Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008025.1 Hibiscus syriacus cultivar Beakdansim tig00110500_pilon, whole genome shotgun sequence
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: 2744542
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 12
Found at i:2527631 original size:102 final size:104
Alignment explanation
Indices: 2527515--2527700 Score: 277
Period size: 102 Copynumber: 1.8 Consensus size: 104
2527505 TGGAAACTTA
* *
2527515 TTTAAAAAAATATAATATATAGTTTTTAAAACAATTTTAAAAATATATAG-TTTTAAGATAATTT
1 TTTAAAAAAATATAATATATAGTTTTTAAAACAATTTTAAAAACATATAGTTTTTAAAATAATTT
*
2527579 TGAAAA-ATATTATATATAAATGTTTTTAAAAATATAGT
66 TGAAAACATATAATATATAAATGTTTTTAAAAATATAGT
** * ** *
2527617 TTTAAAAACGTATAATATATATTTTTTAAAATGATTTTGAAAACATATAGTTTTTAAAATAATTT
1 TTTAAAAAAATATAATATATAGTTTTTAAAACAATTTTAAAAACATATAGTTTTTAAAATAATTT
2527682 TGAAAACATATAATATATA
66 TGAAAACATATAATATATA
2527701 GTTTTTAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 43 0.59
103 19 0.26
104 11 0.15
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (104 bp):
TTTAAAAAAATATAATATATAGTTTTTAAAACAATTTTAAAAACATATAGTTTTTAAAATAATTT
TGAAAACATATAATATATAAATGTTTTTAAAAATATAGT
Found at i:2527673 original size:28 final size:27
Alignment explanation
Indices: 2527531--2527693 Score: 117
Period size: 28 Copynumber: 6.2 Consensus size: 27
2527521 AAAATATAAT
* *
2527531 ATATAGTTTTTAAAACAATTTTAAAAA
1 ATATAGTTTTTAAAATAATTTTGAAAA
*
2527558 TATATAG-TTTTAAGATAATTTTGAAAA
1 -ATATAGTTTTTAAAATAATTTTGAAAA
* * * *
2527585 ATAT--TATATATAAAT-GTTTTTAAAA
1 ATATAGTTTTTA-AAATAATTTTGAAAA
** * *
2527610 ATATAG-TTTTAAAA-ACGTAT--AAT
1 ATATAGTTTTTAAAATAATTTTGAAAA
* *
2527633 ATATATTTTTTAAAATGATTTTGAAAA
1 ATATAGTTTTTAAAATAATTTTGAAAA
2527660 CATATAGTTTTTAAAATAATTTTGAAAA
1 -ATATAGTTTTTAAAATAATTTTGAAAA
2527688 CATATA
1 -ATATA
2527694 ATATATAGTT
Statistics
Matches: 103, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
23 7 0.07
24 8 0.08
25 22 0.21
26 10 0.10
27 19 0.18
28 37 0.36
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (27 bp):
ATATAGTTTTTAAAATAATTTTGAAAA
Found at i:2527713 original size:19 final size:19
Alignment explanation
Indices: 2527691--2527730 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2527681 TTGAAAACAT
2527691 ATAATATATAGTTTTTAAA
1 ATAATATATAGTTTTTAAA
2527710 ATAATATATAGTTTTTAAA
1 ATAATATATAGTTTTTAAA
2527729 AT
1 AT
2527731 GGTTTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATATATAGTTTTTAAA
Found at i:2527958 original size:30 final size:31
Alignment explanation
Indices: 2527924--2527989 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
2527914 CCAGCAGGCT
*
2527924 TGACCCAATAAACCA-GCCCGGTTAGGGGCC
1 TGACCCAATAAAACATGCCCGGTTAGGGGCC
***
2527954 TGACCCAATAAAACATTTTCGGTTAGGGGCC
1 TGACCCAATAAAACATGCCCGGTTAGGGGCC
2527985 TGACC
1 TGACC
2527990 TATCCTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (31 bp):
TGACCCAATAAAACATGCCCGGTTAGGGGCC
Found at i:2529147 original size:18 final size:18
Alignment explanation
Indices: 2529124--2529161 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2529114 TATTTTAGAT
2529124 TTCCTTTTATTTATTTAA
1 TTCCTTTTATTTATTTAA
*
2529142 TTCCTTTTATTTTTTTAA
1 TTCCTTTTATTTATTTAA
2529160 TT
1 TT
2529162 TTTCTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCCTTTTATTTATTTAA
Found at i:2542933 original size:18 final size:18
Alignment explanation
Indices: 2542907--2542959 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
2542897 TGAATATTTA
*
2542907 TCCCAAAGGACCACTAAG
1 TCCCGAAGGACCACTAAG
*
2542925 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTAAG
2542943 TCCCGAAGGACCACTAA
1 TCCCGAAGGACCACTAA
2542960 TAATCGCTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.34, C:0.34, G:0.19, T:0.13
Consensus pattern (18 bp):
TCCCGAAGGACCACTAAG
Found at i:2543223 original size:2 final size:2
Alignment explanation
Indices: 2543216--2543267 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2543206 TATAACATTA
2543216 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2543258 AT AT AT AT AT
1 AT AT AT AT AT
2543268 GCATGTGCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2543675 original size:63 final size:63
Alignment explanation
Indices: 2543579--2543718 Score: 178
Period size: 63 Copynumber: 2.2 Consensus size: 63
2543569 CTTAACGGGT
* * *
2543579 GTATTGATACACTACCTGTGTTTCGGTACCCAAATTACATTCG-AAGTTTTCA-TTCTAAAGGGG
1 GTATCGATACACTACCTGTGTATCGATACCCAAATTACATTCGAAAGTTTTCACTTC--AAGGGG
* *
2543642 GTATCGATACACTGCCTAG-GTATCGATACCCAAATTACATTCGAAATTTTTCAGCTTCAAGGGG
1 GTATCGATACACTACCT-GTGTATCGATACCCAAATTACATTCGAAAGTTTTCA-CTTCAAGGGG
2543706 GTATCGATACACT
1 GTATCGATACACT
2543719 CATGAAGGTA
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
63 37 0.54
64 28 0.41
66 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (63 bp):
GTATCGATACACTACCTGTGTATCGATACCCAAATTACATTCGAAAGTTTTCACTTCAAGGGG
Found at i:2543885 original size:160 final size:160
Alignment explanation
Indices: 2543621--2544101 Score: 899
Period size: 160 Copynumber: 3.0 Consensus size: 160
2543611 AATTACATTC
* * *
2543621 GAAGTTTTCATTCTAAAGGGGGTATCGATACACTGCCTAGGTATCGATACCCAAATTACATTCGA
1 GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
*
2543686 AATTTTTCAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
66 AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
2543751 CTGAATTTTACCGTGGATGTATTGGTACCT
131 CTGAATTTTACCGTGGATGTATTGGTACCT
2543781 GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
1 GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
2543846 AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
66 AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
2543911 CTGAATTTTACCGTGGATGTATTGGTACCT
131 CTGAATTTTACCGTGGATGTATTGGTACCT
2543941 GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
1 GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
* *
2544006 AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGCATCGATACCCTTTTGAATATTTC
66 AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
*
2544071 CTGAATTTTACCCTGGATGTATTGGTACCT
131 CTGAATTTTACCGTGGATGTATTGGTACCT
2544101 G
1 G
2544102 TTGAATGTTT
Statistics
Matches: 314, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
160 314 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (160 bp):
GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
CTGAATTTTACCGTGGATGTATTGGTACCT
Found at i:2550123 original size:18 final size:18
Alignment explanation
Indices: 2550094--2550152 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
2550084 GCCCATGTAT
*
2550094 CCACTAAATCCCGAAGGA
1 CCACTAAGTCCCGAAGGA
* *
2550112 CTACTAAGTCCCGAAAGA
1 CCACTAAGTCCCGAAGGA
* * *
2550130 CCACTATGTCTCGAAGAA
1 CCACTAAGTCCCGAAGGA
2550148 CCACT
1 CCACT
2550153 GTCCATATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.36, C:0.32, G:0.15, T:0.17
Consensus pattern (18 bp):
CCACTAAGTCCCGAAGGA
Found at i:2550785 original size:63 final size:64
Alignment explanation
Indices: 2550700--2550838 Score: 187
Period size: 63 Copynumber: 2.2 Consensus size: 64
2550690 TTTTCGGGCA
* *
2550700 TATCGATACACTACCTGCGTATCGGTACCCAAATTAGATTCG-AAGTTTT-CA-TTTAAAAGGGG
1 TATCGATACACTACCTGCGTATCGATACCCAAATTACATTCGAAAGTTTTCCACTTT--AAGGGG
2550762 G
64 G
* *
2550763 TATCGATACACTGCCTAG-GTATCGATACCCAAATTACATTCGAAATTTTTCCACTTTAAGGGGG
1 TATCGATACACTACCT-GCGTATCGATACCCAAATTACATTCGAAAGTTTTCCACTTTAAGGGGG
2550827 TATCGATACACT
1 TATCGATACACT
2550839 CATGAAGGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
63 37 0.54
64 26 0.38
65 2 0.03
66 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (64 bp):
TATCGATACACTACCTGCGTATCGATACCCAAATTACATTCGAAAGTTTTCCACTTTAAGGGGG
Found at i:2551119 original size:14 final size:14
Alignment explanation
Indices: 2551100--2551128 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2551090 AAATGTTACT
