
31038046 TAGGGTAGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTTTATAAAATT
ACCAAAATACCCTTGG
Found at i:31038059 original size:54 final size:54
Alignment explanation
Indices: 31037892--31038042 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
31037882 CAATTTACAG
* *
31037892 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
31037946 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
31038000 AATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
31038043 TTGTAGGGTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
Found at i:31041609 original size:27 final size:27
Alignment explanation
Indices: 31041590--31041840 Score: 251
Period size: 27 Copynumber: 9.3 Consensus size: 27
31041580 CGACTTGTAA
31041590 AATTACCATTTTACCTTCGATTTACAG
1 AATTACCATTTTACCTTCGATTTACAG
*
31041617 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCTTCGA-TTTACAG
** *
31041644 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCTTCGATTTACAG
* * *
31041671 AATTATCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCTTCGA-TTTACAG
*
31041698 AATTACTATTTTATCC-TCGATTTACAG
1 AATTACCATTTTA-CCTTCGATTTACAG
** * *
31041725 AATTACTGTTTTCCCCTC-AGTTTACAG
1 AATTACCATTTTACCTTCGA-TTTACAG
* * *
31041752 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCTTCGATTTACAG
* *
31041779 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCTTCGA-TTTACAG
* *
31041806 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCATTTTACCTTCGATTTACAG
31041833 AATTACCA
1 AATTACCA
31041841 AAATACCCTT
Statistics
Matches: 196, Mismatches: 18, Indels: 20
0.84 0.08 0.09
Matches are distributed among these distances:
26 6 0.03
27 184 0.94
28 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCTTCGATTTACAG
Found at i:31041847 original size:27 final size:27
Alignment explanation
Indices: 31041609--31041929 Score: 86
Period size: 27 Copynumber: 11.9 Consensus size: 27
31041599 TTTACCTTCG
***
31041609 ATTTACAGAATTACCATTTTACCCTCA
1 ATTTACAGAATTACCAAAATACCCTCA
* ***** *
31041636 GTTTACAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACCAAAATACCCTCA
* ****
31041663 ATTTACAGAATTATCGTTTTACCCTCA
1 ATTTACAGAATTACCAAAATACCCTCA
* * *** * *
31041690 GTTTACAGAATTACTATTTTATCCTCG
1 ATTTACAGAATTACCAAAATACCCTCA
***** *
31041717 ATTTACAGAATTACTGTTTTCCCCTCA
1 ATTTACAGAATTACCAAAATACCCTCA
* * *** *
31041744 GTTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCAAAATACCCTCA
* ****
31041771 ATTTATAGAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACCAAAATACCCTCA
* **** *
31041798 GTTTACAGAATTACCGTTTTACCTTCA
1 ATTTACAGAATTACCAAAATACCCTCA
**
31041825 ATTTACAGAATTACCAAAATACCCTTG
1 ATTTACAGAATTACCAAAATACCCTCA
* * * *
31041852 GTTTATAAAATCACCAAAATACCC-CTA
1 ATTTACAGAATTACCAAAATACCCTC-A
* ** * * **
31041879 GTTTGTAAAATTACTAAAATACCCTTG
1 ATTTACAGAATTACCAAAATACCCTCA
* *
31041906 GTTTACAAAATTACCAAAATACCC
1 ATTTACAGAATTACCAAAATACCC
31041930 CTGGTTTGTA
Statistics
Matches: 239, Mismatches: 53, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
27 239 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.37
Consensus pattern (27 bp):
ATTTACAGAATTACCAAAATACCCTCA
Found at i:31041849 original size:81 final size:81
Alignment explanation
Indices: 31041590--31041840 Score: 353
Period size: 81 Copynumber: 3.1 Consensus size: 81
31041580 CGACTTGTAA
*
31041590 AATTACCATTTTACCTTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
31041655 TACCCTCGATTTACAG
66 TACCCTCAATTTACAG
* * * *
31041671 AATTATCGTTTTACCCTC-AGTTTACAGAATTACTATTTTATCCTC-GATTTACAGAATTACTGT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTACCATTTTACCCTCAG-TTTACAGAATTACTGT
* *
31041734 TTTCCCCTCAGTTTACAG
64 TTTACCCTCAATTTACAG
* * * *
31041752 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
31041817 TACCTTCAATTTACAG
66 TACCCTCAATTTACAG
31041833 AATTACCA
1 AATTACCA
31041841 AAATACCCTT
Statistics
Matches: 146, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.01
81 142 0.97
82 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
TACCCTCAATTTACAG
Found at i:31041856 original size:54 final size:54
Alignment explanation
Indices: 31041590--31041839 Score: 383
Period size: 54 Copynumber: 4.6 Consensus size: 54
31041580 CGACTTGTAA
* * *
31041590 AATTACCATTTTACCTTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* *
31041644 AATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* * *
31041698 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
31041752 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** * *
31041806 AATTACCGTTTTACCTTCAATTTACAGAATTACC
1 AATTACTATTTTACCCTCGATTTACAGAATTACC
31041840 AAAATACCCT
Statistics
Matches: 177, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 177 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:31041934 original size:27 final size:27
Alignment explanation
Indices: 31041833--31041986 Score: 209
Period size: 27 Copynumber: 5.7 Consensus size: 27
31041823 CAATTTACAG
31041833 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * * *
31041860 AATCACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
31041887 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
31041914 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
31041941 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
31041968 AATTACCGAAATACCCTTG
1 AATTACCAAAATACCCTTG
31041987 TAGGGTAGAA
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:31041986 original size:81 final size:81
Alignment explanation
Indices: 31041826--31041986 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
31041816 TTACCTTCAA
* * *
31041826 TTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTTTATAAAATT
*
31041891 ACTAAAATACCCTTGG
66 ACCAAAATACCCTTGG
* * * * *
31041907 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTTTATAAAATT
*
31041972 ACCGAAATACCCTTG
66 ACCAAAATACCCTTG
31041987 TAGGGTAGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTTTATAAAATT
ACCAAAATACCCTTGG
Found at i:31042000 original size:54 final size:54
Alignment explanation
Indices: 31041833--31041983 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
31041823 CAATTTACAG
* *
31041833 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
31041887 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
31041941 AATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
31041984 TTGTAGGGTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
Found at i:31046534 original size:39 final size:39
Alignment explanation
Indices: 31046480--31046642 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
31046470 TGTGAATGAA
31046480 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
31046519 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
31046558 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * **
31046597 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
31046637 TGTGCG
1 TGTGCG
31046643 GGTTACCATA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 99 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:31054622 original size:40 final size:39
Alignment explanation
Indices: 31054462--31054624 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
31054452 TGTGAATGAA
