Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 129 of 216
Found at i:41005406 original size:81 final size:81
Alignment explanation
Indices: 41005245--41005440 Score: 238
Period size: 81 Copynumber: 2.4 Consensus size: 81
41005235 GGGTATAACA
* * * *
41005245 GTCATTTTACCCATCGGGGGTATTTCGGTCA-TTTATCCTTTGGGGTTATTTCAGACATTTTACC
1 GTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTAGAGGTTATTTCAGACATTTTACC
* *
41005309 CTTTAGGGGTATTTCG
66 CTCTAGGAGTATTTCG
* * *
41005325 GTCATTTTATCCTTCAGTGGTATTTCGGTCATTTTACCCTTCAGAGG-TATTTC-GATCATTTTA
1 GTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTT-AGAGGTTATTTCAGA-CATTTTA
41005388 CCCATCTA-GAGTATTTCG
64 CCC-TCTAGGAGTATTTCG
* *
41005406 GTCATTTTACCCTTCGGGGGTATTTCAGACATTTT
1 GTCATTTTACCCTTCGGGGGTATTTCGGTCATTTT
41005441 CCCACGAATC
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 29 0.30
81 63 0.64
82 6 0.06
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTAGAGGTTATTTCAGACATTTTACC
CTCTAGGAGTATTTCG
Found at i:41011260 original size:16 final size:17
Alignment explanation
Indices: 41011229--41011261 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
41011219 GTTTATTTTG
41011229 ATGTTTTATTTTGAAATT
1 ATGTTTTA-TTTGAAATT
41011247 ATGTTTTA-TTGAAAT
1 ATGTTTTATTTGAAAT
41011262 GTGTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (17 bp):
ATGTTTTATTTGAAATT
Found at i:41011344 original size:12 final size:12
Alignment explanation
Indices: 41011329--41011353 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41011319 TCTATTTTAG
41011329 TACACTTCTATT
1 TACACTTCTATT
41011341 TACACTTCTATT
1 TACACTTCTATT
41011353 T
1 T
41011354 CAAAATTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TACACTTCTATT
Found at i:41013848 original size:50 final size:50
Alignment explanation
Indices: 41013793--41013898 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
41013783 CATTGAGATT
* ** * *
41013793 ATGAGAGGTCCTATGTAA-AACAGTGTCTAGGACATGGCGTTGGCACTGAG
1 ATGAGAGGTCCCACATAAGAACA-TGTCTAGGACATGGCATAGGCACTGAG
* * *
41013843 ATGAGAGGTCCCCCATAAGACCATGTCTAGGACATGGCATAGGCACTGAT
1 ATGAGAGGTCCCACATAAGAACATGTCTAGGACATGGCATAGGCACTGAG
41013893 ATGAGA
1 ATGAGA
41013899 ACTTCTATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 44 0.94
51 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGAACATGTCTAGGACATGGCATAGGCACTGAG
Found at i:41017454 original size:26 final size:27
Alignment explanation
Indices: 41017387--41017593 Score: 140
Period size: 27 Copynumber: 7.7 Consensus size: 27
41017377 TTCAACTCCT
*
41017387 AGGGGTATTTCGATCATTTTACCTTTC
1 AGGGGTATTTCGGTCATTTTACCTTTC
*
41017414 AAGGGTATTTCGGTCATTTTACCTTTC
1 AGGGGTATTTCGGTCATTTTACCTTTC
* * *
41017441 -GGGGTATTTTGGTCATTTTACCCATCC
1 AGGGGTATTTCGGTCATTTTA-CCTTTC
* ** *
41017468 A-GGATATTTCATTCATTTTACCCTTC
1 AGGGGTATTTCGGTCATTTTACCTTTC
** * * **
41017494 -GGGAGTATTTCAATTATTTCACCCATC
1 AGGG-GTATTTCGGTCATTTTACCTTTC
* *
41017521 -GAGGGTATTTTC-GTTATTTTACC-ATC
1 AG-GGGTA-TTTCGGTCATTTTACCTTTC
* *
41017547 AGGGGTATTTCGGTTATTTTACTCTTTG
1 AGGGGTATTTCGGTCATTTTAC-CTTTC
*
41017575 A-GGGTATTTCGGTAATTTT
1 AGGGGTATTTCGGTCATTTT
41017594 CCCACGAATC
Statistics
Matches: 148, Mismatches: 22, Indels: 20
0.78 0.12 0.11
Matches are distributed among these distances:
25 4 0.03
26 42 0.28
27 94 0.64
28 8 0.05
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.44
Consensus pattern (27 bp):
AGGGGTATTTCGGTCATTTTACCTTTC
Found at i:41017582 original size:80 final size:80
Alignment explanation
Indices: 41017387--41017584 Score: 190
Period size: 80 Copynumber: 2.5 Consensus size: 80
41017377 TTCAACTCCT
* * ** * ** *
41017387 AGGGGTATTTCGATCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCTTTCGGGGTATTTTG
1 AGGGGTATTTCGATTATTTTACCTTT-GAGGGTATTTCAATCATTTCACCCATCGGGGTATTTTC
41017452 GTCATTTTACCCATCC
65 GTCATTTTACCCATCC
* * *
41017468 A-GGATATTTC-ATTCATTTTACCCTTCG-GGAGTATTTCAATTATTTCACCCATCGAGGGTATT
1 AGGGGTATTTCGATT-ATTTTA-CCTTTGAGG-GTATTTCAATCATTTCACCCATCG-GGGTATT
*
41017530 TTCGTTATTTTA-CCAT-C
62 TTCGTCATTTTACCCATCC
*
41017547 AGGGGTATTTCGGTTATTTTACTCTTTGAGGGTATTTC
1 AGGGGTATTTCGATTATTTTAC-CTTTGAGGGTATTTC
41017585 GGTAATTTTC
Statistics
Matches: 94, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
79 7 0.07
80 61 0.65
81 26 0.28
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (80 bp):
AGGGGTATTTCGATTATTTTACCTTTGAGGGTATTTCAATCATTTCACCCATCGGGGTATTTTCG
TCATTTTACCCATCC
Found at i:41017593 original size:53 final size:52
Alignment explanation
Indices: 41017388--41017593 Score: 180
Period size: 53 Copynumber: 3.9 Consensus size: 52
41017378 TCAACTCCTA
** *
41017388 GGGGTATTTCGATCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCTTTC
1 GGGGTATTTCGATCATTTTACCCATCGAGGGTATTTCGGTCATTTTACC-TTC
* * * * **
41017441 GGGGTATTTTGGTCATTTTACCCATCCAGGATATTTCATTCATTTTACCCTTC
1 GGGGTATTTCGATCATTTTACCCATCGAGGGTATTTCGGTCATTTTA-CCTTC
* * * * *
41017494 GGGAGTATTTCAATTATTTCACCCATCGAGGGTATTTTC-GTTATTTTACCATC
1 GGG-GTATTTCGATCATTTTACCCATCGAGGGTA-TTTCGGTCATTTTACCTTC
* * * * * *
41017547 AGGGGTATTTCGGTTATTTTACTCTTTGAGGGTATTTCGGTAATTTT
1 -GGGGTATTTCGATCATTTTACCCATCGAGGGTATTTCGGTCATTTT
41017594 CCCACGAATC
Statistics
Matches: 123, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
52 4 0.03
53 80 0.65
54 35 0.28
55 4 0.03
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (52 bp):
GGGGTATTTCGATCATTTTACCCATCGAGGGTATTTCGGTCATTTTACCTTC
Found at i:41019057 original size:23 final size:25
Alignment explanation
Indices: 41019040--41019088 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
41019030 CTAATATTGC
41019040 AGCAAAGCTGCCAGTAATAGTATCA
1 AGCAAAGCTGCCAGTAATAGTATCA
*
41019065 TAGCAAAGCTGCTAGTAATAGTAT
1 -AGCAAAGCTGCCAGTAATAGTAT
41019089 ATGTGACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (25 bp):
AGCAAAGCTGCCAGTAATAGTATCA
Found at i:41019362 original size:26 final size:26
Alignment explanation
Indices: 41019279--41019622 Score: 345
Period size: 27 Copynumber: 12.9 Consensus size: 26
41019269 GGTATAACTA
41019279 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTC-G
* * **
41019306 TCATTCTACCTTACAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTC-G
41019333 TCATTTTACCCTATGGGGGTATTT-G
1 TCATTTTACCCTATGGGGGTATTTCG
* **
41019358 TTCATTTTACTCTATGGGCATATTTCAG
1 -TCATTTTACCCTATGGGGGTATTTC-G
* *
41019386 TCATTTTACCTTACGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTC-G
* ***
41019413 TCATTTTACCTTACAAGGGTATTTCG
1 TCATTTTACCCTATGGGGGTATTTCG
* *
41019439 ATCATTCTACCTTATGGGGGTATTTCAG
1 -TCATTTTACCCTATGGGGGTATTTC-G
* *
41019467 TCATTTTACCCTATGAGGGTATATTAG
1 TCATTTTACCCTATGGGGGTAT-TTCG
*
41019494 TTATTTTACCCTAT-GGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTC-G
* **
41019520 TCATTTTACTCTAT-AAGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTC-G
*
41019546 TCAATTTACCCTATGGGGGTATTTCG
1 TCATTTTACCCTATGGGGGTATTTCG
41019572 ATCATTTTACCCTAT-GGGGTATTTCG
1 -TCATTTTACCCTATGGGGGTATTTCG
*
41019598 ATCATTTTACCCTATGGGTGTATTT
1 -TCATTTTACCCTATGGGGGTATTT
41019623 TAGGGTCTCA
Statistics
Matches: 267, Mismatches: 40, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
25 3 0.01
26 90 0.34
27 170 0.64
28 4 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGGTATTTCG
Found at i:41019389 original size:53 final size:51
Alignment explanation
Indices: 41019279--41019622 Score: 347
Period size: 53 Copynumber: 6.5 Consensus size: 51
41019269 GGTATAACTA
* * *
41019279 TCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCTTACAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTC-GTCATTTTACC-TA-TGGGGTATTTCAG
*
41019333 TCATTTTACCCTATGGGGGTATTT-GTTCATTTTACTCTATGGGCATATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCG-TCATTTTAC-CTATGGG-GTATTTCAG
* * **
41019386 TCATTTTACCTTACGGGGGTATTTCGGTCATTTTACCTTACAAGGGTATTTC-G
1 TCATTTTACCCTATGGGGGTATTTC-GTCATTTTACC-TA-TGGGGTATTTCAG
* *
41019439 ATCATTCTACCTTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATATT-AG
1 -TCATTTTACCCTATGGGGGTATTTC-GTCATTTTA-CCTATG-GGGTAT-TTCAG
* **
41019494 TTATTTTACCCTAT-GGGGTATTTCAGTCATTTTACTCTATAAGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTC-GTCATTTTAC-CTATGGGGTATTTCAG
*
41019546 TCAATTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGTATTTC-G
1 TCATTTTACCCTATGGGGGTATTTCG-TCATTTTA-CCTATGGGGTATTTCAG
*
41019598 ATCATTTTACCCTATGGGTGTATTT
1 -TCATTTTACCCTATGGGGGTATTT
41019623 TAGGGTCTCA
Statistics
Matches: 247, Mismatches: 25, Indels: 37
0.80 0.08 0.12
Matches are distributed among these distances:
51 2 0.01
52 26 0.11
53 117 0.47
54 94 0.38
55 8 0.03
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (51 bp):
TCATTTTACCCTATGGGGGTATTTCGTCATTTTACCTATGGGGTATTTCAG
Found at i:41033152 original size:18 final size:17
Alignment explanation
Indices: 41033129--41033176 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
41033119 CCATTCATCG
41033129 TCTCTCACT-TCTCATCAT
1 TCTCTCACTCTCTCA--AT
41033147 TCTCTC-CTCTCTCAAT
1 TCTCTCACTCTCTCAAT
41033163 TCTCTCAACTCTCT
1 TCTCTC-ACTCTCT
41033177 TAGCTCTCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.30
17 2 0.07
18 17 0.63
ACGTcount: A:0.15, C:0.42, G:0.00, T:0.44
Consensus pattern (17 bp):
TCTCTCACTCTCTCAAT
Found at i:41041865 original size:16 final size:16
Alignment explanation
Indices: 41041840--41041873 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41041830 TTAATTGTTT
41041840 TTTATGTCTTTAGGAA
1 TTTATGTCTTTAGGAA
* *
41041856 TTTATTTCTTTAGTAA
1 TTTATGTCTTTAGGAA
41041872 TT
1 TT
41041874 AGGATTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (16 bp):
TTTATGTCTTTAGGAA
Found at i:41044795 original size:613 final size:613
Alignment explanation
Indices: 41043630--41044862 Score: 2349
Period size: 613 Copynumber: 2.0 Consensus size: 613
41043620 TTTATTGGTC
*
41043630 ATCTAAACTATCTGCTATTTTTGACAGGTCTAAGGATTTTCTTCTAATTGCAAAACCGTCCAAGT
1 ATCTAAACTATCTGCTATTTTTGACAAGTCTAAGGATTTTCTTCTAATTGCAAAACCGTCCAAGT
41043695 GGGGACCAAGCCAACCCAATTTTCGGCTGCACATGGCTGATTATAGACTAACTTTTGGTTTAATT
66 GGGGACCAAGCCAACCCAATTTTCGGCTGCACATGGCTGATTATAGACTAACTTTTGGTTTAATT
41043760 ATACAAGGTCCTGGAAGAATTGAAGAAATTTGAGATTTACCTGAAGATTTGCAGTTGACTGGGTC
131 ATACAAGGTCCTGGAAGAATTGAAGAAATTTGAGATTTACCTGAAGATTTGCAGTTGACTGGGTC
* *
41043825 TTAGTCCTGAATTGTTGTGGCATCCAAATTGACCAAAAATCAAGGAAACATTAGCTTGATTTTCT
196 TCAGTCCTGAATTGTTGTGGCATCCAAATTGACCAAAAATCAAGGAAAAATTAGCTTGATTTTCT
41043890 TGATTTATGACCGGTGAACCATGGGAGATTTTTCAAAGGATGAACACCCCTATATTTAGTAAACT
261 TGATTTATGACCGGTGAACCATGGGAGATTTTTCAAAGGATGAACACCCCTATATTTAGTAAACT
41043955 ATCCCCCTCTCCTAACCTATAAATAAAACCCTCTCATTCATTCATCTATCATCCCTCACTTCTCA
326 ATCCCCCTCTCCTAACCTATAAATAAAACCCTCTCATTCATTCATCTATCATCCCTCACTTCTCA
41044020 TCATTCTCTGCTCTCTCAATTCTCTCAACTCTCTTAGCTCTCACACCTATCATCATCCTTGCATA
391 TCATTCTCTGCTCTCTCAATTCTCTCAACTCTCTTAGCTCTCACACCTATCATCATCCTTGCATA
* *
41044085 AGGATTTCAGCAAACTAGTCTATTAAATAACCCTTGGTTGGCCACCTTGGAGAGCCATCAGTAAA
456 AGGATTTCAGCAAACTAGTCTATTAAATAACCCTTGGTTGGCCACCTTAGAAAGCCATCAGTAAA
41044150 GGAATTAAGCAAAGGAGCGAAGGAGCCTCGTCAGTCAGAGTCTTGGGTGACAGCCACTCTAAATT
521 GGAATTAAGCAAAGGAGCGAAGGAGCCTCGTCAGTCAGAGTCTTGGGTGACAGCCACTCTAAATT