2551100 ATTATGAAAACGTA
1 ATTATGAAAACGTA
2551114 ATTATGAAAACGTA
1 ATTATGAAAACGTA
2551128 A
1 A
2551129 AACAGGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATTATGAAAACGTA
Found at i:2551841 original size:2 final size:2
Alignment explanation
Indices: 2551834--2551865 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2551824 AACCAAATCA
2551834 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2551866 GTACGGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2554610 original size:21 final size:22
Alignment explanation
Indices: 2554584--2554629 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
2554574 TTCAACGGTA
2554584 TTATACACA-AAGGTATCGAT-T
1 TTATACA-ATAAGGTATCGATAT
*
2554605 TTATACAATAATGTATCGATAT
1 TTATACAATAAGGTATCGATAT
2554627 TTA
1 TTA
2554630 ATATTACGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (22 bp):
TTATACAATAAGGTATCGATAT
Found at i:2555363 original size:262 final size:261
Alignment explanation
Indices: 2554894--2557447 Score: 3422
Period size: 262 Copynumber: 9.8 Consensus size: 261
2554884 TGTTAACAAC
* * * *
2554894 TTAACATTACAAGTTGCAACTTATTTCATTTAGAACTGTGATATTATTGGTCACAATCGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* * *
2554959 TATAACAAATCATAAAACTATATGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
** *
2555024 ATCAACTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTCC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * * * * *
2555089 AGATTACAACATGCTTTCTTAGGTGACCATAACATTCTAGGCACAATCTATTATATTGATACACA
196 AGATTGCAACATGCTTTCTTAGG-GGCCATGACATTCTGGGCGCAATCTATTCTATTAATACACA
2555154 TG
260 TG
* * * *
2555156 TTAACATTACAAGTCGCAACCTATTTCATTTAGAATCATGATATTATTGGGCACGACCGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* * *
2555221 TATACAAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* * * *
2555286 ATCGGCTAAAAGTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAATAATTA
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * *
2555351 AAATTGCAACATGCTTTCTTATGGGGCCATAACCTTCTGGGTGCAATCTATTCTATTAATACACA
196 AGATTGCAACATGCTTTCTTA-GGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACACA
2555416 TG
260 TG
* ***
2555418 TTAACATTACAAGTCTCAACTTATTTCATTTAGAACCGTGATATTATTGGTTGCAACCGTATC-A
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* * * * * *
2555482 AATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTTTTGTAGGGGAATTCCAATGCTC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGT-GGGGAACTCCAAGGCTC
* *
2555547 CATCGGATAAAACTTTCATAATA-TTTAGACGCAATCACTTTTATTTTTTTAAAATAATAATATT
130 CATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTA-TTTTTTAAAATAATAATATT
* * * *
2555611 TCAGATTGTAACATGTTTTCTTATAGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACA
194 TCAGATTGCAACATGCTTTCTTA-GGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACA
2555676 CATG
258 CATG
** * *** *
2555680 ------TTACAAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGTAACTGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* * * *
2555739 TATACTAAGTCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
*
2555804 ACCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTTTAAAATAATAATATT
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTA--TTTTTTAAAATAATAATATT
* * * * * **
2555869 TAAAATTGCAACATACTTTCTTATGGGGCCATGACATTTTGGGCTCAAAATATTCTATTAATACA
194 TCAGATTGCAACATGCTTTCTTA-GGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACA
2555934 CATG
258 CATG
* * * * * *
2555938 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCATTATATTATTGGTCGCAACCATATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* *
2556003 TATACCAACTCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
*
2556068 ATCGGCTAAAACTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * *
2556133 AGATTGTAACATGTTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACACA
196 AGATTGCAACATGCTTTCTTA-GGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACACA
2556198 TG
260 TG
* ** * *** *
2556200 ------TTACAAGTCGCAACTTATTTCAGTTAGAATTGTGATATTATTTGGTGTAACTGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* *
2556259 TATACTAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* *
2556324 ACCGGCTAAAACTTTCATAATATTTTAGGCACAATCACTTTTATTTTTTAAAATAATAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * * * **
2556389 AGATTACAACATACTTTCTTATGGGGCCATAACATTTTGGGCTCAAAATATTCTATTAATACACA
196 AGATTGCAACATGCTTTCTTA-GGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACACA
2556454 TG
260 TG
* * * *
2556456 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTTATATTATTGGTCGCAACCGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* *
2556521 TATACCAACTCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
2556586 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * * * *
2556651 ATATTGCAACATGTTTTCTTAGGGGGCGTGACATTATGGGCGTAATCTATTCT-TCTAATACACA
196 AGATTGCAACATGCTTTCTTAGGGGCCATGACATTCTGGGCGCAATCTATTCTAT-TAATACACA
2556715 TG
260 TG
* * * *
2556717 TTAACAATACAAGTCGCAACTTATTTCATTTAGAACCGTAATATTATTGGGCGCAACTGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* ** *
2556782 TATACCAAATCATAAAAC--TGTGTTCTTAACTTATTTTATTATATTGGGGAACTCCAAGGTTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* ** *
2556845 ATCGGATAAAACTTTCATAATATTTTAGGCATAATCACTTTTATTTTTTAAAATAAAAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * * * ** *
2556910 ATATTGCTACGTGCTTTCTTAGGGGTTCATGACATTTTGGGCATAATCTATTAC-ATTAATATAC
196 AGATTGCAACATGCTTTCTTAGGGG-CCATGACATTCTGGGCGCAATCTATT-CTATTAATACAC
2556974 ATG
259 ATG
* * * * * *
2556977 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCATGATAATATTGGTCGCAACGGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
2557042 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* * * *
2557107 ACCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTGAAAATAATAATGTTCC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
** *
2557172 AGATTTTAACATGCTTTCTTAGGGGACTATGACATTCTGGGCGCAATCTATTCTATTAATACACA
196 AGATTGCAACATGCTTTCTTAGGGG-CCATGACATTCTGGGCGCAATCTATTCTATTAATACACA
2557237 TG
260 TG
** * * *
2557239 TTAACATTACAAGTCGCAACTTATTTCATTTA-AAGCTTTGATATTATTGGTCGCAACCGTATCA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAA-CCGTGATATTATTGGGCACAACCGTATCT
* *
2557303 ATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCAT-GGGAACTCCAAGGATC
65 ATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTC
* * * * * *
2557367 TATCAGCTAAAACTTTCATAATATTTTAGGCCCAATCACTTTTATTTGTTAAAATAATACT-GTT
130 CATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTT
2557431 CAGATTGCAACATGCTT
195 CAGATTGCAACATGCTT
2557448 CTAGAACTTA
Statistics
Matches: 2016, Mismatches: 250, Indels: 54
0.87 0.11 0.02
Matches are distributed among these distances:
256 311 0.15
257 61 0.03
258 79 0.04
259 123 0.06
260 125 0.06
261 247 0.12
262 919 0.46
263 2 0.00
264 149 0.07
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (261 bp):
TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
AGATTGCAACATGCTTTCTTAGGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACACAT
G
Found at i:2556468 original size:782 final size:779
Alignment explanation
Indices: 2554894--2557447 Score: 3555
Period size: 782 Copynumber: 3.3 Consensus size: 779
2554884 TGTTAACAAC
* * *
2554894 TTAACATTACAAGTTGCAACTTATTTCATTTAGAACTGTGATATTATTGGTCACAATCGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACTGTGATATTATTGGTCGCAACCGTATCTA
* * *
2554959 TATAACAAATCATAAAACTATATGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* *
2555024 ATCAACTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTCC
131 ATCAGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * * * * * * *
2555089 AGATTACAACATGCTTTCTTAGGTGACCATAACATTCTAGGCACAATCTATTATATTGATACACA
196 AAATTGCAACATGCTTTCTTAGG-GGCCATGACATTATGGGCTCAATCTATTCTATTAATACACA
