Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005203.1 Hibiscus syriacus cultivar Beakdansim tig00011761_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: 1490345
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 8
Found at i:842592 original size:3 final size:3
Alignment explanation
Indices: 842516--842571 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
842506 TTTGTTTTAT
* *
842516 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA TTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
842560 TTA TTA TTA TTA
1 TTA TTA TTA TTA
842572 AATAAATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 8 0.17
3 39 0.83
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:843882 original size:16 final size:14
Alignment explanation
Indices: 843856--843898 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
843846 TTCATTTTTG
843856 ATTAT-TTTTTAAT
1 ATTATATTTTTAAT
843869 ATTTTATATTTTTAAT
1 A--TTATATTTTTAAT
*
843885 ACTATATTTTTAAT
1 ATTATATTTTTAAT
843899 TCCTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.04
14 12 0.46
15 4 0.15
16 9 0.35
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTATATTTTTAAT
Found at i:843970 original size:19 final size:18
Alignment explanation
Indices: 843926--843973 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
843916 TTATTTGCAA
843926 TATTATTT-TATTATTAT
1 TATTATTTATATTATTAT
*
843943 TACTT-TTTAGTATTATTCT
1 TA-TTATTTA-TATTATTAT
843962 TATTATTTATAT
1 TATTATTTATAT
843974 AAATAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 5 0.19
18 7 0.27
19 14 0.54
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTATTTATATTATTAT
Found at i:844001 original size:14 final size:16
Alignment explanation
Indices: 843969--843998 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
843959 TCTTATTATT
843969 TATATAAATAAATAAA
1 TATATAAATAAATAAA
843985 TATAT-AATAAATAA
1 TATATAAATAAATAA
843999 TATTTGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TATATAAATAAATAAA
Found at i:846468 original size:15 final size:15
Alignment explanation
Indices: 846432--846470 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
846422 AATTTACATT
846432 TTTACATTT-GCATA
1 TTTACATTTGGCATA
*
846446 TTTACATTTGGCATC
1 TTTACATTTGGCATA
*
846461 TTTGCATTTG
1 TTTACATTTG
846471 TATTTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (15 bp):
TTTACATTTGGCATA
Found at i:851429 original size:115 final size:115
Alignment explanation
Indices: 851270--852070 Score: 1363
Period size: 115 Copynumber: 7.0 Consensus size: 115
851260 AGTGACATGC
* ** *
851270 GCTCATAGTAGAAATAAAAAGACATAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCT
1 GCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
* *
851335 GGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATGT
66 GGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATTT
851385 GCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 GCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
* *
851450 GATTTGGTATGAACCCCAAAAACCAATCATTAAATTTGAAAGATGAATTT
66 GGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATTT
851500 GCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 GCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
*
851565 GGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATGT
66 GGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATTT
851615 GCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 GCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
* *
851680 GATTTGGTATGAACCCCAAAAATCAATCATTAGATTTGAAAGATGAATTT
66 GGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATTT
*
851730 GCTGATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 GCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
*
851795 GGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATTT
66 GGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATTT
851845 GCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 GCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
* *
851910 GGTTTGGTATAAACCCCAAAAACCAATCATTAGATTTAAAAGATGAATTT
66 GGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATTT
* *
851960 GCTCAT-GATAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 GCTCATAG-TAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * * *
852024 TGGTTCGGTAAGAACCAC-AGAACCAATCATTGGAATTAAAAGATGAA
65 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAA
852071 CTGCATGATC
Statistics
Matches: 654, Mismatches: 31, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
114 27 0.04
115 627 0.96
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (115 bp):
GCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
GGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATTT
Found at i:854083 original size:40 final size:40
Alignment explanation
Indices: 854004--854083 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
853994 TGAGCAGAAG
**
854004 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTGAACATC
854044 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTGAACATC
1 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTGAACATC
854084 TGAGCAGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (40 bp):
CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTGAACATC
Found at i:854161 original size:54 final size:54
Alignment explanation
Indices: 854044--854188 Score: 192
Period size: 54 Copynumber: 2.8 Consensus size: 54
854034 GTTTTACATC
* *
854044 CCACAGAAAAGGATGAATGTGTTGTC-AA-GTGTT--GAACATCTGAGCAGAAG
1 CCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAAGCAGAAG
*
854094 TCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAAGCAGAAG
1 CCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAAGCAGAAG
* * *
854148 CCACATG-ATAGGATGAATGCGCTGTCAAATGTTTTACGAAC
1 CCACA-GAAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
854189 CTGCTATTCT
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
50 25 0.30
51 2 0.02
52 4 0.05
54 51 0.61
55 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (54 bp):
CCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAAGCAGAAG
Found at i:854605 original size:22 final size:23
Alignment explanation
Indices: 854554--854609 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
854544 ATCTACACTC
* *
854554 TTCAAAGATGATAGATTCCCTTT
1 TTCAAAGATGACAAATTCCCTTT
* *
854577 TTAAAAGATGACAAATTCTC-TT
1 TTCAAAGATGACAAATTCCCTTT
854599 TTCAAAGATGA
1 TTCAAAGATGA
854610 AAGCTTTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (23 bp):
TTCAAAGATGACAAATTCCCTTT
Found at i:855212 original size:113 final size:113
Alignment explanation
Indices: 855043--856478 Score: 2268
Period size: 113 Copynumber: 12.6 Consensus size: 113
855033 ATTTCTAGAA
* *
855043 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
855108 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
* *
855156 GAGTTCATAATGAGAAGAACTCATTTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
855221 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTT
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
*
855269 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAACAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
855334 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
*
855382 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
855447 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
*
855495 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
855560 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
855608 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
855673 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
*
855721 GAGTTCATAATGAGAAGAACTCGTCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
855786 CAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGGC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
*
855834 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGACTCATCTGAAGAAGGAAGAAGAAGTTCATA
1 GAGTTCATAATGAGAAGAACTCATCT-------GA---A---GAA--A-GAAGAAGAAGTTCATA
*
855899 ATGAGAAGAAATTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
50 ATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
855963 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
856028 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTTCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
856076 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
856141 CAACTTTTCGCTTGAATTTATCATTCGATGGA-CTAGCATTGCCAGGGC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATC-AGCATTGCCAGGTC
* * * * *
856189 GAATTCATAATAAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTTATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
856254 CAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGGT-
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCA-GGTC
* *
856302 GAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTG--
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * *
856365 ------TT-GCTCGAATTCATCACTCGATGGATCAACTTTTCCA-GTGA
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGT-C
* * *
856406 GAGTTCATAATGAGAAGAATTCATCTGAAG-AGGAAGAGGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
856470 CAATCTTTT
66 CAA-CTTTT
856479 GCATGATTCT
Statistics
Matches: 1238, Mismatches: 55, Indels: 61
0.91 0.04 0.05
Matches are distributed among these distances:
102 2 0.00
103 29 0.02
104 56 0.05
105 2 0.00
112 3 0.00
113 1028 0.83
114 4 0.00
116 3 0.00
119 1 0.00
120 2 0.00
122 2 0.00
123 1 0.00
126 3 0.00
128 1 0.00
129 101 0.08
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (113 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
Found at i:855883 original size:16 final size:16
Alignment explanation
Indices: 855845--855884 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
855835 AGTTCATAAT
*
855845 AAGAAGAACTCATCTG
1 AAGAAGGACTCATCTG
855861 AAGAAGGACTCATCTG
1 AAGAAGGACTCATCTG
855877 AAGAAGGA
1 AAGAAGGA
855885 AGAAGAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.15
Consensus pattern (16 bp):
AAGAAGGACTCATCTG
Found at i:856164 original size:355 final size:355
Alignment explanation
Indices: 855507--856478 Score: 1550
Period size: 355 Copynumber: 2.8 Consensus size: 355
855497 GTTCATAATG
*
855507 AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCT
1 AGAAGGACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCT
855572 TGAATTCATCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
66 TGAATTCATCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
855637 GAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGAT
131 GAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGAT
* *
855702 GGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCGTCTGAAGAAAGAAGAAGAAGTTC
196 GGATCAGCATTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTC
855767 ATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGG
261 ATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGG
*
855832 GCGAGTTCATAATAAGAAGAACTCATCTGA