41044215 GGGTTTAATCTTTCTCTTCTTTGATTTA
586 GGGTTTAATCTTTCTCTTCTTTGATTTA
41044243 ATCTAAACTATCTGCTATTTTTGACAAGTCTAAGGATTTTCTTCTAATTGCAAAACCGTCCAAGT
1 ATCTAAACTATCTGCTATTTTTGACAAGTCTAAGGATTTTCTTCTAATTGCAAAACCGTCCAAGT
41044308 GGGGACCAAGCCAACCCAATTTTCGGCTGCACATGGCTGATTATAGACTAACTTTTGGTTTAATT
66 GGGGACCAAGCCAACCCAATTTTCGGCTGCACATGGCTGATTATAGACTAACTTTTGGTTTAATT
*
41044373 ATACATGGTCCTGGAAGAATTGAAGAAATTTGAGATTTACCTGAAGATTTGCAGTTGACTGGGTC
131 ATACAAGGTCCTGGAAGAATTGAAGAAATTTGAGATTTACCTGAAGATTTGCAGTTGACTGGGTC
*
41044438 TCAGTCCTGAATTTTTGTGGCATCCAAATTGACCAAAAATCAAGGAAAAATTAGCTTGATTTTCT
196 TCAGTCCTGAATTGTTGTGGCATCCAAATTGACCAAAAATCAAGGAAAAATTAGCTTGATTTTCT
*
41044503 TGATTTATGACCGGTGAACCATGGGAGATTTTTCAAAGGATGAACACCCCTATTTTTAGTAAACT
261 TGATTTATGACCGGTGAACCATGGGAGATTTTTCAAAGGATGAACACCCCTATATTTAGTAAACT
*
41044568 ATCCCCCTCTCCTAACCTATAAATAAGACCCTCTCATTCATTCATCTATCATCCCTCACTTCTCA
326 ATCCCCCTCTCCTAACCTATAAATAAAACCCTCTCATTCATTCATCTATCATCCCTCACTTCTCA
*
41044633 TCATTCTCTGCTCTCTCAGTTCTCTCAACTCTCTTAGCTCTCACACCTATCATCATCCTTGCATA
391 TCATTCTCTGCTCTCTCAATTCTCTCAACTCTCTTAGCTCTCACACCTATCATCATCCTTGCATA
*
41044698 AGGATTTCAGCAAACTAGTCTCTTAAATAACCCTTGGTTGGCCACCTTAGAAAGCCATCAGTAAA
456 AGGATTTCAGCAAACTAGTCTATTAAATAACCCTTGGTTGGCCACCTTAGAAAGCCATCAGTAAA
*
41044763 GGAGTTAAGCAAAGGAGCGAAGGAGCCTCGTCAGTCAGAGTCTTGGGTGACAGCCACTCTAAATT
521 GGAATTAAGCAAAGGAGCGAAGGAGCCTCGTCAGTCAGAGTCTTGGGTGACAGCCACTCTAAATT
41044828 GGGTTTAATCTTTCTCTTCTTTGATTTA
586 GGGTTTAATCTTTCTCTTCTTTGATTTA
*
41044856 ATTTAAA
1 ATCTAAA
41044863 GATGTTTTCT
Statistics
Matches: 607, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
613 607 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (613 bp):
ATCTAAACTATCTGCTATTTTTGACAAGTCTAAGGATTTTCTTCTAATTGCAAAACCGTCCAAGT
GGGGACCAAGCCAACCCAATTTTCGGCTGCACATGGCTGATTATAGACTAACTTTTGGTTTAATT
ATACAAGGTCCTGGAAGAATTGAAGAAATTTGAGATTTACCTGAAGATTTGCAGTTGACTGGGTC
TCAGTCCTGAATTGTTGTGGCATCCAAATTGACCAAAAATCAAGGAAAAATTAGCTTGATTTTCT
TGATTTATGACCGGTGAACCATGGGAGATTTTTCAAAGGATGAACACCCCTATATTTAGTAAACT
ATCCCCCTCTCCTAACCTATAAATAAAACCCTCTCATTCATTCATCTATCATCCCTCACTTCTCA
TCATTCTCTGCTCTCTCAATTCTCTCAACTCTCTTAGCTCTCACACCTATCATCATCCTTGCATA
AGGATTTCAGCAAACTAGTCTATTAAATAACCCTTGGTTGGCCACCTTAGAAAGCCATCAGTAAA
GGAATTAAGCAAAGGAGCGAAGGAGCCTCGTCAGTCAGAGTCTTGGGTGACAGCCACTCTAAATT
GGGTTTAATCTTTCTCTTCTTTGATTTA
Found at i:41057229 original size:40 final size:40
Alignment explanation
Indices: 41057168--41057309 Score: 155
Period size: 40 Copynumber: 3.5 Consensus size: 40
41057158 GACATTAAAA
* ** **
41057168 TGCATTCAGGGATACTGAAGTACAAACAGGGGCATGTATAG
1 TGCATTCAGGGGTACCAAAGTACAAACAGGGGCACATAT-G
*
41057209 -GCATTCAGGGGTACCAAAGTACCAACAGGGGCACATATG
1 TGCATTCAGGGGTACCAAAGTACAAACAGGGGCACATATG
* **
41057248 TGTAATT-AGGGGGTACCAAAGTACAAACAAAGGCACATATG
1 TG-CATTCA-GGGGTACCAAAGTACAAACAGGGGCACATATG
41057289 TGCATTCA-GGGTACCAAAGTA
1 TGCATTCAGGGGTACCAAAGTA
41057310 AATTCACATA
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
39 14 0.16
40 37 0.43
41 35 0.41
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.20
Consensus pattern (40 bp):
TGCATTCAGGGGTACCAAAGTACAAACAGGGGCACATATG
Found at i:41061273 original size:37 final size:37
Alignment explanation
Indices: 41061227--41061317 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
41061217 TGTTTCTGAT
* **
41061227 TGGACTAGCTCTT-TGGAACAATTGGCGTGTTATCGTG-
1 TGGATTAGCTCTTAT-GAACAATTAACGTGTTATCG-GA
* *
41061264 TGGATTAGCTCTTATGAGCATTTAACGTGTTATCGGA
1 TGGATTAGCTCTTATGAACAATTAACGTGTTATCGGA
41061301 TGGATTAGCTCTTATGA
1 TGGATTAGCTCTTATGA
41061318 GCAGCTGGCG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 1 0.02
37 45 0.96
38 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.37
Consensus pattern (37 bp):
TGGATTAGCTCTTATGAACAATTAACGTGTTATCGGA
Found at i:41065364 original size:51 final size:51
Alignment explanation
Indices: 41065297--41065541 Score: 268
Period size: 51 Copynumber: 4.8 Consensus size: 51
41065287 GATACCGGTT
* * *
41065297 CACATAGTAGCCTGCACATAGTACTGCACATGTGACCATCACTATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
* * * * *
41065348 CACTTAGTAGCTTGCACATAGTACTACACACGTGATCA-AAGCTATTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATCTGGTA
* * *
41065399 CGCATAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTA
* * *
41065450 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTA
* *
41065500 CACGTAGTAGCCTGCA-ATAGTATTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
41065542 TTCACTTTCA
Statistics
Matches: 166, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
48 4 0.02
49 18 0.11
50 22 0.13
51 120 0.72
52 1 0.01
53 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
Found at i:41067598 original size:30 final size:30
Alignment explanation
Indices: 41067543--41067604 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
41067533 CACTAAAAAA
41067543 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
41067572 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
41067603 GT
1 GT
41067605 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:41067851 original size:25 final size:25
Alignment explanation
Indices: 41067823--41067887 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
41067813 GGCTCAAACA
41067823 AGCTGAGAATCGGTAAACTC-TCACG
1 AGCTGAGAATCGGTAAACTCAT-ACG
* *
41067848 AGCT-ACAATCGGTAAGCTCATACG
1 AGCTGAGAATCGGTAAACTCATACG
*
41067872 AGCTGAGAATCCGTAA
1 AGCTGAGAATCGGTAA
41067888 TCCCTAATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 20 0.59
25 14 0.41
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (25 bp):
AGCTGAGAATCGGTAAACTCATACG
Found at i:41085427 original size:15 final size:16
Alignment explanation
Indices: 41085407--41085436 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
41085397 ACGATGTGAT
41085407 TATAATAT-TGAATGA
1 TATAATATATGAATGA
41085422 TATAATATATGAATG
1 TATAATATATGAATG
41085437 TTTTTGATTG
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:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (16 bp):
TATAATATATGAATGA
Found at i:41096513 original size:41 final size:40
Alignment explanation
Indices: 41096455--41096586 Score: 122
Period size: 41 Copynumber: 3.2 Consensus size: 40
41096445 ATTTTCGAGG
*
41096455 TATGATTTCGTGTAAGACCATGTTTGGGACATTGGCATTGTA
1 TATGA-TTCGTGTAAGACCATGTCTGGGACA-TGGCATTGTA
* *
41096497 TATGATTCGTGTAAGACTC-TGTCTGGGACAGAGGCATCGATA
1 TATGATTCGTGTAAGAC-CATGTCTGGGACA-TGGCATTG-TA
* * * * *
41096539 TGTGATAACATGTAAGACCATATCTGGGATATGGCATTGTA
1 TATGAT-TCGTGTAAGACCATGTCTGGGACATGGCATTGTA
*
41096580 TGTGATT
1 TATGATT
41096587 TATGTGTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
41 36 0.49
42 20 0.27
43 18 0.24
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (40 bp):
TATGATTCGTGTAAGACCATGTCTGGGACATGGCATTGTA
Found at i:41097930 original size:25 final size:26
Alignment explanation
Indices: 41097902--41097956 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
41097892 TTGATTAGGT
41097902 AAATGGTAATGA-A-AGGGTTTGAATA
1 AAATGGTAATGATATA-GGTTTGAATA
*
41097927 AAAT-GTAATGATATATGTTTGAATA
1 AAATGGTAATGATATAGGTTTGAATA
41097952 AAATG
1 AAATG
41097957 TGTGTTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 7 0.27
25 18 0.69
26 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.22, T:0.33
Consensus pattern (26 bp):
AAATGGTAATGATATAGGTTTGAATA
Found at i:41100090 original size:27 final size:27
Alignment explanation
Indices: 41100050--41100285 Score: 256
Period size: 27 Copynumber: 8.7 Consensus size: 27
41100040 CGGGAAGGTT
* *
41100050 GTAAAATTATCGAAACACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
*
41100077 GTAAAATTACCGAAATACCCTCGATGA
1 GTAAAATTACCGAAATACCCTCGATGG
** ** *
41100104 GTAAAATTACTAAAATACCCTTAATAG
1 GTAAAATTACCGAAATACCCTCGATGG
*
41100131 GTAAAATTATCGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* *
41100158 GTAAAATTACCAAAATACCCTCGATAG
1 GTAAAATTACCGAAATACCCTCGATGG
* *
41100185 GTAAAATTACTGAAGTACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* * * * *
41100212 TTAAAATTATCAAAATACCCCCGAAGG
1 GTAAAATTACCGAAATACCCTCGATGG
* * **
41100239 GTGAAATTACCGAAATACCCCCGAAAG
1 GTAAAATTACCGAAATACCCTCGATGG
**
41100266 GTAAAATTAATGAAATACCC
1 GTAAAATTACCGAAATACCC
41100286 CCTTAGGGTA
Statistics
Matches: 172, Mismatches: 37, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 172 1.00
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCGATGG
Found at i:41100189 original size:81 final size:80
Alignment explanation
Indices: 41100050--41100285 Score: 321
Period size: 81 Copynumber: 2.9 Consensus size: 80
41100040 CGGGAAGGTT
*
41100050 GTAAAATTATCGAAACACCCTCGATGGGTAAAATTACCGAAATACCCTCGAT-GAGTAAAATTAC
1 GTAAAATTATCGAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGATAG-GTAAAATTAC
* *
41100114 TAAAATACCCTTAATAG
65 TGAAATACCCTCAAT-G
*
41100131 GTAAAATTATCGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATAGGTAAAATTACT
1 GTAAAATTATCGAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGATAGGTAAAATTACT
* *
41100196 GAAGTACCCTCGATG
66 GAAATACCCTCAATG
* * * * * * *
41100211 GTTAAAATTATCAAAATACCCCCGAAGGGTGAAATTACCGAAATACCCCCGAAAGGTAAAATTAA
1 G-TAAAATTATCGAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGATAGGTAAAATTAC
41100276 TGAAATACCC
65 TGAAATACCC
41100286 CCTTAGGGTA
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 135 0.98
82 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (80 bp):
GTAAAATTATCGAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGATAGGTAAAATTACT
GAAATACCCTCAATG
Found at i:41101321 original size:17 final size:18
Alignment explanation
Indices: 41101299--41101350 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
41101289 GGTTTTGTAC
41101299 AAGTTTTAAATGGAAAG-
1 AAGTTTTAAATGGAAAGA
* * *
41101316 AAGTTTGAAATTGCAAGA
1 AAGTTTTAAATGGAAAGA
*
41101334 AAGGTTTTCAATGGAAA
1 AA-GTTTTAAATGGAAA
41101351 CATGGTTTCA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 14 0.54
18 2 0.08
19 10 0.38
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (18 bp):
AAGTTTTAAATGGAAAGA
Found at i:41105406 original size:21 final size:21
Alignment explanation
Indices: 41105382--41105427 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
41105372 TCCCAGTTCC
*
41105382 AAAGAAGACTTAGGATAAGTT
1 AAAGAAGACTCAGGATAAGTT
* *
41105403 AAAGAATACTCAGGTTAAGTT
1 AAAGAAGACTCAGGATAAGTT
41105424 AAAG
1 AAAG
41105428 GAGGGTTGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.24
Consensus pattern (21 bp):
AAAGAAGACTCAGGATAAGTT
Found at i:41116241 original size:10 final size:10
Alignment explanation
Indices: 41116228--41116268 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
41116218 AAATACTCGT
41116228 GAAAAAAAAA
1 GAAAAAAAAA
*
41116238 GAAACAAAAA
1 GAAAAAAAAA
*
41116248 GAAAAGAAAA
1 GAAAAAAAAA
41116258 GAAAAAGAAAA
1 GAAAAA-AAAA
41116269 AAGCATATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 22 0.85
11 4 0.15
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:41116252 original size:16 final size:17
Alignment explanation
Indices: 41116229--41116269 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
41116219 AATACTCGTG
