Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 43 of 410
Found at i:10911856 original size:14 final size:13
Alignment explanation
Indices: 10911837--10911878 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
10911827 TCGTTTAGTT
10911837 TTAATTAAACTTAA
1 TTAATT-AACTTAA
10911851 TTAATTAACTTAA
1 TTAATTAACTTAA
10911864 TCATAATTAA-TTAA
1 T--TAATTAACTTAA
10911878 T
1 T
10911879 CACTAATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.31
14 11 0.42
15 7 0.27
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (13 bp):
TTAATTAACTTAA
Found at i:10918685 original size:12 final size:13
Alignment explanation
Indices: 10918670--10918699 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10918660 AAAAACTGGG
10918670 TTAAAAA-TATTT
1 TTAAAAAGTATTT
10918682 TTAAAAAGTATTT
1 TTAAAAAGTATTT
10918695 TTAAA
1 TTAAA
10918700 TTAGGCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
TTAAAAAGTATTT
Found at i:10920394 original size:29 final size:28
Alignment explanation
Indices: 10920350--10920410 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
10920340 TAATCGAATT
*
10920350 ATTTGAGTCAACTCGAATTT-TTTTTAA
1 ATTTGAGTCAAATCGAATTTGTTTTTAA
*
10920377 ATTTCGAGTTCAAATCGAGTTTGGTTTTTAA
1 ATTT-GAG-TCAAATCGAATTT-GTTTTTAA
10920408 ATT
1 ATT
10920411 CGAATAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.14
28 3 0.11
29 11 0.39
31 10 0.36
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.48
Consensus pattern (28 bp):
ATTTGAGTCAAATCGAATTTGTTTTTAA
Found at i:10927485 original size:50 final size:50
Alignment explanation
Indices: 10927387--10927650 Score: 375
Period size: 51 Copynumber: 5.2 Consensus size: 50
10927377 ACTTCTGATC
* *
10927387 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAATGATAAGTGGTAG-CTCAGCTACACTTATCTGATCAGTGACA
* *
10927438 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAATGATAAGTGGTAGCTCAGCTACACTTATCTGATCAGTGACA
* * * *
10927488 AGTGATAAATGATAAGTGGTAACCTCAGCTACACTTATCTGATAAGTGATA
1 AGTGACAAATGATAAGTGGT-AGCTCAGCTACACTTATCTGATCAGTGACA
* *
10927539 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAATGATAAGTGGTAGCTCAGCTACACTTATCTGATCAGTGACA
* **
10927589 AGTGATAAGCGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAATGATAAGTGGTAG-CTCAGCTACACTTATCTGATCAGTGACA
*
10927640 AGTGATAAATG
1 AGTGACAAATG
10927651 TGATCAGTGT
Statistics
Matches: 188, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
50 88 0.47
51 100 0.53
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (50 bp):
AGTGACAAATGATAAGTGGTAGCTCAGCTACACTTATCTGATCAGTGACA
Found at i:10927519 original size:101 final size:101
Alignment explanation
Indices: 10927387--10927650 Score: 465
Period size: 101 Copynumber: 2.6 Consensus size: 101
10927377 ACTTCTGATC
*
10927387 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
10927452 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
* * *
10927488 AGTGATAAATGATAAGTGGTAACCTCAGCTACACTTATCTGATAAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
10927553 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
* * *
10927589 AGTGATAAGCGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGATAAATG
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATG
10927651 TGATCAGTGT
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 153 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (101 bp):
AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
Found at i:10931604 original size:15 final size:15
Alignment explanation
Indices: 10931586--10931647 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
10931576 TTTATTTAGA
10931586 TTATATTTTAGTTAT
1 TTATATTTTAGTTAT
* *
10931601 TTATATTTTAATTGT
1 TTATATTTTAGTTAT
*
10931616 TTATGTTGTT-G-TAT
1 TTATATT-TTAGTTAT
10931630 TGTAATATTTTAGTTAT
1 T-T-ATATTTTAGTTAT
10931647 T
1 T
10931648 GAGTCGTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
14 3 0.08
15 22 0.61
16 7 0.19
17 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (15 bp):
TTATATTTTAGTTAT
Found at i:10938056 original size:12 final size:12
Alignment explanation
Indices: 10938039--10938093 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
10938029 TGTTTTCATG
10938039 AAAAAAA-AAAA
1 AAAAAAATAAAA
* *
10938050 CAAAAAATATAA
1 AAAAAAATAAAA
*
10938062 TAAAAAATAAAA
1 AAAAAAATAAAA
*
10938074 AATAAAATAAAA
1 AAAAAAATAAAA
*
10938086 TAAAAAAT
1 AAAAAAAT
10938094 TCTGGAGGGA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
11 6 0.17
12 29 0.83
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:10938073 original size:17 final size:17
Alignment explanation
Indices: 10938041--10938093 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
10938031 TTTTCATGAA
* *
10938041 AAAAAAAAACAAAAAAT
1 AAAATAAAATAAAAAAT
*
10938058 ATAATAAAAAATAAAAAAT
1 A-AA-ATAAAATAAAAAAT
10938077 AAAATAAAATAAAAAAT
1 AAAATAAAATAAAAAAT
10938094 TCTGGAGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 14 0.44
18 4 0.12
19 14 0.44
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAATAAAAAAT
Found at i:10938073 original size:24 final size:24
Alignment explanation
Indices: 10938039--10938093 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
10938029 TGTTTTCATG
* *
10938039 AAAAAA-AAAAACAAAAAATATAAT
1 AAAAAATAAAAA-ATAAAATAAAAT
10938063 AAAAAATAAAAAATAAAATAAAAT
1 AAAAAATAAAAAATAAAATAAAAT
10938087 AAAAAAT
1 AAAAAAT
10938094 TCTGGAGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.15
Consensus pattern (24 bp):
AAAAAATAAAAAATAAAATAAAAT
Found at i:10938092 original size:19 final size:19
Alignment explanation
Indices: 10938039--10938093 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
10938029 TGTTTTCATG
* *
10938039 AAAAAAAAAAACAAAAAAT
1 AAAATAAAAAATAAAAAAT
*
10938058 ATAATAAAAAATAAAAAAT
1 AAAATAAAAAATAAAAAAT
10938077 AAAAT--AAAATAAAAAAT
1 AAAATAAAAAATAAAAAAT
10938094 TCTGGAGGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 12 0.38
19 20 0.62
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAATAAAAAATAAAAAAT
Found at i:10940550 original size:315 final size:316
Alignment explanation
Indices: 10939973--10940906 Score: 1550
Period size: 315 Copynumber: 3.0 Consensus size: 316
10939963 TTGAAATAAA
* * * *
10939973 GGCTTCTTAATTCATAGATGTTATTAGCTCAATTAGTCAAATTTTTCAAAAGTTCTTTTAATTTT
1 GGCTCCTTAATTCACAGATGTTATTAGCTCCATTAGTCAAAATTTTCAAAAGTTCTTTTAATTTT
* *
10940038 TGAATTTTATTTAAAACCAAATAATATGCAAGAAAAGATATACAATAATGAGATGAGCACGGC-A
66 TGAATTTTATTTAAAACCAAATAATATGCAGGAAAAGATATACAACAATGAGATGAGCACGGCAA
* * *
10940102 TAGCATGACTACAGTGATCAATGACATGGGTGACACAAAATGTCAAGCCCTTTTAGGCTTGCGGA
131 TAGCACGACTACAGTGATCAACGACATGGGTGATACAAAATGTCAAGCCCTTTTAGGCTTGCGGA
*
10940167 TATTTTAGCCTAATATGTAATTTTATTTTCCTCAGTAGAACTTATCTCTTCAAATTCTGCTTGGA
196 TATTTTAGCCTAATATGTAATTTTATTTTCCTCAGCAGAACTTATCTCTTCAAATTCTGCTTGGA
*
10940232 ATTAAAAGGACAAATATTAAATTGAAGTTAATGGCTCATTAATTTCAGAAGTTAAT
261 ATTAAAAGGACAAATATTAAATTGATGTTAATGGCTCATTAATTTCAGAAGTTAAT
10940288 GGCTCCTTAATTCACAGATGTTATTAGCTCCATTAGTCAAAATTTTCAAAAGTTCTTTTAATTTT
1 GGCTCCTTAATTCACAGATGTTATTAGCTCCATTAGTCAAAATTTTCAAAAGTTCTTTTAATTTT
*
10940353 TGAATTTTATTTAAAACCAAATAATATGCAGGAAAAGATATACAACAATGAGATAAGCACGGCAA
66 TGAATTTTATTTAAAACCAAATAATATGCAGGAAAAGATATACAACAATGAGATGAGCACGGCAA
* * * * * *
10940418 AAGCACGACTACAGTGACCAACGACGTGGGCGATGC-AAATGTCAAGCTCTTTTAGGCTTGCGGA
131 TAGCACGACTACAGTGATCAACGACATGGGTGATACAAAATGTCAAGCCCTTTTAGGCTTGCGGA
* *
10940482 TATTTTAACCTAATATGTAATTTTATTTTCCTCAGCAGAGCTTATCTCTTCAAATTCTGCTTGGA
196 TATTTTAGCCTAATATGTAATTTTATTTTCCTCAGCAGAACTTATCTCTTCAAATTCTGCTTGGA
10940547 ATTAAAAGGACAAATATTAAATTGATGTTAATGGCTCATTTAA-TTCAGAAGTTAAT
261 ATTAAAAGGACAAATATTAAATTGATGTTAATGGCTCA-TTAATTTCAGAAGTTAAT
* * *
10940603 GACTCCTTAATTCACAAATGTTATTAGCTCCATTAGTCAAAATTTCCAAAAGTTCTTTTAATTTT
1 GGCTCCTTAATTCACAGATGTTATTAGCTCCATTAGTCAAAATTTTCAAAAGTTCTTTTAATTTT
* * *
10940668 TGAATTTTATTTAAAACCAAATAGTCTGCAGGAAAAGATATACAACAATGAGATGAGCACGGCAG
66 TGAATTTTATTTAAAACCAAATAATATGCAGGAAAAGATATACAACAATGAGATGAGCACGGCAA
* * **
10940733 TAGCACGACTATAGTGATCAACGACATGAGTGATACAAAATGTCAAGCCCTTTTAGGCTTGCAAA
131 TAGCACGACTACAGTGATCAACGACATGGGTGATACAAAATGTCAAGCCCTTTTAGGCTTGCGGA
*
10940798 TATTTTAGCCTAATATGTAATTTTATTTTCCTTAGCAGAACTTATCTCTTCAAATTCTGCTTGGA
196 TATTTTAGCCTAATATGTAATTTTATTTTCCTCAGCAGAACTTATCTCTTCAAATTCTGCTTGGA
*
10940863 ATTAAAAGGACAAATATTAAATTGATGTTAATGGCTCCTTAATT
261 ATTAAAAGGACAAATATTAAATTGATGTTAATGGCTCATTAATT
10940907 CACAGATGTT
Statistics
Matches: 574, Mismatches: 41, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
315 416 0.72
316 158 0.28
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (316 bp):
GGCTCCTTAATTCACAGATGTTATTAGCTCCATTAGTCAAAATTTTCAAAAGTTCTTTTAATTTT
TGAATTTTATTTAAAACCAAATAATATGCAGGAAAAGATATACAACAATGAGATGAGCACGGCAA
TAGCACGACTACAGTGATCAACGACATGGGTGATACAAAATGTCAAGCCCTTTTAGGCTTGCGGA
TATTTTAGCCTAATATGTAATTTTATTTTCCTCAGCAGAACTTATCTCTTCAAATTCTGCTTGGA
ATTAAAAGGACAAATATTAAATTGATGTTAATGGCTCATTAATTTCAGAAGTTAAT
Found at i:10945439 original size:52 final size:52
Alignment explanation
Indices: 10945317--10945467 Score: 160
Period size: 52 Copynumber: 2.9 Consensus size: 52
10945307 TGACGGAAAA
** * *
10945317 GATGTGATATGTGCGCCTGTATAAGACCATAGCTGGGCTATGGCATCAGTGC
1 GATGTGATATGTGATCCCGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
* * * * * * *
10945369 AATATGATACGTGTTCCCGTATAAGACCATAGTTGGGCTATGGCGT-GGTGT
1 GATGTGATATGTGATCCCGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
* * *
10945420 GATGTGATAATGTGATCCCGTATAAGACCATATTTGGGATATGACATC
1 GATGTGAT-ATGTGATCCCGTATAAGACCATAGTTGGGCTATGGCATC
10945468 GGTATTCTAT
Statistics
Matches: 79, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
51 9 0.11
52 70 0.89
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
GATGTGATATGTGATCCCGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
Found at i:10950653 original size:11 final size:11
Alignment explanation
Indices: 10950639--10950679 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
10950629 TGTTTTCTCT
*
10950639 CTATTTTGCTA
1 CTATTTTACTA
10950650 CTATTTTACTA
1 CTATTTTACTA
* *
10950661 TTATATTACTA
1 CTATTTTACTA
10950672 CTATTTTA
1 CTATTTTA
10950680 TTGTTATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:10950778 original size:30 final size:30
Alignment explanation
Indices: 10950716--10950778 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
10950706 ACTTATTTTA
* *
10950716 TTGTTAATTTTTTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
10950746 TTGTTAATTTTGTTATTATTTTAGAA-ACAT
1 TTGTTAATTTTGTTATTATTTTA-AAGACAT
10950776 TTG
1 TTG
10950779 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:10950921 original size:12 final size:12
Alignment explanation
Indices: 10950900--10950933 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10950890 TATATATTTT
*
10950900 AAAATTATATAA
1 AAAATAATATAA
10950912 AAAATAATATAA
1 AAAATAATATAA
*
10950924 AAATTAATAT
1 AAAATAATAT
10950934 GGGCGAGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:10953877 original size:3 final size:3
Alignment explanation
Indices: 10953869--10953904 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10953859 CGCCCAAAAC
10953869 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10953905 CTAGCACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10958421 original size:213 final size:213
Alignment explanation
Indices: 10958125--10959111 Score: 1071
Period size: 211 Copynumber: 4.7 Consensus size: 213
10958115 TTAATATAAT
* * *
10958125 ATGAGCATAATACTTACTTCATCGGAGGATGAATCTTCCTCACTACTAGACTCTGAACTACTATC
1 ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * * * ** *
10958190 AGCCTTCACTGTCTTAGCAGCTAGTATAGAGCCACTTTTAGCAACTATGGGTTTTTTCTTCTGAG
66 AGCTTTCACAGTCTTAGCAGCTAGAACAGAGCCAGTTTTAGCAACTACAGGTTTTTTATTCTGAG
*
10958255 CAGGAACTTCCTGGAATAAAACAAACA-ATTGAACAAT-AACAATCATGCAAAAGAATATTCCCA
131 CAGGAGCTTCCTGGAATAAAACAAA-ATATTGAAC-ATCAACAATCATGCAAAAGAATATTCCCA
10958318 ACCATGATAATATTATAAGC
194 ACCATGATAATATTATAAGC
* * *
10958338 ATGAGTATAATACTCACTTCGTCAGAGGATGAACCTTCCTCACTACTAGACTCAGAACTACTATC
1 ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * ** *** * *
10958403 AGCTTTCACAGCCTTAGCATCTGGAACAGATACAGTTTTAGTGGCTACAGATTTTTTATTCTGTG
66 AGCTTTCACAGTCTTAGCAGCTAGAACAGAGCCAGTTTTAGCAACTACAGGTTTTTTATTCTGAG
* * * *
10958468 CAGTAGCTTCCTGGGATAAGACAAAATATTGAACATCAACAATCATGCAAAAGAATACTCCCAAC
131 CAGGAGCTTCCTGGAATAAAACAAAATATTGAACATCAACAATCATGCAAAAGAATATTCCCAAC
* *
10958533 CAT-ACTAAAAATATAAGC
196 CATGA-TAATATTATAAGC
* * * *
10958551 AT-A-CATATTACTCACTTCATCAGAGGATGAGTCTTCTTCACTACTAGACTCAGAACTACTACC
1 ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * * *
10958614 AGCTTTAACAGTCTTAGCAGCCAGAATAGAGCCAGTTTTTGCAGCTACAGGTTTTTTATTCTGAG
66 AGCTTTCACAGTCTTAGCAGCTAGAACAGAGCCAGTTTTAGCAACTACAGGTTTTTTATTCTGAG
* * * * *
10958679 CAGGAGCTTCCT-GAA-AAAA-AAAA-ATTGAACATTAACAATTATACAAAAGAAT-GT-CCAAT
131 CAGGAGCTTCCTGGAATAAAACAAAATATTGAACATCAACAATCATGCAAAAGAATATTCCCAAC
* ** * *
10958738 TATGCGAATGTTTTAACTAGC
196 CATGATAATATTAT-A--AGC
* * *
10958759 AAGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTTGA---AGAACTGCTATC
1 ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * * * * *
10958821 AGCTTTCACTGTCTTGGCAGCTGGAACACAGGCC-TTTTTAGCAACTACAGGATTTTTCTTCTGA
66 AGCTTTCACAGTCTTAGCAGCTAGAACAGA-GCCAGTTTTAGCAACTACAGGTTTTTTATTCTGA
* *
10958885 GCAGGAGCTTCCTGG-ATAAAACAAAATATTGAACATCAAAAATCATAG-AAAAGAATATTACCA
130 GCAGGAGCTTCCTGGAATAAAACAAAATATTGAACATCAACAATCAT-GCAAAAGAATATTCCCA
* *
10958948 ACCATGCT-ATATTACAAGC
194 ACCATGATAATATTATAAGC
* * * *
10958967 ATGAGCATGATATTCACTTCGTCAGAGGATGAATCTTCCTCACTGCTAGACTCAGAACTACTATC
1 ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * * * * * *
10959032 ATCTTTCACTGTCTTGGCAGCTGGAACAGGGCCATTTTTAGAAACAACAGGTTTTTTATTCT--G
66 AGCTTTCACAGTCTTAGCAGCTAGAACAGAGCCAGTTTTAGCAACTACAGGTTTTTTATTCTGAG
10959095 -AGGAGCTTCCTGGAATA
131 CAGGAGCTTCCTGGAATA
10959112 TTAAAAAAAA
Statistics
Matches: 642, Mismatches: 110, Indels: 48
0.80 0.14 0.06
Matches are distributed among these distances:
205 10 0.02
206 2 0.00
207 98 0.15
208 76 0.12
209 12 0.02
210 71 0.11
211 183 0.29
212 13 0.02
213 177 0.28
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (213 bp):
ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
AGCTTTCACAGTCTTAGCAGCTAGAACAGAGCCAGTTTTAGCAACTACAGGTTTTTTATTCTGAG
CAGGAGCTTCCTGGAATAAAACAAAATATTGAACATCAACAATCATGCAAAAGAATATTCCCAAC
CATGATAATATTATAAGC
Found at i:10959025 original size:418 final size:420
Alignment explanation
Indices: 10958125--10959150 Score: 1166
Period size: 418 Copynumber: 2.4 Consensus size: 420
10958115 TTAATATAAT
* *
10958125 ATGAGCATAATACTT-ACTTCATCGGAGGATGAATCTTCCTCACTACTAGACTCTGAACTACTAT
1 ATGAGCAT-ATA-TTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTAT
* * * ** *
10958189 CAGCCTTCACTGTCTTAGCAGCTAGTATAGAGCCACTTTTAGCAACTATGGGTTTTTTCTTCTGA
64 CAGCTTTCACTGTCTTAGCAGCTAGAATAGAGCCA-TTTTTGCAACTACAGGTTTTTTATTCTGA
* * * * *
10958254 GCAGGAACTTCCTGGAATAAAACAAACAATTGAACAATAACAATCATGCAAAAGAATATTCCCAA
128 GCAGGAGCTTCCTGGAATAAAA-AAA-AATTGAACATTAACAATTATACAAAAGAATAGTCCCAA
* * * *
10958319 CCATGATAATATTATAAGCATGAGTATAATACTCACTTCGTCAGAGGATGAACCTTCCTCACTAC
191 CCATGAGAATATTATAAGCAAGAGCATAATACTCACTTCATCAGAGGATGAACCTTCCTCACTAC
* * * ***
10958384 TAGACTCAGAACTACTATCAGCTTTCACAGCCTTAGCATCTGGAACAGATACAGTTTTAGTGGCT
256 TAGA--CAGAACTACTATCAGCTTTCACAGCCTTAGCAGCTGGAACACAGACAGTTTTAGCAACT
* * * *
10958449 ACAGATTTTTTATTCTGTGCAGTAGCTTCCTGGGATAAGACAAAATATTGAACATCAACAATCAT
319 ACAGATTTTTTATTCTGAGCAGGAGCTTCCTGGGATAAAACAAAATATTGAACATCAAAAATCAT
* *
10958514 GCAAAAGAATACTCCCAACCATACTAAAAATATAAGC
384 GCAAAAGAATACTACCAACCATACTAAAAATACAAGC
* * * *
10958551 AT-A-CATATTACTCACTTCATCAGAGGATGAGTCTTCTTCACTACTAGACTCAGAACTACTACC
1 ATGAGCATA-TATTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * *
10958614 AGCTTTAACAGTCTTAGCAGCCAGAATAGAGCCAGTTTTTGCAGCTACAGGTTTTTTATTCTGAG
65 AGCTTTCACTGTCTTAGCAGCTAGAATAGAGCCA-TTTTTGCAACTACAGGTTTTTTATTCTGAG
**
10958679 CAGGAGCTTCCT-GAA-AAAAAAAAATTGAACATTAACAATTATACAAAAGAAT-GT-CCAATTA
129 CAGGAGCTTCCTGGAATAAAAAAAAATTGAACATTAACAATTATACAAAAGAATAGTCCCAACCA
* * * *
10958740 TGCGAATGTTTTAACTAGCAAGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTAC
194 TGAGAATATTAT-A--AGCAAGAGCATAATACTCACTTCATCAGAGGATGAACCTTCCTCACTAC
* * * * * * **
10958805 TTGA-AGAACTGCTATCAGCTTTCACTGTCTTGGCAGCTGGAACACAGGCCTTTTTAGCAACTAC
256 TAGACAGAACTACTATCAGCTTTCACAGCCTTAGCAGCTGGAACACAGACAGTTTTAGCAACTAC
*
10958869 AGGA-TTTTTCTTCTGAGCAGGAGCTTCCT-GGATAAAACAAAATATTGAACATCAAAAATCATA
321 A-GATTTTTTATTCTGAGCAGGAGCTTCCTGGGATAAAACAAAATATTGAACATCAAAAATCAT-
* * * *
10958932 G-AAAAGAATATTACCAACCATGCT-ATATTACAAGC
384 GCAAAAGAATACTACCAACCATACTAAAAATACAAGC
* *
10958967 ATGAGCATGATATTCACTTCGTCAGAGGATGAATCTTCCTCACTGCTAGACTCAGAACTACTATC
1 ATGAGCAT-ATATTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * * * * *
10959032 ATCTTTCACTGTCTTGGCAGCTGGAACAGGGCCATTTTTAGAAACAACAGGTTTTTTATTCT--G
65 AGCTTTCACTGTCTTAGCAGCTAGAATAGAGCCATTTTT-GCAACTACAGGTTTTTTATTCTGAG
* *
10959095 -AGGAGCTTCCTGGAATATTAAAAAAAAATTGAATATTAACGATTATAC-AAAGAATA
129 CAGGAGCTTCCTGG-A-A-TAAAAAAAAATTGAACATTAACAATTATACAAAAGAATA
10959151 CGTCTTGACC
Statistics
Matches: 507, Mismatches: 76, Indels: 40
0.81 0.12 0.06
Matches are distributed among these distances:
415 11 0.02
416 12 0.02
417 58 0.11
418 182 0.36
419 12 0.02
420 54 0.11
421 51 0.10
422 4 0.01
423 5 0.01
424 115 0.23
425 1 0.00
426 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (420 bp):
ATGAGCATATATTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCA
GCTTTCACTGTCTTAGCAGCTAGAATAGAGCCATTTTTGCAACTACAGGTTTTTTATTCTGAGCA
GGAGCTTCCTGGAATAAAAAAAAATTGAACATTAACAATTATACAAAAGAATAGTCCCAACCATG
AGAATATTATAAGCAAGAGCATAATACTCACTTCATCAGAGGATGAACCTTCCTCACTACTAGAC
AGAACTACTATCAGCTTTCACAGCCTTAGCAGCTGGAACACAGACAGTTTTAGCAACTACAGATT
TTTTATTCTGAGCAGGAGCTTCCTGGGATAAAACAAAATATTGAACATCAAAAATCATGCAAAAG
AATACTACCAACCATACTAAAAATACAAGC
Found at i:10960744 original size:16 final size:16
Alignment explanation
Indices: 10960703--10960749 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
10960693 TGTTTAACTG
10960703 TAAATAATA-TATGTTA
1 TAAATAATATTAT-TTA
*
10960719 T-TAT-ATATTATTTA
1 TAAATAATATTATTTA
10960733 TAAATAATATTATTTA
1 TAAATAATATTATTTA
10960749 T
1 T
10960750 CGTGTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 7 0.27
15 7 0.27
16 12 0.46
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAAATAATATTATTTA
Found at i:10966543 original size:2 final size:2
Alignment explanation
Indices: 10966536--10966566 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10966526 ATGAAATGTG
10966536 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10966567 AATAATTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10969660 original size:26 final size:26
Alignment explanation
Indices: 10969624--10969733 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
10969614 CATGAAATTC
*
10969624 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
10969650 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
10969676 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
10969702 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
10969728 TTATCA
1 TTATCA
10969734 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:10972523 original size:21 final size:21
Alignment explanation
Indices: 10972499--10972538 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10972489 AGGTTGATTG
*
10972499 TGATTTGGTATAATTTTGACA
1 TGATTTGGCATAATTTTGACA
*