326 GCGAATTCATAATAAGAAGAACTCATCTGA
*
855862 AGAAGGACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAATTGTTCAACTTTTCGCT
1 AGAAGGACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCT
855927 TGAATTCATCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
66 TGAATTCATCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
855992 GAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGAT
131 GAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGAT
856057 GGATCAGCATTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTC
196 GGATCAGCATTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTC
*
856122 ATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTTATCATTCGATGGACTAGCATTGCCAGG
261 ATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGG
856187 GCGAATTCATAATAAGAAGAACTCATCTGA
326 GCGAATTCATAATAAGAAGAACTCATCTGA
*
856217 AGAAGGA---A--T-----------AAGAAGTTTATAATGAGAAGAACTTGTTCAACTTTTCGCT
1 AGAAGGACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCT
* * *
856266 TGAATTTATCATTCGATGGACCAGCATTGCCAGGGT-GAGTTCATAATAAGAAGAACTCATCTGA
66 TGAATTCATCATTCGATGGATCAGCATTGCCA-GGTCGAGTTCATAATGAGAAGAACTCATCTGA
* * *
856330 AGAAAGAAGAAGAAATTCATAATGAGAAGAACTTG--------TT-GCTCGAATTCATCACTCGA
130 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGA
* * * * * *
856386 TGGATCAACTTTTCCA-GTGAGAGTTCATAATGAGAAGAATTCATCTGAAG-AGGAAGAGGAAGT
195 TGGATCAGCATTTCCAGGT-CGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGT
856449 TCATAATGAGAAGAACTTGTTCAATCTTTT
259 TCATAATGAGAAGAACTTGTTCAA-CTTTT
856479 GCATGATTCT
Statistics
Matches: 594, Mismatches: 20, Indels: 31
0.92 0.03 0.05
Matches are distributed among these distances:
329 37 0.06
330 65 0.11
331 2 0.00
339 129 0.22
340 3 0.01
350 1 0.00
352 1 0.00
355 356 0.60
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (355 bp):
AGAAGGACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCT
TGAATTCATCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
GAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGAT
GGATCAGCATTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTC
ATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGG
GCGAATTCATAATAAGAAGAACTCATCTGA
Found at i:856277 original size:468 final size:468
Alignment explanation
Indices: 855394--856478 Score: 1722
Period size: 468 Copynumber: 2.4 Consensus size: 468
855384 GTTCATAATG
*
855394 AGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTCGCT
1 AGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAAATTGTTCAACTTTTCGCT
855459 TGAATTCATCATTCGATGGATCAACATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
66 TGAATTCATCATTCGATGGATCAACATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
*
855524 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGAT
131 GAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGAT
855589 GGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTC
196 GGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTC
855654 ATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGG
261 ATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGG
* * * *
855719 TCGAGTTCATAATGAGAAGAACTCGTCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
326 GCGAATTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
855784 TTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGGCGAGTTCATAATAAGA
391 TTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGGCGAGTTCATAATAAGA
855849 AGAACTCATCTGA
456 AGAACTCATCTGA
* * *
855862 AGAAGGACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAATTGTTCAACTTTTCGCT
1 AGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAAATTGTTCAACTTTTCGCT
*
855927 TGAATTCATCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
66 TGAATTCATCATTCGATGGATCAACATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
855992 GAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGAT
131 GAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGAT
*
856057 GGATCAGCATTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTC
196 GGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTC
*
856122 ATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTTATCATTCGATGGA-CTAGCATTGCCAG
261 ATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC-AGCATTGCCAG
* * *
856186 GGCGAATTCATAATAAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTTATAATGAGAAGAACTT
325 GGCGAATTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTT
*
856251 GTTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGGTGAGTTC---AT---
390 GTTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGGCGAGTTCATAATAAG
856310 ----A---A--T-A
455 AAGAACTCATCTGA
*
856314 AGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTG--------TT-GCT
1 AGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAAATTGTTCAACTTTTCGCT
* * * * * *
856370 CGAATTCATCACTCGATGGATCAACTTTTCCA-GTGAGAGTTCATAATGAGAAGAATTCATCTGA
66 TGAATTCATCATTCGATGGATCAACATTGCCAGGT-CGAGTTCATAATGAGAAGAACTCATCTGA
* *
856434 AG-AGGAAGAGGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTT
130 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTT
856479 GCATGATTCT
Statistics
Matches: 585, Mismatches: 29, Indels: 31
0.91 0.04 0.05
Matches are distributed among these distances:
442 37 0.06
443 64 0.11
444 2 0.00
452 48 0.08
453 1 0.00
455 1 0.00
458 1 0.00
465 2 0.00
467 1 0.00
468 428 0.73
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (468 bp):
AGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAAATTGTTCAACTTTTCGCT
TGAATTCATCATTCGATGGATCAACATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
GAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGAT
GGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTC
ATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGG
GCGAATTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAACTTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGGCGAGTTCATAATAAGA
AGAACTCATCTGA
Found at i:856761 original size:13 final size:14
Alignment explanation
Indices: 856743--856801 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 14
856733 TTCATTTGTT
856743 TTATT-TATTATTA
1 TTATTATATTATTA
* *
856756 TTATTTTGTT-TTA
1 TTATTATATTATTA
*
856769 ATATTAT-TATATTA
1 TTATTATAT-TATTA
856783 -TATTATATTATTA
1 TTATTATATTATTA
856796 TTATTA
1 TTATTA
856802 AATAAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 1 0.03
13 25 0.66
14 12 0.32
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:856788 original size:10 final size:11
Alignment explanation
Indices: 856743--856799 Score: 61
Period size: 10 Copynumber: 5.6 Consensus size: 11
856733 TTCATTTGTT
856743 TTATT-TATTA
1 TTATTATATTA
* *
856753 TTATTATTTTG
1 TTATTATATTA
856764 TT-TTA-A-TA
1 TTATTATATTA
856772 TTATTATATTA
1 TTATTATATTA
856783 -TATTATATTA
1 TTATTATATTA
856793 TTATTAT
1 TTATTAT
856800 TAAATAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 19 0.50
11 13 0.34
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TTATTATATTA
Found at i:856797 original size:24 final size:24
Alignment explanation
Indices: 856747--856822 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
856737 TTTGTTTTAT
* * * *
856747 TTATTATTATTATTTTGTTTTAATA
1 TTATTA-TATTATATTATATTATTA
856772 TTATTATATTATATTATATTATTA
1 TTATTATATTATATTATATTATTA
* *
856796 TTATTA-AATA-AATA-ATTATTA
1 TTATTATATTATATTATATTATTA
856817 TTATTA
1 TTATTA
856823 CAAACAGGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.29
22 3 0.07
23 3 0.07
24 20 0.44
25 6 0.13
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (24 bp):
TTATTATATTATATTATATTATTA
Found at i:856822 original size:3 final size:3
Alignment explanation
Indices: 856747--856801 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
856737 TTTGTTTTAT
* *
856747 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA -TA TTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
856790 TTA TTA TTA TTA
1 TTA TTA TTA TTA
856802 AATAAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 10 0.22
3 35 0.78
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:858081 original size:15 final size:15
Alignment explanation
Indices: 858063--858118 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
858053 TCATTTTTGA
*
858063 TTATTTTTTAATATT
1 TTATTTTTTAATACT
*
858078 TTATATTTTAATACT
1 TTATTTTTTAATACT
* *
858093 ATA-TTTTTAATTCT
1 TTATTTTTTAATACT
858107 TT-TTATTTTAAT
1 TTATT-TTTTAAT
858119 TATTATTTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 11 0.33
15 22 0.67
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTTTTAATACT
Found at i:858125 original size:3 final size:3
Alignment explanation
Indices: 858117--858173 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
858107 TTTTATTTTA
* *
858117 ATT ATT ATT -TGT AAT ATT ATT -TT ATT ATT ATT ACTT TTT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
*
858162 ATT CTT ATT ATT
1 ATT ATT ATT ATT
858174 TATATAAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 3 0.07
3 39 0.89
4 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:858126 original size:12 final size:12
Alignment explanation
Indices: 858109--858173 Score: 62
Period size: 12 Copynumber: 5.2 Consensus size: 12
858099 TTAATTCTTT
858109 TTATTTTAATTA
1 TTATTTTAATTA
858121 TTATTTGTAA-TA
1 TTATTT-TAATTA
858133 TTATTTTATTATTA
1 TTATTTTA--ATTA
*
858147 TTACTTTTTATTA
1 TTA-TTTTAATTA
858160 TTATTCTT-ATTA
1 TTATT-TTAATTA
858172 TT
1 TT
858174 TATATAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
11 2 0.04
12 22 0.48
13 13 0.28
14 5 0.11
15 4 0.09
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (12 bp):
TTATTTTAATTA
Found at i:858139 original size:29 final size:27
Alignment explanation
Indices: 858057--858142 Score: 79
Period size: 29 Copynumber: 3.1 Consensus size: 27
858047 AAAATTTCAT
* *
858057 TTTTGATTATT-TTTTAATATTTTATA
1 TTTTAATTATTATTTTAATATTTTTTA
858083 TTTTAA-TACTATATTTTTAAT-TCTTTTTA
1 TTTTAATTA-T-TA-TTTTAATAT-TTTTTA
858112 TTTTAATTATTATTTGTAATATTATTTTA
1 TTTTAATTATTATTT-TAATATT-TTTTA
858141 TT
1 TT
858143 ATTATTACTT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
25 2 0.04
26 6 0.12
27 4 0.08
28 8 0.16
29 27 0.55
30 2 0.04
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTAATTATTATTTTAATATTTTTTA
Found at i:858157 original size:16 final size:15
Alignment explanation
Indices: 858136--858173 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
858126 TGTAATATTA
858136 TTTTATTATTATTACT
1 TTTTATTATTATT-CT
858152 TTTTATTATTATTCT
1 TTTTATTATTATTCT
*
858167 TATTATT
1 TTTTATT
858174 TATATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTATTATTCT
Found at i:858176 original size:16 final size:15
Alignment explanation
Indices: 858131--858173 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 15
858121 TTATTTGTAA
858131 TATTATT-TTATTAT
1 TATTATTCTTATTAT
*
858145 TATTA--CTTTTTAT
1 TATTATTCTTATTAT
858158 TATTATTCTTATTAT
1 TATTATTCTTATTAT
858173 T
1 T
858174 TATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 5 0.21
15 8 0.33