41116229 AAAA-AAAAAG-AAACA
1 AAAAGAAAAAGAAAACA
*
41116244 AAAAG-AAAAGAAAAGA
1 AAAAGAAAAAGAAAACA
41116260 AAAAGAAAAA
1 AAAAGAAAAA
41116270 AGCATATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 9 0.41
16 9 0.41
17 4 0.18
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAGAAAACA
Found at i:41149768 original size:9 final size:9
Alignment explanation
Indices: 41149754--41149811 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
41149744 TTTGGTTAAA
41149754 AATTAACCG
1 AATTAACCG
41149763 AATTAACCG
1 AATTAACCG
* **
41149772 GATTCCCCG
1 AATTAACCG
41149781 AATTAACCG
1 AATTAACCG
*
41149790 AATTACCCG
1 AATTAACCG
41149799 AATTAACCG
1 AATTAACCG
41149808 AATT
1 AATT
41149812 GAATCACTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:41149783 original size:18 final size:18
Alignment explanation
Indices: 41149754--41149811 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
41149744 TTTGGTTAAA
*
41149754 AATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
* *
41149772 GATTCCCCGAATTAACCG
1 AATTACCCGAATTAACCG
41149790 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
41149808 AATT
1 AATT
41149812 GAATCACTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:41152934 original size:18 final size:17
Alignment explanation
Indices: 41152903--41152939 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
41152893 ATGATTTAAA
*
41152903 CAAATAAATTTATATAT
1 CAAATAAATATATATAT
41152920 CAAATTAAATATATATAT
1 CAAA-TAAATATATATAT
41152938 CA
1 CA
41152940 TAAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (17 bp):
CAAATAAATATATATAT
Found at i:41153329 original size:4 final size:4
Alignment explanation
Indices: 41153310--41153343 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
41153300 ATCCGTGCAA
*
41153310 TTTC TTTC TATC -TTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
41153344 TATACCAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 25 0.93
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:41153330 original size:15 final size:16
Alignment explanation
Indices: 41153310--41153343 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
41153300 ATCCGTGCAA
41153310 TTTCTTTCTATC-TTC
1 TTTCTTTCTATCTTTC
*
41153325 TTTCTTTCTTTCTTTC
1 TTTCTTTCTATCTTTC
41153341 TTT
1 TTT
41153344 TATACCAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTTCTATCTTTC
Found at i:41160334 original size:36 final size:36
Alignment explanation
Indices: 41160294--41160366 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
41160284 TGAAATAGGA
*
41160294 AAACTACTCCTAATCACCCTCTACTTCCTATTATAT
1 AAACTACTCCTAATCACCCTCTACTTCCTATAATAT
* *
41160330 AAACTACTCCTATTCACCCTTTACTTCCTATAATAT
1 AAACTACTCCTAATCACCCTCTACTTCCTATAATAT
41160366 A
1 A
41160367 GAAAACTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.37
Consensus pattern (36 bp):
AAACTACTCCTAATCACCCTCTACTTCCTATAATAT
Found at i:41161782 original size:6 final size:6
Alignment explanation
Indices: 41161773--41161799 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
41161763 GATATCACGC
41161773 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
41161800 GAATTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:41162256 original size:17 final size:17
Alignment explanation
Indices: 41162230--41162281 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
41162220 AAAACTATAT
* *
41162230 TTTAATTTAATTCTTAA
1 TTTAAATTAATTCCTAA
*
41162247 TTTAAATTAA-CCCTAA
1 TTTAAATTAATTCCTAA
*
41162263 TTCTAAATTAATTTCTAA
1 TT-TAAATTAATTCCTAA
41162281 T
1 T
41162282 CTTATTGCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 6 0.21
17 17 0.61
18 5 0.18
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAATTAATTCCTAA
Found at i:41162795 original size:48 final size:46
Alignment explanation
Indices: 41162722--41162944 Score: 236
Period size: 48 Copynumber: 4.7 Consensus size: 46
41162712 GTGAACCTAC
* *
41162722 ATGCAAACCCT-TATGGATTTGGTATGCGAACCCCTATATGTTTTAAT
1 ATGCGAACCCTATAT-GATTTAGTATGCGAACCCC-ATATGTTTTAAT
* * *
41162769 ATGCGAACTCTAATATGATTTAGTATGCAAACCTCCATATGTTTTATT
1 ATGCGAACCCT-ATATGATTTAGTATGCGAACC-CCATATGTTTTAAT
* * * *
41162817 ATGCGAA-CCTTTATGAATTTAGTATGTGAACCCCCTATACGTTTTATT
1 ATGCGAACCCTATATG-ATTTAGTATGCGAA-CCCC-ATATGTTTTAAT
*
41162865 ATGCGAACCCT-TATGGATTTAGCATGCGAACCCCATATGTTTTAAT
1 ATGCGAACCCTATAT-GATTTAGTATGCGAACCCCATATGTTTTAAT
* *
41162911 ATGCGAACCCTTATGTGATTTATTATGCGAACCC
1 ATGCGAACCC-TATATGATTTAGTATGCGAACCC
41162945 TACATGCAAA
Statistics
Matches: 149, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
46 24 0.16
47 46 0.31
48 70 0.47
49 9 0.06
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (46 bp):
ATGCGAACCCTATATGATTTAGTATGCGAACCCCATATGTTTTAAT
Found at i:41162945 original size:24 final size:24
Alignment explanation
Indices: 41162722--41162945 Score: 147
Period size: 24 Copynumber: 9.5 Consensus size: 24
41162712 GTGAACCTAC
* *
41162722 ATGCAAACCCTTATG-GATTTGGT
1 ATGCGAACCCTTATGTGATTTAGT
* * * *
41162745 ATGCGAACCCCTATATGTTTTAAT
1 ATGCGAACCCTTATGTGATTTAGT
* * *
41162769 ATGCGAACTCTAATATGATTTAGT
1 ATGCGAACCCTTATGTGATTTAGT
* * *
41162793 ATGCAAACCTCCATATGT--TTTATT
1 ATGCGAA-C-CCTTATGTGATTTAGT
* *
41162817 ATGCGAACCTTTATG-AATTTAGT
1 ATGCGAACCCTTATGTGATTTAGT
* * ** * *
41162840 ATGTGAACCCCCTATACGTTTTATT
1 ATGCGAA-CCCTTATGTGATTTAGT
*
41162865 ATGCGAACCCTTATG-GATTTAGC
1 ATGCGAACCCTTATGTGATTTAGT
* *
41162888 ATGCGAACCCCATATGT--TTTAAT
1 ATGCGAA-CCCTTATGTGATTTAGT
*
41162911 ATGCGAACCCTTATGTGATTTATT
1 ATGCGAACCCTTATGTGATTTAGT
41162935 ATGCGAACCCT
1 ATGCGAACCCT
41162946 ACATGCAAAC
Statistics
Matches: 151, Mismatches: 39, Indels: 21
0.72 0.18 0.10
Matches are distributed among these distances:
22 13 0.09
23 47 0.31
24 75 0.50
25 12 0.08
26 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (24 bp):
ATGCGAACCCTTATGTGATTTAGT
Found at i:41162989 original size:30 final size:30
Alignment explanation
Indices: 41162936--41163034 Score: 112
Period size: 30 Copynumber: 3.4 Consensus size: 30
41162926 TGATTTATTA
*
41162936 TGCGAACCCT--ACATGCAAACCCTGTATG
1 TGCGAACCCTAAATATGCAAACCCTGTATG
* *
41162964 TGCGAATCCTAAATATGCGAACCCTGTATG
1 TGCGAACCCTAAATATGCAAACCCTGTATG
* ** *
41162994 TGTGAACCCTGTATATGCAAACCTTGTATG
1 TGCGAACCCTAAATATGCAAACCCTGTATG
*
41163024 TGCAAACCCTA
1 TGCGAACCCTA
41163035 TATACGAACC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 9 0.16
30 48 0.84
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (30 bp):
TGCGAACCCTAAATATGCAAACCCTGTATG
Found at i:41163000 original size:15 final size:15
Alignment explanation
Indices: 41162953--41163033 Score: 81
Period size: 15 Copynumber: 5.4 Consensus size: 15
41162943 CCTACATGCA
41162953 AACCCTGTATGTGCG
1 AACCCTGTATGTGCG
* ** *
41162968 AATCCTAAATATGCG
1 AACCCTGTATGTGCG
*
41162983 AACCCTGTATGTGTG
1 AACCCTGTATGTGCG
* *
41162998 AACCCTGTATATGCA
1 AACCCTGTATGTGCG
* *
41163013 AACCTTGTATGTGCA
1 AACCCTGTATGTGCG
41163028 AACCCT
1 AACCCT
41163034 ATATACGAAC
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 51 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (15 bp):
AACCCTGTATGTGCG
Found at i:41175156 original size:26 final size:25
Alignment explanation
Indices: 41175087--41175158 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 25
41175077 TATTAGAACT
41175087 TGTGATTAT-TTTGATGATTGATATGA
1 TGTGATTATATTTG-TG-TTGATATGA
* *
41175113 TGAGACTA-ATTT-TG-TGATATGTA
1 TGTGATTATATTTGTGTTGATATG-A
41175136 TGTGATTATATTTGTGTTGATAT
1 TGTGATTATATTTGTGTTGATAT
41175159 CACATTGGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
22 7 0.19
23 7 0.19
24 6 0.16
25 2 0.05
26 15 0.41
ACGTcount: A:0.26, C:0.01, G:0.22, T:0.50
Consensus pattern (25 bp):
TGTGATTATATTTGTGTTGATATGA
Found at i:41184815 original size:27 final size:27
Alignment explanation
Indices: 41184745--41184815 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
41184735 TGGATCAAAA
* * * *
41184745 TGCTTACATGAGCTGTGAATATGGGTT
1 TGCTCACAAGAGCTGTGAATATGAGCT
* **
41184772 TGCTCACACGATTTGTGAATA-GAAGCT
1 TGCTCACAAGAGCTGTGAATATG-AGCT
41184799 TGCTCACAAGAGCTGTG
1 TGCTCACAAGAGCTGTG
41184816 GGTCAAAATG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (27 bp):
TGCTCACAAGAGCTGTGAATATGAGCT
Found at i:41189071 original size:25 final size:25
Alignment explanation
Indices: 41189042--41189111 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
41189032 TCTTGTACAT
41189042 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTGTGAATCG
* * * *
41189067 GTATGCTC-TCTCGAGTTGTAAATTG
1 GTATGCTCAT-ACGAGCTGTGAATCG
*
41189092 GTAAGCTCATACGAGCTGTG
1 GTATGCTCATACGAGCTGTG
41189112 GTGTGTCCGC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTGAATCG
Found at i:41196311 original size:25 final size:25
Alignment explanation
Indices: 41196257--41196345 Score: 97
Period size: 25 Copynumber: 3.6 Consensus size: 25
41196247 GCTTATTCGT
* * *
41196257 GCTGTGAATCGTTATGCTCTCTCGA
1 GCTGTAAATCGGTATGCTCTCACGA
* * * *
41196282 CCTGTAAATCGGTATTCTTTCATGA
1 GCTGTAAATCGGTATGCTCTCACGA
*
41196307 GCTGTAAATTGGTATGCTCTCACGA
1 GCTGTAAATCGGTATGCTCTCACGA
*
41196332 GCTGTAAGTCGGTA
1 GCTGTAAATCGGTA
41196346 AGCCCATACG
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (25 bp):
GCTGTAAATCGGTATGCTCTCACGA
Found at i:41197942 original size:40 final size:40
Alignment explanation
Indices: 41197906--41198146 Score: 329
Period size: 40 Copynumber: 6.0 Consensus size: 40
41197896 AAGTGCATTT
* * * *
41197906 AGGGGTACCTAAGTATAAATATGGGCACGCATGTGCAATC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
* * * * * *
41197946 AAGGGTACTGAAGTAAAAACAGGGGCACATATGTGCAATA
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
*
41197986 AGGGGTACCGAAGTGCAAATAGGGGCACGTATGTGCAATC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
* *
41198026 AGGGATACCGAAGTACAAATAGGGGCACGTATGTGCAACC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
* *
41198066 AAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
* *
41198106 AGGGGTACCGAAGTAGAAATAGGGGCACATATGTGCAATC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
41198146 A
1 A
41198147 TCAATAATTA
Statistics
Matches: 174, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
Found at i:41198001 original size:20 final size:19
Alignment explanation
Indices: 41197978--41198119 Score: 58
Period size: 20 Copynumber: 7.1 Consensus size: 19
41197968 GGGCACATAT
41197978 GTGCAATAAGGGGTACCGAA
1 GTGCAA-AAGGGGTACCGAA
* *
41197998 GTGCAAATAGGGGCA-CGTAT
1 GTGCAAA-AGGGGTACCG-AA
* *
41198018 GTGCAATCAGGGATACCGAA
1 GTGCAA-AAGGGGTACCGAA
* * *
41198038 GTACAAATAGGGGCA-CGTAT
1 GTGCAAA-AGGGGTACCG-AA
41198058 GTGCAACCAA-GGGTACCGAA
1 GTGCAA--AAGGGGTACCGAA
* * *
41198078 GTACAAACAGGGGCA-CGTAT
1 GTGCAAA-AGGGGTACCG-AA
*
41198098 GTGCAATCAGGGGTACCGAA
1 GTGCAA-AAGGGGTACCGAA
41198118 GT
1 GT
41198120 AGAAATAGGG
Statistics
Matches: 87, Mismatches: 21, Indels: 28
0.64 0.15 0.21
Matches are distributed among these distances:
18 1 0.01
19 8 0.09
20 70 0.80
21 7 0.08
22 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.16
Consensus pattern (19 bp):
GTGCAAAAGGGGTACCGAA
Found at i:41198099 original size:120 final size:120
Alignment explanation