10972520 TGATTTGGCATACTTTTGA
1 TGATTTGGCATAATTTTGA
10972539 TGTGTTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (21 bp):
TGATTTGGCATAATTTTGACA
Found at i:10980937 original size:17 final size:18
Alignment explanation
Indices: 10980912--10980945 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10980902 AATTTAGGCC
10980912 GTGTAGG-CCACACAGGT
1 GTGTAGGCCCACACAGGT
*
10980929 GTGTGGGCCCACACAGG
1 GTGTAGGCCCACACAGG
10980946 CTGGCCACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (18 bp):
GTGTAGGCCCACACAGGT
Found at i:10982717 original size:49 final size:49
Alignment explanation
Indices: 10982629--10982725 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
10982619 TCTAGAAGGG
* * * *
10982629 ATAAGTAGGGATAAGAGTGTAAACAGTGGAAGACTAAGTTTAGTAATGT
1 ATAAATAGGGATAAGAGTGCAAACAGTGGAAGACCAAGTTTAGAAATGT
* *
10982678 ATAAATAGTGATAAGAGTGCAGACAGT-GAGAGACCAAGTTTAGAAATG
1 ATAAATAGGGATAAGAGTGCAAACAGTGGA-AGACCAAGTTTAGAAATG
10982726 CATAGCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 2 0.05
49 39 0.95
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.24
Consensus pattern (49 bp):
ATAAATAGGGATAAGAGTGCAAACAGTGGAAGACCAAGTTTAGAAATGT
Found at i:10986242 original size:55 final size:53
Alignment explanation
Indices: 10986052--10986306 Score: 234
Period size: 55 Copynumber: 4.8 Consensus size: 53
10986042 ACGCGGGTAC
* * * *
10986052 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
10986101 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
10986154 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* *** * **
10986209 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGACTTAAAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * * *
10986262 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATCGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
10986307 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
49 39 0.23
50 1 0.01
52 2 0.01
53 48 0.28
54 10 0.06
55 70 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:10986243 original size:108 final size:110
Alignment explanation
Indices: 10986099--10986297 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
10986089 ATCCTTTTGA
* * * **
10986099 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA-CTCACCAA-
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGACTTAAAAACCTCACCAAT
10986162 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
66 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
10986207 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGACTTAAAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGACTTAAAAACCTCACCAAT
10986272 TGCCATGCCTTGGCATGGTCTTACAT
66 TGCCATGCCTTGGCATGGTCTTACAT
10986298 CGTATCCTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 48 0.59
109 7 0.09
110 26 0.32
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGACTTAAAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:10987614 original size:24 final size:24
Alignment explanation
Indices: 10987587--10987632 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10987577 AGTGTTATGT
*
10987587 GGAGGAAATCAAGGAGAGGATTGG
1 GGAGGAAATAAAGGAGAGGATTGG
*
10987611 GGAGGAAATAAATGAGAGGATT
1 GGAGGAAATAAAGGAGAGGATT
10987633 ATGCAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.41, T:0.15
Consensus pattern (24 bp):
GGAGGAAATAAAGGAGAGGATTGG
Found at i:10992052 original size:17 final size:17
Alignment explanation
Indices: 10992032--10992092 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
10992022 ATAATATATG
10992032 AAAAAGATGAATAGTAA
1 AAAAAGATGAATAGTAA
* * *
10992049 AAAAAGTAAACTTAATTGAAA
1 AAAAAG---A-TGAATAGTAA
10992070 AAAAAGATGAATAGTAA
1 AAAAAGATGAATAGTAA
10992087 AAAAAG
1 AAAAAG
10992093 TAAACTTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 19 0.56
18 1 0.03
20 1 0.03
21 13 0.38
ACGTcount: A:0.66, C:0.02, G:0.15, T:0.18
Consensus pattern (17 bp):
AAAAAGATGAATAGTAA
Found at i:10992073 original size:21 final size:21
Alignment explanation
Indices: 10992047--10992111 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
10992037 GATGAATAGT
10992047 AAAAAAAGTAAACTTAATTGA
1 AAAAAAAGTAAACTTAATTGA
* * *
10992068 AAAAAAAG---A-TGAATAGT
1 AAAAAAAGTAAACTTAATTGA
10992085 AAAAAAAGTAAACTTAATTGA
1 AAAAAAAGTAAACTTAATTGA
10992106 AAAAAA
1 AAAAAA
10992112 GTTAAAATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 13 0.38
18 1 0.03
20 1 0.03
21 19 0.56
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (21 bp):
AAAAAAAGTAAACTTAATTGA
Found at i:10992078 original size:38 final size:38
Alignment explanation
Indices: 10992032--10992111 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
10992022 ATAATATATG
10992032 AAAAAGATGAATAGTAAAAAAAGTAAACTTAATTGAAA
1 AAAAAGATGAATAGTAAAAAAAGTAAACTTAATTGAAA
10992070 AAAAAGATGAATAGTAAAAAAAGTAAACTTAATTGAAA
1 AAAAAGATGAATAGTAAAAAAAGTAAACTTAATTGAAA
10992108 AAAA
1 AAAA
10992112 GTTAAAATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.20
Consensus pattern (38 bp):
AAAAAGATGAATAGTAAAAAAAGTAAACTTAATTGAAA
Found at i:10992117 original size:21 final size:20
Alignment explanation
Indices: 10992047--10992113 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
10992037 GATGAATAGT
10992047 AAAAAAAGTAAACTTAATTG
1 AAAAAAAGTAAACTTAATTG
* * *
10992067 AAAAAAA--AGA-TGAATAG
1 AAAAAAAGTAAACTTAATTG
10992084 TAAAAAAAGTAAACTTAATTG
1 -AAAAAAAGTAAACTTAATTG
10992105 AAAAAAAGT
1 AAAAAAAGT
10992114 TAAAATCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
17 5 0.14
18 9 0.24
20 18 0.49
21 5 0.14
ACGTcount: A:0.64, C:0.03, G:0.12, T:0.21
Consensus pattern (20 bp):
AAAAAAAGTAAACTTAATTG
Found at i:10997787 original size:46 final size:46
Alignment explanation
Indices: 10997720--10997847 Score: 238
Period size: 46 Copynumber: 2.8 Consensus size: 46
10997710 TGTAACCTGC
*
10997720 CCATAAGTGAACTCGGACTCAACTCAGCGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
10997766 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
*
10997812 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
10997848 ATGCCTAGTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
Found at i:11000898 original size:26 final size:26
Alignment explanation
Indices: 11000862--11000971 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
11000852 TGATACAAAT
*
11000862 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11000888 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11000914 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11000940 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11000966 TGATAA
1 TGATAA
11000972 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:11005569 original size:17 final size:17
Alignment explanation
Indices: 11005533--11005567 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11005523 CAAAACAAAT
*
11005533 ATTATTTATTAAATTAA
1 ATTAATTATTAAATTAA
11005550 ATTAATTATATAAATTAA
1 ATTAATTAT-TAAATTAA
11005568 TTTTTCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAATTATTAAATTAA
Found at i:11005970 original size:22 final size:22
Alignment explanation
Indices: 11005945--11006036 Score: 71
Period size: 22 Copynumber: 4.2 Consensus size: 22
11005935 CTTTGTTGAA
11005945 CACTTCGATGCTCTCTGCTTAG
1 CACTTCGATGCTCTCTGCTTAG
* ** *
11005967 CACTTTCG-CGCTCTCTAATCAG
1 CAC-TTCGATGCTCTCTGCTTAG
* * *
11005989 CATTTCGATGCTCTTTTCTTAG
1 CACTTCGATGCTCTCTGCTTAG
* *
11006011 CACTTC-AGTGCTATCTGTTTAG
1 CACTTCGA-TGCTCTCTGCTTAG
11006033 CACT
1 CACT
11006037 ATGATGCGCT
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
21 5 0.10
22 43 0.83
23 4 0.08
ACGTcount: A:0.16, C:0.29, G:0.15, T:0.39
Consensus pattern (22 bp):
CACTTCGATGCTCTCTGCTTAG
Found at i:11008276 original size:46 final size:46
Alignment explanation
Indices: 11008223--11008398 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
11008213 TATTTGGGCA
*
11008223 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
11008269 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* * *
11008316 TCTGATCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11008362 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11008399 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11008378 original size:93 final size:93
Alignment explanation
Indices: 11008219--11008390 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
11008209 AGGATATTTG
*
11008219 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
11008284 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
11008312 GGCATCTGATCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
*
11008377 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
11008391 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:11011192 original size:15 final size:15
Alignment explanation
Indices: 11011172--11011240 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
11011162 GTATCTTGGG
11011172 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
11011187 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
11011202 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
11011217 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
11011232 TTTCTTTAT
1 TTTCTTTAT
11011241 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:11011241 original size:30 final size:30
Alignment explanation
Indices: 11011163--11011250 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
11011153 CATAGTATCG
* * * *
11011163 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
11011193 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
11011223 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
11011251 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:11013696 original size:46 final size:46
Alignment explanation
Indices: 11013643--11013818 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