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTCTTATTAT
Found at i:858393 original size:20 final size:19
Alignment explanation
Indices: 858368--858409 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
858358 TTATTTTATA
858368 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
858388 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
858407 AAT
1 AAT
858410 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:867310 original size:15 final size:17
Alignment explanation
Indices: 867280--867311 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
867270 ATATATTTTT
867280 ATCTATCTTGTAATTTA
1 ATCTATCTTGTAATTTA
867297 ATCTA-CTT-TAATTTA
1 ATCTATCTTGTAATTTA
867312 TTATATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.31, C:0.12, G:0.03, T:0.53
Consensus pattern (17 bp):
ATCTATCTTGTAATTTA
Found at i:867338 original size:18 final size:19
Alignment explanation
Indices: 867303--867338 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
867293 TTTAATCTAC
867303 TTTAATTTATTATATTATG
1 TTTAATTTATTATATTATG
*
867322 TTTAATTT-TTATTTTAT
1 TTTAATTTATTATATTAT
867339 TATGTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTAATTTATTATATTATG
Found at i:867438 original size:39 final size:38
Alignment explanation
Indices: 867356--867470 Score: 101
Period size: 39 Copynumber: 2.9 Consensus size: 38
867346 AAATTACAAT
*
867356 AAAAAACATAAAAGAT-AGAATAATAA-AAAAATAATGTAATAA
1 AAAAAACA-AAAA-ATAAGAAAAATAACAAAAA-AAT-T--TAA
*
867398 AAAAAAGAAAAGAATAAG-AAAATAACAAAAGAAATTTAA
1 AAAAAACAAAA-AATAAGAAAAATAACAAAA-AAATTTAA
* *
867437 AAAATACAAAAAATCAGAAAAATAACAAAAAAAT
1 AAAAAACAAAAAATAAGAAAAATAACAAAAAAAT
867471 GTAGAGTAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
38 9 0.14
39 24 0.38
41 12 0.19
42 17 0.27
43 1 0.02
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.15
Consensus pattern (38 bp):
AAAAAACAAAAAATAAGAAAAATAACAAAAAAATTTAA
Found at i:867469 original size:20 final size:19
Alignment explanation
Indices: 867416--867470 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 19
867406 AAAGAATAAG
*
867416 AAAATAACAAAAGAAATTTAA
1 AAAATAACAAAA-AAA-TCAA
867437 AAAAT-AC-AAAAAATCAGA
1 AAAATAACAAAAAAATCA-A
867455 AAAATAACAAAAAAAT
1 AAAATAACAAAAAAAT
867471 GTAGAGTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 2 0.07
18 9 0.30
19 5 0.17
20 9 0.30
21 5 0.17
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.15
Consensus pattern (19 bp):
AAAATAACAAAAAAATCAA
Found at i:871005 original size:31 final size:30
Alignment explanation
Indices: 870931--871014 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
870921 CCAAATACTA
* *
870931 GTCAGGTTGCATTCAAATAATATACAGCAT
1 GTCAGGTTGCATTCAAATAATACACAACAT
* * * *
870961 GTCAGGGATGCATTCAAGTAATGCACAATAT
1 GTCA-GGTTGCATTCAAATAATACACAACAT
*
870992 GTCAGGTTCGCATTCATATAATA
1 GTCAGGTT-GCATTCAAATAATA
871015 GTAGTATGTT
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
30 7 0.17
31 35 0.83
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (30 bp):
GTCAGGTTGCATTCAAATAATACACAACAT
Found at i:877325 original size:4 final size:4
Alignment explanation
Indices: 877316--877340 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
877306 CTGCTCAGTA
877316 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
877341 TTGGTTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:878285 original size:23 final size:23
Alignment explanation
Indices: 878259--878308 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
878249 ATCAAGCACA
*
878259 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
878282 ATAACGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
878305 ATAA
1 ATAA
878309 TAAAATATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:878315 original size:23 final size:23
Alignment explanation
Indices: 878259--878315 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
878249 ATCAAGCACA
* *
878259 ATAACATATTAGGTAGCGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
** *
878282 ATAACGTAATAGGTAGTGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
*
878305 ATAATAAAATA
1 ATAACAAAATA
878316 TGTTAATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (23 bp):
ATAACAAAATAGGTAGCGCTTAT
Found at i:878325 original size:87 final size:86
Alignment explanation
Indices: 878066--878326 Score: 360
Period size: 87 Copynumber: 3.0 Consensus size: 86
878056 TCATTTAATC
* * * * *
878066 GGAAATATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATATAATAGATAGCGTTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTAACGCTTATATAATGTAATAGGTAGCGCTTAT
*
878131 ATAATAAAATAGCTTAATTACT
66 ATAATAAAATAG-TTAATTATT
* * * ** *
878153 GGAAACATTATTAAACACAATAACATATTATGTAAAACTTATATAATGTAATTGGTAGCGCTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTAACGCTTATATAATGTAATAGGTAGCGCTTAT
878218 ATAATAAAATAGGTTAATTATT
66 ATAATAAAATA-GTTAATTATT
* * *
878240 GGAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGTGCTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTAACGCTTATATAATGTAATAGGTAGCGCTTAT
878305 ATAATAAAATATGTTAATTATT
66 ATAATAAAATA-GTTAATTATT
878327 TAATTTTTTA
Statistics
Matches: 151, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
87 150 0.99
88 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (86 bp):
GGAAACATTATCAAGCACAATAACATATTAGGTAACGCTTATATAATGTAATAGGTAGCGCTTAT
ATAATAAAATAGTTAATTATT
Found at i:878562 original size:156 final size:156
Alignment explanation
Indices: 878366--878680 Score: 531
Period size: 156 Copynumber: 2.0 Consensus size: 156
878356 CTCCTAAAAT
* * * * *
878366 ATTACCAAGGATAACATAACTGATTATTTACTGGAAACATTATCATGTATAATAATGTTAACGGT
1 ATTACCAAGAATAACATAACCGATTATTTACTGAAAACATTATCAAGTATAATAATGTAAACGGT
* *
878431 AAAAAAAATAGGCGCTACTTATTACAATAAACTACCTACCGGATATGTTCAAAGTGTCGATTCCA
66 AAAAAAAATAGGCGCTACCTATTACAATAAACTACCTACCAGATATGTTCAAAGTGTCGATTCCA
*
878496 TTTAAATAAGTATCGACACTTTTGGA
131 ATTAAATAAGTATCGACACTTTTGGA
*
878522 ATTACCAAGAATAACATAACCGGTTATTTACTGAAAACATTATCAAGTATAATAATGTAAACGGT
1 ATTACCAAGAATAACATAACCGATTATTTACTGAAAACATTATCAAGTATAATAATGTAAACGGT
* *
878587 AAAAAAAATAGGCGCTACCTATTACATTAAACTACCTACCAGATATGTTGAAAGTGTCGATTCCA
66 AAAAAAAATAGGCGCTACCTATTACAATAAACTACCTACCAGATATGTTCAAAGTGTCGATTCCA
878652 ATTAAATAAGTATCGACACTTTTGGA
131 ATTAAATAAGTATCGACACTTTTGGA
878678 ATT
1 ATT
878681 TAAAAGAAAA
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
156 148 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (156 bp):
ATTACCAAGAATAACATAACCGATTATTTACTGAAAACATTATCAAGTATAATAATGTAAACGGT
AAAAAAAATAGGCGCTACCTATTACAATAAACTACCTACCAGATATGTTCAAAGTGTCGATTCCA
ATTAAATAAGTATCGACACTTTTGGA
Found at i:878891 original size:23 final size:23
Alignment explanation
Indices: 878809--878882 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
878799 TCAGTAATTA
**
878809 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
878832 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
878855 ACCTATTACATTATATAAGTGTT
1 ACCTATTACATTATATAAGCGCT
878878 ACCTA
1 ACCTA
878883 ATATGTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:878948 original size:23 final size:23
Alignment explanation
Indices: 878928--879021 Score: 143
Period size: 23 Copynumber: 4.1 Consensus size: 23
878918 AACATATTTT
*
878928 ATTATATAAGCGCTACCTATTAT
1 ATTATATAAGCGCTACCTATTAC
**
878951 ATTATATAAGCGCTATTTATTAC
1 ATTATATAAGCGCTACCTATTAC
* *
878974 ATTATATAAGCGATATCTATTAC
1 ATTATATAAGCGCTACCTATTAC
878997 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
879020 AT
1 AT
879022 CATAGTTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:879746 original size:155 final size:156
Alignment explanation
Indices: 879463--879760 Score: 517
Period size: 155 Copynumber: 1.9 Consensus size: 156
879453 CACTAAAAAA
*
879463 ATAACATAACCGGTTATTTACTAGAAACATTATTAAGTATAATAATGTAAATAGTAAAAAAAATA
1 ATAACATAACCGGTTATTTACTAGAAACATTATCAAGTATAATAATGTAAATAGTAAAAAAAATA
* *
879528 GGCGCTACTTATTACATTAAACTACCTACCGGATATGTTCAAAGTGTCGATTTCATTTAAATAAG
66 GGCGCTACCTATTACATTAAACTACCTACCGGATATGTTCAAAGTGTCGATTCCATTTAAATAAG
*
879593 TATCGGCACTTTTAGAATTACCAAGG
131 TATCGACACTTTTAGAATTACCAAGG
* *
879619 ATAACATAACCGGTTATTTACTGGAAACTTTATCAAGTATAATAATGTAAATAGT-AAAAAAATA
1 ATAACATAACCGGTTATTTACTAGAAACATTATCAAGTATAATAATGTAAATAGTAAAAAAAATA
* *
879683 TGCGCTACCTATTACATTAAACTACCTACCGGATATGTTGAAAGTGTCGATTCCATTTAAATAAG
66 GGCGCTACCTATTACATTAAACTACCTACCGGATATGTTCAAAGTGTCGATTCCATTTAAATAAG
879748 TATCGACACTTTT
131 TATCGACACTTTT
879761 GAAATTTAAA
Statistics
Matches: 134, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
155 82 0.61
156 52 0.39
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (156 bp):
ATAACATAACCGGTTATTTACTAGAAACATTATCAAGTATAATAATGTAAATAGTAAAAAAAATA
GGCGCTACCTATTACATTAAACTACCTACCGGATATGTTCAAAGTGTCGATTCCATTTAAATAAG
TATCGACACTTTTAGAATTACCAAGG
Found at i:879968 original size:23 final size:23
Alignment explanation
Indices: 879933--880006 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
879923 TCAGTAATTA
** *
879933 ACCTATTTTATTATATAAACGCT
1 ACCTATTACATTATATAAGCGCT
879956 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
879979 ACATATTACATTATATAAGTGCT
1 ACCTATTACATTATATAAGCGCT
880002 ACCTA
1 ACCTA
880007 ATATGCTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:880080 original size:21 final size:23
Alignment explanation
Indices: 880052--880242 Score: 183
Period size: 23 Copynumber: 8.1 Consensus size: 23
880042 AACATATTTT
880052 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
880075 ATTATATAAGCGCTTCCTATTAC
1 ATTATATAAGCGCTACCTATTAC
880098 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*** * *
880121 ATTATAT---TTTTACCTGTTAT
1 ATTATATAAGCGCTACCTATTAC
*
880141 ATTGTA-AAGTATCGATCCTTCTACCTATTAC
1 ATTATATAAG---CG------CTACCTATTAC
*
880172 ATTATATAAGTGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
* *
880195 ATTATATAAACGCTATCTATTAC
1 ATTATATAAGCGCTACCTATTAC
880218 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
880241 AT
1 AT
880243 CATAGTTTTA
Statistics
Matches: 135, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
20 13 0.10
23 105 0.78
29 1 0.01
31 13 0.10
32 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:880096 original size:110 final size:110
Alignment explanation
Indices: 879907--880116 Score: 357
Period size: 110 Copynumber: 1.9 Consensus size: 110
879897 ATATGTTGAA
* * *
879907 GTGCTTGATAATGTTTTCAGTAATTAACCTATTTTATTATATAAACGCTACCTATTACATTATAT
1 GTGCTTGATAATGTTTCCAATAATTAACATATTTTATTATATAAACGCTACCTATTACATTATAT
*
879972 AAGCGCTACATATTACATTATATAAGTGCTACCTAATATGCTATT
66 AAGCGCTACATATTACATTATATAAGCGCTACCTAATATGCTATT
*
880017 GTGCTTGATAATGTTTCCAATAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATAT
1 GTGCTTGATAATGTTTCCAATAATTAACATATTTTATTATATAAACGCTACCTATTACATTATAT
* *
880082 AAGCGCTTCCTATTACATTATATAAGCGCTACCTA
66 AAGCGCTACATATTACATTATATAAGCGCTACCTA
880117 TTACATTATA
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 93 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (110 bp):