*
31054462 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
31054501 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
31054540 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* **
31054579 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
31054619 TGTGCG
1 TGTGCG
31054625 GGTTACCATA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 99 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:31056897 original size:13 final size:15
Alignment explanation
Indices: 31056879--31056910 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
31056869 GTTCCTCATC
31056879 AATCTCTT-CCTC-A
1 AATCTCTTGCCTCTA
31056892 AATCTCTTGCCTCTA
1 AATCTCTTGCCTCTA
31056907 AATC
1 AATC
31056911 AACCTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.25, C:0.34, G:0.03, T:0.38
Consensus pattern (15 bp):
AATCTCTTGCCTCTA
Found at i:31059440 original size:46 final size:46
Alignment explanation
Indices: 31059390--31059562 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
31059380 TGGTTGAGCA
*
31059390 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
31059436 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACG
* *
31059481 AATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
31059529 CCCGAGCTCATTGAGTTGTGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31059563 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 58 0.55
47 29 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:31059552 original size:93 final size:93
Alignment explanation
Indices: 31059389--31059557 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 93
31059379 ATGGTTGAGC
* * *
31059389 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGTTG
31059454 AGTCCGAGTTCGTGAGATGTAACTAGGA
66 AGTCCGAGTTCGTGAGATGTAACTAGGA
* * *
31059482 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGTTG
*
31059547 TGTCCGAGTTC
66 AGTCCGAGTTC
31059558 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGA
Found at i:31060910 original size:20 final size:20
Alignment explanation
Indices: 31060881--31060924 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
31060871 GGGCGTTACA
31060881 ACACACGCCCGTATGGCCAG
1 ACACACGCCCGTATGGCCAG
* *
31060901 ACACATGCCCGTGTGGCCAG
1 ACACACGCCCGTATGGCCAG
31060921 ACAC
1 ACAC
31060925 GCGACCACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.25, C:0.39, G:0.25, T:0.11
Consensus pattern (20 bp):
ACACACGCCCGTATGGCCAG
Found at i:31065185 original size:40 final size:39
Alignment explanation
Indices: 31065128--31065312 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
31065118 ATTAAATGAT
* * *
31065128 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
31065168 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
31065208 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
31065248 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
31065288 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
31065313 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:31065264 original size:80 final size:80
Alignment explanation
Indices: 31065127--31065333 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
31065117 AATTAAATGA
* * ** * *
31065127 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
31065192 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
31065205 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
31065270 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
31065287 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
31065334 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:31065318 original size:40 final size:39
Alignment explanation
Indices: 31065126--31065333 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
31065116 CAATTAAATG
* * ** *
31065126 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
31065166 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
31065206 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
31065246 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
31065286 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
31065326 ATATCCGG
1 ATATCCGG
31065334 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:31068365 original size:30 final size:30
Alignment explanation
Indices: 31068329--31068387 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
31068319 TTTACGAGCC
* *
31068329 TAAGGGT-TAAATCGTAAATATGTGAAAGTT
1 TAAGGGTCAAAAT-GTAAATATGTAAAAGTT
*
31068359 TAAGGGTCAAAATGTAAATTTGTAAAAGT
1 TAAGGGTCAAAATGTAAATATGTAAAAGT
31068388 ATGATTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.32
Consensus pattern (30 bp):
TAAGGGTCAAAATGTAAATATGTAAAAGTT
Found at i:31068895 original size:43 final size:43
Alignment explanation
Indices: 31068824--31068907 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
31068814 GAGATATGTG
**
31068824 GCATCTGAGCTCGTTGAGAGGTCCAAGTTCATTCTGGATGCAA
1 GCATCTGAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGCAA
** **
31068867 GCATCTGAGCTCGTTGATTGGTTTAAGTTCATGATGGATGC
1 GCATCTGAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGC
31068908 GATTCATGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
GCATCTGAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGCAA
Found at i:31070454 original size:29 final size:29
Alignment explanation
Indices: 31070421--31070552 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
31070411 CCTCCGAACT
** * * *
31070421 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
31070450 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
31070479 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
31070508 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
31070537 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
31070553 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:31074252 original size:2 final size:2
Alignment explanation
Indices: 31074245--31074282 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
31074235 ACTAAGTGCC
31074245 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
31074283 CTGAATCATC
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:31082231 original size:40 final size:40
Alignment explanation
Indices: 31082186--31082324 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 40
31082176 AACTATTGAA
* *
31082186 TAAATGCACATACATGCCCCTGTTTGCACTTCAGTACCCC
1 TAAATGCACATACATGCCCCTGTTTGTACTTTAGTACCCC
* * **
31082226 TAAATGCACATACGTTCCCCTGTTTGTACTTTAGTACCTT
1 TAAATGCACATACATGCCCCTGTTTGTACTTTAGTACCCC
*
31082266 TGAATGCACATACATGCCCCTGTTTGTACTTTAGTACCCC
1 TAAATGCACATACATGCCCCTGTTTGTACTTTAGTACCCC
* *
31082306 TAAATGCACTTACGTGCCC
1 TAAATGCACATACATGCCC
31082325 TGCTTATAGT
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (40 bp):
TAAATGCACATACATGCCCCTGTTTGTACTTTAGTACCCC
Found at i:31092735 original size:28 final size:27
Alignment explanation
Indices: 31092672--31092741 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
31092662 ATAGTGAGTC
31092672 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
31092699 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
31092727 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31092742 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:31095562 original size:42 final size:42