11013633 TATTTGGGCA
*
11013643 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
11013689 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAAATAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAAT--G
* *
11013734 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * **
11013782 CCCGAGCTCGTTGAGTTGAGTCTAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11013819 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
45 1 0.01
46 62 0.56
47 27 0.24
48 1 0.01
49 1 0.01
50 8 0.07
51 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:11013810 original size:93 final size:93
Alignment explanation
Indices: 11013639--11013810 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
11013629 AGGATATTTG
* *
11013639 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
11013704 TTGAGTCCGAGTTCGAGAGATGTAAATA
66 TTGAGTCCAAGTTCGAGAGATGTAAATA
* * *
11013732 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
11013797 TTGAGTCTAAGTTC
66 TTGAGTCCAAGTTC
11013811 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAAATA
Found at i:11015681 original size:20 final size:20
Alignment explanation
Indices: 11015658--11015696 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11015648 ATCTTGAATA
*
11015658 GATTCTAATCAATTTGATTT
1 GATTCTAATCAAATTGATTT
*
11015678 GATTTTAATCAAATTGATT
1 GATTCTAATCAAATTGATT
11015697 CAATTGCCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (20 bp):
GATTCTAATCAAATTGATTT
Found at i:11017984 original size:20 final size:21
Alignment explanation
Indices: 11017946--11017984 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
11017936 AAAATTCTTT
*
11017946 TTTTTGAAAAATCATAATTTA
1 TTTTTGAAAAATCACAATTTA
*
11017967 TTTTT-AAAACTCACAATT
1 TTTTTGAAAAATCACAATT
11017985 CTAATAGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (21 bp):
TTTTTGAAAAATCACAATTTA
Found at i:11018575 original size:2 final size:2
Alignment explanation
Indices: 11018568--11018597 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11018558 TTTGTATGTT
11018568 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11018598 GGTGGAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11021183 original size:5 final size:5
Alignment explanation
Indices: 11021143--11021244 Score: 50
Period size: 5 Copynumber: 19.4 Consensus size: 5
11021133 GTTTTAATAT
* * *
11021143 ATTTA ATTCA ATACTA ATCTTA ATGTA ATTT- A-TTA ATTTA ATATTAA
1 ATTTA ATTTA AT-TTA AT-TTA ATTTA ATTTA ATTTA ATTTA AT-TT-A
* *
11021190 ATTTA ATTTA ATATT- CTATTA ATTTA A-TAA GATTTAA TATTTA ATTTA
1 ATTTA ATTTA AT-TTA AT-TTA ATTTA ATTTA -ATTT-A -ATTTA ATTTA
11021238 ATTTA AT
1 ATTTA AT
11021245 GTTTATCTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
3 2 0.03
4 4 0.05
5 45 0.60
6 16 0.21
7 8 0.11
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (5 bp):
ATTTA
Found at i:11021196 original size:30 final size:33
Alignment explanation
Indices: 11021145--11021218 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 33
11021135 TTTAATATAT
*
11021145 TTAATTCAATACTAATCTTAATGT-A-ATT-TA
1 TTAATTTAATACTAATCTTAATGTAATATTCTA
* *
11021175 TTAATTTAATATTAAAT-TTAATTTAATATTCTA
1 TTAATTTAATACT-AATCTTAATGTAATATTCTA
11021208 TTAATTTAATA
1 TTAATTTAATA
11021219 AGATTTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 17 0.46
31 4 0.11
32 3 0.08
33 13 0.35
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.51
Consensus pattern (33 bp):
TTAATTTAATACTAATCTTAATGTAATATTCTA
Found at i:11021197 original size:17 final size:17
Alignment explanation
Indices: 11021175--11021282 Score: 67
Period size: 16 Copynumber: 6.9 Consensus size: 17
11021165 ATGTAATTTA
11021175 TTAATTTAATATTAAAT
1 TTAATTTAATATTAAAT
**
11021192 TTAATTTAATATTCTA-
1 TTAATTTAATATTAAAT
*
11021208 TTAATTTAATA--AGAT
1 TTAATTTAATATTAAAT
11021223 TTAA--T-AT-TT-AAT
1 TTAATTTAATATTAAAT
* *
11021235 TTAATTTAATGTT-TAT
1 TTAATTTAATATTAAAT
* *
11021251 CTTAA-TAAATATTATA-
1 -TTAATTTAATATTAAAT
11021267 TTAATTTAATATTAAA
1 TTAATTTAATATTAAA
11021283 GTATAAGCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 21
0.70 0.10 0.21
Matches are distributed among these distances:
12 8 0.11
13 1 0.01
14 2 0.03
15 10 0.14
16 30 0.42
17 20 0.28
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TTAATTTAATATTAAAT
Found at i:11021275 original size:5 final size:6
Alignment explanation
Indices: 11021173--11021281 Score: 57
Period size: 5 Copynumber: 20.0 Consensus size: 6
11021163 TAATGTAATT
*
11021173 TATTAA T-TTAA TATTAA -ATTTAA T-TTAA TATT-C TATTAA T-TTAA
1 TATTAA TATTAA TATTAA TA-TTAA TATTAA TATTAA TATTAA TATTAA
* * *
11021217 TA--AGA T-TTAA TATTTAA T-TTAA T-TTAA TGTTTA TCTTAA TA--AA
1 TATTA-A TATTAA TA-TTAA TATTAA TATTAA TATTAA TATTAA TATTAA
11021260 TATT-A TATTAA T-TTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA
11021282 AGTATAAGCT
Statistics
Matches: 81, Mismatches: 6, Indels: 32
0.68 0.05 0.27
Matches are distributed among these distances:
4 5 0.06
5 44 0.54
6 27 0.33
7 5 0.06
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (6 bp):
TATTAA
Found at i:11034496 original size:97 final size:97
Alignment explanation
Indices: 11034330--11034589 Score: 394
Period size: 97 Copynumber: 2.7 Consensus size: 97
11034320 ATCGATATCA
* * *
11034330 CAACACATTTAAATCAACAGAAAACGGCTAACTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATCTGTTTCAAATTCAGGATTTAG
* *
11034395 CCATTAAGTTCGCTAAGAATTATTAAGGCTTT
66 CCATTAAGTTCGCAAAGAACTATTAAGGCTTT
* *
11034427 CAACACATTTAAAGCAACAGAAATCGACTAATTTTTCTCGAATCTGTTTCAAATTCAGGATTTAG
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATCTGTTTCAAATTCAGGATTTAG
*
11034492 CCATTATGTTCGCAAAGAACTATTAAGGCTTT
66 CCATTAAGTTCGCAAAGAACTATTAAGGCTTT
* * * * * *
11034524 CAACGCATTTAAATCAACAGAAACCGACTAATTTTTCTCCAATCTATTTCAAATTTAGGGTTTAG
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATCTGTTTCAAATTCAGGATTTAG
11034589 C
66 C
11034590 AATCAGGTGT
Statistics
Matches: 148, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 148 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (97 bp):
CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATCTGTTTCAAATTCAGGATTTAG
CCATTAAGTTCGCAAAGAACTATTAAGGCTTT
Found at i:11038243 original size:15 final size:16
Alignment explanation
Indices: 11038223--11038252 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11038213 ATGACAAAAT
11038223 CACATTAG-AACATAG
1 CACATTAGAAACATAG
11038238 CACATTAGAAACATA
1 CACATTAGAAACATA
11038253 CACCAAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.20, G:0.10, T:0.20
Consensus pattern (16 bp):
CACATTAGAAACATAG
Found at i:11038897 original size:42 final size:41
Alignment explanation
Indices: 11038847--11038959 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 41
11038837 TCGATGCCTT
* *
11038847 TGTCCCAGACAGGGTCTTACACGAA-ATCAGATACGATACC-G
1 TGTCCCAGACACGGTCTTACACGAATATCA-AT-CGAGACCTG
* * *
11038888 ATGTCCCAGACATGGTCTTATACGTAAATATCAATCGAGGCCTG
1 -TGTCCCAGACACGGTCTTACACG--AATATCAATCGAGACCTG
11038932 TGTCCCAGACACGGTCTTACACG-ATATC
1 TGTCCCAGACACGGTCTTACACGAATATC
11038960 TCAGATAGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
40 5 0.08
42 21 0.34
43 26 0.43
44 5 0.08
45 4 0.07
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (41 bp):
TGTCCCAGACACGGTCTTACACGAATATCAATCGAGACCTG
Found at i:11040098 original size:9 final size:9
Alignment explanation
Indices: 11040080--11040154 Score: 80
Period size: 9 Copynumber: 8.4 Consensus size: 9
11040070 AAAGTATAAG
11040080 ATTAACCGA
1 ATTAACCGA
*
11040089 ATTAATCGA
1 ATTAACCGA
*
11040098 ATTAACTGA
1 ATTAACCGA
*
11040107 ATT-ACCTA
1 ATTAACCGA
* *
11040115 ATTATCCAA
1 ATTAACCGA
*
11040124 ATTAATCGA
1 ATTAACCGA
*
11040133 ATTAACTGA
1 ATTAACCGA
11040142 ATTAACCGA
1 ATTAACCGA
11040151 ATTA
1 ATTA
11040155 TTTGTATAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
8 6 0.12
9 46 0.88
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (9 bp):
ATTAACCGA
Found at i:11040127 original size:35 final size:36
Alignment explanation
Indices: 11040088--11040155 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
11040078 AGATTAACCG
*
11040088 AATTAATCGAATTAACTGAATT-ACCTAATTATCCA
1 AATTAATCGAATTAACTGAATTAACCGAATTATCCA
11040123 AATTAATCGAATTAACTGAATTAACCGAATTAT
1 AATTAATCGAATTAACTGAATTAACCGAATTAT
11040156 TTGTATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 22 0.71
36 9 0.29
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (36 bp):
AATTAATCGAATTAACTGAATTAACCGAATTATCCA
Found at i:11046779 original size:46 final size:46
Alignment explanation
Indices: 11046719--11047081 Score: 521
Period size: 46 Copynumber: 7.9 Consensus size: 46
11046709 TTTGACATGA
* * * * * *
11046719 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGT
** * *
11046765 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
**
11046811 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
* * *
11046857 TGCCATGGTATCTTTTAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
* * *
11046903 TGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
*
11046949 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
**
11046995 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
11047041 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
11047082 TAGAGAGCAC
Statistics
Matches: 292, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
45 4 0.01
46 288 0.99
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
Found at i:11049231 original size:11 final size:11
Alignment explanation
Indices: 11049215--11049273 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
11049205 CTTTATATAC
11049215 TAATAAAATAA
1 TAATAAAATAA
11049226 TAATAAAATAA
1 TAATAAAATAA
* *
11049237 TAAAAAAATATCT
1 TAATAAAATA--A
* *