GTGCTTGATAATGTTTCCAATAATTAACATATTTTATTATATAAACGCTACCTATTACATTATAT
AAGCGCTACATATTACATTATATAAGCGCTACCTAATATGCTATT
Found at i:880956 original size:156 final size:156
Alignment explanation
Indices: 880672--880977 Score: 567
Period size: 156 Copynumber: 2.0 Consensus size: 156
880662 CACTAAAAAA
* * *
880672 GATAACATAACCGGTTATTTACTGGAAACATTATCAAGTATAATAATGTAAACGGTAAAAAAAAT
1 GATAACATAACCAGTTATTTACTGGAAACATTATCAAATATAATAATGTAAACGATAAAAAAAAT
*
880737 AGGCGCTACTTATTACATTAAACTACCTACCAGATATGTTGAAAGTGTCGATTCCATTTAAATAA
66 AGGCGCTACCTATTACATTAAACTACCTACCAGATATGTTGAAAGTGTCGATTCCATTTAAATAA
880802 GTATCGACACTTTTGGAATTACCAAG
131 GTATCGACACTTTTGGAATTACCAAG
880828 GATAACATAACCAGTTATTTACTGGAAACATTATCAAATATAATAATGTAAACGATAAAAAAAAT
1 GATAACATAACCAGTTATTTACTGGAAACATTATCAAATATAATAATGTAAACGATAAAAAAAAT
*
880893 AGGCGCTACCTATTACATTAAACTACCTACCGGATATGTTGAAAGTGTCGATTCCATTTAAATAA
66 AGGCGCTACCTATTACATTAAACTACCTACCAGATATGTTGAAAGTGTCGATTCCATTTAAATAA
880958 GTATCGACACTTTTGGAATT
131 GTATCGACACTTTTGGAATT
880978 TAAAAGAAAA
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 145 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (156 bp):
GATAACATAACCAGTTATTTACTGGAAACATTATCAAATATAATAATGTAAACGATAAAAAAAAT
AGGCGCTACCTATTACATTAAACTACCTACCAGATATGTTGAAAGTGTCGATTCCATTTAAATAA
GTATCGACACTTTTGGAATTACCAAG
Found at i:881179 original size:23 final size:23
Alignment explanation
Indices: 881144--881240 Score: 149
Period size: 23 Copynumber: 4.2 Consensus size: 23
881134 CCAGTAATTA
**
881144 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
881167 ACTTATTACATTATATAAGCGTT
1 ACCTATTACATTATATAAGCGCT
881190 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
881213 ACCTATTACATTATATAAGCGGT
1 ACCTATTACATTATATAAGCGCT
881236 ACCTA
1 ACCTA
881241 ATATGTTGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:881303 original size:23 final size:23
Alignment explanation
Indices: 881277--881337 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
881267 CAAGTAATTA
*
881277 ACCTATTTTATTATACAAGCGCT
1 ACCTATTATATTATACAAGCGCT
* *
881300 ACCTATTACATTATATAAGCGCT
1 ACCTATTATATTATACAAGCGCT
881323 ACCTATTATATTATA
1 ACCTATTATATTATA
881338 AAAATGATCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (23 bp):
ACCTATTATATTATACAAGCGCT
Found at i:881988 original size:274 final size:276
Alignment explanation
Indices: 881499--882050 Score: 1036
Period size: 274 Copynumber: 2.0 Consensus size: 276
881489 GTTCAAAAAA
881499 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
1 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
881564 TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAA
66 TATTTGATTGTTTTGATATTTTACAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAA
*
881629 GATAATAATAAATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAAT
131 GATAATAATAAATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAAC
881694 ATAAAAATAAACCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACT-AAAAAA-A
196 ATAAAAATAAACCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAAGA
881757 TAACATAACCGGTTAT
261 TAACATAACCGGTTAT
* *
881773 TTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTATACAAAAAAT
1 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
881838 TATTTGATTGTTTTGATCTTTTACAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAA
66 TATTTGATTGTTTTGATATTTTACAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAA
881903 GATAATAATAAATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAAC
131 GATAATAATAAATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAAC
*
881968 ATAAAAATAAGCCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAAGA
196 ATAAAAATAAACCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAAGA
882033 TAACATAACCGGTTAT
261 TAACATAACCGGTTAT
882049 TT
1 TT
882051 ACTAGAAACA
Statistics
Matches: 270, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
274 245 0.91
275 6 0.02
276 19 0.07
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (276 bp):
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
TATTTGATTGTTTTGATATTTTACAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAA
GATAATAATAAATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAAC
ATAAAAATAAACCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAAGA
TAACATAACCGGTTAT
Found at i:882158 original size:274 final size:271
Alignment explanation
Indices: 881577--882135 Score: 669
Period size: 274 Copynumber: 2.0 Consensus size: 271
881567 TTGATTGTTT
* * *
881577 TGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAAGATAATAATAAAT
1 TGATATGTTACAAAATATTATTTACAATTTAAATTTAACAATTTTAACCAAAGATAATAATAAAT
*
881642 ATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAATATAAAAATAAACC
66 ATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAACATAAAAATAAACC
881707 ATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAATAACATAACCGGTTA
131 ATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAATAACATAACCGGTTA
* * * * * * * * *** *** *
881772 TTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTATACAAAAAA
196 TTTCTAAAAATGTATTAAGTTATCAACCTACAATATAAAAAAAATAAGCGCACTTATACAAAAAA
* ** **
881837 TTATTTGATTG
261 CTACCTGAACG
* * *
881848 TTTTGATCTTTTACAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAAGATAATAATA
1 ---TGATATGTTACAAAATATTATTTACAATTTAAATTTAACAATTTTAACCAAAGATAATAATA
881913 AATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAACATAAAAATAA
63 AATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAACATAAAAATAA
*
881978 GCCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAAGATAACATAACC
128 ACCATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACT-AAAAAA-ATAACATAACC
** *
882043 GGTTATTTACTAGAAACAT-TATTAAGTATAAT-AATGTA-AATGATAAAAAAAATAGGCGCTAC
191 GGTTATTT-CTA-AAA-ATGTATTAAGT-T-ATCAACCTACAAT-ATAAAAAAAATAAGCGC-AC
**
882105 TTATTACATTAAACTACCT-AACG
249 TTA-TACAAAAAACTACCTGAACG
882128 -GATATGTT
1 TGATATGTT
882136 GAAAGTGTCT
Statistics
Matches: 244, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
274 169 0.69
275 6 0.02
276 25 0.10
277 2 0.01
278 11 0.05
279 14 0.06
280 7 0.03
281 10 0.04
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.39
Consensus pattern (271 bp):
TGATATGTTACAAAATATTATTTACAATTTAAATTTAACAATTTTAACCAAAGATAATAATAAAT
ATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAACATAAAAATAAACC
ATTAGACGTGTATAATTACTAAATTAATATCTTAAAACTCACTAAAAAAATAACATAACCGGTTA
TTTCTAAAAATGTATTAAGTTATCAACCTACAATATAAAAAAAATAAGCGCACTTATACAAAAAA
CTACCTGAACG
Found at i:882314 original size:155 final size:156
Alignment explanation
Indices: 882031--882335 Score: 452
Period size: 155 Copynumber: 2.0 Consensus size: 156
882021 ACTAAAAAAA
* * *
882031 GATAACATAACCGGTTATTTACTAGAAACATTATTAAGTATAATAATGTAAATGATAAAAAAAAT
1 GATAACATAACCGATTATTTACTAGAAACATTATCAAGTATAATAATGTAAACGATAAAAAAAAT
* * *
882096 AGGCGCTACTTATTACATTAAACTACCTAACGGATATGTTGAAAGTGTCTATTCCATTTAAATAA
66 AGGCGCTACCTATTACATTAAACTACCTAACGGATATATTGAAAGTGTCGATTCCATTTAAATAA
*
882161 GTATCGACACTTTTGGAATTACCAAG
131 ATATCGACACTTTTGGAATTACCAAG
* * * * * *
882187 GATAACATAATCGATTATTTACTGGTAACATTATCAAGTATAATATTGTAAACGGT-AAAACAAT
1 GATAACATAACCGATTATTTACTAGAAACATTATCAAGTATAATAATGTAAACGATAAAAAAAAT
*
882251 AGGCGCTACCTATTACATTAAACTACCT-ACTGGTTATATTGAAAGTGTCGATTCCATTTAAATA
66 AGGCGCTACCTATTACATTAAACTACCTAAC-GGATATATTGAAAGTGTCGATTCCATTTAAATA
*
882315 AATATCGACTCTTTTGGAATT
130 AATATCGACACTTTTGGAATT
882336 TAAAAGAAAA
Statistics
Matches: 133, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
154 2 0.02
155 83 0.62
156 48 0.36
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (156 bp):
GATAACATAACCGATTATTTACTAGAAACATTATCAAGTATAATAATGTAAACGATAAAAAAAAT
AGGCGCTACCTATTACATTAAACTACCTAACGGATATATTGAAAGTGTCGATTCCATTTAAATAA
ATATCGACACTTTTGGAATTACCAAG
Found at i:882540 original size:23 final size:23
Alignment explanation
Indices: 882490--882534 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
882480 AACCTATTTT
*
882490 ATTATATAAGCGCTACATATTAC
1 ATTATATAAGCGCTACATAATAC
*
882513 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACATAATA
882535 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACATAATAC
Found at i:882598 original size:87 final size:87
Alignment explanation
Indices: 882455--882627 Score: 292
Period size: 87 Copynumber: 2.0 Consensus size: 87
882445 ATATGTTGAA
*
882455 GTGCTTGATAATGTTTCCAGTAATTAACCTATTTTATTATATAAGCGCTACATATTACATTATAT
1 GTGCTTGATAATGTTTCCAGTAATTAACCTATTTTATTATACAAGCGCTACATATTACATTATAT
*
882520 AAGCGCTACCTAATATGTTATT
66 AAGCGCTACCTAATATATTATT
* * *
882542 GTGCTTGATAATGTTTCTAGTAATTAACCTATTTTATTATACAAGCGTTACCTATTACATTATAT
1 GTGCTTGATAATGTTTCCAGTAATTAACCTATTTTATTATACAAGCGCTACATATTACATTATAT
*
882607 AAGCGCTACCTATTATATTAT
66 AAGCGCTACCTAATATATTAT
882628 ATAAGCACTA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (87 bp):
GTGCTTGATAATGTTTCCAGTAATTAACCTATTTTATTATACAAGCGCTACATATTACATTATAT
AAGCGCTACCTAATATATTATT
Found at i:882603 original size:23 final size:23
Alignment explanation
Indices: 882568--882651 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
882558 CTAGTAATTA
** * *
882568 ACCTATTTTATTATACAAGCGTT
1 ACCTATTACATTATATAAGCGCT
882591 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
882614 ACCTATTATATTATATAAGCACT
1 ACCTATTACATTATATAAGCGCT
882637 ACCTATTACATTATA
1 ACCTATTACATTATA
882652 AAAAGGATCG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:883553 original size:25 final size:24
Alignment explanation
Indices: 883506--883552 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 24
883496 AAGAGGGGTT
883506 TTTGAAATTGAAAGAAAAAAAAAGA
1 TTTGAAA-TGAAAGAAAAAAAAAGA
883531 TTTGAAA-GAAAGAAAAATAAAA
1 TTTGAAATGAAAGAAAAA-AAAA
883553 AAGGTCAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 4 0.19
25 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (24 bp):
TTTGAAATGAAAGAAAAAAAAAGA
Found at i:885064 original size:9 final size:9
Alignment explanation
Indices: 885050--885084 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
885040 TCAAACAACC
885050 ATTTTTTTT
1 ATTTTTTTT
885059 ATTTTTTTT
1 ATTTTTTTT
885068 ATTTTTTTT
1 ATTTTTTTT
885077 -TTTTTTTT
1 ATTTTTTTT
885085 GAACTTACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:885100 original size:1 final size:1
Alignment explanation
Indices: 885051--885084 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
885041 CAAACAACCA
* *
885051 TTTTTTTTATTTTTTTTATTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
885085 GAACTTACCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.06, C:0.00, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:885120 original size:23 final size:24
Alignment explanation
Indices: 885067--885123 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
885057 TTATTTTTTT
* *
885067 TATTTTTTTTTTTTTTTTGAACTTAC
1 TATTTTTTCTTTTTTTTCGAA--TAC
*
885093 CATTTTTTCTTTTTTTTCGAA-AC
1 TATTTTTTCTTTTTTTTCGAATAC
885116 TATTTTTT
1 TATTTTTT
885124 TCGTGGATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.33