Alignment explanation
Indices: 31095515--31095606 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
31095505 TGGCCTTTAG
* ** *
31095515 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
31095557 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
31095599 GCCCATTT
1 GCCCATTT
31095607 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:31095822 original size:26 final size:26
Alignment explanation
Indices: 31095751--31095873 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
31095741 CCTCTTTAAT
**
31095751 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
31095776 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
31095801 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
31095827 AACTGGGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
31095853 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
31095874 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 33 0.37
26 56 0.63
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:31095863 original size:52 final size:51
Alignment explanation
Indices: 31095751--31095873 Score: 221
Period size: 52 Copynumber: 2.4 Consensus size: 51
31095741 CCTCTTTAAT
*
31095751 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCATTTTCAATA
31095801 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCATTTTCAATA
31095853 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
31095874 GCACTTCCTC
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
50 10 0.14
51 25 0.36
52 35 0.50
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCATTTTCAATA
Found at i:31096661 original size:27 final size:27
Alignment explanation
Indices: 31096626--31096705 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
31096616 GGGCATATTC
*
31096626 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
31096653 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*** * *
31096680 GTTTGTTTACCCTACAAGGGCTTTAC
1 GTCACTTTACCATACAGGGGCTTTAC
31096706 AGTCTTTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:31096715 original size:27 final size:27
Alignment explanation
Indices: 31096658--31096717 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
31096648 TTACGGTCAC
* *
31096658 TTTACCCTACAGGGGCTTTACGGTTTG
1 TTTACCCTACAAGGGCTTTACAGTTTG
31096685 TTTACCCTACAAGGGCTTTACAGTCTT-
1 TTTACCCTACAAGGGCTTTACAGT-TTG
31096712 TTTACC
1 TTTACC
31096718 TAATAGGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.38
Consensus pattern (27 bp):
TTTACCCTACAAGGGCTTTACAGTTTG
Found at i:31096801 original size:27 final size:27
Alignment explanation
Indices: 31096748--31097027 Score: 163
Period size: 27 Copynumber: 10.3 Consensus size: 27
31096738 TTTCATCCTA
* * * * *
31096748 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* ** *
31096775 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * * *
31096802 CAATGGCATTTCCA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-T
* **
31096831 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAT
* * * * *
31096858 TAGGGGTATTTTGGTTATTTTACAAGT
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
31096885 GAAGGGTATTTTAGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
31096911 CTAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTAGTAATTTTACAAAT
* *
31096938 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTAGTAATTTTACAAAT
** * *
31096966 TTAGGGTATTTCAGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* **
31096993 CAGGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
*
31097020 CGAGGGTA
1 CAAGGGTA
31097028 AAATGGTAAT
Statistics
Matches: 193, Mismatches: 52, Indels: 16
0.74 0.20 0.06
Matches are distributed among these distances:
26 3 0.02
27 161 0.83
28 16 0.08
29 13 0.07
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAT
Found at i:31097026 original size:54 final size:54
Alignment explanation
Indices: 31096768--31097027 Score: 195
Period size: 54 Copynumber: 4.8 Consensus size: 54
31096758 TTGGTAAATC
* * * * *
31096768 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGCATTTCCA-TAATTTT
1 TACAAACCAAGGGTATTTTAGTAATTTTGTAAATCTAGGGTATTT-CAGTAA-TTT
* * * ** *
31096823 TAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAAT-TAGGGGTATTTTGGTTATTT
1 TACAAA-CCAAGGGTATTT-TAGTAATTTTGTAAATCTA-GGGTATTTCAGTAATTT
*** *** **
31096878 TACAAGTGAAGGGTATTTTAGTAATTTCACAAA-CTAGTGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTTTGTAAATCTAG-GGTATTTCAGTAATTT
* * * ** *
31096932 TACAAACTAGGGGTATTTTGGTAATTTTACAAATTTAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTTTGTAAATCTAGGGTATTTCAGTAATTT
* *
31096986 TACAAACCAGGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 TACAAACCAAGGGTATTTTAGTAATTTTGTAAATCTAGGGTA
31097028 AAATGGTAAT
Statistics
Matches: 163, Mismatches: 34, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
53 2 0.01
54 114 0.70
55 16 0.10
56 31 0.19
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
TACAAACCAAGGGTATTTTAGTAATTTTGTAAATCTAGGGTATTTCAGTAATTT
Found at i:31097027 original size:81 final size:81
Alignment explanation
Indices: 31096834--31097025 Score: 235
Period size: 81 Copynumber: 2.4 Consensus size: 81
31096824 AGAAAGTCAA
* * * *
31096834 GGGTATTTCTGTAACTTTGTAAAT-TAGGGGTATTTTGGTTATTTTACAAGTGAAGGGTATTTTA
1 GGGTATTT-TGTAATTTTGTAAATCTAGGGGTATTTTGGTAATTTTACAAATGAAGGGTATTTCA
*
31096898 GTAATTTCACAAACTAG
65 GTAATTTCACAAACCAG
* ** **
31096915 TGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAATTTAGGGTATTTCA
1 GGGTATTTT-GTAATTTTGTAAATCTAGGGGTATTTTGGTAATTTTACAAATGAAGGGTATTTCA
*
31096979 GTAATTTTACAAACCAG
65 GTAATTTCACAAACCAG
*
31096996 GGGTATTTTAGTAATTTTGTAAATCGAGGG
1 GGGTATTTT-GTAATTTTGTAAATCTAGGG
31097026 TAAAATGGTA
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 86 0.93
82 5 0.05
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (81 bp):
GGGTATTTTGTAATTTTGTAAATCTAGGGGTATTTTGGTAATTTTACAAATGAAGGGTATTTCAG
TAATTTCACAAACCAG
Found at i:31097053 original size:81 final size:81
Alignment explanation
Indices: 31096887--31097054 Score: 176
Period size: 81 Copynumber: 2.1 Consensus size: 81
31096877 TTACAAGTGA
* * * * * ***
31096887 AGGGTATTTTAGTAATTTCACAAACTAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 AGGGTATTTCAGTAATTTCACAAACCAGGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAATG
* **
31096952 GTAATTTTACAAATTT
66 GTAATTCTACAAATCG
* **
31096968 AGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTGTAAATCGA-GGGTAAAAT
1 AGGGTATTTCAGTAATTTCACAAACCAGGGGTATTTTAGTAATTTTACAAA-CGAGGGGTAAAAT
**
31097032 GGTAATTCTGTAAATCG
65 GGTAATTCTACAAATCG
31097049 AGGGTA
1 AGGGTA
31097055 AAATAATAAT
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
81 68 0.97
82 2 0.03
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGTATTTCAGTAATTTCACAAACCAGGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAATG
GTAATTCTACAAATCG
Found at i:31097054 original size:54 final size:54
Alignment explanation
Indices: 31096979--31097126 Score: 122
Period size: 54 Copynumber: 2.7 Consensus size: 54
31096969 GGGTATTTCA
* *
31096979 GTAATTTTACAA-ACCAGGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTTTACAATTCGA-GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATG
*** * * * ***
31097033 GTAATTCTGTA-AA-TCGAGGGTAAAATAATAATTCTATAAATCGAGGGTACTTTG
1 GTAATT-T-TACAATTCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATG
* * *
31097087 GTAATTTTACAATTTGAGGGCATTTTAGTAATTTGGTAAA
1 GTAATTTTACAATTCGAGGGTATTTTAGTAATTTTGTAAA
31097127 CTAAAGTATT
Statistics
Matches: 70, Mismatches: 20, Indels: 8
0.71 0.20 0.08
Matches are distributed among these distances:
52 2 0.03
53 3 0.04
54 58 0.83
55 5 0.07
56 2 0.03
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.36
Consensus pattern (54 bp):
GTAATTTTACAATTCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATG
Found at i:31097092 original size:27 final size:27
Alignment explanation
Indices: 31097004--31097081 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
31096994 AGGGGTATTT
*
31097004 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
31097031 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
31097058 TAATAATTCTATAAATCGAGGGTA
1 TAGTAATTCTGTAAATCGAGGGTA
31097082 CTTTGGTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:31099515 original size:20 final size:20
Alignment explanation
Indices: 31099490--31099527 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31099480 GTTTATTCGC
*
31099490 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
31099510 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
31099528 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:31101188 original size:28 final size:28
Alignment explanation
Indices: 31101156--31101224 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
31101146 GCGTAGATCA
31101156 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
31101184 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
31101212 CGATA-TACCCCTA
1 CGAAATTACCCCTA
31101225 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:31107523 original size:20 final size:20
Alignment explanation
Indices: 31107498--31107535 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31107488 GTTTATTCGC
*
31107498 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
31107518 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
31107536 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:31109205 original size:25 final size:26
Alignment explanation
Indices: 31109154--31109218 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
31109144 GCGTAGATCA
31109154 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTA-CCCT-AAGAGCAAAATTAC
31109182 CGAAATTACCCTAA-AGCAAAATTAC
1 CGAAATTACCCTAAGAGCAAAATTAC
*
31109207 CGATA-TACCCTA
1 CGAAATTACCCTA
31109219 GGGTTTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 7 0.19
25 15 0.42
26 2 0.06
27 4 0.11
28 8 0.22
ACGTcount: A:0.45, C:0.26, G:0.09, T:0.20
Consensus pattern (26 bp):
CGAAATTACCCTAAGAGCAAAATTAC
Found at i:31115774 original size:27 final size:28
Alignment explanation
Indices: 31115744--31115813 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
31115734 ATAGTGAATC
*
31115744 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
31115771 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
31115799 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31115814 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:31117543 original size:12 final size:12
Alignment explanation
Indices: 31117526--31117555 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31117516 TCAGGCTGTT
31117526 ACACGGCCTAGC
1 ACACGGCCTAGC
*
31117538 ACACGGTCTAGC
1 ACACGGCCTAGC
31117550 ACACGG
1 ACACGG
31117556 GCGTGTTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.37, G:0.27, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:31119956 original size:40 final size:40
Alignment explanation
Indices: 31119897--31120038 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
31119887 AAATTGAATG
* * *
31119897 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
31119937 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
31119977 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
31120017 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
31120039 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:31120039 original size:40 final size:39
Alignment explanation
Indices: 31119936--31120064 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
31119926 TGCTGGAAAT
* * *
31119936 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
31119976 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
31120016 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
31120056 TATATCCGG
1 TATATCCGG
31120065 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:31122702 original size:30 final size:30
Alignment explanation
Indices: 31122667--31122738 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
31122657 CATGGTCATT
31122667 ACACACGGGCGTATGGCCTGCCCGTGTGTC
1 ACACACGGGCGTATGGCCTGCCCGTGTGTC
*
31122697 ACACACGGGCATATGGCCTGCCCGTGTGTC
1 ACACACGGGCGTATGGCCTGCCCGTGTGTC
*
31122727 ACACACAGGCGT
1 ACACACGGGCGT
31122739 GTGAAACACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.18
Consensus pattern (30 bp):
ACACACGGGCGTATGGCCTGCCCGTGTGTC
Found at i:31123361 original size:15 final size:15
Alignment explanation
Indices: 31123341--31123370 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31123331 TAATAGGGTT
31123341 GTAATGGGACTTGGG
1 GTAATGGGACTTGGG
*
31123356 GTAATGGGGCTTGGG
1 GTAATGGGACTTGGG
31123371 TCAGAAGTAT
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:0.17, C:0.07, G:0.50, T:0.27
Consensus pattern (15 bp):
GTAATGGGACTTGGG
Found at i:31126491 original size:27 final size:27
Alignment explanation
Indices: 31126450--31126503 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31126440 TGTCATGTGA
* *
31126450 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
31126477 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
31126504 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:31126947 original size:101 final size:98
Alignment explanation
Indices: 31126753--31126991 Score: 316
Period size: 100 Copynumber: 2.4 Consensus size: 98
31126743 TATTGTGGGG
* *
31126753 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
*
31126818 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAAGCTACTATGCGTACCCGATAA-TT-GA
* * ** *
31126853 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* * *
31126918 TAAGTGCAAGCTACTATGTGTACCGGATAATTGG
65 TAAGTGCAAGCTACTATGCGTACCCGATAATTGA
* * * *
31126952 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
31126992 AATAGCCTTG
Statistics
Matches: 121, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
99 35 0.29
100 44 0.36
101 42 0.35
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAAGCTACTATGCGTACCCGATAATTGA
Found at i:31126983 original size:49 final size:50
Alignment explanation
Indices: 31126751--31126990 Score: 295
Period size: 49 Copynumber: 4.8 Consensus size: 50
31126741 TCTATTGTGG
* *
31126751 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTA
* * * *
31126800 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-TTA
* * * * * * **
31126851 GATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTA
* *
31126901 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCGGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTA
* *
31126950 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
31126991 AAATAGCCTT
Statistics
Matches: 161, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 79 0.49
50 45 0.28
51 37 0.23
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTA
Found at i:31135172 original size:126 final size:126
Alignment explanation
Indices: 31134947--31135200 Score: 454
Period size: 126 Copynumber: 2.0 Consensus size: 126
31134937 AATTTCGCTT
*
31134947 AAATGAAGTAAACAGAAGATCAACTCACTTCAGTGTTCATAATTAACTTCAGACTTAGGGTTTTA
1 AAATGAAGTAAACAAAAGATCAACTCACTTCAGTGTTCATAATTAACTTCAGACTTAGGGTTTTA
* * *
31135012 ATAAATTAGCTAGTAATTAACTTAGTTATTACCTTTCGATTTCAAACTAAACTAACTAGTC
66 ACAAATTAGCTAGTAATTAACTTAATTATTACCTTTCGAGTTCAAACTAAACTAACTAGTC
31135073 AAATGAAGTAAACAAAAGATCAACTCACTTCAGTGTTCATAATTAACTTCAGACTTAGGGTTTTA
1 AAATGAAGTAAACAAAAGATCAACTCACTTCAGTGTTCATAATTAACTTCAGACTTAGGGTTTTA
* *
31135138 ACGAATTAGCTAGTAATTAACTTAATTATTACCTTTCGAGTTCTAACTAAACTAACTAGTC
66 ACAAATTAGCTAGTAATTAACTTAATTATTACCTTTCGAGTTCAAACTAAACTAACTAGTC
31135199 AA
1 AA
31135201 GATAAGCTAC
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 122 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (126 bp):
AAATGAAGTAAACAAAAGATCAACTCACTTCAGTGTTCATAATTAACTTCAGACTTAGGGTTTTA
ACAAATTAGCTAGTAATTAACTTAATTATTACCTTTCGAGTTCAAACTAAACTAACTAGTC
Found at i:31136950 original size:39 final size:39
Alignment explanation
Indices: 31136832--31137014 Score: 224
Period size: 39 Copynumber: 4.6 Consensus size: 39
31136822 TCGTTCAAAC
* * ** **
31136832 GCCTTCGGGACATAGCCCGGTTATGGTAAC-CTGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTC-GCACAATT
* * * *
31136872 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
31136912 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
31136951 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
31136990 GCCTTCGGGCTTAGCCTGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
31137015 CTCGAACATT
Statistics
Matches: 125, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 87 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:31141892 original size:26 final size:26
Alignment explanation
Indices: 31141856--31141991 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
31141846 CATGAAATTC
*
31141856 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
31141882 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
31141908 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
31141934 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
31141960 TTATCATGAAACATTTACCTAATCTA
1 TTATCATGAAACATTTACCTAACCTA
31141986 TTATCA
1 TTATCA
31141992 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:31145096 original size:30 final size:30
Alignment explanation
Indices: 31145062--31145147 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 30
31145052 CTAGACAAGT
*
31145062 AACCTTGATATTATGTTAGCTTGTGTAAGC
1 AACCTTGATATTATGTCAGCTTGTGTAAGC
*
31145092 AACCTTG-TTTTAATGTCAGCTTGTGTAAGC
1 AACCTTGATATT-ATGTCAGCTTGTGTAAGC
* *
31145122 AACCCTGATATAATGTCAGCTTGTGT
1 AACCTTGATATTATGTCAGCTTGTGT
31145148 GAGTAATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 3 0.06
30 44 0.90
31 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (30 bp):
AACCTTGATATTATGTCAGCTTGTGTAAGC
Found at i:31149639 original size:41 final size:41
Alignment explanation
Indices: 31149575--31149736 Score: 193
Period size: 41 Copynumber: 4.0 Consensus size: 41
31149565 GAGTGTAAAT
* *
31149575 AGAGGCACATATGTGCTATTTAGGGGCACCAAAGTACAAAC
1 AGAGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
* * **
31149616 A-AGGGCTCATATGTGCAAGTTAGGGGTACCAAAGTGTAAAC
1 AGA-GGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
* * *
31149657 AGAGGCACGTATGCGCAATTTAAGGGTACCAAAGTACAAAC
1 AGAGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
* * *
31149698 AGAGGCACGTATGTGCAATTCA-GGGTACCGAAGTACAAA
1 AGAGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAA
31149737 AGGGGATAAT
Statistics
Matches: 103, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
40 17 0.17
41 85 0.83
42 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (41 bp):
AGAGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
Found at i:31159641 original size:41 final size:41
Alignment explanation
Indices: 31159561--31159855 Score: 184
Period size: 41 Copynumber: 7.2 Consensus size: 41
31159551 ACCAGAGTGT
* * * * *
31159561 AAACAGGGGCACTTATATGCTATTTAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
*
31159602 AAACAGGGGGCACGTATGTGCAATTCAAGGGTA-CAAAGTA-
1 AAACA-GGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* ** * * * ** *
31159642 TAACTAGCAGAACATATGTGCAATTCAAGGCTATTGAAGTAA
1 AAAC-AGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* * * * *
31159684 AAAAAGGTGCACGTATGTGCATTTCGA-GGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* * ** * **
31159724 AAACAAGGGCACATATGTATAATTCAGGGGTGTCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* * * * *
31159765 AAATAGAGGCACGTATGTGCAATTC-AGAGTTATCGAAGTAT
1 AAACAGGGGCACGTATGTGCAATTCAAG-GGTACCGAAGTAC
** * * * * *
31159806 AAACAAAGGCACGCATATGCAATTCAGGGGTACTGAAGTAA
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
31159847 AAACAGGGG
1 AAACAGGGG
31159856 ATAATTCAGT
Statistics
Matches: 187, Mismatches: 60, Indels: 14
0.72 0.23 0.05
Matches are distributed among these distances:
40 52 0.28
41 110 0.59
42 25 0.13
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
Found at i:31159738 original size:81 final size:82
Alignment explanation
Indices: 31159610--31159849 Score: 213
Period size: 81 Copynumber: 3.0 Consensus size: 82
31159600 ACAAACAGGG
* * * *
31159610 GGCACGTATGTGCAATTCA-AGGGTA-CAAAGTA-TAAC-TAGCAGAACATATGTGCAATTCAAG
1 GGCACGTATGTGCAATTCAGA-GGTACCAAAGTACAAACAAAG--GCACATATGTGCAATTCAGG
*
31159671 GCTATTGAAGTAAAAAAAG-
63 GGTATTGAAGTAAAAAAAGA
* * **
31159690 GTGCACGTATGTGCATTTC-GAGGTACCAAAGTACAAACAAGGGCACATATGTATAATTCAGGGG
1 G-GCACGTATGTGCAATTCAGAGGTACCAAAGTACAAACAAAGGCACATATGTGCAATTCAGGGG
* * * *
31159754 TGTCGAAGTACAAATAGA
65 TATTGAAGTAAAAAAAGA
* * * * ** *
31159772 GGCACGTATGTGCAATTCAGAGTTATCGAAGTATAAACAAAGGCACGCATATGCAATTCAGGGGT
1 GGCACGTATGTGCAATTCAGAGGTACCAAAGTACAAACAAAGGCACATATGTGCAATTCAGGGGT
*
31159837 ACTGAAGTAAAAA
66 ATTGAAGTAAAAA
31159850 CAGGGGATAA
Statistics
Matches: 125, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
80 5 0.04
81 70 0.56
82 49 0.39
83 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (82 bp):
GGCACGTATGTGCAATTCAGAGGTACCAAAGTACAAACAAAGGCACATATGTGCAATTCAGGGGT
ATTGAAGTAAAAAAAGA
Found at i:31162706 original size:47 final size:47
Alignment explanation
Indices: 31162636--31162930 Score: 455
Period size: 47 Copynumber: 6.3 Consensus size: 47
31162626 CCCTTCGGGA
* * * * *
31162636 CTTATCACATTTATACACCTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
31162683 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
31162730 CTTATCACATATATACACTTCCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
31162777 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