11049250 TATTAAAATAT
1 TAATAAAATAA
11049261 TAATAAAATAA
1 TAATAAAATAA
11049272 TA
1 TA
11049274 TTTATCTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 32 0.80
13 8 0.20
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:11049291 original size:27 final size:26
Alignment explanation
Indices: 11049226--11049302 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 26
11049216 AATAAAATAA
11049226 TAATAAAATAATAAAAAAATATCTTAT
1 TAAT-AAATAATAAAAAAATATCTTAT
*
11049253 TAA-AATATTAATAAAATAATAT-TTAT
1 TAATAA-A-TAATAAAAAAATATCTTAT
* *
11049279 CTAATTAAATAATTATAAAATATC
1 -TAA-TAAATAATAAAAAAATATC
11049303 AAAATATCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 30 0.75
28 1 0.03
29 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (26 bp):
TAATAAATAATAAAAAAATATCTTAT
Found at i:11050687 original size:43 final size:43
Alignment explanation
Indices: 11050638--11050776 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 43
11050628 TCCCTAACGT
* * *
11050638 GGTCTTACATGTAATTTAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATTTAATATCGATGCCTATGTCCCAGACAC
* * * *
11050681 GGTCTTACACG-AAATCAGATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAATTTA-ATATCGATGCCTATGTCCCAGACAC
* * * * *
11050723 GGTCTTATACGTAAATATCA-ATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGT-AATTTAATATCGATGCCTATGTCCCAGACAC
11050766 GGTCTTACACG
1 GGTCTTACACG
11050777 ATATCTCAGA
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
42 33 0.43
43 41 0.54
44 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATTTAATATCGATGCCTATGTCCCAGACAC
Found at i:11050717 original size:42 final size:40
Alignment explanation
Indices: 11050658--11050781 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 40
11050648 GTAATTTAAT
* *
11050658 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAA-ATCA
1 ATCGATGCC-GTGTCCCAGACACGGTCTTACACGAATATCA
* *
11050698 GATACGATGCCGATGTCCCAGACATGGTCTTATACGTAAATATCA
1 -AT-CGATGCCG-TGTCCCAGACACGGTCTTACACG--AATATCA
*
11050743 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACG-ATATC
1 ATCGATGCC-GTGTCCCAGACACGGTCTTACACGAATATC
11050782 TCAGATAGAT
Statistics
Matches: 71, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
40 5 0.07
41 2 0.03
42 28 0.39
43 27 0.38
44 5 0.07
45 4 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
ATCGATGCCGTGTCCCAGACACGGTCTTACACGAATATCA
Found at i:11055579 original size:24 final size:23
Alignment explanation
Indices: 11055550--11055594 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
11055540 AATATATTTT
*
11055550 TTATTTAAGTATCATTATATTAAA
1 TTATTTAAATATCATT-TATTAAA
*
11055574 TTATTTAAATATTATTTATTA
1 TTATTTAAATATCATTTATTA
11055595 TTATATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TTATTTAAATATCATTTATTAAA
Found at i:11055650 original size:27 final size:24
Alignment explanation
Indices: 11055576--11055652 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 24
11055566 ATATTAAATT
*
11055576 ATTT-AAATA-TTATTTATTATTAT
1 ATTTAAAATATTTA-TTATTATTAA
*
11055599 ATTTAAAATATTTCATGTATAATTAA
1 ATTTAAAATATTT-AT-TATTATTAA
11055625 ATTTACAAATAATTTATTAATTATTAA
1 ATTTA-AAAT-ATTTATT-ATTATTAA
11055652 A
1 A
11055653 AAGATTTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
23 4 0.09
24 5 0.11
25 3 0.07
26 14 0.32
27 14 0.32
28 4 0.09
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (24 bp):
ATTTAAAATATTTATTATTATTAA
Found at i:11068217 original size:19 final size:18
Alignment explanation
Indices: 11068184--11068219 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11068174 AGCAACGATC
*
11068184 TCAAAAACATAAAAATTA
1 TCAAAAACAAAAAAATTA
11068202 TCAAAAACAAACAAAATT
1 TCAAAAACAAA-AAAATT
11068220 CACATACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (18 bp):
TCAAAAACAAAAAAATTA
Found at i:11075473 original size:2 final size:2
Alignment explanation
Indices: 11075466--11075490 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11075456 TTTCACGTGA
11075466 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11075491 AGTTCCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11080127 original size:26 final size:26
Alignment explanation
Indices: 11080043--11080128 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
11080033 TTAAATTTCT
11080043 ATTTTCAATTCAATCTTTATATTTTA
1 ATTTTCAATTCAATCTTTATATTTTA
* ** ** *
11080069 ATTTTTTACATAAAAATGATTAAATTTCT-
1 A-TTTTCA-AT-TCAATCTTTATATTT-TA
11080098 ATTTTCAATTCAATCTTTATATTTTA
1 ATTTTCAATTCAATCTTTATATTTTA
11080124 ATTTT
1 ATTTT
11080129 ATAATCAGTC
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
25 1 0.02
26 16 0.37
27 7 0.16
28 7 0.16
29 11 0.26
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.01, T:0.56
Consensus pattern (26 bp):
ATTTTCAATTCAATCTTTATATTTTA
Found at i:11080150 original size:55 final size:55
Alignment explanation
Indices: 11080026--11080131 Score: 185
Period size: 55 Copynumber: 1.9 Consensus size: 55
11080016 CATTATTAAC
* *
11080026 AAAATGATTAAATTTCTATTTTCAATTCAATCTTTATATTTTAATTTTTTACATA
1 AAAATGATAAAATTTCTATTTTCAATTCAATCTTTATATTTTAATTTTATACATA
*
11080081 AAAATGATTAAATTTCTATTTTCAATTCAATCTTTATATTTTAATTTTATA
1 AAAATGATAAAATTTCTATTTTCAATTCAATCTTTATATTTTAATTTTATA
11080132 ATCAGTCTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (55 bp):
AAAATGATAAAATTTCTATTTTCAATTCAATCTTTATATTTTAATTTTATACATA
Found at i:11081140 original size:23 final size:22
Alignment explanation
Indices: 11081111--11081184 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 22
11081101 CATATGGTGA
11081111 AATTTAAACTCACATCAAACTTT
1 AATTTAAA-TCACATCAAACTTT
* *** **
11081134 AATTTAAATATACAT-ATGGTGA
1 AATTTAAAT-CACATCAAACTTT
11081156 AATTTAAATTCACATCAAACTTT
1 AATTTAAA-TCACATCAAACTTT
11081179 AATTTA
1 AATTTA
11081185 CCATTCAACT
Statistics
Matches: 36, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
22 15 0.42
23 21 0.58
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.38
Consensus pattern (22 bp):
AATTTAAATCACATCAAACTTT
Found at i:11081148 original size:45 final size:45
Alignment explanation
Indices: 11081094--11081184 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
11081084 TTCATTTAAA
11081094 AAATATACATATGGTGAAATTTAAACTCACATCAAACTTTAATTT
1 AAATATACATATGGTGAAATTTAAACTCACATCAAACTTTAATTT
*
11081139 AAATATACATATGGTGAAATTTAAATTCACATCAAACTTTAATTT
1 AAATATACATATGGTGAAATTTAAACTCACATCAAACTTTAATTT
11081184 A
1 A
11081185 CCATTCAACT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (45 bp):
AAATATACATATGGTGAAATTTAAACTCACATCAAACTTTAATTT
Found at i:11081170 original size:22 final size:22
Alignment explanation
Indices: 11081100--11081170 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
11081090 TAAAAAATAT
*
11081100 ACATATGGTGAAATTTAAACTC
1 ACATATGGTGAAATTTAAATTC
*** **
11081122 ACATCAAACTTTAATTTAAATAT-
1 ACAT-ATGGTGAAATTTAAAT-TC
11081145 ACATATGGTGAAATTTAAATTC
1 ACATATGGTGAAATTTAAATTC
11081167 ACAT
1 ACAT
11081171 CAAACTTTAA
Statistics
Matches: 35, Mismatches: 11, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
21 1 0.03
22 19 0.54
23 14 0.40
24 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (22 bp):
ACATATGGTGAAATTTAAATTC
Found at i:11086741 original size:38 final size:38
Alignment explanation
Indices: 11086685--11086757 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
11086675 AAAAAAATAT
* *
11086685 TTTTAAACAATTATGATTTAACAAAATCAGAATCTAAC
1 TTTTAAACAATTACGATTTAACAAAACCAGAATCTAAC
** *
11086723 TTTTAAACGGTTACGATTTGACAAAACCAGAATCT
1 TTTTAAACAATTACGATTTAACAAAACCAGAATCT
11086758 GGCTATTGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (38 bp):
TTTTAAACAATTACGATTTAACAAAACCAGAATCTAAC
Found at i:11089811 original size:46 final size:46
Alignment explanation
Indices: 11089735--11090048 Score: 450
Period size: 46 Copynumber: 6.8 Consensus size: 46
11089725 TGATGTCATA
* * * * * *
11089735 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGTTGCCATG
** *** *
11089781 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATG
*
11089828 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
**
11089874 GTATCTTTCAACCATGGTCTTACACATTTCATATCACATTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
11089920 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
11089966 GTATCTTTCAACCACGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
11090012 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11090049 AGAGCACGCT
Statistics
Matches: 248, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 209 0.84
47 39 0.16
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
Found at i:11091175 original size:26 final size:25
Alignment explanation
Indices: 11091146--11091255 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 25
11091136 TGGTACAAAT
11091146 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
11091172 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
* *
11091198 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATAGGTTAGGTAAATG-TTCA
*
11091224 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
11091250 TGATAA
1 TGATAA
11091256 GAATTTCATG
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
26 76 0.96
27 3 0.04
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:11091202 original size:52 final size:52
Alignment explanation
Indices: 11091146--11091255 Score: 175
Period size: 52 Copynumber: 2.1 Consensus size: 52
11091136 TGGTACAAAT
11091146 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
* ** * *
11091198 TGATAATGGGTTAGGTAAATGTTTTATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
11091250 TGATAA
1 TGATAA
11091256 GAATTTCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
Found at i:11092754 original size:26 final size:26
Alignment explanation