* * * * *
2555154 TGTTAACATTACAAGTCGCAACCTATTTCATTTAGAATCATGATATTATTGGGCACGACCGTATC
260 TGTTAACATTACAAGTCGCAACTTATTTCATTTAGAACCATAATATTATTGGGCGCAACCGTATC
* * *
2555219 TATATACAAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAGGCT
325 TATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCT
* *
2555284 CCATCGGCTAAAAGTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAATAAT
390 CCATCGGCTAAAACTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAATATT
* * * * * *
2555349 TAAAATTGCAACATGCTTTCTTATGGGGCCATAACCTTCTGGGTGCAATCTATTCTATTAATACA
455 TCAAATTGTAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACA
*
2555414 CATGTTAACATTACAAGTCTCAACTTATTTCATTTAGAACCGTGATATTATTGGTTGCAACCGTA
520 CATG-----ATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGG-TGCAACCGTA
* * * * * *
2555479 TC-AAATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTTTTGTAGGGGAATTCCAAT
579 TCTATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGT-GGGGAACTCCAAG
* * *
2555543 GCTCCATCGGATAAAACTTTCATAATA-TTTAGACGCAATCACTTTTATTTTTTTAAAATAATAA
643 GCTCCACCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTA-TTTTTTAAAATAATAA
* * * *
2555607 TATTTCAGATTGTAACATGTTTTCTTATAGGGCCATGACATTCTGGGCGCAATCTATTATATTAA
707 TATTTCAGATTATAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTCTATTAA
2555672 TACACATG
772 TACACATG
* * *
2555680 ------TTACAAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGT-GTAACTGTATCT
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACTGTGATATTA-TTGGTCGCAACCGTATCT
* * * *
2555738 ATATACTAAGTCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAGGCTC
65 ATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTC
* *
2555803 CACCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTTTAAAATAATAATAT
130 CATCAGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTA--TTTTTTAAAATAATAATAT
* * * **
2555868 TTAAAATTGCAACATACTTTCTTATGGGGCCATGACATTTTGGGCTCAAAATATTCTATTAATAC
193 TTCAAATTGCAACATGCTTTCTTA-GGGGCCATGACATTATGGGCTCAATCTATTCTATTAATAC
* * * *
2555933 ACATGTTAACATTACAAGTCACAACTTATTTCATTTAGAACCATTATATTATTGGTCGCAACCAT
257 ACATGTTAACATTACAAGTCGCAACTTATTTCATTTAGAACCATAATATTATTGGGCGCAACCGT
* *
2555998 ATCTATATACCAACTCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAG
322 ATCTATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAG
2556063 GCTCCATCGGCTAAAACTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAAT
387 GCTCCATCGGCTAAAACTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAAT
* *
2556128 ATTTCAGATTGTAACATGTTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTATATTAAT
452 ATTTCAAATTGTAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTATATTAAT
* * ** * *
2556193 ACACATG-TTACAAGTCGCAACTTATTTCAGTTAGAATTGTGATATTATTTGGTGTAACTGTATC
517 ACACATGATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTA-TTGGTGCAACCGTATC
* *
2556257 TATATACTAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGGCT
581 TATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCT
*
2556322 CCACCGGCTAAAACTTTCATAATATTTTAGGCACAATCACTTTTATTTTTTAAAATAATAATATT
646 CCACCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATT
* * * * * **
2556387 TCAGATTACAACATACTTTCTTATGGGGCCATAACATTTTGGGCTCAAAATATTCTATTAATACA
711 TCAGATTATAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACA
2556452 CATG
776 CATG
* * *
2556456 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTTATATTATTGGTCGCAACCGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACTGTGATATTATTGGTCGCAACCGTATCTA
* *
2556521 TATACCAACTCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
*
2556586 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
131 ATCAGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * *
2556651 ATATTGCAACATGTTTTCTTAGGGGGCGTGACATTATGGGCGT-AATCTATTCT-TCTAATACAC
196 AAATTGCAACATGCTTTCTTAGGGGCCATGACATTATGGGC-TCAATCTATTCTAT-TAATACAC
* * *
2556714 ATGTTAACAATACAAGTCGCAACTTATTTCATTTAGAACCGTAATATTATTGGGCGCAACTGTAT
259 ATGTTAACATTACAAGTCGCAACTTATTTCATTTAGAACCATAATATTATTGGGCGCAACCGTAT
* ** *
2556779 CTATATACCAAATCATAAAAC--TGTGTTCTTAACTTATTTTATTATATTGGGGAACTCCAAGGT
324 CTATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGC
* * *
2556842 TCCATCGGATAAAACTTTCATAATATTTTAGGCATAATCACTTTTATTTTTTAAAATAAAAATAT
389 TCCATCGGCTAAAACTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAATAT
* * * * ** *
2556907 TTCATATTGCT-ACGTGCTTTCTTA-GGGGTTCATGACATTTTGGGCATAATCTATTACATTAAT
454 TTCAAATTG-TAACATGCTTTCTTATGGGG-CCATGACATTCTGGGCGCAATCTATTATATTAAT
* * * *
2556970 ATACATGTTAACATTACAAGTCACAACTTATTTCATTTAGAACCATGATAATATTGGTCGCAACG
517 ACACATG-----ATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGT-GCAACC
2557035 GTATCTATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCA
576 GTATCTATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCA
*
2557100 AGGCTCCACCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTGAAAATAATA
641 AGGCTCCACCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATA
* * * *
2557165 ATGTTCCAGATTTTAACATGCTTTCTTA-GGGGACTATGACATTCTGGGCGCAATCTATTCTATT
706 ATATTTCAGATTATAACATGCTTTCTTATGGGG-CCATGACATTCTGGGCGCAATCTATTCTATT
2557229 AATACACATG
770 AATACACATG
* *
2557239 TTAACATTACAAGTCGCAACTTATTTCATTTA-AAGCTTTGATATTATTGGTCGCAACCGTATCA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAA-CTGTGATATTATTGGTCGCAACCGTATCT
* *
2557303 ATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCAT-GGGAACTCCAAGGATC
65 ATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTC
* * * * *
2557367 TATCAGCTAAAACTTTCATAATATTTTAGGCCCAATCACTTTTATTTGTTAAAATAATACT-GTT
130 CATCAGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTT
*
2557431 CAGATTGCAACATGCTT
195 CAAATTGCAACATGCTT
2557448 CTAGAACTTA
Statistics
Matches: 1573, Mismatches: 168, Indels: 59
0.87 0.09 0.03
Matches are distributed among these distances:
776 163 0.10
777 218 0.14
778 2 0.00
779 111 0.07
780 185 0.12
781 27 0.02
782 542 0.34
783 325 0.21
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (779 bp):
TTAACATTACAAGTCGCAACTTATTTCATTTAGAACTGTGATATTATTGGTCGCAACCGTATCTA
TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
ATCAGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
AAATTGCAACATGCTTTCTTAGGGGCCATGACATTATGGGCTCAATCTATTCTATTAATACACAT
GTTAACATTACAAGTCGCAACTTATTTCATTTAGAACCATAATATTATTGGGCGCAACCGTATCT
ATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTC
CATCGGCTAAAACTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAATATTT
CAAATTGTAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACAC
ATGATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTGCAACCGTATCTATAT
ACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCCACC
GGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTCAGA
TTATAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACACATG
Found at i:2556634 original size:518 final size:518
Alignment explanation
Indices: 2554894--2557443 Score: 3588
Period size: 518 Copynumber: 4.9 Consensus size: 518
2554884 TGTTAACAAC
** * * *
2554894 TTAACATTACAAGTTGCAACTTATTTCATTTAGAACTGTGATATTATTGGTCACAATCGTATCTA
1 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
* * * *
2554959 TATAACAAATCATAAAACTATATGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
** *
2555024 ATCAACTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTCC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
** * * * * * *
2555089 AGATTACAACATGCTTTCTTAGGTGACCATAACATTCTAGGCACAATCTATTATATTGATACACA
196 AGATTGTAACATGTTTTCTTAGG-GGCCATGACATTCTGGGCGCAATCTATTATATTAATACACA
* ** *
2555154 TGTTAACATTACAAGTCGCAACCTATTTCATTTAGAATCATGATATTA-TTGG-GCACGACCGTA
260 TG-----ATTACAAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGCA--ACTGTA
*
2555217 TCTATATACAAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAGG
318 TCTATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAGG
* **
2555282 CTCCATCGGCTAAAAGTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAATA
383 CTCCATCGGCTAAAACTTTCATAATATTTTAGGCACAATCACTTTTATTTTTTAAAATAATAATA
* * * * * **
2555347 ATTAAAATTGCAACATGCTTTCTTATGGGGCCATAACCTTCTGGG-TGCAATCTATTCTATTAAT
448 TTTCAAATTGCAACATACTTTCTTATGGGGCCATAACATTTTGGGCT-CAAAATATTCTATTAAT
2555411 ACACATG
512 ACACATG
* *
2555418 TTAACATTACAAGTCTCAACTTATTTCATTTAGAACCGTGATATTATTGGTTGCAACCGTATC-A
1 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
* * * * *
2555482 AATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTTTTGTAGGGGAATTCCAATGCTC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGT-GGGGAACTCCAAGGCTC
* *
2555547 CATCGGATAAAACTTTCATAATA-TTTAGACGCAATCACTTTTATTTTTTTAAAATAATAATATT
130 CATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTA-TTTTTTAAAATAATAATATT
*
2555611 TCAGATTGTAACATGTTTTCTTATAGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACA
194 TCAGATTGTAACATGTTTTCTTA-GGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACA
*
2555676 CATG-TTACAAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGTAACTGTATCTAT
258 CATGATTACAAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGCAACTGTATCTAT
* *
2555740 ATACTAAGTCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAGGCTCCA
323 ATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAGGCTCCA
* *
2555805 CCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTTTAAAATAATAATATTT
388 TCGGCTAAAACTTTCATAATATTTTAGGCACAATCACTTTTA--TTTTTTAAAATAATAATATTT
* *
2555870 AAAATTGCAACATACTTTCTTATGGGGCCATGACATTTTGGGCTCAAAATATTCTATTAATACAC
451 CAAATTGCAACATACTTTCTTATGGGGCCATAACATTTTGGGCTCAAAATATTCTATTAATACAC
2555935 ATG
516 ATG
* * *
2555938 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCATTATATTATTGGTCGCAACCATATCTA
1 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
*
2556003 TATACCAACTCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
*
2556068 ATCGGCTAAAACTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
2556133 AGATTGTAACATGTTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACACA
196 AGATTGTAACATGTTTTCTTA-GGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACACA
* *
2556198 TG-TTACAAGTCGCAACTTATTTCAGTTAGAATTGTGATATTATTTGGTGTAACTGTATCTATAT
260 TGATTACAAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGCAACTGTATCTATAT
* * *
2556262 ACTAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGGCTCCACC
325 ACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAGGCTCCATC
*
2556327 GGCTAAAACTTTCATAATATTTTAGGCACAATCACTTTTATTTTTTAAAATAATAATATTTCAGA
390 GGCTAAAACTTTCATAATATTTTAGGCACAATCACTTTTATTTTTTAAAATAATAATATTTCAAA
*
2556392 TTACAACATACTTTCTTATGGGGCCATAACATTTTGGGCTCAAAATATTCTATTAATACACATG
455 TTGCAACATACTTTCTTATGGGGCCATAACATTTTGGGCTCAAAATATTCTATTAATACACATG
*
2556456 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTTATATTATTGGTCGCAACCGTATCTA
1 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
*
2556521 TATACCAACTCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
2556586 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * * * * *
2556651 ATATTGCAACATGTTTTCTTAGGGGGCGTGACATTATGGGCGTAATCTATTCT-TCTAATACACA
196 AGATTGTAACATGTTTTCTTAGGGGCCATGACATTCTGGGCGCAATCTATTATAT-TAATACACA
* ** * * *
2556715 TGTTAACAATACAAGTCGCAACTTATTTCATTTAGAACCGTAATATTATTGGGCGCAACTGTATC
260 TG-----ATTACAAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGCAACTGTATC
* ** * * *
2556780 TATATACCAAATCATAAAAC--TGTGTTCTTAACTTATTTTATTATATTGGGGAACTCCAAGGTT
320 TATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAGGCT
* * *
2556843 CCATCGGATAAAACTTTCATAATATTTTAGGCATAATCACTTTTATTTTTTAAAATAAAAATATT
385 CCATCGGCTAAAACTTTCATAATATTTTAGGCACAATCACTTTTATTTTTTAAAATAATAATATT
* * * * * * **
2556908 TCATATTGCTACGTGCTTTCTTA-GGGGTTCATGACATTTTGGGCAT-AATCTATTAC-ATTAAT
450 TCAAATTGCAACATACTTTCTTATGGGG-CCATAACATTTTGGGC-TCAAAATATT-CTATTAAT
*
2556970 ATACATG
512 ACACATG
* * *
2556977 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCATGATAATATTGGTCGCAACGGTATCTA
1 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
*
2557042 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* * * *
2557107 ACCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTGAAAATAATAATGTTCC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * *
2557172 AGATTTTAACATGCTTTCTTAGGGGACTATGACATTCTGGGCGCAATCTATTCTATTAATACACA
196 AGATTGTAACATGTTTTCTTAGGGG-CCATGACATTCTGGGCGCAATCTATTATATTAATACACA
*
2557237 TGTTAACATTACAAGTCGCAACTTATTTCATTTA-AAGCTT-TGATATTA-TTGGTCGCAACCGT
260 TG-----ATTACAAGTCGCAACTTATTTCATTTAGAA--TTGTGATATTATTTGGT-GCAACTGT
* * *
2557299 ATCAATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCAT-GGGAACTCCAAG
317 ATCTATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAG
* * * * * *
2557363 GATCTATCAGCTAAAACTTTCATAATATTTTAGGCCCAATCACTTTTATTTGTTAAAATAATACT
382 GCTCCATCGGCTAAAACTTTCATAATATTTTAGGCACAATCACTTTTATTTTTTAAAATAATAAT
* *
2557428 -GTTCAGATTGCAACAT
447 ATTTCAAATTGCAACAT
2557444 GCTTCTAGAA
Statistics
Matches: 1849, Mismatches: 150, Indels: 56
0.90 0.07 0.03
Matches are distributed among these distances:
516 1 0.00
517 38 0.02
518 445 0.24
519 4 0.00
520 432 0.23
521 423 0.23
522 115 0.06
523 197 0.11
524 193 0.10
525 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (518 bp):
TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
AGATTGTAACATGTTTTCTTAGGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACACAT
GATTACAAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGCAACTGTATCTATATA
CCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTAGGGACCTCCAAGGCTCCATCG
GCTAAAACTTTCATAATATTTTAGGCACAATCACTTTTATTTTTTAAAATAATAATATTTCAAAT
TGCAACATACTTTCTTATGGGGCCATAACATTTTGGGCTCAAAATATTCTATTAATACACATG
Found at i:2559287 original size:81 final size:81
Alignment explanation
Indices: 2559136--2559292 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
2559126 TAACCTTTCA
* ** * *
2559136 TCTTTTACTCAACAGTGTTTAACTGTTCTTCTAACTGGCATAATTGACACCTTTATGCCAATTTC
1 TCTTTTACTCAACAGTATTTAACCATTCATCTAACTGGCATAATTGACACCTTTATGCCAATTGC
2559201 ACAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
** *
2559217 TCTTTTACTCAATGGTATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTG-CATATTG
1 TCTTTTACTCAACAGTATTTAACCATTCATCTAACTGGCATAATTGACACCTTTATGCCA-ATTG
*
2559281 CTCAGTTAGGCC
65 CACAGTTAGGCC
2559293 TCAAAGGCAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
80 2 0.03
81 64 0.97
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (81 bp):
TCTTTTACTCAACAGTATTTAACCATTCATCTAACTGGCATAATTGACACCTTTATGCCAATTGC
ACAGTTAGGCCATTAT
Found at i:2559333 original size:68 final size:67
Alignment explanation
Indices: 2559242--2559428 Score: 266
Period size: 68 Copynumber: 2.7 Consensus size: 67
2559232 TATTTAACCA
* * *
2559242 TTCATCTAACTGGCATAATTGACACCTTTCTGCATATTGCTCAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGCA-ATTGCACAGTTAGGCCTCAAAGGCACTTAA
*
2559307 CCT
65 CAT
* ** * *
2559310 TTCATCTAATTGGCATAAATGACACCTTTCTTTAAAATGCACAGTTAGGCCTCAAAGGCATTTAA
1 TTCATCTAACTGGCATAAATGACACCTTTC-TGCAATTGCACAGTTAGGCCTCAAAGGCACTTAA
2559375 CAT
65 CAT
2559378 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAATTGCACAGTTAGGCC
1 TTCATCTAACTGGCATAAATGACACCTTTCTG-CAATTGCACAGTTAGGCC
2559429 CCTTAATCTT
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
67 1 0.01
68 101 0.97
69 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (67 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGCAATTGCACAGTTAGGCCTCAAAGGCACTTAAC
AT
Found at i:2559950 original size:58 final size:58
Alignment explanation
Indices: 2559645--2560109 Score: 662
Period size: 59 Copynumber: 7.9 Consensus size: 58
2559635 TATATTTCCT
* * * * *
2559645 ATACGAAAATTCATTCACTTAGTATGAGTTTCTTATATTTTTTGCACACAAAGTACCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTA-ACTTTTTGCACACAAAGTGCCCA