Indices: 41197906--41198146 Score: 367
Period size: 120 Copynumber: 2.0 Consensus size: 120
41197896 AAGTGCATTT
* * * * * *
41197906 AGGGGTACCTAAGTATAAATATGGGCACGCATGTGCAATCAAGGGTACTGAAGTAAAAACAGGGG
1 AGGGATACCGAAGTACAAATAGGGGCACGCATGTGCAACCAAGGGTACCGAAGTAAAAACAGGGG
*
41197971 CACATATGTGCAATAAGGGGTACCGAAGT-GCAAATAGGGGCACGTATGTGCAATC
66 CACATATGTGCAATAAGGGGTACCGAAGTAG-AAATAGGGGCACATATGTGCAATC
* *
41198026 AGGGATACCGAAGTACAAATAGGGGCACGTATGTGCAACCAAGGGTACCGAAGTACAAACAGGGG
1 AGGGATACCGAAGTACAAATAGGGGCACGCATGTGCAACCAAGGGTACCGAAGTAAAAACAGGGG
* *
41198091 CACGTATGTGCAATCAGGGGTACCGAAGTAGAAATAGGGGCACATATGTGCAATC
66 CACATATGTGCAATAAGGGGTACCGAAGTAGAAATAGGGGCACATATGTGCAATC
41198146 A
1 A
41198147 TCAATAATTA
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
120 108 0.99
121 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (120 bp):
AGGGATACCGAAGTACAAATAGGGGCACGCATGTGCAACCAAGGGTACCGAAGTAAAAACAGGGG
CACATATGTGCAATAAGGGGTACCGAAGTAGAAATAGGGGCACATATGTGCAATC
Found at i:41210615 original size:27 final size:27
Alignment explanation
Indices: 41210576--41210742 Score: 199
Period size: 27 Copynumber: 6.2 Consensus size: 27
41210566 CTTGGGCCAG
* *
41210576 AAAATTTCTGAAATACCCTCAAAGGGT
1 AAAATTACCGAAATACCCTCAAAGGGT
* *
41210603 AAAATTACCGAAATACCCTCGAATGGT
1 AAAATTACCGAAATACCCTCAAAGGGT
* *
41210630 AAAATTACTGAAATACCTTCAAAGGGT
1 AAAATTACCGAAATACCCTCAAAGGGT
* *
41210657 AAAATTATCGAAATACCCCCAAAGGGT
1 AAAATTACCGAAATACCCTCAAAGGGT
* *
41210684 AAAATTATCGAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCAAAGGGT
* * * **
41210711 AAAATTATCAAAATACCCCCGTAGGGT
1 AAAATTACCGAAATACCCTCAAAGGGT
41210738 AAAAT
1 AAAAT
41210743 GACTGTTATA
Statistics
Matches: 123, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCAAAGGGT
Found at i:41210725 original size:81 final size:81
Alignment explanation
Indices: 41210576--41210727 Score: 236
Period size: 81 Copynumber: 1.9 Consensus size: 81
41210566 CTTGGGCCAG
* * *
41210576 AAAATTTCTGAAATACCCTCAAAGGGTAAAATTACCGAAATACCCTCGAATGGTAAAATTACTGA
1 AAAATTTCTGAAATACCCCCAAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACTAA
41210641 AATACCTTCAAAGGGT
66 AATACCTTCAAAGGGT
*
41210657 AAAATTATC-GAAATACCCCCAAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTA-TC
1 AAAATT-TCTGAAATACCCCCAAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACT-
41210720 AAAATACC
64 AAAATACC
41210728 CCCGTAGGGT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
80 1 0.02
81 62 0.95
82 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (81 bp):
AAAATTTCTGAAATACCCCCAAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACTAA
AATACCTTCAAAGGGT
Found at i:41210755 original size:54 final size:54
Alignment explanation
Indices: 41210576--41210747 Score: 238
Period size: 54 Copynumber: 3.2 Consensus size: 54
41210566 CTTGGGCCAG
* * * *
41210576 AAAATTTCTGAAATACCCTCAAAGGGTAAAATTACCGAAATACCCTCGAATGGT
1 AAAATTACTGAAATACCCTCAAAGGGTAAAATTATCGAAATACCCCCGAAGGGT
* *
41210630 AAAATTACTGAAATACCTTCAAAGGGTAAAATTATCGAAATACCCCCAAAGGGT
1 AAAATTACTGAAATACCCTCAAAGGGTAAAATTATCGAAATACCCCCGAAGGGT
* * *
41210684 AAAATTA-TCGAAATACCCTCGAAGGGTAAAATTATCAAAATACCCCCGTAGGGT
1 AAAATTACT-GAAATACCCTCAAAGGGTAAAATTATCGAAATACCCCCGAAGGGT
*
41210738 AAAATGACTG
1 AAAATTACTG
41210748 TTATACCCCT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 102 0.98
55 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (54 bp):
AAAATTACTGAAATACCCTCAAAGGGTAAAATTATCGAAATACCCCCGAAGGGT
Found at i:41210756 original size:81 final size:81
Alignment explanation
Indices: 41210585--41210744 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 81
41210575 GAAAATTTCT
* * * **
41210585 GAAATACCCTCAAAGGGTAAAATTACCGAAATACCCTCGAATGGTAAAATTACTGAAATACCTTC
1 GAAATACCCCCAAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCCC
*
41210650 AAAGGGTAAAATTATC
66 AAAGGGTAAAATGATC
*
41210666 GAAATACCCCCAAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTA-TCAAAATACCCC
1 GAAATACCCCCAAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACT-AAAATACCCC
**
41210730 CGTAGGGTAAAATGA
65 CAAAGGGTAAAATGA
41210745 CTGTTATACC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 68 0.99
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.21
Consensus pattern (81 bp):
GAAATACCCCCAAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCCC
AAAGGGTAAAATGATC
Found at i:41210993 original size:26 final size:26
Alignment explanation
Indices: 41210929--41211003 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
41210919 ATATACTGTC
* * * *
41210929 ACTGGCAACTTTACTGTATTATTGTT
1 ACTGGCAGCTTTGCTGTAATATTATT
41210955 ACTGGCAGCTTTGCTGTAATATTATT
1 ACTGGCAGCTTTGCTGTAATATTATT
* *
41210981 ACTGGCAGCTTTGTTGTGATATT
1 ACTGGCAGCTTTGCTGTAATATT
41211004 GTTGTGTTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (26 bp):
ACTGGCAGCTTTGCTGTAATATTATT
Found at i:41211150 original size:27 final size:27
Alignment explanation
Indices: 41211112--41211187 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
41211102 GTATTGATTT
*
41211112 CTGTATTGGGCTAAGGCCCACATGTTA
1 CTGTAATGGGCTAAGGCCCACATGTTA
41211139 CTGTAATGGGCTAAGGCCCACATGTTA
1 CTGTAATGGGCTAAGGCCCACATGTTA
41211166 CTGTAATGGGCTAAGGCCCACA
1 CTGTAATGGGCTAAGGCCCACA
41211188 CTGTGCTGAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (27 bp):
CTGTAATGGGCTAAGGCCCACATGTTA
Found at i:41212846 original size:16 final size:17
Alignment explanation
Indices: 41212825--41212857 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
41212815 AAATTTGATC
41212825 GTATTT-TATTTAATAA
1 GTATTTATATTTAATAA
*
41212841 GTATTTATTTTTAATAA
1 GTATTTATATTTAATAA
41212858 ATTACTAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
GTATTTATATTTAATAA
Found at i:41213587 original size:3 final size:3
Alignment explanation
Indices: 41213581--41213612 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
41213571 TGATGATCCC
41213581 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
41213613 TCCCATAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:41224822 original size:24 final size:26
Alignment explanation
Indices: 41224795--41224849 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
41224785 TGCTCAAACT
*
41224795 TTTAAATT-TTTTTTTC-AAGTATGC
1 TTTAAATTATTTCTTTCAAAGTATGC
*
41224819 TTT-AATTATTTCTTTCATAAGTATGT
1 TTTAAATTATTTCTTTCA-AAGTATGC
41224845 TTTAA
1 TTTAA
41224850 TAAATGAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 4 0.16
24 10 0.40
26 10 0.40
27 1 0.04
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.58
Consensus pattern (26 bp):
TTTAAATTATTTCTTTCAAAGTATGC
Found at i:41231074 original size:13 final size:13
Alignment explanation
Indices: 41231051--41231085 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
41231041 TAATAAAACC
41231051 AAAATTTAACTAAG
1 AAAA-TTAACTAAG
*
41231065 TAAATTAACTAAG
1 AAAATTAACTAAG
41231078 AAAATTAA
1 AAAATTAA
41231086 AAGGTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (13 bp):
AAAATTAACTAAG
Found at i:41239174 original size:27 final size:27
Alignment explanation
Indices: 41239133--41239353 Score: 183
Period size: 27 Copynumber: 8.2 Consensus size: 27
41239123 CCATAAAATA
* *
41239133 GGTATAATGATCGTAATACCCCCATAG
1 GGTAAAATGACCGTAATACCCCCATAG
*
41239160 GGTAAAATAACCGTAATACCCCCATAG
1 GGTAAAATGACCGTAATACCCCCATAG
* *
41239187 GGTAAAATGGCCGTAATACCCTCATAG
1 GGTAAAATGACCGTAATACCCCCATAG
* *
41239214 GGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATACCCCCATAG
*** * ** *
41239241 GGTAAAATGGTTGTAATGCCCCTGTAA
1 GGTAAAATGACCGTAATACCCCCATAG
* * **
41239268 GGTAAAATGATCGTAATTCCCTTATAG
1 GGTAAAATGACCGTAATACCCCCATAG
* ** * **
41239295 GGTAAAATAACTATAAT-GCCCTGTAG
1 GGTAAAATGACCGTAATACCCCCATAG
* * * *
41239321 GGTAAAATGACTGTAATGCCCCTAAAG
1 GGTAAAATGACCGTAATACCCCCATAG
41239348 GGTAAA
1 GGTAAA
41239354 TTACTATTTT
Statistics
Matches: 160, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 21 0.13
27 139 0.87
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCCATAG
Found at i:41239273 original size:81 final size:81
Alignment explanation
Indices: 41239133--41239353 Score: 239
Period size: 81 Copynumber: 2.7 Consensus size: 81
41239123 CCATAAAATA
* * * * * * * * * *
41239133 GGTATAATGATCGTAATACCCCCATAGGGTAAAATAACCGTAATACCCCCATAGGGTAAAATGGC
1 GGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTGTAATGCCCCTATAAGGTAAAATGAC
41239198 CGTAATACCCTCATAG
66 CGTAATACCCTCATAG
** * *
41239214 GGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGGTTGTAATGCCCCTGTAAGGTAAAATGAT
1 GGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTGTAATGCCCCTATAAGGTAAAATGAC
* *
41239279 CGTAATTCCCTTATAG
66 CGTAATACCCTCATAG
* ** *
41239295 GGTAAAATAACTATAATG-CCCTGTAGGGTAAAATGACTGTAATGCCCCTA-AAGGGTAAA
1 GGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTGTAATGCCCCTATAA-GGTAAA
41239354 TTACTATTTT
Statistics
Matches: 116, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 2 0.02
80 34 0.29
81 80 0.69
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (81 bp):
GGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTGTAATGCCCCTATAAGGTAAAATGAC
CGTAATACCCTCATAG
Found at i:41239626 original size:32 final size:32
Alignment explanation
Indices: 41239580--41239720 Score: 158
Period size: 32 Copynumber: 4.4 Consensus size: 32
41239570 TTGCTACGAT
* * *
41239580 GTTATTGATGGCTTTGTGTCGATCATATTACC
1 GTTACTGATGGCTTTGTGCCAATCATATTACC
*
41239612 GTTACTGATGGCTTTGTTCCAATCATATTACC
1 GTTACTGATGGCTTTGTGCCAATCATATTACC
* * ** *
41239644 GTTACTGATGGCTATGTGCCGATCATATCGCT
1 GTTACTGATGGCTTTGTGCCAATCATATTACC
** *
41239676 ACTACTGATGGCTTTGTGCCAATCATATTACT
1 GTTACTGATGGCTTTGTGCCAATCATATTACC
*
41239708 G-TACTTATGGCTT
1 GTTACTGATGGCTT
41239721 GTAGCCATTC
Statistics
Matches: 91, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
31 11 0.12
32 80 0.88
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (32 bp):
GTTACTGATGGCTTTGTGCCAATCATATTACC
Found at i:41240784 original size:3 final size:3
Alignment explanation
Indices: 41240771--41240805 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
41240761 GGGTTGAGGG
*
41240771 AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
41240806 AGAAGGACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:41242708 original size:47 final size:47
Alignment explanation
Indices: 41242648--41242742 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
41242638 TCTAATAGAG
41242648 ATGGTTTCAGTAGAGGAAGATGAGAATGAAAAACTCTCTTTTCATGC
1 ATGGTTTCAGTAGAGGAAGATGAGAATGAAAAACTCTCTTTTCATGC
*
41242695 ATGGTTTCGGTAGAGGAAGATGAGAATGAAAAACTCTCTTTTCATGC
1 ATGGTTTCAGTAGAGGAAGATGAGAATGAAAAACTCTCTTTTCATGC
41242742 A
1 A
41242743 CTAAAGATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (47 bp):
ATGGTTTCAGTAGAGGAAGATGAGAATGAAAAACTCTCTTTTCATGC
Found at i:41250536 original size:22 final size:22
Alignment explanation
Indices: 41250511--41250583 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
41250501 TTAGTTAGGG
*
41250511 AATGGTATAGGTTTTGGCACGA
1 AATGGTATAGGTTTTGGTACGA
* * * **
41250533 AATGGGTTTTGGTGTAAGTACGA
1 AAT-GGTATAGGTTTTGGTACGA
* *
41250556 AATGGTATAAGTTTTGGTATGA