Indices: 11092688--11092763 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
11092678 GAAAGTAGCT
* * *
11092688 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-GTGCA
*
11092716 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTATTATACCCCTAGGTGCA
*
11092742 AAATTACCATTATACCCCTAGG
1 AAATTACTATTATACCCCTAGG
11092764 GTTAATTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGGTGCA
Found at i:11092968 original size:27 final size:26
Alignment explanation
Indices: 11092864--11092978 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
11092854 TGGAGGAAGC
* *
11092864 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
**
11092891 AATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
11092918 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
11092945 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
11092972 GTTCTGG
1 GTTCTGG
11092979 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.70
28 17 0.22
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:11092971 original size:54 final size:54
Alignment explanation
Indices: 11092864--11092978 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
11092854 TGGAGGAAGC
*
11092864 GTTCTGGTGGCTATGCCACAAATATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTAATCTGGTGACTCTGCCACATATATCT
* * * * *
11092918 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCT-AATCTGGTGACTCTGCCACATATATCT
11092972 GTTCTGG
1 GTTCTGG
11092979 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTAATCTGGTGACTCTGCCACATATATCT
Found at i:11097674 original size:26 final size:25
Alignment explanation
Indices: 11097633--11097695 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
11097623 CATAGAGAGA
* *
11097633 TTGAG-TTGAGATGGTCAGAGGTCTT
1 TTGAGTTTGAG-TGGTCAGAGGACCT
*
11097658 TTGAGTTTGAGTGGGTCCGAGGACCT
1 TTGAGTTTGAGT-GGTCAGAGGACCT
*
11097684 TTGACTTTGAGT
1 TTGAGTTTGAGT
11097696 TGTTCGAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.17, C:0.11, G:0.35, T:0.37
Consensus pattern (25 bp):
TTGAGTTTGAGTGGTCAGAGGACCT
Found at i:11097736 original size:26 final size:27
Alignment explanation
Indices: 11097660--11097736 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 27
11097650 GAGGTCTTTT
* * *
11097660 GAGTTTGAGTGGGTCCGAGGACC-TTT
1 GAGTTTGAGTTGGTCGGAGGACCATTA
* * * *
11097686 GACTTTGAGTTGTTCGAAGGTCCATTA
1 GAGTTTGAGTTGGTCGGAGGACCATTA
11097713 G-GTTTGAGTTGGTCGGAGGACCAT
1 GAGTTTGAGTTGGTCGGAGGACCAT
11097737 GAGCGGATCA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
26 36 0.92
27 3 0.08
ACGTcount: A:0.18, C:0.14, G:0.35, T:0.32
Consensus pattern (27 bp):
GAGTTTGAGTTGGTCGGAGGACCATTA
Found at i:11102403 original size:38 final size:37
Alignment explanation
Indices: 11102332--11102404 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 37
11102322 AAAAAATATT
* *
11102332 TTTTAAGAGTTACAATTTGACAAAATCAAAATCTAGC
1 TTTTAAAAGTTACAATTTGACAAAACCAAAATCTAGC
* * *
11102369 TTTTAAAATGTTACGATTTGACAGAACCAGAATCTA
1 TTTTAAAA-GTTACAATTTGACAAAACCAAAATCTA
11102405 ACTGTTGAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 7 0.23
38 23 0.77
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (37 bp):
TTTTAAAAGTTACAATTTGACAAAACCAAAATCTAGC
Found at i:11104663 original size:27 final size:25
Alignment explanation
Indices: 11104603--11104664 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 25
11104593 TGCTAATATG
* *
11104603 TATGAATTAAAAAGGTTGAATTTGA
1 TATGAATTAAAAAGATTGAATTGGA
* *
11104628 TAGTTAATTGAAATAGATTGAATTGGTA
1 TA-TGAATT-AAAAAGATTGAATTGG-A
11104656 TATGAATTA
1 TATGAATTA
11104665 TGAATGTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
25 2 0.07
26 6 0.21
27 18 0.62
28 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (25 bp):
TATGAATTAAAAAGATTGAATTGGA
Found at i:11107374 original size:15 final size:15
Alignment explanation
Indices: 11107354--11107387 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
11107344 CCTTGGAAAA
11107354 AACATTATTGAAAGG
1 AACATTATTGAAAGG
*
11107369 AACATTATTGAGAGG
1 AACATTATTGAAAGG
11107384 AACA
1 AACA
11107388 ATCATGAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (15 bp):
AACATTATTGAAAGG
Found at i:11113712 original size:41 final size:43
Alignment explanation
Indices: 11113664--11113757 Score: 113
Period size: 41 Copynumber: 2.2 Consensus size: 43
11113654 ACTGGCACAA
* * *
11113664 AGCCTGCTAGACTTTAAGTCTGA-ACTCA-TTCACCGGCATT-T
1 AGCCTGCTAGACTTGAAGCCTGATA-TCATTTCACCAGCATTAT
* *
11113705 CGCCTGCTAGGCTTGAAGCCTGATATCATTTCACCAGCATTAT
1 AGCCTGCTAGACTTGAAGCCTGATATCATTTCACCAGCATTAT
11113748 AGCCTGCTAG
1 AGCCTGCTAG
11113758 GCCCGAAGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 22 0.50
42 12 0.27
43 10 0.23
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (43 bp):
AGCCTGCTAGACTTGAAGCCTGATATCATTTCACCAGCATTAT
Found at i:11113766 original size:43 final size:42
Alignment explanation
Indices: 11113692--11113820 Score: 109
Period size: 43 Copynumber: 3.0 Consensus size: 42
11113682 TCTGAACTCA
* * ** *
11113692 TTCACCGGCATTTCGCCTGCTAGGCTTGAAGCCTGATATCAT
1 TTCACCAGCATTTAGCCTGCTAGGCCCGAAGCCCGATATCAT
11113734 TTCACCAGCATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-ATT
1 TTCACCAGCATT-TAGCCTGCTAGGCCCGAAGCCCGAT-ATCA-T
* * * *
11113778 ATTCACCAGC-TTAAACCTTGCTAGGCTCAAAGCCCGAATATCA
1 -TTCACCAGCATTTAGCC-TGCTAGGCCCGAAGCCCG-ATATCA
11113821 CCATTATAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
42 11 0.15
43 25 0.35
44 23 0.32
45 12 0.17
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (42 bp):
TTCACCAGCATTTAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:11113963 original size:28 final size:28
Alignment explanation
Indices: 11113932--11114010 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
11113922 GAATCATTTG
*
11113932 ATATTTTGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
11113960 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
11113988 ATATTTCGTACACTGAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
11114011 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:11118677 original size:25 final size:24
Alignment explanation
Indices: 11118648--11118698 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
11118638 GTAAAATATA
**
11118648 TATTTTTATTTTTTAAATATTTTTT
1 TATTTTTAAATTTTAAA-ATTTTTT
*
11118673 TATTTTTAAATTTTCAAATTTTTT
1 TATTTTTAAATTTTAAAATTTTTT
11118697 TA
1 TA
11118699 ACTTTCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (24 bp):
TATTTTTAAATTTTAAAATTTTTT
Found at i:11118678 original size:18 final size:19
Alignment explanation
Indices: 11118645--11118683 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11118635 TTTGTAAAAT
11118645 ATATATTTTTATTTTTTAA
1 ATATATTTTTATTTTTTAA
*
11118664 ATATTTTTTTA-TTTTTAA
1 ATATATTTTTATTTTTTAA
11118682 AT
1 AT
11118684 TTTCAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATATATTTTTATTTTTTAA
Found at i:11118696 original size:18 final size:19
Alignment explanation
Indices: 11118675--11118713 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
11118665 TATTTTTTTA
*
11118675 TTTTTAAATTT-TCAAATT
1 TTTTTAAATTTCTAAAATT
*
11118693 TTTTTAACTTTCTAAAATT
1 TTTTTAAATTTCTAAAATT
11118712 TT
1 TT
11118714 AGCTATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTAAATTTCTAAAATT
Found at i:11122739 original size:14 final size:15
Alignment explanation
Indices: 11122720--11122749 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11122710 GTTTATTATA
11122720 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
11122734 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
11122749 T
1 T
11122750 CTTAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:11125668 original size:19 final size:20
Alignment explanation
Indices: 11125641--11125687 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
11125631 TCATAAAAAA
*
11125641 AAAACAGCTT-GGTCAATAG
1 AAAATAGCTTAGGTCAATAG
11125660 AAAATAGCTTACAGGTCAATAG
1 AAAATAGCTT--AGGTCAATAG
11125682 AAAATA
1 AAAATA
11125688 AATTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
22 15 0.62
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATAGCTTAGGTCAATAG
Found at i:11125847 original size:18 final size:18
Alignment explanation
Indices: 11125826--11125891 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
11125816 TTTTTATTTT
11125826 TTAAAATATTTAAAATTA
1 TTAAAATATTTAAAATTA
*
11125844 TTAAAATATTAATAAAAATA
1 TTAAAATATT--TAAAATTA
* * *
11125864 TTATAATTTTTAATATTA
1 TTAAAATATTTAAAATTA
11125882 TTAAATATAT
1 TTAAA-ATAT
11125892 ATATTTAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 20 0.53
19 3 0.08
20 15 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAAATATTTAAAATTA
Found at i:11125963 original size:16 final size:16
Alignment explanation
Indices: 11125913--11125964 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
11125903 TTTACATTTA
11125913 TTTATATAATAAATTAT
1 TTTAT-TAATAAATTAT
**
11125930 AATATTAATATAATTAT
1 TTTATTAATA-AATTAT
*
11125947 TTTTTTAATAAATTAT
1 TTTATTAATAAATTAT
11125963 TT
1 TT
11125965 AATATTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTATTAATAAATTAT
Found at i:11126072 original size:15 final size:15
Alignment explanation
Indices: 11126052--11126107 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
11126042 ATTCAATACT
11126052 AATATTTTAATAATA
1 AATATTTTAATAATA
*
11126067 AATATTTTTACAATTATA
1 AATA-TTTT--AATAATA
* *
11126085 AATATATTAATAACA
1 AATATTTTAATAATA
11126100 AATATTTT
1 AATATTTT
11126108 GTAATATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
15 16 0.48
16 4 0.12
17 3 0.09
18 10 0.30
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:11127232 original size:35 final size:35
Alignment explanation
Indices: 11127192--11127264 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
11127182 GATAACAAAG