* *
2559704 ATACGGAAACTCATACACTTAGTATGATTTTCTTAACATTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCCA
2559763 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCCA
*
2559822 ATACGGAAATTCATACACTTAGTATGAATTTCTTAATATTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAA-CTTTTTGCACACAAAGTGCCCA
* * * *
2559881 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGTACATAAAGTGGCCG
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
** * *
2559939 ATACAAAAATTCATAC-CTTTAGTATGAATTTCTTATCTTTTTGCACATAAAGTGCCCA
1 ATACGGAAATTCATACAC-TTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * *
2559997 ATACGGAAATTCATAAACTTAGTATGAATTTCTTATCTTTTTGCACAAAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * * *
2560055 ATACGGAAATTTATACATTTAGTATGAATTTCATAACATTTTTGCAAACAAAGTG
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACAAAGTG
2560110 TCATTTGGTA
Statistics
Matches: 370, Mismatches: 31, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
57 1 0.00
58 152 0.41
59 217 0.59
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (58 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:2560464 original size:20 final size:21
Alignment explanation
Indices: 2560439--2560485 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
2560429 CAATAGTATT
2560439 GATACTACTACAC-TGGTACC
1 GATACTACTACACATGGTACC
* *
2560459 GATACTTCTATACTATGGTACC
1 GATACTACTACAC-ATGGTACC
2560481 GATAC
1 GATAC
2560486 CCCCTTCCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
22 12 0.52
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (21 bp):
GATACTACTACACATGGTACC
Found at i:2560554 original size:20 final size:20
Alignment explanation
Indices: 2560529--2560602 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2560519 ATGTTGCCTA
2560529 GTATCGATACCCTTACCATG
1 GTATCGATACCCTTACCATG
2560549 GTATCGATACCCTTACCATG
1 GTATCGATACCCTTACCATG
* *
2560569 GTATCGATACTACCATACTATG
1 GTATCGATAC--CCTTACCATG
*
2560591 GTACCGATACCC
1 GTATCGATACCC
2560603 CCTTCCGGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
20 32 0.65
22 17 0.35
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (20 bp):
GTATCGATACCCTTACCATG
Found at i:2560648 original size:115 final size:115
Alignment explanation
Indices: 2560452--2560672 Score: 379
Period size: 115 Copynumber: 1.9 Consensus size: 115
2560442 ACTACTACAC
* *
2560452 TGGTACCGATACTTCTATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAATTTTAGATT
1 TGGTACCGATACTACCATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAATTTTAGATT
*
2560517 CGATGTTGCCTAGTATCGATACCCTTACCATGGTATCGATACCCTTACCA
66 CGATGTGGCCTAGTATCGATACCCTTACCATGGTATCGATACCCTTACCA
*
2560567 TGGTATCGATACTACCATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAATTTTAGATT
1 TGGTACCGATACTACCATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAATTTTAGATT
* * *
2560632 TGATGTGGCTTGGTATCGATACCCTTACCATGGTATCGATA
66 CGATGTGGCCTAGTATCGATACCCTTACCATGGTATCGATA
2560673 TTACCTCGTC
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
115 99 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (115 bp):
TGGTACCGATACTACCATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAATTTTAGATT
CGATGTGGCCTAGTATCGATACCCTTACCATGGTATCGATACCCTTACCA
Found at i:2573870 original size:21 final size:20
Alignment explanation
Indices: 2573844--2573882 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2573834 CAACTGTATA
*
2573844 GTTATGAGTTGGTTAGAGGTT
1 GTTATGAGTTAGTT-GAGGTT
2573865 GTTATGAGTTAGTTGAGG
1 GTTATGAGTTAGTTGAGG
2573883 GTAGAGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (20 bp):
GTTATGAGTTAGTTGAGGTT
Found at i:2579005 original size:21 final size:20
Alignment explanation
Indices: 2578979--2579017 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2578969 CAGCTGTATA
*
2578979 GTTATGAGTTGGTTAGAGGTT
1 GTTATGAGTTAGTT-GAGGTT
2579000 GTTATGAGTTAGTTGAGG
1 GTTATGAGTTAGTTGAGG
2579018 GTAGAGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (20 bp):
GTTATGAGTTAGTTGAGGTT
Found at i:2583729 original size:21 final size:21
Alignment explanation
Indices: 2583705--2583746 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2583695 GGTACTCATG
*
2583705 GGGTATTGATACTTGACCCTA
1 GGGTATTCATACTTGACCCTA
2583726 GGGTATTCATACTTGACCCTA
1 GGGTATTCATACTTGACCCTA
2583747 CTCACTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (21 bp):
GGGTATTCATACTTGACCCTA
Found at i:2586978 original size:24 final size:24
Alignment explanation
Indices: 2586933--2586986 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
2586923 TACTCAACAC
2586933 ATAA-ATTTAATGTATAATAATAT
1 ATAATATTTAATGTATAATAATAT
2586956 ATAATATTATAATGTA-AATAATAT
1 ATAATATT-TAATGTATAATAATAT
*
2586980 ACAATAT
1 ATAATAT
2586987 ATTTAGTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 4 0.14
24 17 0.61
25 7 0.25
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
ATAATATTTAATGTATAATAATAT
Found at i:2590744 original size:24 final size:23
Alignment explanation
Indices: 2590699--2590746 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
2590689 TACTCAACAC
2590699 ATAAATTTAATGTATAATAATAT
1 ATAAATTTAATGTATAATAATAT
2590722 ATAATATTATAATGTA-AATAATAT
1 ATAA-ATT-TAATGTATAATAATAT
2590746 A
1 A
2590747 CAACATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.17
24 12 0.52
25 7 0.30
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
ATAAATTTAATGTATAATAATAT
Found at i:2597668 original size:45 final size:45
Alignment explanation
Indices: 2597618--2597707 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
2597608 CAAATGCAAC
*
2597618 AATTGAAAATGCATTGGACCCCAC-GACAATTTCAGCACCGAAAGT
1 AATTGAAAATGCATTGGACCCCACAG-CAATTGCAGCACCGAAAGT
* * * *
2597663 AATTGATAATTCATTGGCCCCCACAGCAATTGCAGGACCGAAAGT
1 AATTGAAAATGCATTGGACCCCACAGCAATTGCAGCACCGAAAGT
2597708 CACATTGGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 38 0.97
46 1 0.03
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (45 bp):
AATTGAAAATGCATTGGACCCCACAGCAATTGCAGCACCGAAAGT
Found at i:2598422 original size:28 final size:28
Alignment explanation
Indices: 2598382--2598436 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
2598372 TGCATTCGAT
*
2598382 GAAGAAGAAGAGAGACATGGAGGAGGAG
1 GAAGAAGAAGAGAGACATCGAGGAGGAG
*
2598410 GAAGAAGAAGAGAGATATCGAGGAGGA
1 GAAGAAGAAGAGAGACATCGAGGAGGA
2598437 AGATGAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.44, T:0.05
Consensus pattern (28 bp):
GAAGAAGAAGAGAGACATCGAGGAGGAG
Found at i:2601658 original size:18 final size:18
Alignment explanation
Indices: 2601635--2601669 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2601625 TTCCATCCGG
*
2601635 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
2601653 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
2601670 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:2603024 original size:45 final size:45
Alignment explanation
Indices: 2602974--2603063 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
2602964 CAAATGCAAC
*
2602974 AATTGAAAATGCATTGGACCCCAC-GACAATTTCAGCACCGAAAGT
1 AATTGAAAATGCATTGGACCCCACAG-CAATTGCAGCACCGAAAGT
* * * *
2603019 AATTGATAATTCATTGGCCCCCACAGCAATTGCAGGACCGAAAGT
1 AATTGAAAATGCATTGGACCCCACAGCAATTGCAGCACCGAAAGT
2603064 CACATTGGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 38 0.97
46 1 0.03
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (45 bp):
AATTGAAAATGCATTGGACCCCACAGCAATTGCAGCACCGAAAGT
Found at i:2603778 original size:28 final size:28
Alignment explanation
Indices: 2603738--2603792 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
2603728 TGCATTCGAT
2603738 GAAGAAGAAGAGAGACATGGAGGAGGAG
1 GAAGAAGAAGAGAGACATGGAGGAGGAG
*
2603766 GAAGAAGAAGAGAGATATGGAGGAGGA
1 GAAGAAGAAGAGAGACATGGAGGAGGA
2603793 AGATGAGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.45, T:0.05