26 18 0.67
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.70
Consensus pattern (24 bp):
TATTTTTTCTTTTTTTTCGAATAC
Found at i:900332 original size:9 final size:9
Alignment explanation
Indices: 900318--900346 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
900308 AATATTTCTA
900318 TTTAATTAT
1 TTTAATTAT
900327 TTTAATTAT
1 TTTAATTAT
900336 TTTAATTAT
1 TTTAATTAT
900345 TT
1 TT
900347 AGTTTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTAATTAT
Found at i:913709 original size:60 final size:60
Alignment explanation
Indices: 913565--913726 Score: 157
Period size: 60 Copynumber: 2.7 Consensus size: 60
913555 AGTATATTTT
* * * **
913565 GAGATGAAATTGAAATGTTAAAAAGTTTGGGGACCAATTTAAAATAAACGTCATAGTTTG
1 GAGATGAAATTGAAATATTAAAAAGTTTGAGGACCAATTTAGAATAAACGTCATAGTTCA
* * * * * * * *
913625 GTGATGGAACTGGAATACTCAAAAGTTTGAGGACTAATTTAGAATAATA-GTTATAGTTCA
1 GAGATGAAATTGAAATATTAAAAAGTTTGAGGACCAATTTAGAATAA-ACGTCATAGTTCA
* *
913685 GAGATGAAATTGAAACATTTAAAAGTTT-AGAGACCAATTTAG
1 GAGATGAAATTGAAATATTAAAAAGTTTGAG-GACCAATTTAG
913727 TATGAGAGCC
Statistics
Matches: 79, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
59 2 0.03
60 76 0.96
61 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (60 bp):
GAGATGAAATTGAAATATTAAAAAGTTTGAGGACCAATTTAGAATAAACGTCATAGTTCA
Found at i:914360 original size:234 final size:234
Alignment explanation
Indices: 913945--914420 Score: 925
Period size: 234 Copynumber: 2.0 Consensus size: 234
913935 TTTTTTCTAT
*
913945 TCCTATTAACAAATTAAATTAAATTTAACACTTTTCTCGAAATAATGGGTGTGCAATGGCTCCCA
1 TCCTAATAACAAATTAAATTAAATTTAACACTTTTCTCGAAATAATGGGTGTGCAATGGCTCCCA
*
914010 AGAGAATTGACTGTCGAGTCGTATGTGGTAGGAAACTCTCAAGAACAGATCTAAGGAAAGGAACT
66 AGAGAATTGACTGTCGAGCCGTATGTGGTAGGAAACTCTCAAGAACAGATCTAAGGAAAGGAACT
914075 AAACCGCCTATTTCGATCGGGTCCGAGCATGCCTTCGACTGGGGGATTCAAAAATAACAAAGGCT
131 AAACCGCCTATTTCGATCGGGTCCGAGCATGCCTTCGACTGGGGGATTCAAAAATAACAAAGGCT
914140 TGGTTCAACCAACTCATGTATCATTTGAGAGGACCATAA
196 TGGTTCAACCAACTCATGTATCATTTGAGAGGACCATAA
914179 TCCTAATAACAAATTAAATTAAATTTAACACTTTTCTCGAAATAATGGGTGTGCAATGGCTCCCA
1 TCCTAATAACAAATTAAATTAAATTTAACACTTTTCTCGAAATAATGGGTGTGCAATGGCTCCCA
*
914244 AGAGAATTGACTGTCGAGCCGTATGTGGTAGGAAACTCTCAAGCACAGATCTAAGGAAAGGAACT
66 AGAGAATTGACTGTCGAGCCGTATGTGGTAGGAAACTCTCAAGAACAGATCTAAGGAAAGGAACT
914309 AAACCGCCTATTTCGATCGGGTCCGAGCATGCCTTCGACTGGGGGATTCAAAAATAACAAAGGCT
131 AAACCGCCTATTTCGATCGGGTCCGAGCATGCCTTCGACTGGGGGATTCAAAAATAACAAAGGCT
914374 TGGTTCAACCAACTCATGTATCATTTGAGAGGACCATAA
196 TGGTTCAACCAACTCATGTATCATTTGAGAGGACCATAA
914413 TCCTAATA
1 TCCTAATA
914421 TAAATATAGT
Statistics
Matches: 239, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
234 239 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (234 bp):
TCCTAATAACAAATTAAATTAAATTTAACACTTTTCTCGAAATAATGGGTGTGCAATGGCTCCCA
AGAGAATTGACTGTCGAGCCGTATGTGGTAGGAAACTCTCAAGAACAGATCTAAGGAAAGGAACT
AAACCGCCTATTTCGATCGGGTCCGAGCATGCCTTCGACTGGGGGATTCAAAAATAACAAAGGCT
TGGTTCAACCAACTCATGTATCATTTGAGAGGACCATAA
Found at i:916501 original size:2 final size:2
Alignment explanation
Indices: 916496--916531 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
916486 AGTTTTGAAA
916496 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
916532 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:916623 original size:47 final size:47
Alignment explanation
Indices: 916470--916657 Score: 211
Period size: 47 Copynumber: 4.2 Consensus size: 47
916460 ATATTAAACG
* * *
916470 TATATA-ATAT-ATATATAG-TTTTGAAAATA-TAT--ATATATATA
1 TATATATATATAATATATAGTTTTTGAAAACATTATGAAAACATATA
* * *
916511 TATATATATATATATATATATTTTTTAAAAACATTTTGAAAAC----A
1 TATATATATATA-ATATATAGTTTTTGAAAACATTATGAAAACATATA
916555 TATATATATATAATATATAGTTTTTGAAAACATTATGAAAACATATA
1 TATATATATATAATATATAGTTTTTGAAAACATTATGAAAACATATA
*
916602 TATATATATATAATATATAGTTTTTGTAAACAATT-TGAAAACATATA
1 TATATATATATAATATATAGTTTTTGAAAAC-ATTATGAAAACATATA
916649 TA-ATATATA
1 TATATATATA
916658 ATGTTTTGTA
Statistics
Matches: 125, Mismatches: 10, Indels: 19
0.81 0.06 0.12
Matches are distributed among these distances:
41 6 0.05
42 4 0.03
43 27 0.22
44 20 0.16
45 9 0.07
46 9 0.07
47 45 0.36
48 5 0.04
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (47 bp):
TATATATATATAATATATAGTTTTTGAAAACATTATGAAAACATATA
Found at i:916650 original size:37 final size:37
Alignment explanation
Indices: 916607--916701 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 37
916597 ATATATATAT
916607 ATATATAATATATAGTTTTTGTAAACAATTTGAAAAC
1 ATATATAATATATAGTTTTTGTAAACAATTTGAAAAC
* * ** *
916644 ATATATAATATATAATGTTTTGTAAACATTTTTTAAAT
1 ATATATAATATATAGT-TTTTGTAAACAATTTGAAAAC
916682 ATATATAATATATAAGTTTT
1 ATATATAATATAT-AGTTTT
916702 GAAAACGTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
37 15 0.30
38 33 0.66
39 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (37 bp):
ATATATAATATATAGTTTTTGTAAACAATTTGAAAAC
Found at i:916686 original size:38 final size:38
Alignment explanation
Indices: 916605--916718 Score: 142
Period size: 37 Copynumber: 3.1 Consensus size: 38
916595 ACATATATAT
* * *
916605 ATATATATAATATATAGT-TTTTGTAAACAATTTGAAA
1 ATATATATAATATATAATGTTTTGTAAACATTTTTAAA
* *
916642 ACATATATAATATATAATGTTTTGTAAACATTTTTTAA
1 ATATATATAATATATAATGTTTTGTAAACATTTTTAAA
* * *
916680 ATATATATAATATATAA-GTTTTGAAAACGTTTTTGAA
1 ATATATATAATATATAATGTTTTGTAAACATTTTTAAA
916717 AT
1 AT
916719 TTTGAAAACG
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
37 35 0.52
38 32 0.48
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.45
Consensus pattern (38 bp):
ATATATATAATATATAATGTTTTGTAAACATTTTTAAA
Found at i:916723 original size:20 final size:20
Alignment explanation
Indices: 916698--916737 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
916688 AATATATAAG
*
916698 TTTTGAAAACGTTTTTGAAA
1 TTTTGAAAACGTTTTAGAAA
916718 TTTTGAAAACGTTTTAGAAA
1 TTTTGAAAACGTTTTAGAAA
916738 ATATAATATA
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:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (20 bp):
TTTTGAAAACGTTTTAGAAA
Found at i:916750 original size:2 final size:2
Alignment explanation
Indices: 916738--916776 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
916728 GTTTTAGAAA
916738 AT AT A- 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
916777 TTAAAAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:917934 original size:8 final size:7
Alignment explanation
Indices: 917900--917938 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
917890 TCCTTTAATA
917900 TTATTTT
1 TTATTTT
*
917907 TTATTTC
1 TTATTTT
917914 TTACTTTT
1 TTA-TTTT
917922 TTATTTAT
1 TTATTT-T
917930 TTATTTT
1 TTATTTT
917937 TT
1 TT
917939 GGAATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (7 bp):
TTATTTT
Found at i:917936 original size:15 final size:14
Alignment explanation
Indices: 917900--917938 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
917890 TCCTTTAATA
917900 TTATTTTTTATTTC
1 TTATTTTTTATTTC
*
917914 TTACTTTTTTATTTAT
1 TTA-TTTTTTATTT-C
917930 TTATTTTTT
1 TTATTTTTT
917939 GGAATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTTTTTATTTC
Found at i:918108 original size:2 final size:2
Alignment explanation
Indices: 918101--918125 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
918091 TAAACTTTAT
918101 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
918126 TAAAAATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:922264 original size:99 final size:99
Alignment explanation
Indices: 922150--922351 Score: 284
Period size: 99 Copynumber: 2.0 Consensus size: 99
922140 TTATAATATT
* * * *
922150 ATATGTATACAATAAAGCTTGAGTTATCCCTCTAGA-ACAATTGGTTAAACG-ACCATGCTTTAT
1 ATATATATACAATAAAACTTGAGCTATCCCTCTAGAGA-AATTGGTTAAACGCACC-GGCTTTAT
* * *
922213 GGATA-AGATTCAGCTGGCCTGATAAAGGTGATTATA
64 AGATATA-ATTCAGCTAGCCTGATAAAAGTGATTATA
*
922249 ATATATATACAATAAAACTTGAGCTGTCCCTCTAGAGAAATTGGTTAAACGCACCGGCTTTATAG
1 ATATATATACAATAAAACTTGAGCTATCCCTCTAGAGAAATTGGTTAAACGCACCGGCTTTATAG
922314 ATATAATTCAGCTAGCCTGATAAAAGTGATTATA
66 ATATAATTCAGCTAGCCTGATAAAAGTGATTATA
922348 ATAT
1 ATAT
922352 TTAGCTATCC
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
99 87 0.95
100 5 0.05
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (99 bp):
ATATATATACAATAAAACTTGAGCTATCCCTCTAGAGAAATTGGTTAAACGCACCGGCTTTATAG
ATATAATTCAGCTAGCCTGATAAAAGTGATTATA
Found at i:922416 original size:84 final size:84
Alignment explanation
Indices: 922270--922435 Score: 226
Period size: 84 Copynumber: 2.0 Consensus size: 84
922260 ATAAAACTTG
* *
922270 AGCTGTCCCTCTAGAGAAATTGGTTAAACGCACCGGCTTTATAGATATAATTCAGCTAGCCTGAT
1 AGCTATCCCTCTAGAGAAATTGGTTAAACGCACCAGCTTTATAGATATAATTCAGCTAGCCTGAT
922335 AAAAGTGATTATAATATTT
66 AAAAGTGATTATAATATTT
* * * * * *
922354 AGCTATCCCTCTAGAGCAATTGGTTAAATGCCCCAGCTTTATGGATA-AGATTCAGTTGGCCTGA
1 AGCTATCCCTCTAGAGAAATTGGTTAAACGCACCAGCTTTATAGATATA-ATTCAGCTAGCCTGA
* *
922418 TAAAGGTTATTATAATAT
65 TAAAAGTGATTATAATAT
922436 ATATACAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 1 0.01
84 70 0.99
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (84 bp):
AGCTATCCCTCTAGAGAAATTGGTTAAACGCACCAGCTTTATAGATATAATTCAGCTAGCCTGAT
AAAAGTGATTATAATATTT
Found at i:924073 original size:85 final size:85
Alignment explanation
Indices: 923938--924417 Score: 660
Period size: 85 Copynumber: 5.7 Consensus size: 85
923928 ATTACAGCTT
* * *
923938 AAGGCGAGAAGGGCTATCTGTCAACAAACACCTTCGAGTTTGATTCCATTCAGCTCAAGGCCATA
1 AAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATA
*
924003 TCAAATTTACAGCATAGCTC
66 TCAAATTTACAGCATAACTC
* *
924023 AAGGCGAGAAGGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTTCATTCAGCTCAAGGG--TA
1 AAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATA
* **
924086 GCCAAATTTACAGCATAGTTC
66 -TCAAATTTACAGCATAACTC
* * * * * * *
924107 AAGGCG-GAAGGGCTATCTGTCAACAAAAAACTTTGAGTTCAATTACATTCAACTTAAGGGCGTA
1 AAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATA
* *
924171 TCAAATTTATAGTATAACTC
66 TCAAATTTACAGCATAACTC
* *
924191 AAGGCGAGAAGGGTTATCTGTCAACAAAAACATTCGAGTTCGATTCCATTCAGCTCAAGGGCATA
1 AAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATA
*
924256 TCAAATTTACAGTATAACTC
66 TCAAATTTACAGCATAACTC
* * * *
924276 AAGGCGAGAAGGGTTATCTGTCAACAAAAACTTTTGAGTTCGATTCCATTCAGCTCAAGGGAATA
1 AAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATA
*
924341 TCAAATTTACAACATAACTC
66 TCAAATTTACAGCATAACTC
* **
924361 AAGGCGAGAAGGGCTATCAGTCAACAAAAAACAGTCGAGTTCGATTCCATTCAGCTC
1 AAGGCGAGAAGGGCTATCTGTCAAC-AAAAACCTTCGAGTTCGATTCCATTCAGCTC
924418 GATGACATAT
Statistics
Matches: 351, Mismatches: 39, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
83 49 0.14
84 45 0.13
85 229 0.65
86 28 0.08
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (85 bp):
AAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATA
TCAAATTTACAGCATAACTC
Found at i:924229 original size:168 final size:169
Alignment explanation
Indices: 923938--924417 Score: 678