31162824 CTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
31162871 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
31162918 CTTATCACATATA
1 CTTATCACATATA
31162931 CATATCTTGT
Statistics
Matches: 229, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 229 1.00
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:31169406 original size:49 final size:49
Alignment explanation
Indices: 31169346--31169704 Score: 514
Period size: 49 Copynumber: 7.3 Consensus size: 49
31169336 GTATGAGATA
31169346 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
31169395 TATATATGTGATAAGGCCTAATGGCCGATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCT-A------ATGGCCGATGTGATGAATGTGAAAGTGTG
31169451 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
31169500 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
31169549 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTG-AAG-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
31169596 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * * *
31169643 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
31169690 TATAAATGTGATAAG
1 TATATATGTGATAAG
31169705 TCCCGAAGGG
Statistics
Matches: 291, Mismatches: 11, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
47 99 0.34
48 5 0.02
49 137 0.47
50 1 0.00
55 1 0.00
56 48 0.16
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:31174279 original size:2 final size:2
Alignment explanation
Indices: 31174272--31174298 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31174262 CATTTTAACT
31174272 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
31174299 CACAAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31181751 original size:2 final size:2
Alignment explanation
Indices: 31181744--31181770 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31181734 CATTTTAACT
31181744 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
31181771 CACAAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31183887 original size:30 final size:30
Alignment explanation
Indices: 31183841--31183901 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31183831 TTCCCGAGCC
31183841 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
31183871 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
31183901 T
1 T
31183902 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:31184717 original size:64 final size:63
Alignment explanation
Indices: 31184612--31184819 Score: 188
Period size: 67 Copynumber: 3.2 Consensus size: 63
31184602 CATCATGTGC
*
31184612 ACAAGAGAGCTACAAGACATTATAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TA-AATGTAGCTAGGTCGCATGGGTG-TACTATGTGTACACCATG
31184677 TAG
61 TAG
* * * * * * *
31184680 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCAAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGT-GTACTA--TG-TGTACACCATGT
31184745 AG
62 AG
* * *
31184747 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTCGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGT-GTACT-ATGTGTACACCATGTAG
31184809 TACAAGAGAGC
1 -ACAAGAGAGC
31184820 CGAACTATAT
Statistics
Matches: 115, Mismatches: 19, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 24 0.21
65 3 0.03
66 22 0.19
67 33 0.29
68 13 0.11
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (63 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGTACTATGTGTACACCATGTAG
Found at i:31188807 original size:31 final size:29
Alignment explanation
Indices: 31188749--31188812 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
31188739 GATAGTTCAA
* * *
31188749 GTACTACATTAGGCATTTTCAAAGTACAT
1 GTACCACATTAGGCATTTTAAAAGTACAG
31188778 GTACCACATTAGGCATTTTATAAAAGTACAG
1 GTACCACATTAGGCA-TTT-TAAAAGTACAG
31188809 GTAC
1 GTAC
31188813 TGTAATAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 14 0.47
30 3 0.10
31 13 0.43
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (29 bp):
GTACCACATTAGGCATTTTAAAAGTACAG
Found at i:31190325 original size:62 final size:62
Alignment explanation
Indices: 31190186--31190416 Score: 214
Period size: 62 Copynumber: 3.7 Consensus size: 62
31190176 ACATGCTTCC
* * * * * *
31190186 ATACAGCCTGGGCACACGCCCATGTACCTTGGTCGTGTGGTT-TTCAAGCACAAATAGTAAGTG
1 ATACAGCCTGGGCACACGCCCGTGT-CCCTGGACGTGTGGTTCTT-AAGTACAAATAGTGAGTT
* * * *
31190249 ACACGGCCTGGGCACACGCCCGTGTCCCTGGCCGTATGGTTCTTAAGTACAAATAGTGAGTT
1 ATACAGCCTGGGCACACGCCCGTGTCCCTGGACGTGTGGTTCTTAAGTACAAATAGTGAGTT
* * * * * *
31190311 ATACAGCCTAGGCACACACCTGTGTCCCTAGACGTGTGGTTCTTAAGTAAAAACAGTGAGTT
1 ATACAGCCTGGGCACACGCCCGTGTCCCTGGACGTGTGGTTCTTAAGTACAAATAGTGAGTT
* * * * * * *
31190373 ACAC-GATCTGGGCACATGCACGTGTCCCTTGCCATGTGGTTCTT
1 ATACAG-CCTGGGCACACGCCCGTGTCCCTGGACGTGTGGTTCTT
31190417 TCCCAGGCCA
Statistics
Matches: 137, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
61 1 0.01
62 112 0.82
63 24 0.18
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (62 bp):
ATACAGCCTGGGCACACGCCCGTGTCCCTGGACGTGTGGTTCTTAAGTACAAATAGTGAGTT
Found at i:31197346 original size:62 final size:61
Alignment explanation
Indices: 31197269--31197436 Score: 158
Period size: 62 Copynumber: 2.7 Consensus size: 61
31197259 ACATCCTGCC
* * * * * * *
31197269 ACACGGCCTGGGCACATGCCCATGTGCCTTG-GTCGTGTTTTTTCAAGCACAAATAGTGAGTT
1 ACACGGCTTGGGCACATGCCCATATCCCTAGCGT-GTGGTTCTT-AAGCACAAACAGTGAGTT
* * * *
31197331 ACACGGCTTGGGCACACGCCCTTATCCCTAGCTGTGTGGTTCTTAAGTATAAACAGTGAGTT
1 ACACGGCTTGGGCACATGCCCATATCCCTAGC-GTGTGGTTCTTAAGCACAAACAGTGAGTT
* * * *
31197393 ACACGGGTTGGGCACATGCCCGTGTCCCTGGCCGTGTGGTTCTT
1 ACACGGCTTGGGCACATGCCCATATCCCTAG-CGTGTGGTTCTT
31197437 GCCCAAGCCG
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
62 77 0.89
63 8 0.09
64 2 0.02
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (61 bp):
ACACGGCTTGGGCACATGCCCATATCCCTAGCGTGTGGTTCTTAAGCACAAACAGTGAGTT
Found at i:31202093 original size:126 final size:126
Alignment explanation
Indices: 31201868--31202109 Score: 430
Period size: 126 Copynumber: 1.9 Consensus size: 126
31201858 TTTAGCCTTG
*
31201868 AGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACAATTCT
1 AGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACAATTCT
* *
31201933 TCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGGTA
66 TCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGGTA
* * *
31201994 AGAGGATATTCGAGTATTCAAGACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACGATTCT
1 AGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACAATTCT
31202059 TCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 TCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
31202110 AAGATCAATG
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
AGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACAATTCT
TCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGGTA
Found at i:31202228 original size:13 final size:13
Alignment explanation
Indices: 31202210--31202275 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
31202200 ACCATATATA
31202210 AATAATAAAAAAT
1 AATAATAAAAAAT
* *
31202223 AATAAT-AATAGT
1 AATAATAAAAAAT
*
31202235 AATTAAT-AGAAAT
1 AA-TAATAAAAAAT
31202248 AATTAATAAAAAAT
1 AA-TAATAAAAAAT
* *
31202262 ACTAATAATAAAT