Consensus pattern (28 bp):
GAAGAAGAAGAGAGACATGGAGGAGGAG
Found at i:2605414 original size:28 final size:29
Alignment explanation
Indices: 2605357--2605414 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
2605347 CATATAGTCA
*
2605357 TTAAATTATAAATATGAAAAATATTTAAT
1 TTAAATTATAAATATGAAAAATATTAAAT
* * *
2605386 TTAATTTATACATAT-AAAAATCTTAAAT
1 TTAAATTATAAATATGAAAAATATTAAAT
2605414 T
1 T
2605415 CAAAATTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (29 bp):
TTAAATTATAAATATGAAAAATATTAAAT
Found at i:2611646 original size:23 final size:21
Alignment explanation
Indices: 2611594--2611655 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
2611584 TTTTGGTGCA
*
2611594 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
2611614 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
2611635 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
2611656 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:2614466 original size:18 final size:19
Alignment explanation
Indices: 2614443--2614481 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
2614433 GAATTTTACA
2614443 CATA-GGGAACCGATTCCC
1 CATAGGGGAACCGATTCCC
*
2614461 CATAGGGGGTACCGATTCCC
1 CATA-GGGGAACCGATTCCC
2614481 C
1 C
2614482 CCACGCTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
20 14 0.78
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (19 bp):
CATAGGGGAACCGATTCCC
Found at i:2617119 original size:2 final size:2
Alignment explanation
Indices: 2617112--2617137 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2617102 CCTATTGTTA
2617112 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2617138 CTTATTCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2619201 original size:24 final size:24
Alignment explanation
Indices: 2619174--2619231 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
2619164 ACAACCATTT
*
2619174 TTAGTGCTAAGGAACTTAAGTGTA
1 TTAGTGCTAAGGAACTTAAGTATA
* * *
2619198 TTAGTTCTAAGGCACTTTAGTATA
1 TTAGTGCTAAGGAACTTAAGTATA
*
2619222 TCAGTGCTAA
1 TTAGTGCTAA
2619232 AATATATGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (24 bp):
TTAGTGCTAAGGAACTTAAGTATA
Found at i:2623465 original size:9 final size:9
Alignment explanation
Indices: 2623451--2623476 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2623441 ATATATATTT
2623451 ATTATTATA
1 ATTATTATA
2623460 ATTATTATA
1 ATTATTATA
2623469 ATTATTAT
1 ATTATTAT
2623477 TTATTTTTAT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTATTATA
Found at i:2629006 original size:21 final size:22
Alignment explanation
Indices: 2628982--2629029 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
2628972 TACACATATA
2628982 TATTTATTATTATTTATTA-TT
1 TATTTATTATTATTTATTATTT
* *
2629003 TATTTATTATTTTTTTTTATTT
1 TATTTATTATTATTTATTATTT
2629025 TATTT
1 TATTT
2629030 TGCAGGCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TATTTATTATTATTTATTATTT
Found at i:2629028 original size:18 final size:18
Alignment explanation
Indices: 2628982--2629024 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
2628972 TACACATATA
2628982 TATTTA-TTATTATTTAT
1 TATTTATTTATTATTTAT
2628999 TATTTATTTATTATTT-T
1 TATTTATTTATTATTTAT
*
2629016 TTTTTATTT
1 TATTTATTT
2629025 TATTTTGCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TATTTATTTATTATTTAT
Found at i:2629030 original size:11 final size:11
Alignment explanation
Indices: 2628984--2629030 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
2628974 CACATATATA
2628984 TTTATTATTATT
1 TTTATT-TTATT
2628996 TATTA-TTTATT
1 T-TTATTTTATT
2629007 TATTATTTT-TT
1 T-TTATTTTATT
2629018 TTTATTTTATT
1 TTTATTTTATT
2629029 TT
1 TT
2629031 GCAGGCACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.22
11 17 0.53
12 5 0.16
13 3 0.09
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:2630015 original size:10 final size:9
Alignment explanation
Indices: 2629998--2630022 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2629988 TTTTCATATA
2629998 TATTTTTTT
1 TATTTTTTT
2630007 TATTTTTTT
1 TATTTTTTT
2630016 TATTTTT
1 TATTTTT
2630023 ACAATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TATTTTTTT
Found at i:2630277 original size:13 final size:13
Alignment explanation
Indices: 2630259--2630285 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2630249 AGATGGTGTC
2630259 TGATCCACCTAAA
1 TGATCCACCTAAA
2630272 TGATCCACCTAAA
1 TGATCCACCTAAA
2630285 T
1 T
2630286 ATTTTTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (13 bp):
TGATCCACCTAAA
Found at i:2634530 original size:11 final size:11
Alignment explanation
Indices: 2634516--2634585 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
2634506 GCTTTTTATA
2634516 TATTTTTATTT
1 TATTTTTATTT
* *
2634527 TA-TTATA-TA
1 TATTTTTATTT
* * *
2634536 TATATATATAT
1 TATTTTTATTT
2634547 TATTTATTA-TT
1 TATTT-TTATTT
*
2634558 TGTTTTTATTT
1 TATTTTTATTT
2634569 TATTTTTATTT
1 TATTTTTATTT
2634580 TATTTT
1 TATTTT
2634586 ACAGGTACCC
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
9 3 0.07
10 11 0.24
11 29 0.64
12 2 0.04
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.73
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:2637056 original size:23 final size:23
Alignment explanation
Indices: 2637000--2637049 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
2636990 GTATAAATAT
*
2637000 ACCGAAGTGCCACGTAGAATTGC
1 ACCGAAGTGCCACGTAGAAATGC
* *
2637023 ACTGAAGTGCCGCGTAGAAATGC
1 ACCGAAGTGCCACGTAGAAATGC
2637046 ACCG
1 ACCG
2637050 GGGTGCCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.16
Consensus pattern (23 bp):
ACCGAAGTGCCACGTAGAAATGC
Found at i:2637792 original size:20 final size:20
Alignment explanation
Indices: 2637758--2637831 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
2637748 GATTCGATGT
*
2637758 TTCCAGGTATTGATACCTACC
1 TTCC-GGTATCGATACCTACC
2637779 TTCCGGTATCGATACCTA--
1 TTCCGGTATCGATACCTACC
2637797 -T--GGTATCGATA-CTACCCC
1 TTCCGGTATCGATACCTA--CC
*
2637815 TTCCAGTATCGATACCT
1 TTCCGGTATCGATACCT
2637832 CATTAAGATG
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
14 3 0.07
15 10 0.23
17 1 0.02
19 1 0.02
20 13 0.30
21 13 0.30
22 2 0.05
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (20 bp):
TTCCGGTATCGATACCTACC
Found at i:2648692 original size:2 final size:2
Alignment explanation
Indices: 2648685--2648722 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2648675 TATAAATCCT
2648685 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2648723 TACATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2657015 original size:89 final size:89
Alignment explanation
Indices: 2656844--2657024 Score: 285
Period size: 89 Copynumber: 2.0 Consensus size: 89
2656834 GTAACCATGC
2656844 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATGGATAAAATAAGATTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATGGATAAAATAAGATTACGAGCTTATG
*
2656909 GACTAAATGGTAAGTATATTGGTA
66 GACTAAATGATAAGTATATTGGTA
* * *
2656933 AAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGG-TAAAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATA-TGGATAAAATAAGATTACGAGCTTA
*
2656997 TGGA-TAAATGATATGTATATTGGTA
64 TGGACTAAATGATAAGTATATTGGTA
2657022 AAA
1 AAA
2657025 AAGTTGTATT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
89 46 0.54
90 36 0.42
91 3 0.04
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (89 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATGGATAAAATAAGATTACGAGCTTATG
GACTAAATGATAAGTATATTGGTA
Found at i:2657020 original size:44 final size:45
Alignment explanation
Indices: 2656844--2657024 Score: 278
Period size: 45 Copynumber: 4.1 Consensus size: 45
2656834 GTAACCATGC
* *
2656844 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATA-TGGATA
1 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGG-TA
*
2656888 AAATAAGATTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