Period size: 168 Copynumber: 2.8 Consensus size: 169
923928 ATTACAGCTT
* * * * *
923938 AAGGCGAGAAGGGCTATCTGTCAACAAACACCTTCGAGTTTGATTCCATTCAGCTCAAGGCCATA
1 AAGGCGAGAAGGGCTATCTGTCAACAAAAAACTTTGAGTTCGATTCCATTCAGCTCAAGGGCATA
* *
924003 TCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACCTTCGAGTTCGATT
66 TCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACATTCGAGTTCGATT
* **
924068 TCATTCAGCTCAAGGG-TAGCCAAATTTACAGCATAGTTC
131 CCATTCAGCTCAAGGGATA-CCAAATTTACAGCATAACTC
* * * * *
924107 AAGGCG-GAAGGGCTATCTGTCAACAAAAAACTTTGAGTTCAATTACATTCAACTTAAGGGCGTA
1 AAGGCGAGAAGGGCTATCTGTCAACAAAAAACTTTGAGTTCGATTCCATTCAGCTCAAGGGCATA
* *
924171 TCAAATTTATAGTATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACATTCGAGTTCGATT
66 TCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACATTCGAGTTCGATT
* *
924236 CCATTCAGCTCAAGGGCATATCAAATTTACAGTATAACTC
131 CCATTCAGCTCAAGGG-ATACCAAATTTACAGCATAACTC
* *
924276 AAGGCGAGAAGGGTTATCTGTCAAC-AAAAACTTTTGAGTTCGATTCCATTCAGCTCAAGGGAAT
1 AAGGCGAGAAGGGCTATCTGTCAACAAAAAAC-TTTGAGTTCGATTCCATTCAGCTCAAGGGCAT
* * * *
924340 ATCAAATTTACAACATAACTCAAGGCGAGAAGGGCTATCAGTCAACAAAAAACAGTCGAGTTCGA
65 ATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAAACATTCGAGTTCGA
924405 TTCCATTCAGCTC
129 TTCCATTCAGCTC
924418 GATGACATAT
Statistics
Matches: 274, Mismatches: 32, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
168 124 0.45
169 34 0.12
170 86 0.31
171 30 0.11
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (169 bp):
AAGGCGAGAAGGGCTATCTGTCAACAAAAAACTTTGAGTTCGATTCCATTCAGCTCAAGGGCATA
TCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACATTCGAGTTCGATT
CCATTCAGCTCAAGGGATACCAAATTTACAGCATAACTC
Found at i:925089 original size:13 final size:12
Alignment explanation
Indices: 925071--925131 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 12
925061 TATTATATAG
925071 TTTTGAAAATGAT
1 TTTTGAAAAT-AT
925084 TTTTGAAAATAT
1 TTTTGAAAATAT
* *
925096 ATATT--ATATAGT
1 -TTTTGAAAATA-T
925108 TTTTGAAAATGAT
1 TTTTGAAAAT-AT
925121 TTTTGAAAATA
1 TTTTGAAAATA
925132 CATATATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
11 7 0.18
12 4 0.10
13 27 0.69
14 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (12 bp):
TTTTGAAAATAT
Found at i:925121 original size:37 final size:37
Alignment explanation
Indices: 925049--925409 Score: 262
Period size: 37 Copynumber: 10.2 Consensus size: 37
925039 AAAAAATCTG
*
925049 TTTTTGAAAC-TATAT--TATATAG-TTTTGAAAATGA
1 TTTTTGAAACATATATAATATATAGTTTTTGAAAA-CA
* *
925083 TTTTTGAAA-ATATATATTATATAGTTTTTGAAAATGA
1 TTTTTGAAACATATATAATATATAGTTTTTGAAAA-CA
* * *
925120 TTTTTGAAA-ATACATATATTATATAGTTTTTGAAGATA
1 TTTTTGAAACAT--ATATAATATATAGTTTTTGAAAACA
* *
925158 TTTTT-AAACGTATATAATATGTAG-TTTTGAAAACA
1 TTTTTGAAACATATATAATATATAGTTTTTGAAAACA
*
925193 ----T-----ATATATAATATATAGTTTCTGAAAACA
1 TTTTTGAAACATATATAATATATAGTTTTTGAAAACA
925221 -TTTTGAAAACATATATAATATATAG-TTTTGAAAACA
1 TTTTTG-AAACATATATAATATATAGTTTTTGAAAACA
925257 -TTTTGAAAACATATATATAATATATATAGTTTTTGAAAACA
1 TTTTTG-AAAC--ATATAT-A-ATATATAGTTTTTGAAAACA
*
925298 ----T-----ATATATAATATATAGTTCTTGAAAACA
1 TTTTTGAAACATATATAATATATAGTTTTTGAAAACA
* *
925326 -TTTTAAAACATATATAATATATAGTGTTTTTGAAAATA
1 TTTTTGAAACATATATAATATATA--GTTTTTGAAAACA
* *
925364 TTTTTGAAATATATATAATATATAAG-TTTTGAAAACG
1 TTTTTGAAACATATATAATATAT-AGTTTTTGAAAACA
925401 TTTTTGAAA
1 TTTTTGAAA
925410 TTTTTAAAAC
Statistics
Matches: 275, Mismatches: 18, Indels: 65
0.77 0.05 0.18
Matches are distributed among these distances:
27 13 0.05
28 29 0.11
29 1 0.00
30 6 0.02
31 3 0.01
34 14 0.05
35 9 0.03
36 52 0.19
37 59 0.21
38 26 0.09
39 43 0.16
40 9 0.03
41 11 0.04
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (37 bp):
TTTTTGAAACATATATAATATATAGTTTTTGAAAACA
Found at i:925204 original size:27 final size:28
Alignment explanation
Indices: 925168--925221 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
925158 TTTTTAAACG
*
925168 TATATAATATGTAGTTT-TGAAAACATA
1 TATATAATATATAGTTTCTGAAAACATA
925195 TATATAATATATAGTTTCTGAAAACAT
1 TATATAATATATAGTTTCTGAAAACAT
925222 TTTGAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (28 bp):
TATATAATATATAGTTTCTGAAAACATA
Found at i:925229 original size:11 final size:11
Alignment explanation
Indices: 925213--925268 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 11
925203 ATATAGTTTC
925213 TGAAAACATTT
1 TGAAAACATTT
*
925224 TGAAAACATATA
1 TGAAAACAT-TT
*
925236 T-AATATATAGTTT
1 TGAA-A-ACA-TTT
925249 TGAAAACATTT
1 TGAAAACATTT
925260 TGAAAACAT
1 TGAAAACAT
925269 ATATATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
11 23 0.64
12 5 0.14
13 5 0.14
14 3 0.08
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (11 bp):
TGAAAACATTT
Found at i:925252 original size:64 final size:63
Alignment explanation
Indices: 925121--925257 Score: 179
Period size: 64 Copynumber: 2.2 Consensus size: 63
925111 TGAAAATGAT
* * * * * * *
925121 TTTTG-AAA-ATACATATATTATATAGTTTTTGAAGATATTTTTAAACGTATATAATATGTAG
1 TTTTGAAAACATACATATAATATATAGTTTCTGAAAACATTTTAAAACATATATAATATATAG
*
925182 TTTTGAAAACATATATATAATATATAGTTTCTGAAAACATTTTGAAAACATATATAATATATAG
1 TTTTGAAAACATACATATAATATATAGTTTCTGAAAACATTTT-AAAACATATATAATATATAG
925246 TTTTGAAAACAT
1 TTTTGAAAACAT
925258 TTTGAAAACA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
61 5 0.08
62 3 0.05
63 28 0.43
64 29 0.45
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.42
Consensus pattern (63 bp):
TTTTGAAAACATACATATAATATATAGTTTCTGAAAACATTTTAAAACATATATAATATATAG
Found at i:925264 original size:75 final size:73
Alignment explanation
Indices: 925182--925409 Score: 260
Period size: 75 Copynumber: 3.1 Consensus size: 73
925172 TAATATGTAG
*
925182 TTTTGAAAACATATATATAATATATAGTTTCTGAAAACATTTTGAAAACATATATAATATATAGT
1 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACATTTTG-AAA-ATATATAATATATAGT
925247 TTTGAAAACA
64 TTTGAAAACA
925257 TTTTGAAAACATATATATAATATATATAGTTTTTGAAAACA---T----ATATATAATATATAGT
1 TTTTGAAAACATATATAT-A-ATATATAGTTTTTGAAAACATTTTGAAAATATATAATATATAGT
925315 TCTTGAAAACA
64 T-TTGAAAACA
*
925326 TTTT-AAAAC--ATATATAATATATAGTGTTTTTGAAAATATTTTTGAAATATATATAATATATA
1 TTTTGAAAACATATATATAATATATA--GTTTTTGAAAACA-TTTTGAAA-ATATATAATATAT-
*
925388 AGTTTTGAAAACGT
61 AGTTTTGAAAAC-A
925402 TTTTGAAA
1 TTTTGAAA
925410 TTTTTAAAAC
Statistics
Matches: 133, Mismatches: 3, Indels: 32
0.79 0.02 0.19
Matches are distributed among these distances:
64 7 0.05
65 1 0.01
66 18 0.14
68 22 0.17
69 13 0.10
70 1 0.01
74 1 0.01
75 39 0.29
76 9 0.07
77 22 0.17
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (73 bp):
TTTTGAAAACATATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATAATATATAGTTT
TGAAAACA
Found at i:925271 original size:64 final size:63
Alignment explanation
Indices: 925140--925339 Score: 181
Period size: 64 Copynumber: 3.1 Consensus size: 63
925130 TACATATATT
* * * * * * * * *
925140 ATATAGTTTTTGAAGATATTTT-TAAACGTATATAATATGTAGTTTTGAAAACATATATATAAT
1 ATATAGTTTATGAAAACATTTTGAAAACATATATAATATATAGTTTTGAAAACAT-TTTAAAAC
*
925203 ATATAGTTTCTGAAAACATTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTGAAAAC
1 ATATAGTTTATGAAAACATTTTGAAAACATATATAATATATAGTTTTGAAAACATTTT-AAAAC
* **
925267 ATATA-TATAATAT-ATATAGTTTTTGAAAACATATATATAATATATAGTTCTTGAAAACATTTT
1 ATATAGT-T--TATGA-AAACATTTTGAAAAC--ATATATAATATATAGTT-TTGAAAACATTTT
925330 AAAAC
59 AAAAC
925335 ATATA
1 ATATA
925340 TAATATATAG
Statistics
Matches: 115, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
63 22 0.19
64 38 0.33
65 1 0.01
66 14 0.12
68 27 0.23
69 13 0.11
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (63 bp):
ATATAGTTTATGAAAACATTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTAAAAC
Found at i:925309 original size:28 final size:30
Alignment explanation
Indices: 925257--925326 Score: 117
Period size: 28 Copynumber: 2.4 Consensus size: 30
925247 TTTGAAAACA
925257 TTTTGAAAACATATATATAATATATATAGT
1 TTTTGAAAACATATATATAATATATATAGT
925287 TTTTGAAAACATATATAT-A-ATATATAGT
1 TTTTGAAAACATATATATAATATATATAGT
*
925315 TCTTGAAAACAT
1 TTTTGAAAACAT
925327 TTTAAAACAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 20 0.51
29 1 0.03
30 18 0.46
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (30 bp):
TTTTGAAAACATATATATAATATATATAGT
Found at i:925378 original size:66 final size:67
Alignment explanation
Indices: 925221--925361 Score: 220
Period size: 66 Copynumber: 2.1 Consensus size: 67
925211 TCTGAAAACA
925221 TTTTGAAAAC--ATATATAATATATAGTTTTGAAAACATTTTGAAAACATATATATAATATATAT
1 TTTTGAAAACATATATATAATATATAGTTTTGAAAACATTTTGAAAACA-ATATATAATATATAT
925284 AGT
65 AGT
925287 TTTTGAAAACATATATATAATATATAGTTCTTGAAAACATTTT-AAAAC-ATATATAATATATAG
1 TTTTGAAAACATATATATAATATATAGTT-TTGAAAACATTTTGAAAACAATATATAATATATA-
925350 T-GT
64 TAGT
925353 TTTTGAAAA
1 TTTTGAAAA
925362 TATTTTTGAA
Statistics
Matches: 71, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
66 35 0.49
67 1 0.01
68 22 0.31
69 13 0.18
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (67 bp):
TTTTGAAAACATATATATAATATATAGTTTTGAAAACATTTTGAAAACAATATATAATATATATA
GT
Found at i:925418 original size:20 final size:20
Alignment explanation
Indices: 925390--925429 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
925380 AATATATAAG
*
925390 TTTTGAAAACGTTTTTGAAA
1 TTTTGAAAACGTTTTAGAAA
*
925410 TTTTTAAAACGTTTTAGAAA
1 TTTTGAAAACGTTTTAGAAA
925430 ATATATAATA
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:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTTGAAAACGTTTTAGAAA
Found at i:926676 original size:8 final size:7
Alignment explanation
Indices: 926642--926675 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
926632 TTTAATATTG
926642 TTTTTTA
1 TTTTTTA
*
926649 TTTCTTA
1 TTTTTTA
*
926656 CTTTTTA
1 TTTTTTA
926663 TTTTTTA
1 TTTTTTA
926670 TTTTTT
1 TTTTTT
926676 TGGAATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTA
Found at i:926724 original size:16 final size:15
Alignment explanation
Indices: 926705--926754 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 15
926695 TTTTTAAATG
926705 TTTTCTTTTGTTTTCT
1 TTTTCTTTT-TTTTCT
*
926721 TTTTCTTTTATTTTAT
1 TTTTCTTTT-TTTTCT
926737 TTTATCTTTTTTTTCT
1 TTT-TCTTTTTTTTCT
926753 TT
1 TT
926755 GAAATTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 24 0.80
17 6 0.20
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTTTTCT
Found at i:926800 original size:16 final size:18
Alignment explanation
Indices: 926767--926803 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
926757 AATTTAACAT
*
926767 TTTTTTACTCTTTTTTTA
1 TTTTTTACTCTTTATTTA
926785 TTTTTTA-T-TTTATTTA
1 TTTTTTACTCTTTATTTA
926801 TTT
1 TTT
926804 CCTTGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 1 0.06
18 7 0.39
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTACTCTTTATTTA
Found at i:927539 original size:15 final size:14
Alignment explanation
Indices: 927519--927564 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
927509 GTTCAGTTTT
927519 TTTAAAAAATATATA