1 AATGGTATAGGTTTTGGTACGA
41250578 AATGGT
1 AATGGT
41250584 TTCGTTTTTG
Statistics
Matches: 37, Mismatches: 13, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
22 21 0.57
23 16 0.43
ACGTcount: A:0.29, C:0.04, G:0.32, T:0.36
Consensus pattern (22 bp):
AATGGTATAGGTTTTGGTACGA
Found at i:41259886 original size:50 final size:50
Alignment explanation
Indices: 41259822--41260032 Score: 361
Period size: 50 Copynumber: 4.2 Consensus size: 50
41259812 TATTGAGATT
*
41259822 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*
41259872 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGTCGTTGGCACC-ATG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-G
41259922 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * *
41259972 ATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
41260022 ATGAGAGGTCC
1 ATGAGAGGTCC
41260033 TTAGTTATAT
Statistics
Matches: 153, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
49 1 0.01
50 151 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:41262786 original size:21 final size:20
Alignment explanation
Indices: 41262749--41262790 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
41262739 TCACACCGTG
41262749 CCTTGCTACTCGCACCAACAC
1 CCTTGCTACTCGCACC-ACAC
*
41262770 CCTTGACTA-TCGTACCACAC
1 CCTTG-CTACTCGCACCACAC
41262790 C
1 C
41262791 TTTAAGGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 11 0.58
22 3 0.16
ACGTcount: A:0.24, C:0.45, G:0.10, T:0.21
Consensus pattern (20 bp):
CCTTGCTACTCGCACCACAC
Found at i:41263623 original size:3 final size:3
Alignment explanation
Indices: 41263615--41263662 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
41263605 TGAGGATTCT
* *
41263615 GAA GAA GAA GAG GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
41263663 AACCCTATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:41264887 original size:9 final size:9
Alignment explanation
Indices: 41264873--41264898 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
41264863 TTTATTTTTA
41264873 AAAATATTT
1 AAAATATTT
41264882 AAAATATTT
1 AAAATATTT
41264891 AAAATATT
1 AAAATATT
41264899 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:41265027 original size:31 final size:30
Alignment explanation
Indices: 41264965--41265030 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
41264955 TCTAGTCATA
*
41264965 TAATAAATTATTAATATAATTTATTATTTT
1 TAATAAATTATTAATATAAATTATTATTTT
41264995 TAATAAATTATTTAATATTTAAATT-TTA-TTT
1 TAATAAATTA-TTAATA--TAAATTATTATTTT
41265026 TAATA
1 TAATA
41265031 GTAAATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 10 0.31
31 14 0.44
32 3 0.09
33 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
TAATAAATTATTAATATAAATTATTATTTT
Found at i:41266943 original size:21 final size:22
Alignment explanation
Indices: 41266917--41266962 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
41266907 AATCTATATA
41266917 TATACATGT-ATATTTATTTTT
1 TATACATGTAATATTTATTTTT
41266938 TATACATGTACATATTTATTTTT
1 TATACATGTA-ATATTTATTTTT
41266961 TA
1 TA
41266963 ACTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.39
23 14 0.61
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (22 bp):
TATACATGTAATATTTATTTTT
Found at i:41267432 original size:19 final size:20
Alignment explanation
Indices: 41267391--41267432 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
41267381 ATTTCTATGC
* *
41267391 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
41267411 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
41267430 CAT
1 CAT
41267433 CACACATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:41271662 original size:17 final size:17
Alignment explanation
Indices: 41271639--41271682 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
41271629 TTTCAAAATG
41271639 AAAAGAAAAAAG-AAAA
1 AAAAGAAAAAAGCAAAA
*
41271655 AGAAAG-AAAAAGCCAAA
1 A-AAAGAAAAAAGCAAAA
41271672 AAAAGAAAAAA
1 AAAAGAAAAAA
41271683 AAATGAGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.82, C:0.05, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAGCAAAA
Found at i:41273218 original size:44 final size:44
Alignment explanation
Indices: 41273082--41273308 Score: 111
Period size: 44 Copynumber: 5.2 Consensus size: 44
41273072 AGACACCAGC
*
41273082 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAACATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
* ***** **** * * * * *
41273126 CTTGCCTTCCTACACAGACAATTAAGCA-GATCAAAGTCACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCTAAAAAT-AGCAGAT
41273170 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
* **** ** * * * * * *
41273214 CTTGCCTTCCTCCACTGACAAAGAAGCA-GATCAAAGTCACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCTAAAAAT-AGCAGAT
**
41273258 CTTGCCTCCCTGGGTTGCAGTAGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
41273302 CTTGCCT
1 CTTGCCT
41273309 TCCTACACCG
Statistics
Matches: 117, Mismatches: 58, Indels: 16
0.61 0.30 0.08
Matches are distributed among these distances:
43 20 0.17
44 76 0.65
45 21 0.18
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
Found at i:41273330 original size:263 final size:264
Alignment explanation
Indices: 41272858--41273398 Score: 800
Period size: 263 Copynumber: 2.1 Consensus size: 264
41272848 ATGAAGATAA
* * *
41272858 CAGATCTTGCCTTCCTGCACCAACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTACACCAACAATGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
* * * * *
41272923 GCAGCGGAGCAGGTTAAAAATAGTAGATCTTGCCTTCCTACACCGACAACGAAGTAGATCGAAGT
66 GCAGCGGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTACACCGACAAAGAAGCAGATCAAAGT
* * * **
41272988 CACCAGCCTTGCCTCCTAGGGTTGCAGGGGAGTAGGCTAAAAATAGTAGATCTTGCCTTCCTGTA
131 CACCAGCCTTGCCTCCTAGGGTTGCAGGAGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTACA
* * *
41273053 CCGACAACGAAGCAGATC-AAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAC
196 CCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAACGGACCAGGCTAAAA
41273117 ATAG
261 ATAG
* *
41273121 CAGATCTTGCCTTCCTACA-CAGACAATTAAGCAGATCAAAGTCACCAGCCTTGCCTCCCTGGGT
1 CAGATCTTGCCTTCCTACACCA-ACAATGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGT
* *
41273185 TGCAGCGGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTCCACTGACAAAGAAGCAGATCAAAG
65 TGCAGCGGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTACACCGACAAAGAAGCAGATCAAAG
*
41273250 TCACCAGCCTTGCCTCCCT-GGGTTGCAGTAGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTA
130 TCACCAGCCTTGCCT-CCTAGGGTTGCAGGAGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTA
* ** * * *
41273314 CACCGATAGTGAAGCAGATCGAAGACACCAGCCTTTCCTCCTTGGGTTGCAACGGACCAGGTTAA
194 CACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAACGGACCAGGCTAA
41273379 AAATAG
259 AAATAG
41273385 CAGATCTTGCCTTC
1 CAGATCTTGCCTTC
41273399 TTGCACCGAC
Statistics
Matches: 248, Mismatches: 27, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
262 2 0.01
263 185 0.75
264 61 0.25
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (264 bp):
CAGATCTTGCCTTCCTACACCAACAATGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTACACCGACAAAGAAGCAGATCAAAGT
CACCAGCCTTGCCTCCTAGGGTTGCAGGAGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTACA
CCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAACGGACCAGGCTAAAA
ATAG
Found at i:41273446 original size:88 final size:88
Alignment explanation
Indices: 41272858--41273434 Score: 771
Period size: 88 Copynumber: 6.6 Consensus size: 88
41272848 ATGAAGATAA
* * **
41272858 CAGATCTTGCCTTCCTGCACCAACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
41272923 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * *
41272946 TAGATCTTGCCTTCCTACACCGACAACGAAGTAGATCGAAGTCACCAGCCTTGCCT-CCTAGGGT
1 CAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GGGT
* *
41273010 TGCAGGGGAGTAGGCTAAAAATAG
65 TGCAGCGGAGCAGGCTAAAAATAG
* **
41273034 TAGATCTTGCCTTCCTGTACCGACAACGAAGCAGATC-AAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
41273098 GCAGCGGAGCAGGCTAAACATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* ** * *
41273121 CAGATCTTGCCTTCCTACACAGACAATTAAGCAGATCAAAGTCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
41273186 GCAGCGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * *
41273209 CAGATCTTGCCTTCCTCCACTGACAAAGAAGCAGATCAAAGTCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
**
41273274 GCAGTAGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* ** * *
41273297 CAGATCTTGCCTTCCTACACCGATAGTGAAGCAGATCGAAGACACCAGCCTTTCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
41273362 GCAACGGACCAGGTTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * * *
41273385 CAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATTGATGACCCCAGCC
1 CAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCC
41273435 CTATCTCCTT
Statistics
Matches: 434, Mismatches: 52, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
87 76 0.18
88 358 0.82
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGCTAAAAATAG
Found at i:41273497 original size:44 final size:44
Alignment explanation
Indices: 41273434--41273788 Score: 318
Period size: 44 Copynumber: 8.2 Consensus size: 44
41273424 TGACCCCAGC
* * * *
41273434 CCTATCTCCTTGGTCAGCAGTGGTATAGGTTAAAGATTATGAAT
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTATGAAT
* * * *
41273478 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTATGAAT
* *
41273522 CCTATCTCTCTGGTCGGTAGTGGAATAGGTTGAAGATTGA-GAAT
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATT-ATGAAT
* * *
41273566 CCTATCTCCTTGGGCAAG-AGTGGAATAGATT--A-A--A-GAAT
1 CCTATCTCCCTGGTC-AGTAGTGGAATAGGTTGAAGATTATGAAT
* * * * *
41273604 CCTATCTCCCTGGACTGTAGTGGAATGGGTTAAAGATTGT-AACT
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTATGAA-T
41273648 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGA-GAAT
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATT-ATGAAT
* * * ** * *
41273692 TCTATCTCCCTGGGCAGTATTGGAATATATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTATGA-AT
* * ** *
41273736 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTATGAAT
41273780 CCTATCTCC
1 CCTATCTCC
41273789 ATGAGCAACA
Statistics
Matches: 253, Mismatches: 43, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
37 1 0.00
38 29 0.11
40 1 0.00
41 2 0.01
42 1 0.00
43 3 0.01
44 212 0.84
45 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTATGAAT
Found at i:41273550 original size:88 final size:87
Alignment explanation
Indices: 41273434--41273788 Score: 355
Period size: 88 Copynumber: 4.1 Consensus size: 87
41273424 TGACCCCAGC
* * * *
41273434 CCTATCTCCTTGGTCAGCAGTGGTATAGGTTAAAGATTATGAATCCTATCTCCCTGGACAGCAGT
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTAT-AATCCTATCTCCCTGGTCAGCAGT
*
41273499 GGAATAGGTTAAAGATTGTGAAT
65 GGAATAGGTTGAAGATTGTGAAT
* * * * * *
41273522 CCTATCTCTCTGGTCGGTAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCTTGGGCAAG-AG
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATT-ATAATCCTATCTCCCTGGTC-AGCAG
*
41273586 TGGAATAGATT-AA-A----GAAT
64 TGGAATAGGTTGAAGATTGTGAAT
* * * * *
41273604 CCTATCTCCCTGGACTGTAGTGGAATGGGTTAAAGATTGTAACTCCTATCTCCCTGGTCAGTAGT