*
2656933 AAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
* *
2656978 AAATAAGCTTACGAGCTTATGGA-TAAATGATATGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
2657022 AAA
1 AAA
2657025 AAGTTGTATT
Statistics
Matches: 128, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
44 45 0.35
45 80 0.62
46 3 0.02
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
Found at i:2659924 original size:2 final size:2
Alignment explanation
Indices: 2659919--2659944 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2659909 AGATGATTAA
2659919 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2659945 TTCACTTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2664119 original size:45 final size:44
Alignment explanation
Indices: 2664027--2664207 Score: 258
Period size: 45 Copynumber: 4.0 Consensus size: 44
2664017 GGTAACTAGG
* *
2664027 AAAATAAGCTTACGAGCTTATGGA-ATAATGGCAAATATA-TGGAT
1 AAAATAAGCTTACGAGCTTATGGATA-AATGGTAAGTATATTGG-T
*
2664071 AAAATAAGCTTACGAGCTTATAGACTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGA-TAAATGGTAAGTATATTGGT
2664116 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGA-TAAATGGTAAGTATATTGGT
* *
2664161 AAAATAAGCTTACGAGCTTATGGGATAAATGATATGTATATTGGT
1 AAAATAAGCTTACGAGCTTAT-GGATAAATGGTAAGTATATTGGT
2664206 AA
1 AA
2664208 GAAAGTTGTA
Statistics
Matches: 126, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
44 23 0.18
45 96 0.76
46 7 0.06
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (44 bp):
AAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGT
Found at i:2666800 original size:21 final size:22
Alignment explanation
Indices: 2666776--2666833 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
2666766 ATCAATACTT
* *
2666776 AAAATTAAATAAAACA-ATATA
1 AAAATAAAATAAAACACATAAA
*
2666797 AAAATAAAATAAAATATCATAAA
1 AAAATAAAATAAAACA-CATAAA
2666820 AAAATAAAATAAAA
1 AAAATAAAATAAAA
2666834 ATATTACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 14 0.44
23 18 0.56
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAATAAAATAAAACACATAAA
Found at i:2666807 original size:5 final size:5
Alignment explanation
Indices: 2666775--2666833 Score: 50
Period size: 5 Copynumber: 12.0 Consensus size: 5
2666765 TATCAATACT
* * * **
2666775 TAAAA TTAAA TAAAA CAATA TAAAAA TAAAA TAAAA TATCA T-AAA -AAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA
2666824 TAAAA TAAAA
1 TAAAA TAAAA
2666834 ATATTACTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
4 4 0.10
5 33 0.80
6 4 0.10
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:2668697 original size:3 final size:3
Alignment explanation
Indices: 2668673--2668711 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
2668663 CAAAATGTAA
*
2668673 AAT AA- AAT ATT AAT AA- AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2668712 CCCCAGACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2673765 original size:162 final size:159
Alignment explanation
Indices: 2673455--2673885 Score: 519
Period size: 161 Copynumber: 2.7 Consensus size: 159
2673445 GGACTTACCC
* * * *
2673455 CAGATTAATCT--AAAAATCGAACCATTAGCATGAACCAAGCGACATCGATAGTAAAGGAA-TGA
1 CAGATTAATCTAAAAAAATCAAACCATTAGCACGAACCAAGCGACACCG-TGGTAAAGGAATTG-
** * * * *
2673517 TGTTCCTCCTTGAGCATCATGAATGTTAA-GAGTATGAGCGTTGAATGGCAAATTATTGAGAGTT
64 TGTTATTCCTTGAGCACCATGAATG-TAAGGAGTATGAGCGTTCAATGACAAATGATTGAGAGTT
*
2673581 GTCATTGAACAAATACTACCTTGTACTTATCA
128 ATCATTGAACAAATACTACCTTGTACTTATCA
*
2673613 CAGATTAATCTAAAAAGAATCAAACCATTAGCACGAACCAAGCGACCCCAGTGGTAAAGGAATTG
1 CAGATTAATCTAAAAA-AATCAAACCATTAGCACGAACCAAGCGACACC-GTGGTAAAGGAATTG
* * * ** *
2673678 TCGTTATTTCTTGAGCAGCATGAAGGCCAGGAGTATTAGCGTTCAATGACAAATGATTGAGAGTT
64 T-GTTATTCCTTGAGCACCATGAATGTAAGGAGTATGAGCGTTCAATGACAAATGATTGAGAGTT
* *
2673743 ATCATTGAACAAATATTACCTTGTACTTATCC
128 ATCATTGAACAAATACTACCTTGTACTTATCA
* * * * * * *
2673775 CAGATTAATCTAAAAAAATCATATCAATAGCACAAACCAAACAACATCCGTGATAAAGGAATTGT
1 CAGATTAATCTAAAAAAATCAAACCATTAGCACGAACCAAGCGACA-CCGTGGTAAAGGAATTG-
2673840 TGTTATTCCTTGAGCACCATGAATGTAAGGAGTATGAGCGTTCAAT
64 TGTTATTCCTTGAGCACCATGAATGTAAGGAGTATGAGCGTTCAAT
2673886 AGCAAACAGG
Statistics
Matches: 231, Mismatches: 33, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
158 11 0.05
160 3 0.01
161 116 0.50
162 101 0.44
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (159 bp):
CAGATTAATCTAAAAAAATCAAACCATTAGCACGAACCAAGCGACACCGTGGTAAAGGAATTGTG
TTATTCCTTGAGCACCATGAATGTAAGGAGTATGAGCGTTCAATGACAAATGATTGAGAGTTATC
ATTGAACAAATACTACCTTGTACTTATCA
Found at i:2686432 original size:77 final size:76
Alignment explanation
Indices: 2686305--2686459 Score: 265
Period size: 77 Copynumber: 2.0 Consensus size: 76
2686295 TGAACGACTC
*
2686305 TCTCCATTATTCACCAATCGGTCGTTCAAGATTCGTCAATTCTACAATCAAAGTCTTCAACATCG
1 TCTCCATTATTCACCAATCGGCCGTTCAAGATTCGTCAATTCTACAATC-AAGTCTTCAACATCG
2686370 TTCAAGTCTAAA
65 TTCAAGTCTAAA
* *
2686382 TCTCCATTATTCACCAATCGGCCGTTCAAGATTCTTCAATTCTATAATCAAGTCTTCAACATCGT
1 TCTCCATTATTCACCAATCGGCCGTTCAAGATTCGTCAATTCTACAATCAAGTCTTCAACATCGT
*
2686447 TCAAGTCTTAA
66 TCAAGTCTAAA
2686458 TC
1 TC
2686460 AAGTCATTCT
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
76 28 0.38
77 46 0.62
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (76 bp):
TCTCCATTATTCACCAATCGGCCGTTCAAGATTCGTCAATTCTACAATCAAGTCTTCAACATCGT
TCAAGTCTAAA
Found at i:2692399 original size:20 final size:21
Alignment explanation
Indices: 2692368--2692409 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2692358 TTCCGTTGGG
*
2692368 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCAATACTAT
*
2692389 GCCTG-TGGTATTAATACTAT
1 GCCTGATGGTATCAATACTAT
2692409 G
1 G
2692410 AAAGTAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (21 bp):
GCCTGATGGTATCAATACTAT
Found at i:2692946 original size:121 final size:118
Alignment explanation
Indices: 2692732--2692977 Score: 318
Period size: 121 Copynumber: 2.1 Consensus size: 118
2692722 CAACATTAAG
* * * *
2692732 TTTTGAAACAAATTGAAGTTTAGGTACTAAAAGTACCAAAACTCAGTTTAGGTATTAAACGCGTT
1 TTTTGAAAAAAATTGAAGCTTAGGTACTAAAAGTACCAAAACTCAGTTGAGGTACTAAACGCGTT
* * *
2692797 AAGTTTTTAACGACGGGCACTAAGATGAAAC-GAAACTAAACATTATGTATGA
66 AAGTTTTTAACGACGGGCACTAAAATGAAACAAAAACTAAACATTAGGTATGA
*
2692849 TTTTGAAAAAAATTGAAGGCTTAGGTACTAAAA-TAGGCCAAAACTGATAGTTGAGGTACTAAAC
1 TTTTGAAAAAAATTGAA-GCTTAGGTACTAAAAGTA--CCAAAACT--CAGTTGAGGTACTAAAC
* * *
2692913 GTGTTAAGTTTTTAATG-GGGAGCACTAAAATGAAACAAAAACTAAACATTAGGTATGA
61 GCGTTAAGTTTTTAACGACGG-GCACTAAAATGAAACAAAAACTAAACATTAGGTATGA
2692971 TTTTGAA
1 TTTTGAA
2692978 TAAATGAAAG
Statistics
Matches: 111, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
117 18 0.16
118 14 0.13
119 8 0.07
120 2 0.02
121 43 0.39
122 26 0.23
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (118 bp):
TTTTGAAAAAAATTGAAGCTTAGGTACTAAAAGTACCAAAACTCAGTTGAGGTACTAAACGCGTT
AAGTTTTTAACGACGGGCACTAAAATGAAACAAAAACTAAACATTAGGTATGA
Found at i:2700859 original size:26 final size:26
Alignment explanation
Indices: 2700823--2700911 Score: 178
Period size: 26 Copynumber: 3.4 Consensus size: 26
2700813 ACGGGACCAT
2700823 TTCAACTGCAAACCAGGGTTCAACAG
1 TTCAACTGCAAACCAGGGTTCAACAG
2700849 TTCAACTGCAAACCAGGGTTCAACAG
1 TTCAACTGCAAACCAGGGTTCAACAG
2700875 TTCAACTGCAAACCAGGGTTCAACAG
1 TTCAACTGCAAACCAGGGTTCAACAG
2700901 TTCAACTGCAA
1 TTCAACTGCAA
2700912 TACCTAACCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 63 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (26 bp):
TTCAACTGCAAACCAGGGTTCAACAG
Found at i:2704244 original size:20 final size:20
Alignment explanation
Indices: 2704219--2704309 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
2704209 TAAATTAAAT
*
2704219 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
2704239 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