11127192 AAAGAATTTAATTTTTAATTTTTTAAGTAAGTTTA
1 AAAGAATTTAATTTTTAATTTTTTAAGTAAGTTTA
11127227 AAAGAATTTAATTTTTAATTTTTTAAGTAAGTTTA
1 AAAGAATTTAATTTTTAATTTTTTAAGTAAGTTTA
11127262 AAA
1 AAA
11127265 CATATTTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.49
Consensus pattern (35 bp):
AAAGAATTTAATTTTTAATTTTTTAAGTAAGTTTA
Found at i:11134922 original size:47 final size:47
Alignment explanation
Indices: 11134868--11135157 Score: 279
Period size: 47 Copynumber: 6.1 Consensus size: 47
11134858 TTAGGATTTT
** * *
11134868 ATGTGATGAATGTGAATGTGTATATATGAGATAAAGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
*
11134915 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
* * *
11134962 ATGCGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
* * *
11135009 ATGTGGTGAATATGAACATGCATATATGT-AGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGA-TAAAGCCGAATGGCCA
* * * *
11135056 ATGTGA-AATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGA-ATG--TGA-ACATGCATATATGTGATAAAGCCGAATGGCCA
* * * *
11135104 ATGTGA-AATATGTATGAGATATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGA-ATG--TGA-ACATGCATATATGTGATAAAGCCGAATGGCCA
11135152 ATGTGA
1 ATGTGA
11135158 AATATATATA
Statistics
Matches: 216, Mismatches: 20, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
46 2 0.01
47 133 0.62
48 74 0.34
49 3 0.01
50 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
Found at i:11134973 original size:94 final size:93
Alignment explanation
Indices: 11134872--11135199 Score: 292
Period size: 94 Copynumber: 3.4 Consensus size: 93
11134862 GATTTTATGT
* * *
11134872 GATGAATGTGAATGTGTATATATGAGATAAAGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAATATGTATATGTG-GATAAAGCCGAATGGCCAATGTGATGAATATGAACATGCA
*
11134937 TATATGT-GATAAGGCCGAATGGCCAATGC
65 TATATGTAG-TAAAGCCGAATGGCCAATGC
* * * *
11134966 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCA
1 GATGAATGTGAATATGTATATGTG-GATAAAGCCGAATGGCCAATGTGATGAATATGAACATGCA
* *
11135031 TATATGTAGTAAAGCCGAATGGCTAATGT
65 TATATGTAGTAAAGCCGAATGGCCAATGC
* * *
11135060 GA-AATATGTATGAGATATGTATATGTGG-TAAAGCCGAATGGCTAATGTGAAAT-ATGTATGAG
1 GATGA-ATG--TGA-ATATGTATATGTGGATAAAGCCGAATGGCCAATGTG--ATGA-ATATGA-
* * * *
11135122 ATATGC--ATATGTGGTAAAGCCGAATGGTCAATGT
58 ACATGCATATATGTAGTAAAGCCGAATGGCCAATGC
* *
11135156 GAAATATATATATGAGATATGTATATGTGG-TAAAGCCGAATGGC
1 G--AT-GA-ATGTGA-ATATGTATATGTGGATAAAGCCGAATGGC
11135200 TAGTGTGAAA
Statistics
Matches: 197, Mismatches: 24, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
93 1 0.01
94 86 0.44
95 20 0.10
96 31 0.16
97 17 0.09
98 38 0.19
100 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (93 bp):
GATGAATGTGAATATGTATATGTGGATAAAGCCGAATGGCCAATGTGATGAATATGAACATGCAT
ATATGTAGTAAAGCCGAATGGCCAATGC
Found at i:11135189 original size:98 final size:96
Alignment explanation
Indices: 11135032--11135215 Score: 307
Period size: 98 Copynumber: 1.9 Consensus size: 96
11135022 GAACATGCAT
*
11135032 ATATGTAGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTAGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
11135097 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
*
11135128 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTAGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
11135192 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
11135216 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.02
98 53 0.65
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (96 bp):
ATATGTAGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:11135231 original size:50 final size:48
Alignment explanation
Indices: 11135031--11135215 Score: 300
Period size: 48 Copynumber: 3.8 Consensus size: 48
11135021 TGAACATGCA
*
11135031 TATATGTAGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
11135079 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
11135127 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
11135177 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
11135216 GGCGATGTGC
Statistics
Matches: 127, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 80 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:11135469 original size:37 final size:37
Alignment explanation
Indices: 11135361--11135469 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
11135351 GGAAATATAT
* *
11135361 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
11135398 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
11135435 TCCGGGTAAGACCCGATAACTTCGTGTAGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
11135470 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:11142311 original size:28 final size:27
Alignment explanation
Indices: 11142279--11142342 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
11142269 AGGAAGCGTC
11142279 CTGGTGGCTATACCACAAATTATCGGAT
1 CTGGTGGCTATACCACAAA-TATCGGAT
* * * * *
11142307 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATACCACAAATATCGGAT
11142334 CTGGTGGCT
1 CTGGTGGCT
11142343 CTGCCACGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTATACCACAAATATCGGAT
Found at i:11142337 original size:27 final size:26
Alignment explanation
Indices: 11142279--11142391 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
11142269 AGGAAGCGTC
* * * *
11142279 CTGGTGGCTATACCACAAATTATCGGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
11142307 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
11142334 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
*
11142362 CTGGTGACTCTGCCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
11142388 CTGG
1 CTGG
11142392 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.49
28 32 0.42
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:11142364 original size:55 final size:54
Alignment explanation
Indices: 11142279--11142391 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
11142269 AGGAAGCGTC
*
11142279 CTGGTGGCTATACCACAAATTATCGGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATACCACAAATTATCGGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
11142334 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGCCACATTATCTGTT
1 CTGGTGGCTATACCACAAATTATC-GGATCTGGTGACTCTGCCACATTATCTGTT
11142388 CTGG
1 CTGG
11142392 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 18 0.35
55 34 0.65
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATACCACAAATTATCGGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:11149364 original size:31 final size:31
Alignment explanation
Indices: 11149306--11149364 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
11149296 GGGTGTTATA
* * * *
11149306 ACTCGTGTGGGCCTACACGCCCGTGTGGTTC
1 ACTCGTATGGGCCCACACACCCATGTGGTTC
*
11149337 ACTCGTATGGGCCCACATACCCATGTGG
1 ACTCGTATGGGCCCACACACCCATGTGG
11149365 CCCACACGAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (31 bp):
ACTCGTATGGGCCCACACACCCATGTGGTTC
Found at i:11162618 original size:11 final size:11
Alignment explanation
Indices: 11162589--11162619 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11162579 AACTGATAAG
*
11162589 TAATTCTCATT
1 TAATTCTTATT
11162600 TAATTCTTATT
1 TAATTCTTATT
11162611 TAATTCTTA
1 TAATTCTTA
11162620 AAGCTAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (11 bp):
TAATTCTTATT
Found at i:11166020 original size:27 final size:26
Alignment explanation
Indices: 11165983--11166097 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
11165973 AGCATGGCTG
* *
11165983 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
11166009 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
11166037 CCATAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
11166064 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
11166091 CCAGAAC
1 CCAGAAC
11166098 GCTTCCTTCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.73
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:11167754 original size:26 final size:26
Alignment explanation
Indices: 11167716--11167799 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
11167706 CATTAAATTC
* *
11167716 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
11167742 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
11167768 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
11167794 TTATCA
1 TTATCA
11167800 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:11169985 original size:43 final size:44
Alignment explanation
Indices: 11169938--11170089 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 44
11169928 CCCTAGACTT
*
11169938 GGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATATCGATGCCAACTGTCCCAGACAG
* * * * *
11169981 GGTCTTAAACGAAATCAAATA-CGATGCCGA-TGTCCTAGACAT
1 GGTCTTACACGTAATCAAATATCGATGCCAACTGTCCCAGACAG
*
11170023 GGTCTTACACGTAAATCTAAA-ATTGATGCCAAC-GTCCCA-A-ATG
1 GGTCTTACACGT-AATC-AAATATCGATGCCAACTGTCCCAGACA-G
* *
11170066 TGGTCTTACACGAAATCACATATC
1 -GGTCTTACACGTAATCAAATATC
11170090 TGAAATCCTA
Statistics
Matches: 87, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
42 30 0.34
43 31 0.36
44 26 0.30
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (44 bp):
GGTCTTACACGTAATCAAATATCGATGCCAACTGTCCCAGACAG
Found at i:11170021 original size:42 final size:44
Alignment explanation
Indices: 11169950--11170061 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 44
11169940 TCTTACATGT
11169950 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTAAACG-A
1 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTAAACGTA
* * *
11169993 AATCAAATA-CGATGCCGA-TGTCCTAGACATGGTCTTACACGTA
1 AATCAAATATCGATGCC-ACTGTCCCAGACAGGGTCTTAAACGTA
*
11170036 AATCTAAA-ATTGATGCCAAC-GTCCCA
1 AATC-AAATATCGATGCC-ACTGTCCCA
11170062 AATGTGGTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
42 27 0.47
43 16 0.28
44 15 0.26