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTATAA-TCCTATCTCCCTGGTCAGCAGT
*
41273669 GGAATAGGTTGAAGATTGAGAAT
65 GGAATAGGTTGAAGATTGTGAAT
* * * ** * * * *
41273692 TCTATCTCCCTGGGCAGTATTGGAATATATTGAAGATTGTAGGTCCTATCTCCCTAGTCAGCAGT
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTATA-ATCCTATCTCCCTGGTCAGCAGT
* *
41273757 GGAATAGGTTGAAGATCGTGAAC
65 GGAATAGGTTGAAGATTGTGAAT
41273780 CCTATCTCC
1 CCTATCTCC
41273789 ATGAGCAACA
Statistics
Matches: 221, Mismatches: 35, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
81 4 0.02
82 63 0.29
83 2 0.01
84 1 0.00
86 1 0.00
87 2 0.01
88 145 0.66
89 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (87 bp):
CCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTATAATCCTATCTCCCTGGTCAGCAGTG
GAATAGGTTGAAGATTGTGAAT
Found at i:41273636 original size:126 final size:126
Alignment explanation
Indices: 41273474--41273788 Score: 402
Period size: 126 Copynumber: 2.5 Consensus size: 126
41273464 TAAAGATTAT
* *
41273474 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAA-TCCTATCTCTCTGGTCG
1 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGT-AACTCCTATCTCCCTGGTCA
*
41273538 GTAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCTTGGGCAAGAGTGGAATAGATTAAA
65 GTAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCCTGGGCAAGAGTGGAATAGATTAAA
* * *
41273600 GAATCCTATCTCCCTGGACTGTAGTGGAATGGGTTAAAGATTGTAACTCCTATCTCCCTGGTCAG
1 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTAACTCCTATCTCCCTGGTCAG
* * *
41273665 TAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGC-AGTATTGGAATATATTGAAGA
66 TAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCCTGGGCAAG-AGTGGAATAGATT-AA-A
* * * * *
41273728 TTGTAGGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATCGTGAAC-CCTATCTCC
1 --G-A-ATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGT-AACTCCTATCTCC
41273789 ATGAGCAACA
Statistics
Matches: 163, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
125 4 0.02
126 108 0.66
127 2 0.01
128 1 0.01
130 1 0.01
131 1 0.01
132 43 0.26
133 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (126 bp):
GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTAACTCCTATCTCCCTGGTCAG
TAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCCTGGGCAAGAGTGGAATAGATTAAA
Found at i:41273651 original size:82 final size:82
Alignment explanation
Indices: 41273518--41273675 Score: 212
Period size: 82 Copynumber: 1.9 Consensus size: 82
41273508 TAAAGATTGT
* * * *
41273518 GAATCCTATCTCTCTGGTCGGTAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCTTGGGCAA
1 GAATCCTATCTCCCTGGACGGTAGTGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGGC-A
41273583 G-AGTGGAATAGATTAAA
65 GTAGTGGAATAGATTAAA
* * * *
41273600 GAATCCTATCTCCCTGGACTGTAGTGGAATGGGTTAAAGATTGTA-ACTCCTATCTCCCTGGTCA
1 GAATCCTATCTCCCTGGACGGTAGTGGAATAGGTTAAAGATTG-AGAATCCTATCTCCCTGGGCA
41273664 GTAGTGGAATAG
65 GTAGTGGAATAG
41273676 GTTGAAGATT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 2 0.03
82 63 0.95
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (82 bp):
GAATCCTATCTCCCTGGACGGTAGTGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGGCAG
TAGTGGAATAGATTAAA
Found at i:41273718 original size:170 final size:170
Alignment explanation
Indices: 41273434--41273744 Score: 419
Period size: 170 Copynumber: 1.8 Consensus size: 170
41273424 TGACCCCAGC
* * *
41273434 CCTATCTCCTTGGTCAGCAGTGGTATAGGTTAAAGATTATGAATCCTATCTCCCTGGACAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTATGAATCCTATCTCCCTGGACAGCAGT
* * * * *
41273499 GGAATAGGTTAAAGATTGTGAATCCTATCTCTCTGGTCGGTAGTGGAATAGGTTGAAGATTG-AG
66 GGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTGTAG
41273563 AATCCTATCTCCTTGGGCAAGAGTGGAATAGATTAAAGAAT
131 -ATCCTATCTCCTTGGGCAAGAGTGGAATAGATTAAAGAAT
* * * * * *
41273604 CCTATCTCCCTGGACTGTAGTGGAATGGGTTAAAGATTGT-AACTCCTATCTCCCTGGTCAGTAG
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTATGAA-TCCTATCTCCCTGGACAGCAG
* * * *
41273668 TGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGTATTGGAATATATTGAAGATTGTA
65 TGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTGTA
*
41273733 GGTCCTATCTCC
130 GATCCTATCTCC
41273745 CTAGTCAGCA
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
169 2 0.02
170 116 0.97
171 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (170 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTATGAATCCTATCTCCCTGGACAGCAGT
GGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTGTAG
ATCCTATCTCCTTGGGCAAGAGTGGAATAGATTAAAGAAT
Found at i:41274209 original size:44 final size:44
Alignment explanation
Indices: 41274112--41274231 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 44
41274102 GAAGATGACA
* * * * *
41274112 AATCTTATCTCCCTGAAATTGCAGTGGAGTAGATTAAAGCCGAT
1 AATCATATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT
* * *
41274156 AATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAACC-TT
1 AATCATATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT
* * *
41274199 GGATCATATCTCTCTGAAGTTGCAGAG-AGCAGA
1 -AATCATATCTCCCTGAAGTTGCAGTGAAGCAGA
41274232 ACGCATCTAG
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 6 0.10
44 57 0.90
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCATATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT
Found at i:41274342 original size:128 final size:129
Alignment explanation
Indices: 41274114--41274367 Score: 298
Period size: 128 Copynumber: 2.0 Consensus size: 129
41274104 AGATGACAAA
* * ** *
41274114 TCTTATCTCCCTGAAATTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATAAAAAACGATAATCCTATCTCCCTAAAGTTGCA
* * * *
41274179 GTGAAGCGGATTAAAACCTTGGATCATATCTCTCTGAAGTTGCAG-AGAGCAGAACGCATCTAG
66 GCGAAGCGGATTAAAACCATGGATCATATCTCTCTGAAATTACAGTAGAGCAGAACGCATCTAG
*
41274242 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAAC-A-AATCCTATCTCCCTAAAGTTG
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAGA-TAAA-AAACGATAATCCTATCTCCCTAAAGTTG
* * * * ** * * *
41274305 TAGCGGAGTGGATTAGAATGATGGATCTTATCTCTCTGAAATTATAGTAGAGCAGATCGCATC
64 CAGCGAAGCGGATTAAAACCATGGATCATATCTCTCTGAAATTACAGTAGAGCAGAACGCATC
41274368 AAATTCATCT
Statistics
Matches: 104, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
128 84 0.81
129 18 0.17
130 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (129 bp):
TCTTATCTCCCTGAAATTGCAGTGGAGCAGATAAAAAACGATAATCCTATCTCCCTAAAGTTGCA
GCGAAGCGGATTAAAACCATGGATCATATCTCTCTGAAATTACAGTAGAGCAGAACGCATCTAG
Found at i:41276530 original size:16 final size:17
Alignment explanation
Indices: 41276509--41276540 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
41276499 AAATATGCAA
41276509 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
41276525 TCACATAACTTCATAT
1 TCACATAACTTCATAT
41276541 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:41276760 original size:43 final size:43
Alignment explanation
Indices: 41276699--41276871 Score: 187
Period size: 43 Copynumber: 4.1 Consensus size: 43
41276689 AAGACTCGTA
*
41276699 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
* * *
41276742 CAATGCC-ACTGTCTCAGACAG-GGTCTTACATG-AATCAAATA-
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATAT
* * * *
41276783 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATA-T
*
41276826 CGATGCCAACGTCCCAGACGTGGTCTTACACGATAA-CACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATAT
41276869 CAA
1 CAA
41276872 AAATCCTATG
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
41 25 0.23
42 16 0.15
43 63 0.58
44 5 0.05
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
Found at i:41276844 original size:84 final size:84
Alignment explanation
Indices: 41276701--41276855 Score: 208
Period size: 84 Copynumber: 1.8 Consensus size: 84
41276691 GACTCGTACA
* * * *
41276701 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCTCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAGAC-GTGG
41276765 TCTTACATGAATCAAATACG
65 TCTTACATGAATCAAATACG
* *
41276785 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGACGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCAATGCC-ACTGTCCCAGACGTG
41276848 GTCTTACA
64 GTCTTACA
41276856 CGATAACACA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 58 0.94
85 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAGACGTGGT
CTTACATGAATCAAATACG
Found at i:41282200 original size:14 final size:14
Alignment explanation
Indices: 41282183--41282217 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
41282173 ATAAAATATA
*
41282183 AATTTATATTTAAT
1 AATTCATATTTAAT
*
41282197 AATTCATTTTTAAT
1 AATTCATATTTAAT
41282211 AATTCAT
1 AATTCAT
41282218 TAATAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (14 bp):
AATTCATATTTAAT
Found at i:41282218 original size:14 final size:14
Alignment explanation
Indices: 41282191--41282218 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41282181 TAAATTTATA
41282191 TTTAATAATTCATT
1 TTTAATAATTCATT
41282205 TTTAATAATTCATT
1 TTTAATAATTCATT
41282219 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:41287499 original size:35 final size:35
Alignment explanation
Indices: 41287453--41287524 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
41287443 ATTTCTTTGT
41287453 ATTAACTATCATTTAGGCATACATAACACCAAAAC
1 ATTAACTATCATTTAGGCATACATAACACCAAAAC
41287488 ATTAACTATCATTTAGGCATACATAACACCAAAAC
1 ATTAACTATCATTTAGGCATACATAACACCAAAAC
41287523 AT
1 AT
41287525 GTTCTTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (35 bp):
ATTAACTATCATTTAGGCATACATAACACCAAAAC
Found at i:41288060 original size:50 final size:50
Alignment explanation
Indices: 41287932--41288173 Score: 191
Period size: 50 Copynumber: 4.7 Consensus size: 50
41287922 GATAATAACA
* * ** * * *
41287932 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * **
41287981 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
41288031 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
** * * * * **
41288081 TGCCAACACCATGTCCAATACATGGTTTTACGTGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
41288137 TGCCAATGCTATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
41288174 TCTCATTCCC
Statistics
Matches: 151, Mismatches: 34, Indels: 9
0.78 0.18 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.26
50 79 0.52
53 2 0.01
56 30 0.20
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:41298343 original size:10 final size:10
Alignment explanation
Indices: 41298313--41298360 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
41298303 GAATTTGTCG
*
41298313 AAAATAAATT
1 AAAATTAATT
*
41298323 AAAATAAATT
1 AAAATTAATT
*
41298333 AAAATTTATTAT
1 AAAA-TTAAT-T
41298345 AAAATTAATT
1 AAAATTAATT
41298355 AAAATT
1 AAAATT
41298361 CTATATGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 21 0.64
11 7 0.21
12 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:41305120 original size:15 final size:15
Alignment explanation
Indices: 41305100--41305139 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
41305090 TCCCACTATT
*
41305100 TATAGTTTCATAGTC
1 TATAGTTTCACAGTC
*
41305115 TATAGTTTCACATTC
1 TATAGTTTCACAGTC
*
41305130 TAAAGTTTCA
1 TATAGTTTCA