1 TTTAAAAAA-ATATA
*
927534 TTTAAAAAAATTATT
1 TTTAAAAAAA-TATA
927549 TTATAAAAAAATATA
1 TT-TAAAAAAATATA
927564 T
1 T
927565 AAATGTGACG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 18 0.67
16 8 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAAAAAAATATA
Found at i:927795 original size:31 final size:31
Alignment explanation
Indices: 927757--927829 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
927747 CTATGAAGGG
927757 CCACCCAACTAT-ATTTACAAAATATAGAAGA
1 CCACCCAACTATCA-TTACAAAATATAGAAGA
* * *
927788 CCACCCAACTATCATTACGAGATATAGAGGA
1 CCACCCAACTATCATTACAAAATATAGAAGA
927819 CCACCCAACTA
1 CCACCCAACTA
927830 CACTATCCAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (31 bp):
CCACCCAACTATCATTACAAAATATAGAAGA
Found at i:929333 original size:49 final size:49
Alignment explanation
Indices: 929261--929363 Score: 197
Period size: 49 Copynumber: 2.1 Consensus size: 49
929251 ACTCCCCATA
*
929261 AGAGTATCGATACTACTTCTATTCTTTTTCTTCCTTATAAGATAGCAGT
1 AGAGTATCGATACTACTTCTATTCTTTTTCTTCCTTACAAGATAGCAGT
929310 AGAGTATCGATACTACTTCTATTCTTTTTCTTCCTTACAAGATAGCAGT
1 AGAGTATCGATACTACTTCTATTCTTTTTCTTCCTTACAAGATAGCAGT
929359 AGAGT
1 AGAGT
929364 CAACCGAAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (49 bp):
AGAGTATCGATACTACTTCTATTCTTTTTCTTCCTTACAAGATAGCAGT
Found at i:937047 original size:2 final size:2
Alignment explanation
Indices: 937040--937068 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
937030 GACGAAGAAA
937040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
937069 AACATCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:939477 original size:13 final size:14
Alignment explanation
Indices: 939466--939494 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
939456 ATAACAAACG
939466 AAAATTGAAAACTA
1 AAAATTGAAAACTA
939480 AAAATTGAAAA-TA
1 AAAATTGAAAACTA
939493 AA
1 AA
939495 TTAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAATTGAAAACTA
Found at i:940708 original size:23 final size:23
Alignment explanation
Indices: 940657--940708 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
940647 CAATCTGTTT
940657 ATTGGACCTTCTAGAAGTTACTA
1 ATTGGACCTTCTAGAAGTTACTA
* * * *
940680 ACTGGACCTTGTAGAAGTTGCTG
1 ATTGGACCTTCTAGAAGTTACTA
940703 ATTGGA
1 ATTGGA
940709 TGCCACATCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (23 bp):
ATTGGACCTTCTAGAAGTTACTA
Found at i:941963 original size:31 final size:32
Alignment explanation
Indices: 941927--942037 Score: 102
Period size: 35 Copynumber: 3.4 Consensus size: 32
941917 TTAGGTCTAT
*
941927 AAGGAATTACCAGTCAATGTTGAACCTA-TAA
1 AAGGAATTACCAGTCAATGCTGAACCTACTAA
941958 AAGGAATTACCAG-CAGA-GACTGAACCTACTAGA
1 AAGGAATTACCAGTCA-ATG-CTGAACCTACTA-A
* * * *
941991 GATAAGAATTACCAGTCGATGCTGAACCTATTAC
1 -A-AGGAATTACCAGTCAATGCTGAACCTACTAA
*
942025 AAGGAATGACCAG
1 AAGGAATTACCAG
942038 CAGCGACTGA
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
30 3 0.05
31 22 0.34
32 12 0.18
33 2 0.03
34 1 0.02
35 23 0.35
36 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.21
Consensus pattern (32 bp):
AAGGAATTACCAGTCAATGCTGAACCTACTAA
Found at i:942003 original size:35 final size:35
Alignment explanation
Indices: 941961--942072 Score: 92
Period size: 35 Copynumber: 3.3 Consensus size: 35
941951 CCTATAAAAG
941961 GAATTACCAGCAGAGACTGAACCTACTAGAGATAA
1 GAATTACCAGCAGAGACTGAACCTACTAGAGATAA
* * *
941996 GAATTACCAGTC-GATG-CTGAACCTA-T-TACA-AG
1 GAATTACCAG-CAGA-GACTGAACCTACTAGAGATAA
* * * *
942028 GAATGACCAGCAGCGACTGAACCTGCCAGAGAT-A
1 GAATTACCAGCAGAGACTGAACCTACTAGAGATAA
942062 GAAATTACCAG
1 G-AATTACCAG
942073 TCGATGTTGA
Statistics
Matches: 58, Mismatches: 11, Indels: 16
0.68 0.13 0.19
Matches are distributed among these distances:
31 2 0.03
32 19 0.33
33 2 0.03
34 4 0.07
35 29 0.50
36 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.18
Consensus pattern (35 bp):
GAATTACCAGCAGAGACTGAACCTACTAGAGATAA
Found at i:942046 original size:67 final size:66
Alignment explanation
Indices: 941925--942087 Score: 229
Period size: 67 Copynumber: 2.4 Consensus size: 66
941915 CCTTAGGTCT
* * *
941925 ATAAGGAATTACCAGTCAATGTTGAACCTATAAAAGGAATTACCAGCAGAGACTGAACCTACTAG
1 ATAA-GAATTACCAGTCGATGTTGAACCTATAAAAGGAATGACCAGCAGAGACTGAACCTACCAG
941990 AG
65 AG
* * * *
941992 ATAAGAATTACCAGTCGATGCTGAACCTATTACAAGGAATGACCAGCAGCGACTGAACCTGCCAG
1 ATAAGAATTACCAGTCGATGTTGAACCTA-TAAAAGGAATGACCAGCAGAGACTGAACCTACCAG
942057 AG
65 AG
942059 AT-AGAAATTACCAGTCGATGTTGAACCTA
1 ATAAG-AATTACCAGTCGATGTTGAACCTA
942088 ATCAATGAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
66 25 0.29
67 61 0.71
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (66 bp):
ATAAGAATTACCAGTCGATGTTGAACCTATAAAAGGAATGACCAGCAGAGACTGAACCTACCAGA
G
Found at i:949212 original size:34 final size:31
Alignment explanation
Indices: 949153--949240 Score: 86
Period size: 34 Copynumber: 2.7 Consensus size: 31
949143 CAAAAAATTG
*
949153 TTTTCAAAACTATAATATATGTTTAAATCGTA
1 TTTTCAAAACTATAATATATGTTTAAACCG-A
* *
949185 TTTTCAAAACCATATAATATGTTTTTAAACCGA
1 TTTTCAAAA-C-TATAATATATGTTTAAACCGA
* *
949218 TTTTTAAAAATATATATTATATG
1 TTTTCAAAACTATA-A-TATATG
949241 CTTAGAAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
31 4 0.09
32 10 0.22
33 14 0.31
34 17 0.38
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (31 bp):
TTTTCAAAACTATAATATATGTTTAAACCGA
Found at i:949233 original size:33 final size:34
Alignment explanation
Indices: 949153--949240 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 34
949143 CAAAAAATTG
*
949153 TTTTC-AAAAC-TATAATATATGTTTAAATCGTA
1 TTTTCAAAAACATATAATATATGTTTAAACCGTA
* * *
949185 TTTTCAAAACCATATAATATGTTTTTAAACCG-A
1 TTTTCAAAAACATATAATATATGTTTAAACCGTA
* * *
949218 TTTTTAAAAATATATATTATATG
1 TTTTCAAAAACATATAATATATG
949241 CTTAGAAAAC
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
32 5 0.11
33 22 0.50
34 17 0.39
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (34 bp):
TTTTCAAAAACATATAATATATGTTTAAACCGTA
Found at i:954372 original size:23 final size:23
Alignment explanation
Indices: 954338--954394 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
954328 TTTATAAATA
954338 CAAAAGTAAAATTTTACAATATT
1 CAAAAGTAAAATTTTACAATATT
* *
954361 CAAGAGTAAAATTTTGCAATATT
1 CAAAAGTAAAATTTTACAATATT
954384 CAAAAGTAAAA
1 CAAAAGTAAAA
954395 CAAATTACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.30
Consensus pattern (23 bp):
CAAAAGTAAAATTTTACAATATT
Found at i:956472 original size:16 final size:17
Alignment explanation
Indices: 956441--956483 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
956431 TCTTAGAAAT
*
956441 ACTTTAGGTTATTTTAC
1 ACTTTAGGTCATTTTAC
956458 ACTTTA-GTCATTTTAC
1 ACTTTAGGTCATTTTAC
956474 ACTTTGAGGT
1 ACTTT-AGGT
956484 ATATCTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 14 0.61
17 7 0.30
18 2 0.09
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (17 bp):
ACTTTAGGTCATTTTAC
Found at i:957443 original size:22 final size:21
Alignment explanation
Indices: 957377--957459 Score: 107
Period size: 20 Copynumber: 4.0 Consensus size: 21
957367 ACCGTTAAAC
*
957377 AGGGGGGAATCGGTACCCCCT
1 AGGGGGGAATCTGTACCCCCT
* *
957398 -GGGGGTAATCTGT-TCCCCT
1 AGGGGGGAATCTGTACCCCCT
957417 AGGGGGGAATCTGTACCCCCT
1 AGGGGGGAATCTGTACCCCCT
*
957438 AGGGGGAGAATCTATACCCCCT
1 AGGGGG-GAATCTGTACCCCCT
957460 GGGCAATCTG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
19 5 0.09
20 23 0.43
21 11 0.21
22 14 0.26
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (21 bp):
AGGGGGGAATCTGTACCCCCT
Found at i:960802 original size:22 final size:21
Alignment explanation
Indices: 960774--960878 Score: 115
Period size: 21 Copynumber: 5.0 Consensus size: 21
960764 CCGTTAGATA
960774 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
*
960795 GAGGGGAATCGATACCCCCTGG
1 G-GGGGAATCGGTACCCCCTGG
* *
960817 GGGGGAATCTGTTCCCCCT--
1 GGGGGAATCGGTACCCCCTGG
* * *
960836 AGGGGAATCTGTACCCCTTGG
1 GGGGGAATCGGTACCCCCTGG
* *
960857 GGGGGAATCGATACCCCATGG
1 GGGGGAATCGGTACCCCCTGG
960878 G
1 G
960879 CAATCTGATT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.23
21 34 0.49
22 20 0.29
ACGTcount: A:0.18, C:0.27, G:0.37, T:0.18
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGG
Found at i:960858 original size:18 final size:19
Alignment explanation
Indices: 960818--960858 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
960808 ACCCCCTGGG
*
960818 GGGGAATCTGTTCCCCCTA
1 GGGGAATCTGTTACCCCTA
*
960837 GGGGAATCTG-TACCCCTT
1 GGGGAATCTGTTACCCCTA
960855 GGGG
1 GGGG
960859 GGGAATCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.15, C:0.27, G:0.34, T:0.24
Consensus pattern (19 bp):
GGGGAATCTGTTACCCCTA
Found at i:960859 original size:19 final size:19
Alignment explanation
Indices: 960774--960859 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 19
960764 CCGTTAGATA
*
960774 GGGGGAATCGGTACCCCCT
1 GGGGGAATCTGTACCCCCT
960793 GGGAGGGGAATC-GATACCCCCT
1 --G-GGGGAATCTG-TACCCCCT
*
960815 GGGGGGGAATCTGTTCCCCCT
1 --GGGGGAATCTGTACCCCCT
* *
960836 AGGGGAATCTGTACCCCTT
1 GGGGGAATCTGTACCCCCT
960855 GGGGG
1 GGGGG
960860 GGAATCGATA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
19 20 0.35
21 17 0.30
22 20 0.35
ACGTcount: A:0.16, C:0.27, G:0.38, T:0.19
Consensus pattern (19 bp):
GGGGGAATCTGTACCCCCT
Found at i:962053 original size:22 final size:20
Alignment explanation
Indices: 962013--962053 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
962003 TTCAATAATT
*
962013 ACCTTAATCAATCCAAAACA
1 ACCTTAATCAAACCAAAACA
962033 ACCTTAATCATAAACCAAAAC
1 ACCTTAATC--AAACCAAAAC
962054 CAACAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (20 bp):
ACCTTAATCAAACCAAAACA
Found at i:972818 original size:20 final size:20
Alignment explanation
Indices: 972793--972840 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
972783 GTCAGAGTGT
*
972793 GGCGGCGGACGGCTGACGGC
1 GGCGGCGGACGGCGGACGGC
* *
972813 GGCGGCAGACGGCGGGCGGC
1 GGCGGCGGACGGCGGACGGC
*
972833 GGCAGCGG
1 GGCGGCGG
972841 CCAGCGGGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.10, C:0.29, G:0.58, T:0.02
Consensus pattern (20 bp):
GGCGGCGGACGGCGGACGGC
Found at i:972830 original size:17 final size:16
Alignment explanation
Indices: 972810--972841 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
972800 GACGGCTGAC
972810 GGCGGCGGCAGACGGCG
1 GGCGGCGGCAG-CGGCG
972827 GGCGGCGGCAGCGGC
1 GGCGGCGGCAGCGGC
972842 CAGCGGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.31, G:0.59, T:0.00
Consensus pattern (16 bp):
GGCGGCGGCAGCGGCG
Found at i:974490 original size:57 final size:57
Alignment explanation
Indices: 974399--974519 Score: 188
Period size: 57 Copynumber: 2.1 Consensus size: 57
974389 GGATAGCTCC
* ** *
974399 GATTCTGCAGGGGATTCCACTGATTAGGCCTTTCTCGTTGAGAATAACCCTGGTCCT
1 GATTCTGCAGAGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
* *
974456 GATTCTGCTGAGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCGTGGCCCT
1 GATTCTGCAGAGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
974513 GATTCTG