1 AATAATAAAAAAT
31202275 A
1 A
31202276 CACTACAAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 6 0.14
13 31 0.72
14 6 0.14
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (13 bp):
AATAATAAAAAAT
Found at i:31202549 original size:43 final size:43
Alignment explanation
Indices: 31202390--31202539 Score: 219
Period size: 43 Copynumber: 3.5 Consensus size: 43
31202380 GCGTTTATTG
* *
31202390 AAAAAAACGCCGCTAAAAGTGCTGCCTTTTTAGTGGCGTTTGCT
1 AAAAAAGCGCCGCTAAAAGTGCTGCC-TTTTAGCGGCGTTTGCT
* *
31202434 AAAAAAGCGCCGCTACAAGTGCTACCTTTTAGCGGCGTTTGCT
1 AAAAAAGCGCCGCTAAAAGTGCTGCCTTTTAGCGGCGTTTGCT
* * * *
31202477 AAAAATGCGCCGCTAAAAGTGCTGCCTTTTAGCGGCATTTACC
1 AAAAAAGCGCCGCTAAAAGTGCTGCCTTTTAGCGGCGTTTGCT
31202520 AAAAAAGCGCCGCTAAAAGT
1 AAAAAAGCGCCGCTAAAAGT
31202540 CATGGCTTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
43 72 0.76
44 23 0.24
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (43 bp):
AAAAAAGCGCCGCTAAAAGTGCTGCCTTTTAGCGGCGTTTGCT
Found at i:31207085 original size:9 final size:9
Alignment explanation
Indices: 31207073--31207122 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
31207063 TGTTATATAC
*
31207073 GTTATGTGA
1 GTTATGTAA
31207082 GTTATGTAA
1 GTTATGTAA
*
31207091 ATTATGTAA
1 GTTATGTAA
*
31207100 GTTATGTGA
1 GTTATGTAA
31207109 GTTATGTAA
1 GTTATGTAA
31207118 GTTAT
1 GTTAT
31207123 TTTTTAAGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:31207095 original size:27 final size:27
Alignment explanation
Indices: 31207065--31207122 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
31207055 CCGTAAGTTG
*
31207065 TTATATACGTTATGTGAGTTATGTAAA
1 TTATATAAGTTATGTGAGTTATGTAAA
* *
31207092 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATATAAGTTATGTGAGTTATGTAAA
31207119 TTAT
1 TTAT
31207123 TTTTTAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.47
Consensus pattern (27 bp):
TTATATAAGTTATGTGAGTTATGTAAA
Found at i:31207551 original size:241 final size:241
Alignment explanation
Indices: 31207121--31207795 Score: 1235
Period size: 241 Copynumber: 2.8 Consensus size: 241
31207111 TATGTAAGTT
*
31207121 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAACCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
*
31207186 CGATATAAGGCAACCCGTCAGGTTTCCAAG-TTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCC-AGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
31207250 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
130 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
31207315 ATTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
195 ATTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
*
31207362 ATTTTTTAAGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
*
31207427 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAACATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
* * *
31207492 GGCTGGAGAGAAGGTCATCTATTGTTGTAATTTTAATGGACAAGCAAGCTACTTGGTAATAAATA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
*
31207557 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
196 TTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
*
31207603 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCTTTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
* *
31207668 CGATATAAGGCAACCCGTCAGGTTTTCAGCCTATATACTTTAAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
31207733 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
31207796 ATTAATTCAT
Statistics
Matches: 417, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
240 2 0.00
241 415 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
TTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
Found at i:31207867 original size:33 final size:33
Alignment explanation
Indices: 31207820--31207886 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
31207810 ATTCATACTT
* * *
31207820 AAGAACATATGCATTGGAACCAGTAGCAATGAG
1 AAGAACATACGCATTAGAACCAGTAGCAAAGAG
**
31207853 AAGAACATACGCATTAGAACTTGTAGCAAAGAG
1 AAGAACATACGCATTAGAACCAGTAGCAAAGAG
31207886 A
1 A
31207887 TCCAAAGGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (33 bp):
AAGAACATACGCATTAGAACCAGTAGCAAAGAG
Found at i:31210596 original size:25 final size:25
Alignment explanation
Indices: 31210568--31210632 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
31210558 GAGAAGCAGT
31210568 AGAGGGATGCCGACGGAGATGTAGA
1 AGAGGGATGCCGACGGAGATGTAGA
* * *
31210593 AGAGGGATGCCAATGGAGATGTAGC
1 AGAGGGATGCCGACGGAGATGTAGA
*
31210618 AGAGGGCTGCCGACG
1 AGAGGGATGCCGACG
31210633 ACGATGCAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.43, T:0.12
Consensus pattern (25 bp):
AGAGGGATGCCGACGGAGATGTAGA
Found at i:31212671 original size:20 final size:18
Alignment explanation
Indices: 31212626--31212663 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31212616 AGAAAGCTGA
*
31212626 GAAAGAAAAGGGAATTGG
1 GAAAGAAAAGGGAATGGG
31212644 GAAAGAAAAGGGAATCGGG
1 GAAAGAAAAGGGAAT-GGG
31212663 G
1 G
31212664 GAGAGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.47, C:0.03, G:0.42, T:0.08
Consensus pattern (18 bp):
GAAAGAAAAGGGAATGGG
Found at i:31212898 original size:22 final size:20
Alignment explanation
Indices: 31212871--31212927 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
31212861 TGTTTGACTT
31212871 TTTTATAATTTTTATATTGAA
1 TTTTATAATTTTTATATT-AA
31212892 TTATTAT-ATCTTTTATATTAA
1 TT-TTATAAT-TTTTATATTAA
31212913 TTTTAAATAATTTTT
1 TTTT--ATAATTTTT
31212928 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 19 0.61
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATATTAA
Found at i:31213319 original size:14 final size:14
Alignment explanation
Indices: 31213286--31213335 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
31213276 ATAACCCTTA
* *
31213286 AACCCATAACCCAT
1 AACCCCTAACCCCT
31213300 AA-CCCTAACCCCT
1 AACCCCTAACCCCT
*
31213313 AACCCCTAACACCT
1 AACCCCTAACCCCT
*
31213327 AACACCTAA
1 AACCCCTAA
31213336 ACCTTAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.40, C:0.46, G:0.00, T:0.14
Consensus pattern (14 bp):
AACCCCTAACCCCT
Found at i:31213329 original size:21 final size:20
Alignment explanation
Indices: 31213275--31213363 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 20
31213265 AATCATATAA
*
31213275 CATAACCCTTAAACCCATAACC
1 CATAACCC-T-AACCCCTAACC
31213297 CATAACCCTAACCCCTAACC
1 CATAACCCTAACCCCTAACC
* * *
31213317 CCTAACACCTAACACCTAAAC
1 CATAAC-CCTAACCCCTAACC
* * * *
31213338 CTTAAACCCCAACCCTTAAAC
1 CAT-AACCCTAACCCCTAACC
31213359 CATAA
1 CATAA
31213364 ACTATAAACC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
20 17 0.30
21 28 0.50
22 11 0.20
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (20 bp):
CATAACCCTAACCCCTAACC
Found at i:31213371 original size:14 final size:14
Alignment explanation
Indices: 31213354--31213407 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
31213344 CCCCAACCCT
*
31213354 TAAACCATAAACTA
1 TAAACCATAAACCA
*
31213368 TAAACCATAATCCA
1 TAAACCATAAACCA
*
31213382 TAAACCCATAATCCA
1 TAAA-CCATAAACCA
*
31213397 TAAACCTTAAA
1 TAAACCATAAA
31213408 ATAGTAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 21 0.60
15 14 0.40