41305140 GTATATAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (15 bp):
TATAGTTTCACAGTC
Found at i:41306219 original size:21 final size:20
Alignment explanation
Indices: 41306182--41306221 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
41306172 TCCAATAACA
**
41306182 CACCAATAATGTGGACAAGT
1 CACCAATAATGCAGACAAGT
41306202 CACCAGATAATGCAGACAAG
1 CACCA-ATAATGCAGACAAG
41306222 CTGTCAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (20 bp):
CACCAATAATGCAGACAAGT
Found at i:41306299 original size:21 final size:21
Alignment explanation
Indices: 41306249--41306306 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
41306239 TTATGGACAC
* *
41306249 ACCACTAGA-ATTGTAGTTAT
1 ACCACTAGATAATGTAGTTAA
* * *
41306269 ACTACCAGATAATGTGGTTAA
1 ACCACTAGATAATGTAGTTAA
*
41306290 ACCACTAGATTATGTAG
1 ACCACTAGATAATGTAG
41306307 ATTATTAAGC
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (21 bp):
ACCACTAGATAATGTAGTTAA
Found at i:41310412 original size:34 final size:34
Alignment explanation
Indices: 41310369--41310444 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
41310359 GTTTGCATTT
*
41310369 CTAATGTAAAACAAACTAAACTTTAAAAATTTTC
1 CTAATGTAAAACAAACTAAACTTTAAAAATTGTC
*
41310403 CTAATGTAAAATAAACTAAACTTTAAAAATTGTC
1 CTAATGTAAAACAAACTAAACTTTAAAAATTGTC
*
41310437 CTACTGTA
1 CTAATGTA
41310445 TGTAGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.33
Consensus pattern (34 bp):
CTAATGTAAAACAAACTAAACTTTAAAAATTGTC
Found at i:41314577 original size:19 final size:18
Alignment explanation
Indices: 41314553--41314597 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
41314543 AAACAAATTG
*
41314553 TTTTTTTAAATCCCGAAT
1 TTTTTTTAAATCACGAAT
*
41314571 ATTTTTTTATATCACGAAT
1 -TTTTTTTAAATCACGAAT
41314590 TTTTTTTA
1 TTTTTTTA
41314598 TTTCGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (18 bp):
TTTTTTTAAATCACGAAT
Found at i:41325147 original size:3 final size:3
Alignment explanation
Indices: 41325139--41325194 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
41325129 TGAGGATCCT
*
41325139 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
41325187 GAA GAA GA
1 GAA GAA GA
41325195 CCATATAGAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:41327784 original size:24 final size:24
Alignment explanation
Indices: 41327725--41327784 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
41327715 ACTCGCTCTC
* *
41327725 TTTTCTTTATTTATTCTTTTTATT
1 TTTTATTTATTTATTCTTTTCATT
* * *
41327749 TTTTGTTGATTTA-TGTTTTCATAT
1 TTTTATTTATTTATTCTTTTCAT-T
41327773 TTTTATTTATTT
1 TTTTATTTATTT
41327785 GATACTTCTG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
23 7 0.24
24 22 0.76
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (24 bp):
TTTTATTTATTTATTCTTTTCATT
Found at i:41329523 original size:22 final size:22
Alignment explanation
Indices: 41329497--41329541 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
41329487 ATTATGTGTA
41329497 TTAATTCATAATACAAT-TAATT
1 TTAATT-ATAATACAATCTAATT
* *
41329519 TTAATTTTAATCCAATCTAATT
1 TTAATTATAATACAATCTAATT
41329541 T
1 T
41329542 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAATTATAATACAATCTAATT
Found at i:41334396 original size:50 final size:50
Alignment explanation
Indices: 41334342--41334448 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 50
41334332 ACATGGGAGT
* * *
41334342 TCTCATATCAGTGCCCATGCCATGTCCAGGACATGGTCTTACGGGGGACC
1 TCTCATATCAGTGCCAACGCCATGTCCAAGACATGGTCTTACGGGGGACC
* * * *
41334392 TCTCATCTCGGTGCCAACGCCATGTCCAAGACATGGTCTTATGTGGGACC
1 TCTCATATCAGTGCCAACGCCATGTCCAAGACATGGTCTTACGGGGGACC
41334442 TCTCATA
1 TCTCATA
41334449 ACCTCAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TCTCATATCAGTGCCAACGCCATGTCCAAGACATGGTCTTACGGGGGACC
Found at i:41344668 original size:21 final size:22
Alignment explanation
Indices: 41344644--41344688 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
41344634 TATTTAACCC
*
41344644 AAAATAAATTGTATTA-AAATT
1 AAAATAAATTATATTATAAATT
*
41344665 AAAATTAATTATATTATAAATT
1 AAAATAAATTATATTATAAATT
41344687 AA
1 AA
41344689 TATTCATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATAAATTATATTATAAATT
Found at i:41350109 original size:15 final size:15
Alignment explanation
Indices: 41350089--41350128 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
41350079 TCCCACTATT
*
41350089 TATAGTTTCATAGTC
1 TATAGTTTCACAGTC
*
41350104 TATAGTTTCACATTC
1 TATAGTTTCACAGTC
*
41350119 TAAAGTTTCA
1 TATAGTTTCA
41350129 GTATATAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (15 bp):
TATAGTTTCACAGTC
Found at i:41351752 original size:233 final size:233
Alignment explanation
Indices: 41351345--41351812 Score: 900
Period size: 233 Copynumber: 2.0 Consensus size: 233
41351335 ATCCCAATCC
*
41351345 CATGCATGTGATATGACATACAGAACAAAATTTTCAATAGACATGTTTAGCATACGAACCAAATA
1 CATGCATGTGATATGACATACAGAACAAAATTTTCAATAGACATGCTTAGCATACGAACCAAATA
41351410 TTCATTAACAGAGATTACCAACATGGTTTTCTTTTCATGCTTTATAAAATCAAAATATGGTATTC
66 TTCATTAACAGAGATTACCAACATGGTTTTCTTTTCATGCTTTATAAAATCAAAATATGGTATTC
*
41351475 ATAATTTATTGTAGTATCAACTTTTACTAAACAGAAGATGTCATTACATCACATAGCATGAGTGT
131 ATAATTTATCGTAGTATCAACTTTTACTAAACAGAAGATGTCATTACATCACATAGCATGAGTGT
41351540 CAAAACATAAATACAATTTCATCAGTCACAATCAATTT
196 CAAAACATAAATACAATTTCATCAGTCACAATCAATTT
41351578 CATGCATGTGATATGACATACAGAACAAAATTTTCAATAGACATGCTTAGCATACGAACCAAATA
1 CATGCATGTGATATGACATACAGAACAAAATTTTCAATAGACATGCTTAGCATACGAACCAAATA
* *
41351643 TTCATTAACAGAGATTACCAAGATGGTTTTCTTTTCATGCTTTATCAAATCAAAATATGGTATTC
66 TTCATTAACAGAGATTACCAACATGGTTTTCTTTTCATGCTTTATAAAATCAAAATATGGTATTC
41351708 ATAATTTATCGTAGTATCAACTTTTACTAAACAGAAGATGTCATTACATCACATAGCATGAGTGT
131 ATAATTTATCGTAGTATCAACTTTTACTAAACAGAAGATGTCATTACATCACATAGCATGAGTGT
41351773 CAAAACATAAATACAATTTCATCAGTCACAATCAATTT
196 CAAAACATAAATACAATTTCATCAGTCACAATCAATTT
41351811 CA
1 CA
41351813 CATAACCATT
Statistics
Matches: 231, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
233 231 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (233 bp):
CATGCATGTGATATGACATACAGAACAAAATTTTCAATAGACATGCTTAGCATACGAACCAAATA
TTCATTAACAGAGATTACCAACATGGTTTTCTTTTCATGCTTTATAAAATCAAAATATGGTATTC
ATAATTTATCGTAGTATCAACTTTTACTAAACAGAAGATGTCATTACATCACATAGCATGAGTGT
CAAAACATAAATACAATTTCATCAGTCACAATCAATTT
Found at i:41361668 original size:22 final size:22
Alignment explanation
Indices: 41361628--41361669 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
41361618 ACCACCGTAC
*
41361628 AACCACCATGCCACCACCATTT
1 AACCACCATGCCACAACCATTT
41361650 AACCACCATAG-CACAACCAT
1 AACCACCAT-GCCACAACCAT
41361670 ATCAAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.38, C:0.43, G:0.05, T:0.14
Consensus pattern (22 bp):
AACCACCATGCCACAACCATTT
Found at i:41371798 original size:12 final size:12
Alignment explanation
Indices: 41371781--41371806 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
41371771 CAAAACAGGC
41371781 TTTTAGCGGCGT
1 TTTTAGCGGCGT
41371793 TTTTAGCGGCGT
1 TTTTAGCGGCGT
41371805 TT
1 TT
41371807 AGATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:41372039 original size:72 final size:71
Alignment explanation
Indices: 41371890--41372029 Score: 190
Period size: 72 Copynumber: 2.0 Consensus size: 71
41371880 TGTTTTTCAT
* * **
41371890 AAAGCGCCGCAAAAACCTAAGCCCAACGATGCTGTTTACCAAGCTTTTGGGGATTTAGCGGCGTT
1 AAAGCGCCGCAAAAACCTAAGCCCAACGATGCCGTTTACCAAGATTTTGGGGATTTAGCAACGTT
41371955 TTCGAG
66 TTCGAG
* ****
41371961 AAAGCGCCGCAAAAAACCTAAGCCCAATGATGCCGTTTTTTGAGATTTTGGGGATTTAGCAACGT
1 AAAGCGCCGC-AAAAACCTAAGCCCAACGATGCCGTTTACCAAGATTTTGGGGATTTAGCAACGT
41372026 TTTC
65 TTTC
41372030 AGGGAAGCGC
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
71 10 0.17
72 49 0.83
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (71 bp):
AAAGCGCCGCAAAAACCTAAGCCCAACGATGCCGTTTACCAAGATTTTGGGGATTTAGCAACGTT
TTCGAG
Found at i:41372166 original size:72 final size:72
Alignment explanation
Indices: 41372075--41372227 Score: 243
Period size: 72 Copynumber: 2.1 Consensus size: 72
41372065 GTTTTTGTGA
41372075 AAGCGCCGCAAAAAACATAAGCCCAACGGCACCGTTTTCTGAGCTTTCAGGAATTTAGCAGCGTT
1 AAGCGCCGCAAAAAACATAAGCCCAACGGCACCGTTTTCTGAGCTTTCAGGAATTTAGCAGCGTT
41372140 TTTAGGG
66 TTTAGGG
** * * **
41372147 AAGCGCCGCAAAAAACATAAGCCCAACGTTACCGTTTTTTGAGCTTTCAGGGATTTAGTGGCGTT
1 AAGCGCCGCAAAAAACATAAGCCCAACGGCACCGTTTTCTGAGCTTTCAGGAATTTAGCAGCGTT
*
41372212 TTTATGG
66 TTTAGGG
41372219 AAGCGCCGC
1 AAGCGCCGC
41372228 TAATGCTCAG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (72 bp):
AAGCGCCGCAAAAAACATAAGCCCAACGGCACCGTTTTCTGAGCTTTCAGGAATTTAGCAGCGTT
TTTAGGG
Found at i:41372245 original size:113 final size:113
Alignment explanation
Indices: 41372121--41372357 Score: 268
Period size: 113 Copynumber: 2.1 Consensus size: 113
41372111 TTCTGAGCTT
* * *
41372121 TCAGGAATTTAGC-AGCGTTTTTAGGG-AAGCGCCGC-AAAAAACATAAGCCCAACGTTACCGTT
1 TCAGGGATTTAGCGA-CGTTTTT-GGGAAAGCGCCGCAAAAAAAC-TAAGCCCAACG-GACCATT
* * * * *
41372183 TTTTGAGC-TTTCAGG-GATTTAGTGGCGTTTTTATGGAAGCGCCGCTAATGC
62 TTTGGAGCTTTTC-GGTGATTTAGCGGCGTTTTTAAGAAAGCGCAGCTAATGC
* * * * *
41372234 TCAGGGCTTTAGCGACGTTTTTGGGAAATCGCCGCAAAAAAACTAAGTCCAATGGCCCATTTTTG
1 TCAGGGATTTAGCGACGTTTTTGGGAAAGCGCCGCAAAAAAACTAAGCCCAACGGACCATTTTTG
41372299 GAGCTTTTCGGTGATTTAGCGGCGTTTTTAAGAAAGCGCAGCTAATGC
66 GAGCTTTTCGGTGATTTAGCGGCGTTTTTAAGAAAGCGCAGCTAATGC
*
41372347 TTAGGGATTTA
1 TCAGGGATTTA
41372358 AAATAATTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
112 16 0.15
113 80 0.77
114 8 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (113 bp):
TCAGGGATTTAGCGACGTTTTTGGGAAAGCGCCGCAAAAAAACTAAGCCCAACGGACCATTTTTG
GAGCTTTTCGGTGATTTAGCGGCGTTTTTAAGAAAGCGCAGCTAATGC
Found at i:41372318 original size:185 final size:185
Alignment explanation
Indices: 41371931--41372337 Score: 509
Period size: 185 Copynumber: 2.2 Consensus size: 185
41371921 CTGTTTACCA
* * * * *
41371931 AGCTTTTGGGGATTTAGCGGCG-TTTTCGAGAAAGCGCCGCAAAAAACCTAAGCCCAATGATGCC
1 AGCTTTTCGGGATTTAGCGGCGTTTTTAG-GAAAGCGCCGCAAAAAACATAAGCCCAACGATACC
** *
41371995 GTTTTTTGAGATTTTGGGGATTTAGCAACGTTTTCAGGGAAGCGCTGCTAATGCTCAGGGCTTTA
65 GTTTTTTGAGATTTCAGGGATTTAGCAACGTTTTCAGGGAAGCGCCGCTAATGCTCAGGGCTTTA
* * *
41372060 GCGATGTTTTTGTGAAAGCGCCGCAAAAAACATAAGCCCAACGGCACCGTTTTCTG
130 GCGACGTTTTTGGGAAAGCGCCGCAAAAAACATAAGCCCAACGGCACCATTTTCTG
* * * *
41372116 AGC-TTTCAGGAATTTAGCAGCGTTTTTAGGGAAGCGCCGCAAAAAACATAAGCCCAACGTTACC
1 AGCTTTTC-GGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAACATAAGCCCAACGATACC
* *** * *
41372180 GTTTTTTGAGCTTTCAGGGATTTAGTGGCGTTTTTATGGAAGCGCCGCTAATGCTCAGGGCTTTA
65 GTTTTTTGAGATTTCAGGGATTTAGCAACGTTTTCAGGGAAGCGCCGCTAATGCTCAGGGCTTTA
* * *
41372245 GCGACGTTTTTGGGAAATCGCCGCAAAAAA-ACTAAGTCCAATGGC-CCATTTT-TGG
130 GCGACGTTTTTGGGAAAGCGCCGCAAAAAACA-TAAGCCCAACGGCACCATTTTCT-G
*
41372300 AGCTTTTCGGTGATTTAGCGGCGTTTTTAAGAAAGCGC
1 AGCTTTTCGG-GATTTAGCGGCGTTTTTAGGAAAGCGC
41372338 AGCTAATGCT
Statistics
Matches: 188, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
183 1 0.01
184 16 0.09
185 166 0.88
186 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (185 bp):
AGCTTTTCGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAACATAAGCCCAACGATACCG
TTTTTTGAGATTTCAGGGATTTAGCAACGTTTTCAGGGAAGCGCCGCTAATGCTCAGGGCTTTAG
CGACGTTTTTGGGAAAGCGCCGCAAAAAACATAAGCCCAACGGCACCATTTTCTG
Found at i:41372648 original size:38 final size:36
Alignment explanation
Indices: 41372592--41372675 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 36
41372582 GGATTTGAGG
* *
41372592 TTTAGGGGTTAGGTGTTATGCTTTAGGGGTTAAAGGGA
1 TTTA-GGGTTAGGTGTTATACTTTAGGAGTT-AAGGGA
*
41372630 TTTATGGGTTAAGG-GTTATACTTTAGGAGTTAGGGGA
1 TTTA-GGGTT-AGGTGTTATACTTTAGGAGTTAAGGGA
41372667 TTTAGGGTT
1 TTTAGGGTT
41372676 TCAATGCCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 5 0.12
37 9 0.22
38 24 0.59
39 3 0.07
ACGTcount: A:0.21, C:0.02, G:0.37, T:0.39
Consensus pattern (36 bp):
TTTAGGGTTAGGTGTTATACTTTAGGAGTTAAGGGA
Found at i:41372859 original size:21 final size:20
Alignment explanation
Indices: 41372818--41372869 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
41372808 ATGTGTTAGA
41372818 GTTTGAGTTTGGGGGTTAAG
1 GTTTGAGTTTGGGGGTTAAG
**
41372838 GTTTGAGTTTAGGGTTTTAAG
1 GTTTGAGTTT-GGGGGTTAAG
41372859 GTTT-AGTTTGG
1 GTTTGAGTTTGG
41372870 AAATTGAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 15 0.52
21 12 0.41
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (20 bp):
GTTTGAGTTTGGGGGTTAAG
Found at i:41373231 original size:15 final size:16
Alignment explanation
Indices: 41373213--41373245 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41373203 AGATAAATAT
*
41373213 AAAATAT-TATTTCAA
1 AAAATATATATATCAA
41373228 AAAATATATATATCAA
1 AAAATATATATATCAA
41373244 AA
1 AA
41373246 TAGGTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATATATATATCAA
Found at i:41373788 original size:148 final size:148
Alignment explanation
Indices: 41373492--41373795 Score: 439
Period size: 148 Copynumber: 2.1 Consensus size: 148
41373482 ATTTTAGAAA
*
41373492 CGCCGCAAATATTTATTACGAGTTGAGGAAAAGGCATCGTTTCCTATTTTTATTAGTGGCGCTTT
1 CGCCACAAATATTTATTACGAGTTGAGGAAAAGGCATCGTTTCCTATTTTTATTAGTGGCGCTTT
* * *
41373557 AGCTAAAGCATCGCAAAAATGTTTAAGGTTATCTTATAACGGTGCCATTTTTTCCATGTTATTAG
66 AGATAAAACATCGCAAAAATGTTTAAGGTTATCTTATAACGGTGCCATTTTGTCCATGTTATTAG
* *
41373622 TGGCGTTTTTAGTGTAAG
131 TGGCGTTTTTACTCTAAG
* * * * *
41373640 CGCCACAAATATTTATTA-GTGGTTGAGGTAACGGCGTCGTTTCCTATTTTTATTAGTGGTGCTT
1 CGCCACAAATATTTATTACG-AGTTGAGGAAAAGGCATCGTTTCCTATTTTTATTAGTGGCGCTT
* * * ***
41373704 TTGATAAAACGTCGTAAAAATGTTTAAGGTTATCTTATAACGGTGTTGTTTTGTCCATGTTATTA
65 TAGATAAAACATCGCAAAAATGTTTAAGGTTATCTTATAACGGTGCCATTTTGTCCATGTTATTA
41373769 GTGGCGTTTTTACTCTAAG
130 GTGGCGTTTTTACTCTAAG
41373788 CGCCACAA
1 CGCCACAA
41373796 GTTTTAGTTT
Statistics
Matches: 138, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
147 1 0.01
148 137 0.99
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (148 bp):
CGCCACAAATATTTATTACGAGTTGAGGAAAAGGCATCGTTTCCTATTTTTATTAGTGGCGCTTT
AGATAAAACATCGCAAAAATGTTTAAGGTTATCTTATAACGGTGCCATTTTGTCCATGTTATTAG
TGGCGTTTTTACTCTAAG
Found at i:41373990 original size:15 final size:14
Alignment explanation
Indices: 41373961--41373988 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41373951 CCCAAAATCC
41373961 CATTCTCCCCCAAA
1 CATTCTCCCCCAAA
41373975 CATTCTCCCCCAAA
1 CATTCTCCCCCAAA
41373989 ACCCTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (14 bp):
CATTCTCCCCCAAA
Found at i:41378008 original size:21 final size:21
Alignment explanation
Indices: 41377978--41378028 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
41377968 CTACAACTTA
* *
41377978 AAGCATAGGC-GGTAGCGAGGG
1 AAGCAGAGGCTGG-AGCGAGAG
41377999 AAGCAGAGGCTGGAGCGAGAG
1 AAGCAGAGGCTGGAGCGAGAG
41378020 AAGCAGAGG
1 AAGCAGAGG
41378029 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.33, C:0.14, G:0.47, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGGAGCGAGAG
Found at i:41378578 original size:84 final size:82
Alignment explanation
Indices: 41378489--41378776 Score: 319
Period size: 84 Copynumber: 3.5 Consensus size: 82
41378479 GTGAAGGAAA
* * * * * *
41378489 CGCCGCTAAAGAACATGAGCTTTAGCGGCG-TTTATTGGTTGCGCCGCTATATATCATGTTCTTT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGATTTATT-GTAGCGCCGCTAAAAAACATGATCTTT
* *
41378553 AGTGGCGTTTATTTTAAAAG
65 AGCGGCGTTT-TTTT-TAAG
* * * *
41378573 CGCCGCTAAAGAACATGACATTTAGCGGTGATTTTTTTGTAGCGCAGCTAAAAAACATGATCTTT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGA-TTTATTGTAGCGCCGCTAAAAAACATGATCTTT
41378638 AGCGGCGTTTCTTTTTAAG
65 AGCGGCGTTT-TTTTTAAG
* * * * *
41378657 TGCCGCTAAAGAACATGACCTTTAGTGGCGTTTTATCTATAGCGCCGCTAAAGAACATGATCTTT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGATTTAT-TGTAGCGCCGCTAAAAAACATGATCTTT
* *
41378722 AGCGACGTTTTTTCCTAAG
65 AGCGGCGTTTTTT-TTAAG
*
41378741 CGCCGCTAAAGAACATGACCTTTAACGGCG-TTTATT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGATTTATT
41378777 TCTATAAACG
Statistics
Matches: 173, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
82 1 0.01
83 12 0.07
84 121 0.70
85 34 0.20
86 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (82 bp):
CGCCGCTAAAGAACATGACCTTTAGCGGCGATTTATTGTAGCGCCGCTAAAAAACATGATCTTTA
GCGGCGTTTTTTTTAAG
Found at i:41378623 original size:42 final size:40
Alignment explanation
Indices: 41378400--41378773 Score: 259
Period size: 42 Copynumber: 8.9 Consensus size: 40
41378390 GTTTTTAAAA
* * ***
41378400 AAGCGCCGCTAAAGAGCATGACCTTTAGCGGTGTTTCTTCCAC
1 AAGCGCCGCTAAAGAACATGA-CTTTAGCGGCGTTT-TT-TTT
* * * ****
41378443 AAACGCCGCTACAGAACATTACTTTTAGCGGCGTTTGTGAAGG
1 AAGCGCCGCTAAAGAACATGAC-TTTAGCGGCGTTT-T-TTTT
* *
41378486 AAACGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTATTGGTT
1 AAGCGCCGCTAAAGAACATGA-CTTTAGCGGCGTTT-TT-TTT
* * * * * *
41378529 --GCGCCGCTATATATCATGTTCTTTAGTGGCGTTTATTTTAA
1 AAGCGCCGCTAAAGAACATG-ACTTTAGCGGCGTTT-TTTT-T
*
41378570 AAGCGCCGCTAAAGAACATGACATTTAGCGGTGATTTTTTTGT
1 AAGCGCCGCTAAAGAACATGAC-TTTAGCGGCG-TTTTTTT-T
* *
41378613 -AGCGCAGCTAAAAAACATGATCTTTAGCGGCGTTTCTTTTT
1 AAGCGCCGCTAAAGAACATGA-CTTTAGCGGCGTTT-TTTTT
* * * *
41378654 AAGTGCCGCTAAAGAACATGACCTTTAGTGGCGTTTTATCT
1 AAGCGCCGCTAAAGAACATGA-CTTTAGCGGCGTTTTTTTT
* *
41378695 ATAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTCCT
1 A-AGCGCCGCTAAAGAACATGA-CTTTAGCGGCGTTTTTT-TT
*
41378738 AAGCGCCGCTAAAGAACATGACCTTTAACGGCGTTT
1 AAGCGCCGCTAAAGAACATGA-CTTTAGCGGCGTTT
41378774 ATTTCTATAA
Statistics
Matches: 265, Mismatches: 51, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
40 1 0.00
41 38 0.14
42 128 0.48
43 94 0.35
44 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (40 bp):
AAGCGCCGCTAAAGAACATGACTTTAGCGGCGTTTTTTTT
Found at i:41383688 original size:79 final size:80
Alignment explanation
Indices: 41383585--41383768 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 80
41383575 GCTACTCGTT
* *
41383585 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGACCC
* *
41383648 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* * * *
41383664 CAAATGCCTTCGGGACTTAACCCGGATTAGTTACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCCGA
* *
41383729 TATGGTCACTTAGCA
66 TATAGTAACTTAGCA
41383744 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41383769 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
77 3 0.03
78 26 0.29
79 54 0.59
80 8 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCCGA
TATAGTAACTTAGCA
Found at i:41383760 original size:118 final size:118
Alignment explanation
Indices: 41383552--41383766 Score: 274
Period size: 118 Copynumber: 1.8 Consensus size: 118
41383542 AAATCACGTA
* ** *
41383552 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
*
41383617 AACTCGCACAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCACAAATG
* * * * *
41383670 CCTTCGGGACTTAACCCGGAT-TAGTTACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATG
1 CCTTCGGAACTTAA-CCGGATATAGCTACTCGCACAAATGCCTTCGGGA-CATAGCCCGGATATA
* *
41383733 GTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
64 GTAAC-TAGCACAAATGCCTTCGGGACTTAACCCG
41383767 GACATCATTC
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
117 3 0.04
118 65 0.79
119 14 0.17
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (118 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCACAAATG
Found at i:41383768 original size:40 final size:40
Alignment explanation
Indices: 41383566--41383768 Score: 236
Period size: 39 Copynumber: 5.1 Consensus size: 40
41383556 CGGAATTTAA
** *
41383566 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41383606 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41383646 CC-GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41383685 CCGGAT-TAGTTACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
41383724 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
41383764 CCGGA
1 CCGGA
41383769 CATCATTCAA
Statistics
Matches: 143, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
38 3 0.02
39 70 0.49
40 59 0.41
41 11 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:41387959 original size:110 final size:111
Alignment explanation
Indices: 41387764--41387988 Score: 400
Period size: 110 Copynumber: 2.0 Consensus size: 111
41387754 ACAAACCACC
*
41387764 GGCACAGATTCGGGTTTCTTTTCTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCA
1 GGCACAAATTCGGGTTTCTTTTCTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCA
*
41387829 CCCTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGACT
66 CCCTTTTCTTACATATTTCTGGGCCAACATTCAGGATATTACAG-CT
41387876 GGCACAAATTCGGG-TTC-TTTCTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCA
1 GGCACAAATTCGGGTTTCTTTTCTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCA
*
41387939 CCCTTTTCTTACATATTTCTGGGTCAACATTCAGGATATTACAGCT
66 CCCTTTTCTTACATATTTCTGGGCCAACATTCAGGATATTACAGCT
41387985 GGCA
1 GGCA
41387989 ACCCATCTAA
Statistics
Matches: 110, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
109 6 0.05
110 88 0.80
111 3 0.03
112 13 0.12
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (111 bp):
GGCACAAATTCGGGTTTCTTTTCTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCA
CCCTTTTCTTACATATTTCTGGGCCAACATTCAGGATATTACAGCT
Found at i:41391293 original size:40 final size:40
Alignment explanation
Indices: 41391188--41391333 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
41391178 GCTACTCGTT
*
41391188 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
41391228 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
41391268 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
41391309 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41391334 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.83
41 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:41393446 original size:31 final size:31
Alignment explanation
Indices: 41393411--41393475 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
41393401 AACCCTCTAC
* * *
41393411 AAATCGTCGATAATATCCTGCCAGTCCCAAA
1 AAATCATCAATAATATCCCGCCAGTCCCAAA
41393442 AAATCATCAATAATATCCCGCCAGTCCCAAA
1 AAATCATCAATAATATCCCGCCAGTCCCAAA
41393473 AAA
1 AAA
41393476 GTACGGATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.29, G:0.09, T:0.20
Consensus pattern (31 bp):
AAATCATCAATAATATCCCGCCAGTCCCAAA
Done.