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (44 bp):
AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTAAACGTA
Found at i:11170079 original size:86 final size:85
Alignment explanation
Indices: 11169919--11170083 Score: 203
Period size: 86 Copynumber: 1.9 Consensus size: 85
11169909 AGCTCGTACA
* *
11169919 ATGCCAATGCCCTAGACTTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAATGCCCTAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
11169984 CTTAAACGAAATCAAATACG
66 CTTAAACGAAATCAAATACG
* * *
11170004 ATGCCGATGTCCTAGACATGGTCTTACACGTAAATCTAAA-ATTGATGCCAAC-GTCCCA-A-AT
1 ATGCCAATGCCCTAGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTGTCCCAGACA-
*
11170065 GTGGTCTTACACGAAATCA
62 G-GGTCTTAAACGAAATCA
11170084 CATATCTGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
84 1 0.01
85 29 0.42
86 34 0.49
87 5 0.07
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAATGCCCTAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
CTTAAACGAAATCAAATACG
Found at i:11174415 original size:44 final size:44
Alignment explanation
Indices: 11174353--11174441 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
11174343 ATGTGTTTAA
*
11174353 AATAATAATAACTTTTGGTTGAAAATAGAACATTTGTAAAGATT
1 AATAATAATAACTTTTGGTTGAAAATAGAACATTCGTAAAGATT
* * *
11174397 AATAATAATAACTTTTGGTTGAAATTAGAATATTCGTAGAGATT
1 AATAATAATAACTTTTGGTTGAAAATAGAACATTCGTAAAGATT
11174441 A
1 A
11174442 CATTTGATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (44 bp):
AATAATAATAACTTTTGGTTGAAAATAGAACATTCGTAAAGATT
Found at i:11175961 original size:20 final size:19
Alignment explanation
Indices: 11175925--11175975 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
11175915 AAGGGTTATT
*
11175925 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
11175944 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
11175964 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
11175976 GTTGCTGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:11179031 original size:2 final size:2
Alignment explanation
Indices: 11179024--11179058 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11179014 TAGACTAGTC
11179024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11179059 CATGTCATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11189206 original size:42 final size:43
Alignment explanation
Indices: 11189126--11189229 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 43
11189116 CTTTGATTTG
** **
11189126 AGATTTACGTGTAAGACCATGTCTGGGACATCGACATCGTATT
1 AGATTTACGTGTAAGACCATGTCAAGGACAGAGACATCGTATT
* * *
11189169 AGATTT-CGTGTAAGACCCTGTCAAGGACAGAGGCATCGATACT
1 AGATTTACGTGTAAGACCATGTCAAGGACAGAGACATCG-TATT
* *
11189212 -GAATTACATGTAAGACCA
1 AGATTTACGTGTAAGACCA
11189230 CGTCTGGGAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 30 0.61
43 19 0.39
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (43 bp):
AGATTTACGTGTAAGACCATGTCAAGGACAGAGACATCGTATT
Found at i:11193028 original size:40 final size:40
Alignment explanation
Indices: 11192829--11193034 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
11192819 ATTGAATGAC
* * ** **
11192829 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAA-TAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC-AAGTGGTTAT
* * ** *
11192869 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGGTTAT
* *
11192909 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
* * * * *
11192949 ATCCTGGCTAACACCCGAAGGCATTTGTGCAACTCGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
*
11192989 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
11193029 ATCCGG
1 ATCCGG
11193035 TTGTATTCCG
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 130 0.95
41 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
Found at i:11200991 original size:40 final size:40
Alignment explanation
Indices: 11200792--11200996 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
11200782 ATTGAATGAC
* * ** *
11200792 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAA-TAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC-AAGTGATTAT
* * * *
11200832 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGATTAT
*
11200872 ATCCGGG-TAAGACCCGAAGGCATTCGTGCAAGTTG-TTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGATTAT
* * * * *
11200911 ATCTGGGCTAACACCCGAAGGCATTTGTGCAACTCATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGATTAT
* *
11200951 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGATTAT
11200991 ATCCGG
1 ATCCGG
11200997 TTGTATTCCG
Statistics
Matches: 135, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
38 3 0.02
39 30 0.22
40 99 0.73
41 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGATTAT
Found at i:11212448 original size:21 final size:20
Alignment explanation
Indices: 11212401--11212452 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
11212391 TCAGTTTCCA
* *
11212401 TCAGCTCGCTTGAGTTCGAT
1 TCAGCTCGTTTGAGCTCGAT
11212421 TCAGCTCGTTTGAGCTCGCAT
1 TCAGCTCGTTTGAGCTCG-AT
*
11212442 TTAGCTCGTTT
1 TCAGCTCGTTT
11212453 CTTCTTCATC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.38
Consensus pattern (20 bp):
TCAGCTCGTTTGAGCTCGAT
Found at i:11214337 original size:2 final size:2
Alignment explanation
Indices: 11214330--11214375 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
11214320 AAGACTATTC
* * *
11214330 AT AT AT AT AT AT AT AG AC AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11214372 AT AT
1 AT AT
11214376 GTGTGTGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:11214524 original size:89 final size:92
Alignment explanation
Indices: 11214420--11214624 Score: 260
Period size: 94 Copynumber: 2.2 Consensus size: 92
11214410 AATGGGAATT
*
11214420 ATGGGATTGCATTAACTGTTATTGTGG-A-TTATT-AT-TCACATGTGTGTGTGT-G-TTGCACG
1 ATGGGATTGCTTTAACTGTTATTGTGGAAGTTATTCATGT-ACATGTGTGTGTGTAGCTTGCA--
*
11214479 CATGTTTGTTTATATATATGGTGAGTGTAA
63 CATGTTTGTTTATATATATGATGAGTGTAA
* * *
11214509 ATGGGATCGCTTTAACTGTTATTGTGGAAAGTTTTTCATGTATATGTGTGTGTGTGAGCTTGCAC
1 ATGGGATTGCTTTAACTGTTATTGTGG-AAGTTATTCATGTACATGTGTGTGTGT-AGCTTGCAC
*
11214574 TTGTTTGTTTATATATATGATGAGTGTAA
64 ATGTTTGTTTATATATATGATGAGTGTAA
*
11214603 ATAGGATTGCTTTAACTGTTAT
1 ATGGGATTGCTTTAACTGTTAT
11214625 CATCAAAGAA
Statistics
Matches: 100, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
89 25 0.25
91 1 0.01
92 4 0.04
93 15 0.15
94 49 0.49
95 1 0.01
96 5 0.05
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.44
Consensus pattern (92 bp):
ATGGGATTGCTTTAACTGTTATTGTGGAAGTTATTCATGTACATGTGTGTGTGTAGCTTGCACAT
GTTTGTTTATATATATGATGAGTGTAA
Found at i:11215149 original size:25 final size:25
Alignment explanation
Indices: 11215090--11215141 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
11215080 TGGTAGTCCT
11215090 CTACATCGT-CGTCGGCAGCCCTATG
1 CTACATC-TCCGTCGGCAGCCCTATG
* *
11215115 CTACATCTCCGTCGGCATCCCTCTG
1 CTACATCTCCGTCGGCAGCCCTATG
11215140 CT
1 CT
11215142 GCTTCTCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.13, C:0.40, G:0.19, T:0.27
Consensus pattern (25 bp):
CTACATCTCCGTCGGCAGCCCTATG
Found at i:11216315 original size:9 final size:9
Alignment explanation
Indices: 11216303--11216396 Score: 84
Period size: 9 Copynumber: 10.6 Consensus size: 9
11216293 TATATCATAT
11216303 CATAACTTA
1 CATAACTTA
11216312 CATAACTTA
1 CATAACTTA
*
11216321 TATAACTTA
1 CATAACTTA
* *
11216330 GATAA-ATA
1 CATAACTTA
*
11216338 TATAACTTA
1 CATAACTTA
11216347 CATAACTTA
1 CATAACTTA
*
11216356 CATAA-ATA
1 CATAACTTA
* * *
11216364 TATATCATA
1 CATAACTTA
11216373 TCATAACTTA
1 -CATAACTTA
*
11216383 AATAACTTA
1 CATAACTTA
11216392 CATAA
1 CATAA
11216397 TACTTAAATA
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
8 11 0.16
9 51 0.75
10 6 0.09
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:11216341 original size:17 final size:18
Alignment explanation
Indices: 11216298--11216388 Score: 78
Period size: 17 Copynumber: 5.1 Consensus size: 18
11216288 AAATATATAT
11216298 CATATCATAACTTACATAA
1 CATAT-ATAACTTACATAA
* *
11216317 CTTATATAACTTAGATAA
1 CATATATAACTTACATAA
11216335 -ATATATAACTTACATAA
1 CATATATAACTTACATAA
* * * * *
11216352 CTTACATAA-ATATATAT
1 CATATATAACTTACATAA
*
11216369 CATATCATAACTTAAATAA
1 CATAT-ATAACTTACATAA
11216388 C
1 C
11216389 TTACATAATA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
17 23 0.42
18 22 0.40
19 10 0.18
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.35
Consensus pattern (18 bp):
CATATATAACTTACATAA
Found at i:11216342 original size:26 final size:26
Alignment explanation
Indices: 11216313--11216387 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
11216303 CATAACTTAC
*
11216313 ATAACTTATATAACTTAGATAAATAT
1 ATAACTTATATAACTTAAATAAATAT
* *
11216339 ATAACTTACATAACTTACATAAATAT
1 ATAACTTATATAACTTAAATAAATAT
* *
11216365 ATATCATATCATAACTTAAATAA
1 ATAACTTAT-ATAACTTAAATAA
11216388 CTTACATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 30 0.71
27 12 0.29
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (26 bp):
ATAACTTATATAACTTAAATAAATAT
Found at i:11216405 original size:43 final size:43
Alignment explanation
Indices: 11216339--11216446 Score: 144
Period size: 43 Copynumber: 2.4 Consensus size: 43
11216329 AGATAAATAT
*
11216339 ATAACTTACATAACTTACATAAATATATATCATATCATAACTTAA
1 ATAACTTACATAA--TACTTAAATATATATCATATCATAACTTAA
* * *
11216384 ATAACTTACATAATACTTAAATATTTATCATATCATATCTTAC
1 ATAACTTACATAATACTTAAATATATATCATATCATAACTTAA
*
11216427 ATAGCTTTACATAATACTTA
1 ATAAC-TTACATAATACTTA
11216447 CATAATACAT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
43 30 0.53
44 14 0.25
45 13 0.23
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.39
Consensus pattern (43 bp):
ATAACTTACATAATACTTAAATATATATCATATCATAACTTAA
Done.