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:31213724 original size:24 final size:23
Alignment explanation
Indices: 31213691--31213743 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
31213681 CCAAAATAAC
*
31213691 AATTAA-TTTTATATAGACTTTT
1 AATTAATTTTTATATAAACTTTT
31213713 AAATTAATTTTTATATAAACTTTT
1 -AATTAATTTTTATATAAACTTTT
31213737 AATTAAT
1 AATTAAT
31213744 ATACGAGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (23 bp):
AATTAATTTTTATATAAACTTTT
Found at i:31214405 original size:41 final size:41
Alignment explanation
Indices: 31214347--31214525 Score: 236
Period size: 41 Copynumber: 4.4 Consensus size: 41
31214337 AGTTATATGA
*
31214347 CTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
*
31214388 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* *
31214429 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTTCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * * * * *
31214470 -TTTTAGCGGTGTTTTAACAAAAAAACGTCGCTATTGCTCAGT
1 CTTTTAGCGGCGTTTT-AC-CAAAAGCGCCGCTAATGCTCTGT
31214512 -TTTTAGCGGCGTTT
1 CTTTTAGCGGCGTTT
31214526 CCGCTATTGC
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 14 0.11
41 79 0.64
42 31 0.25
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:31214908 original size:11 final size:11
Alignment explanation
Indices: 31214892--31214925 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
31214882 ATATATTTAC
*
31214892 ATAATAAATAT
1 ATAATAAATAA
31214903 ATAATAAATAA
1 ATAATAAATAA
31214914 ATAATATAATAA
1 ATAATA-AATAA
31214926 TATGAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAATAAATAA
Found at i:31214922 original size:16 final size:15
Alignment explanation
Indices: 31214894--31214925 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
31214884 ATATTTACAT
31214894 AATAAATATATAATA
1 AATAAATATATAATA
31214909 AATAAATAATATAATA
1 AATAAAT-ATATAATA
31214925 A
1 A
31214926 TATGAAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAAATATATAATA
Found at i:31215336 original size:18 final size:18
Alignment explanation
Indices: 31215313--31215385 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 18
31215303 ATAACAAGTA
*
31215313 GGGTGATAGAGTTAGTGG
1 GGGTGATAGAGGTAGTGG
*
31215331 GGGTGATGGAGGTAGTGG
1 GGGTGATAGAGGTAGTGG
* *
31215349 ATGGT-TTAGTAGGGT-GTGG
1 -GGGTGATAG-A-GGTAGTGG
*
31215368 GGGTGATGGAGGTAGTGG
1 GGGTGATAGAGGTAGTGG
31215386 ATGGTTTAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.07
18 26 0.62
19 10 0.24
20 3 0.07
ACGTcount: A:0.18, C:0.00, G:0.55, T:0.27
Consensus pattern (18 bp):
GGGTGATAGAGGTAGTGG
Found at i:31215377 original size:37 final size:37
Alignment explanation
Indices: 31215327--31215401 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
31215317 GATAGAGTTA
31215327 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
31215364 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
31215401 G
1 G
31215402 ATGGAGTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.55, T:0.29
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
Found at i:31215401 original size:29 final size:29
Alignment explanation
Indices: 31215368--31215424 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
31215358 TAGGGTGTGG
*
31215368 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGGTAATGGATGGTTTAGTA
* *
31215397 GGGTGATGGAGTTAATGGTTGGTTTAGT
1 GGGTGATGGAGGTAATGGATGGTTTAGT
31215425 GGAGTGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (29 bp):
GGGTGATGGAGGTAATGGATGGTTTAGTA
Found at i:31217417 original size:31 final size:31
Alignment explanation
Indices: 31217379--31217440 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
31217369 ATCTTAGATG
31217379 ATAGAAAGAATCCTTTTTATTGAGATGAAAT
1 ATAGAAAGAATCCTTTTTATTGAGATGAAAT
31217410 ATAGAAAGAATCCTTTTTATTGAGATGAAAT
1 ATAGAAAGAATCCTTTTTATTGAGATGAAAT
31217441 CTTATTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (31 bp):
ATAGAAAGAATCCTTTTTATTGAGATGAAAT
Found at i:31219459 original size:18 final size:18
Alignment explanation
Indices: 31219436--31219472 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
31219426 CTCCGTCTCA
31219436 GAAACCAGAAAGCGAGAC
1 GAAACCAGAAAGCGAGAC
31219454 GAAACCAGAAAGCGAGAC
1 GAAACCAGAAAGCGAGAC
31219472 G
1 G
31219473 GGAAATCCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.22, G:0.30, T:0.00
Consensus pattern (18 bp):
GAAACCAGAAAGCGAGAC
Found at i:31225198 original size:17 final size:15
Alignment explanation
Indices: 31225173--31225210 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
31225163 ACTATTTTTT
31225173 ATTTTTTATTTATAAA
1 ATTTTTTATTT-TAAA
31225189 ATTTTATTATTTTAAA
1 ATTTT-TTATTTTAAA
31225205 ATTTTT
1 ATTTTT
31225211 GTATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.67
17 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTTTTATTTTAAA
Found at i:31226309 original size:6 final size:6
Alignment explanation
Indices: 31226298--31226334 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
31226288 GAAAAAAAAT
*
31226298 AAATAA AAATAA AAAT-- AAACAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
31226335 ATTTAAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
4 3 0.11
6 24 0.89
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:31226311 original size:16 final size:16
Alignment explanation
Indices: 31226292--31226332 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
31226282 TTTTTTGAAA
*
31226292 AAAAATAAATAAAAAT
1 AAAAATAAACAAAAAT
31226308 AAAAATAAACAAAAAT
1 AAAAATAAACAAAAAT
31226324 AAAAATAAA
1 AAAAATAAA
31226333 AAATTTAAAG
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:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAATAAACAAAAAT
Found at i:31227405 original size:24 final size:24
Alignment explanation
Indices: 31227378--31227439 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
31227368 CTGCAAAGTT
* * *
31227378 CACTATCACTATCATCATAGTTTA
1 CACTATTACTATCATCATAGCTCA
31227402 CACTATTACTATCATCATAGCTCA
1 CACTATTACTATCATCATAGCTCA
*
31227426 CATTATTACTATCA
1 CACTATTACTATCA
31227440 ACTTCTTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (24 bp):
CACTATTACTATCATCATAGCTCA
Found at i:31229548 original size:26 final size:26
Alignment explanation
Indices: 31229519--31229571 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
31229509 ATGTGGTAGT
31229519 TAGACTATTTTTATAGTGAGTGGACA
1 TAGACTATTTTTATAGTGAGTGGACA
31229545 TAGACTATTTTTATAGTGAGTGGACA
1 TAGACTATTTTTATAGTGAGTGGACA
31229571 T
1 T
31229572 TTATGGACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.40
Consensus pattern (26 bp):
TAGACTATTTTTATAGTGAGTGGACA
Found at i:31238655 original size:40 final size:40
Alignment explanation
Indices: 31238553--31238704 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
31238543 AAATTGAATG
* * * * * *
31238553 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
31238593 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
31238633 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
31238673 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
31238705 AAATCGTGAT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.03
40 89 0.95
41 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Done.