1 GATTCTG
974520 GCGGGTATTC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (57 bp):
GATTCTGCAGAGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
Found at i:974530 original size:57 final size:56
Alignment explanation
Indices: 974399--974537 Score: 181
Period size: 57 Copynumber: 2.4 Consensus size: 56
974389 GGATAGCTCC
** *
974399 GATTCTGCAGGGGATTCCACTGATTAGGCCTTTCTCGTTGAGAATAACCCTGGTCCT
1 GATTCTGCA-GGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
* *
974456 GATTCTGCTGAGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCGTGGCCCT
1 GATTCTGCAG-GGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
*
974513 GATTCTGGC-GGGTATTCCATTGATT
1 GATTCT-GCAGGG-ATTCCACTGATT
974538 GTTACCAGGA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
56 3 0.04
57 68 0.93
58 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (56 bp):
GATTCTGCAGGGATTCCACTGATTAGGAATTTCTCGTTGAGAATAACCCTGGCCCT
Found at i:975534 original size:21 final size:22
Alignment explanation
Indices: 975487--975540 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
975477 CTAACGTAAC
* **
975487 AATCCACAAATTCACTAAACTA
1 AATCCACAAATCCACTAAAAAA
975509 AATCCACAAATCCAC-AAAAAA
1 AATCCACAAATCCACTAAAAAA
975530 AATCCACAAAT
1 AATCCACAAAT
975541 TCACCAAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.17
Consensus pattern (22 bp):
AATCCACAAATCCACTAAAAAA
Found at i:975577 original size:43 final size:42
Alignment explanation
Indices: 975440--975583 Score: 112
Period size: 43 Copynumber: 3.4 Consensus size: 42
975430 AATTCTTTAT
* ** * *
975440 TAACAATCCACAAATACAATAAACTGGAATATTAAAACTAACG
1 TAACAATCCACAAATTCACCAAACT-AAATATTAAAACTAAAG
* * * *
975483 TAACAATCCACAAATTCACTAAACTAAATCCA-CAAATCCACAA-
1 TAACAATCCACAAATTCACCAAACTAAAT--ATTAAAACTA-AAG
* * *
975526 AAAAAATCCACAAATTCACCAAGCTAACATATTAAAACTAAAG
1 TAACAATCCACAAATTCACCAAACTAA-ATATTAAAACTAAAG
*
975569 TAACAATCCATAAAT
1 TAACAATCCACAAAT
975584 ACATTAAACT
Statistics
Matches: 78, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
42 6 0.08
43 68 0.87
44 4 0.05
ACGTcount: A:0.53, C:0.23, G:0.03, T:0.20
Consensus pattern (42 bp):
TAACAATCCACAAATTCACCAAACTAAATATTAAAACTAAAG
Found at i:979875 original size:23 final size:23
Alignment explanation
Indices: 979849--979917 Score: 120
Period size: 23 Copynumber: 3.0 Consensus size: 23
979839 AGCTCCACTG
*
979849 AATTACAGCTGCCTTAATTTGAC
1 AATTGCAGCTGCCTTAATTTGAC
*
979872 AATTGCAACTGCCTTAATTTGAC
1 AATTGCAGCTGCCTTAATTTGAC
979895 AATTGCAGCTGCCTTAATTTGAC
1 AATTGCAGCTGCCTTAATTTGAC
979918 TCTTAACAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (23 bp):
AATTGCAGCTGCCTTAATTTGAC
Found at i:988780 original size:15 final size:16
Alignment explanation
Indices: 988754--988783 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
988744 ATAACAATTA
988754 TATCACTTTCATTTCT
1 TATCACTTTCATTTCT
988770 TATCA-TTTCATTTC
1 TATCACTTTCATTTC
988784 CTTCATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (16 bp):
TATCACTTTCATTTCT
Found at i:992422 original size:31 final size:31
Alignment explanation
Indices: 992387--992462 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
992377 ATAATTTTTA
992387 ATAGTCGAATGACTTAATAAAACAATATTCT
1 ATAGTCGAATGACTTAATAAAACAATATTCT
*
992418 ATAGTCGAATGACTTAATAAAACAATATTTT
1 ATAGTCGAATGACTTAATAAAACAATATTCT
*
992449 ATAGTCGATTGACT
1 ATAGTCGAATGACT
992463 ATTTGTATAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (31 bp):
ATAGTCGAATGACTTAATAAAACAATATTCT
Found at i:1000899 original size:20 final size:21
Alignment explanation
Indices: 1000876--1000949 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 21
1000866 TGACATAAAT
1000876 TAAAATATAAATT-AAATGAC
1 TAAAATATAAATTAAAATGAC
* *
1000896 TAAAATA-AAATATATCAAAAGAT
1 TAAAATATAAAT-TA--AAATGAC
*
1000919 TAAAGATA-GAATTAAAATGAC
1 TAAA-ATATAAATTAAAATGAC
1000940 TAAAATATAA
1 TAAAATATAA
1000950 TAAAGTAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
19 4 0.10
20 11 0.26
21 10 0.24
23 11 0.26
24 6 0.14
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (21 bp):
TAAAATATAAATTAAAATGAC
Found at i:1000899 original size:25 final size:26
Alignment explanation
Indices: 1000848--1000909 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
1000838 AACTGAAATT
*
1000848 AAAT-AAATAAAAAGTAAATGACATA
1 AAATAAAATATAAAGTAAATGACATA
* *
1000873 AATTAAAATATAAATTAAATGAC-TA
1 AAATAAAATATAAAGTAAATGACATA
1000898 AAATAAAATATA
1 AAATAAAATATA
1000910 TCAAAAGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 16 0.50
26 16 0.50
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (26 bp):
AAATAAAATATAAAGTAAATGACATA
Found at i:1002342 original size:123 final size:123
Alignment explanation
Indices: 1002190--1002472 Score: 496
Period size: 123 Copynumber: 2.3 Consensus size: 123
1002180 GAATTAAGCT
*
1002190 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCT-TCTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCT-TCAGATGAGTTCTTCTCATTA
*
1002254 TGAACTCCTTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
65 TGAACTCCTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
* * *
1002313 AAGGTTGAACAAGTTTTTCTCATTATGAACTTCTTTTTCCTCTTCAGATGAGTTTTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
*
1002378 GAACTCCTTCTGGAAATGTTGATGCTGATCTATTTCCTTCTGTGATAGAGTCGAGCAA
66 GAACTCCTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
1002436 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
1002473 GAAAAATGTT
Statistics
Matches: 151, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
123 150 0.99
124 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (123 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCCTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
Found at i:1002717 original size:73 final size:73
Alignment explanation
Indices: 1002621--1003310 Score: 1201
Period size: 73 Copynumber: 9.5 Consensus size: 73
1002611 CTGGAAATGT
*
1002621 TTTTAA-AAAAACAATCTCAAGTGAGATAAATTGCTACTTCGAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
*
1002685 AAAGTTTA
66 AAAGTTTG
*
1002693 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAACGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1002758 ACAA-TTTG
66 A-AAGTTTG
* *
1002766 TTTTAAGAAAAACAATCTCAAATGAGATAAATTGCTATTTTGAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1002831 AAAGTTTG
66 AAAGTTTG
*
1002839 TTTTAAGAAAAACAATCTCAAGTGAGA-ATAATTGTTATTTCGAGTGAAACTTTCTCAAGCGAGA
1 TTTTAAGAAAAACAATCTCAAGTGAGATA-AATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGA
1002903 AACAA-TTTG
65 AA-AAGTTTG
*
1002912 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1002977 AAAGTTTG
66 AAAGTTTG
* *
1002985 TTTTGAGAAAAACAATCTCAAGTGAGATAAATAGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1003050 AAAGTTTG
66 AAAGTTTG
1003058 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1003123 AAAGTTTG
66 AAAGTTTG
*
1003131 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1003196 ACAA-TTTG
66 A-AAGTTTG
1003204 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1003269 AAAGTTTG
66 AAAGTTTG
* *
1003277 TTTTGAGAAAAACAATCTCAAGTGAGAAAAATTG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
1003311 TTTGAAAACA
Statistics
Matches: 591, Mismatches: 18, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
72 13 0.02
73 571 0.97
74 7 0.01
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (73 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
AAAGTTTG
Found at i:1004724 original size:75 final size:75
Alignment explanation
Indices: 1004633--1004809 Score: 255
Period size: 75 Copynumber: 2.4 Consensus size: 75
1004623 ATAAGATGAT
* * *
1004633 ATGGGCTTTCAGCATGCCCCAACCTTTATTGATACGAACATTCAAAATGCGTCAACATTCCTATT
1 ATGGGCTTTCAGCATGCCCCAACCTTTATTGATACAAACATTCAAAATGAGTCAACATTCATATT
*
1004698 TCTGATTGAA
66 TCTGATTCAA
* * * * ** *
1004708 ATGGGCTTTCAACATGCCCCAACATTTGTTGATATAAATGTTCAAAATGAGTCAAGATTCATATT
1 ATGGGCTTTCAGCATGCCCCAACCTTTATTGATACAAACATTCAAAATGAGTCAACATTCATATT
1004773 TCTGATTCAA
66 TCTGATTCAA
1004783 ATGGGCTTTCAGCATGCCCCAACCTTT
1 ATGGGCTTTCAGCATGCCCCAACCTTT
1004810 TCATCTTGTT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 89 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (75 bp):
ATGGGCTTTCAGCATGCCCCAACCTTTATTGATACAAACATTCAAAATGAGTCAACATTCATATT
TCTGATTCAA
Found at i:1006074 original size:18 final size:18
Alignment explanation
Indices: 1006053--1006093 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1006043 AATTTTTTCC
*
1006053 CTTTTTCCTTTTT-TCTTT
1 CTTTTT-CTTTTTCTCCTT
1006071 CTTTTTCTTTTTCTCCTT
1 CTTTTTCTTTTTCTCCTT
1006089 CTTTT
1 CTTTT
1006094 CTGATGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
CTTTTTCTTTTTCTCCTT
Found at i:1006095 original size:17 final size:17
Alignment explanation
Indices: 1006046--1006095 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
1006036 TTGATTCAAT
*
1006046 TTTTTC-CCTT-TTTCC
1 TTTTTCTCCTTCTTTTC
*
1006061 TTTTT-TCTTTCTTTTTC
1 TTTTTCTCCTTC-TTTTC
1006078 TTTTTCTCCTTCTTTTC
1 TTTTTCTCCTTCTTTTC
1006095 T
1 T
1006096 GATGAATGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 8 0.29
17 15 0.54
18 5 0.18
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTCTCCTTCTTTTC
Found at i:1006512 original size:15 final size:15
Alignment explanation
Indices: 1006488--1006517 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1006478 TTTTTCTCTC
1006488 TTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTT
*
1006503 TTCTTTTTCTTCTTT
1 TTCTTCTTCTTCTTT
1006518 GGGCATGTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTCTTCTTCTTT
Found at i:1007211 original size:34 final size:30
Alignment explanation
Indices: 1007173--1007241 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
1007163 TTGATATAAC
1007173 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
1007207 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
1007236 AATTTA
1 AATTTA
1007242 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:1007252 original size:29 final size:30
Alignment explanation
Indices: 1007182--1007241 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
1007172 CAATTTAAGG
1007182 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
1007213 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
1007242 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:1007347 original size:21 final size:20
Alignment explanation
Indices: 1007321--1007419 Score: 110
Period size: 21 Copynumber: 4.8 Consensus size: 20
1007311 AAGGTGTCAA
1007321 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCA-CCCTGC
**
1007342 AGTGCATCCATATATCCCTGC
1 AGTGCATCCATGCA-CCCTGC
1007363 AGTGCATCCATGCA-CCTGCAC
1 AGTGCATCCATGCACCCTG--C
* *
1007384 TAGTGCATCGATGCACCATGC
1 -AGTGCATCCATGCACCCTGC
1007405 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
1007420 TCAAACACCG
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.06
20 14 0.21
21 33 0.49
22 13 0.19
23 3 0.04
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTGC
Done.