2704259 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
2704271 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
2704291 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
2704310 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:2704337 original size:53 final size:52
Alignment explanation
Indices: 2704218--2704367 Score: 257
Period size: 53 Copynumber: 2.9 Consensus size: 52
2704208 CTAAATTAAA
*
2704218 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
2704270 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
* *
2704323 TATTAGATATGATCATTTTTAATTAGATAAAATCA-TTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
2704368 GTTGCTAATT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 10 0.11
52 35 0.37
53 49 0.52
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:2704349 original size:20 final size:20
Alignment explanation
Indices: 2704324--2704363 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2704314 TCTATTAGTT
**
2704324 ATTAGATATGATCATTTTTA
1 ATTAGATAAAATCATTTTTA
2704344 ATTAGATAAAATCATTTTTA
1 ATTAGATAAAATCATTTTTA
2704364 TTCTGTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
ATTAGATAAAATCATTTTTA
Found at i:2708960 original size:20 final size:20
Alignment explanation
Indices: 2708935--2709025 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
2708925 TAAATTAAAT
*
2708935 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
2708955 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
2708975 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
2708987 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
2709007 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
2709026 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:2709053 original size:53 final size:52
Alignment explanation
Indices: 2708934--2709083 Score: 257
Period size: 53 Copynumber: 2.9 Consensus size: 52
2708924 CTAAATTAAA
*
2708934 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
2708986 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
* *
2709039 TATTAGATAAGATCATTTTTAATTAGATAAAATCA-TTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
2709084 GTTGCTAATT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 10 0.11
52 35 0.37
53 49 0.52
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:2709065 original size:20 final size:20
Alignment explanation
Indices: 2709040--2709079 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2709030 TCTATTAGTT
*
2709040 ATTAGATAAGATCATTTTTA
1 ATTAGATAAAATCATTTTTA
2709060 ATTAGATAAAATCATTTTTA
1 ATTAGATAAAATCATTTTTA
2709080 TTCTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (20 bp):
ATTAGATAAAATCATTTTTA
Found at i:2716451 original size:26 final size:26
Alignment explanation
Indices: 2716422--2716471 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
2716412 ACATGCTTCA
2716422 TAAAGTGTTTCAAC-ATTTGCTGTTGT
1 TAAAGTGTTTCAACAATTT-CTGTTGT
2716448 TAAAGTGTTTCAACAATTTCTGTT
1 TAAAGTGTTTCAACAATTTCTGTT
2716472 TTTACTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (26 bp):
TAAAGTGTTTCAACAATTTCTGTTGT
Found at i:2720652 original size:16 final size:16
Alignment explanation
Indices: 2720631--2720662 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2720621 ATATACATTT
2720631 CAGTAATCTTTTATTC
1 CAGTAATCTTTTATTC
2720647 CAGTAATCTTTTATTC
1 CAGTAATCTTTTATTC
2720663 ATTCAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (16 bp):
CAGTAATCTTTTATTC
Found at i:2720768 original size:20 final size:19
Alignment explanation
Indices: 2720737--2720820 Score: 116
Period size: 20 Copynumber: 4.3 Consensus size: 19
2720727 CTAATAATCC
2720737 TATTCC-CTGGTAATCTTT
1 TATTCCACTGGTAATCTTT
2720755 TATTTCCACTGGTAATCTTT
1 TA-TTCCACTGGTAATCTTT
*
2720775 TATTCCAACTGGTAGTCTTT
1 TATTCC-ACTGGTAATCTTT
*
2720795 TATTCCAACTGATAATCTTT
1 TATTCC-ACTGGTAATCTTT
2720815 TATTCC
1 TATTCC
2720821 CACTAATAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
18 2 0.03
19 8 0.13
20 50 0.83
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTT
Found at i:2720829 original size:20 final size:20
Alignment explanation
Indices: 2720747--2720833 Score: 113
Period size: 20 Copynumber: 4.3 Consensus size: 20
2720737 TATTCCCTGG
*
2720747 TAATCTTTTATTTCC-ACTGG
1 TAATCTTTTA-TTCCAACTGA
*
2720767 TAATCTTTTATTCCAACTGG
1 TAATCTTTTATTCCAACTGA
*
2720787 TAGTCTTTTATTCCAACTGA
1 TAATCTTTTATTCCAACTGA
* *
2720807 TAATCTTTTATTCCCACTAA
1 TAATCTTTTATTCCAACTGA
2720827 TAATCTT
1 TAATCTT
2720834 ACATTCTGTG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 4 0.07
20 57 0.93
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.47
Consensus pattern (20 bp):
TAATCTTTTATTCCAACTGA
Found at i:2720839 original size:20 final size:20
Alignment explanation
Indices: 2720796--2720839 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2720786 GTAGTCTTTT
* **
2720796 ATTCCAACTGATAATCTTTT
1 ATTCCAACTAATAATCTTAC
*
2720816 ATTCCCACTAATAATCTTAC
1 ATTCCAACTAATAATCTTAC
2720836 ATTC
1 ATTC
2720840 TGTGAACCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTCCAACTAATAATCTTAC
Found at i:2735603 original size:66 final size:66
Alignment explanation
Indices: 2735489--2735615 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 66
2735479 GTCCATAAGG
* * * * *
2735489 AATTACCAGTCGGTGCTGAACCTATATAATGAATTACCAACAGCGACTGAACCTTCCAGAGATAG
1 AATTACCAGTCAGTGCAGAACCTATACAAGGAATTACCAACAGCGACTGAACCTTACAGAGATAG
2735554 A
66 A
* * **
2735555 AATTACCAGTCAGTGCAGAACCTATACAAGGAATTACTAGCATTGACTGAACCTTACAGAG
1 AATTACCAGTCAGTGCAGAACCTATACAAGGAATTACCAACAGCGACTGAACCTTACAGAG
2735616 TTTTTATACA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (66 bp):
AATTACCAGTCAGTGCAGAACCTATACAAGGAATTACCAACAGCGACTGAACCTTACAGAGATAG
A
Found at i:2736829 original size:279 final size:282
Alignment explanation
Indices: 2736278--2736847 Score: 1049
Period size: 279 Copynumber: 2.0 Consensus size: 282
2736268 TTCGTTAGCG
2736278 ATTATAGGCTTATCCAAGTCACTCACTTAACCCTAGGCCATTGAGGGTACTTAGGTCATATAATA
1 ATTATAGGCTTATCCAAGTCACTCACTTAACCCTAGGCCATT-AGGGTACTTAGGTCATATAATA
2736343 TAGTCATTTTGGTATTCGAGGTTGATTTGTTCATTTCATATTTGAGGGTATTAGTTATTCTAGGG
65 TAGTCATTTTGGTATTCGAGGTTGATTTGTTCATTTCATATTTGAGGGTATTA-TTATTCTAGGG
*
2736408 CTTGGATGTGCTTCAAATCATATTGTAATTCAAGGGCATTCCAAATAAATCAGAAGTTTAATCAG
129 ATTGGATGTGCTTCAAATCATATTGTAATTCAAGGGCATTCCAAATAAATCAGAAGTTTAATCAG
2736473 TGATTCCAAGATTCCAATGGATCATGATATAAGTTCTCAGGTCATCTCCATTATTATAGTCATCC
194 TGATTCCAAGATTCCAATGGATCATGATATAAGTTCTCAGGTCATCTCCATTATTATAGTCATCC
2736538 ATATTGTTTTTACTCTTTAAGGGT
259 ATATTGTTTTTACTCTTTAAGGGT
*
2736562 ATTATAGGCTTATCCAAGTCACTCACTTAACCCTATGCCATT-GGGTACTTAGGTCATATAATAT
1 ATTATAGGCTTATCCAAGTCACTCACTTAACCCTAGGCCATTAGGGTACTTAGGTCATATAATAT
*
2736626 AGTCATTTTGGTATTCGAGGTTGATTTGTTCATTTTATATTTGAGGGTA-T-TTATTCTAGGGAT
66 AGTCATTTTGGTATTCGAGGTTGATTTGTTCATTTCATATTTGAGGGTATTATTATTCTAGGGAT
*
2736689 TGGATGTGCTTCAAATCATATTGTAATTCAAGGGCATTCCAAATAAATCAGAAGTTTAATCGGTG
131 TGGATGTGCTTCAAATCATATTGTAATTCAAGGGCATTCCAAATAAATCAGAAGTTTAATCAGTG
2736754 ATTCCAAGATTCCAAT-GATCATGATATAAGTTCTCAGGTCATCTCCATTATTATAGTCATCCAT
196 ATTCCAAGATTCCAATGGATCATGATATAAGTTCTCAGGTCATCTCCATTATTATAGTCATCCAT
2736818 ATTGTTTTTTACTCTTTAAGGGT
261 ATTG-TTTTTACTCTTTAAGGGT
2736841 ATTATAG
1 ATTATAG
2736848 TCATTTCATT
Statistics
Matches: 281, Mismatches: 4, Indels: 7
0.96 0.01 0.02
Matches are distributed among these distances:
278 52 0.19
279 117 0.42
281 1 0.00
282 70 0.25
284 41 0.15
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (282 bp):
ATTATAGGCTTATCCAAGTCACTCACTTAACCCTAGGCCATTAGGGTACTTAGGTCATATAATAT
AGTCATTTTGGTATTCGAGGTTGATTTGTTCATTTCATATTTGAGGGTATTATTATTCTAGGGAT
TGGATGTGCTTCAAATCATATTGTAATTCAAGGGCATTCCAAATAAATCAGAAGTTTAATCAGTG
ATTCCAAGATTCCAATGGATCATGATATAAGTTCTCAGGTCATCTCCATTATTATAGTCATCCAT
ATTGTTTTTACTCTTTAAGGGT
Done.