Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 46 of 78
Found at i:9150269 original size:2 final size:2
Alignment explanation
Indices: 9150262--9150295 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
9150252 ATAACAAGGG
* *
9150262 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9150296 TTTTGAAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:9151763 original size:865 final size:866
Alignment explanation
Indices: 9150088--9151824 Score: 3350
Period size: 865 Copynumber: 2.0 Consensus size: 866
9150078 AGTCCACATT
*
9150088 ATGATATCTTGTTATTTCTTCCTATGACTTGCCTTTGTAGCAAAATCTAGATTGATGATGTTCAC
1 ATGATATCTTGTTATTTCTTCCTATGACTTGCCTTTGTAGCAAAATCCAGATTGATGATGTTCAC
9150153 TCATGCGAGCAAATGTCCTTCATCTTTGCCCCCTAGAGTGGAGGGTGGTCCTTGGTTAAGGTTGA
66 TCATGCGAGCAAATGTCCTTCATCTTTGCCCCCTAGAGTGGAGGGTGGTCCTTGGTTAAGGTTGA
*
9150218 ATCAGAAGAAACAATATTATAGACTCAAAAGGGGATAACAAGGGATATATATATATATATATATA
131 ATCAGAAGAAACAATATTATAGACTCAAAAGGGGACAACAAGGG----A-ATATATATATATATA
9150283 TACATATACATATTTTTGAAAGGATAAATGAAACAAAGTCGTTCATCATCTCATATATGGAAGTC
191 TACATATACATATTTTTGAAAGGATAAATGAAACAAAGTCGTTCATCATCTCATATATGGAAGTC
9150348 TTTGTAAAAGAGGTATCATAGGGGGACGAGTATTCAGGATTAATCTTATTTACATGAAAAGAATG
256 TTTGTAAAAGAGGTATCATAGGGGGACGAGTATTCAGGATTAATCTTATTTACATGAAAAGAATG
9150413 TAATTAATGCATGATAGAATTATTTCAATGATTCTCTTTATTTCTTCTTCTTCCATTCACTCCCA
321 TAATTAATGCATGATAGAATTATTTCAATGATTCTCTTTATTTCTTCTTCTTCCATTCACTCCCA
*
9150478 GTATGCTCTAATTATTCAAATTCTCAAAAACTTGATCCGCAACACTCCATCTTGTCTTTCTTTCA
386 GTATGCTCCAATTATTCAAATTCTCAAAAACTTGATCCGCAACACTCCATCTTGTCTTTCTTTCA
*
9150543 GGAAAGGTCCTCGTCATGCCCCCAGGATTTATTGAGGTTGGGAAATGAATGTTGGTTTTGTGTCT
451 GGAAAGGTCCTCATCATGCCCCCAGGATTTATTGAGGTTGGGAAATGAATGTTGGTTTTGTGTCT
9150608 AGAAAGGGAAATGTGTGACTTTAAAATCATGATTCTATAAAAAAAGGTAATGTTATGGAAATGTT
516 AGAAAGGGAAATGTGTGACTTTAAAATCATGATTCTATAAAAAAAGGTAATGTTATGGAAATGTT
9150673 AGCTCTGTATGGGAAGGTAAAAGTACTGATTTTGGGGCCTCGAGGAGGATAAGAGAATGACTTTA
581 AGCTCTGTATGGGAAGGTAAAAGTACTGATTTTGGGGCCTCGAGGAGGATAAGAGAATGACTTTA
9150738 CTGTTTCAAAGAGAAGTGATGTCAAAGTTCGATCTTTTGGGAGTAAATGTGTGTTATTTTGGGTA
646 CTGTTTCAAAGAGAAGTGATGTCAAAGTTCGATCTTTTGGGAGTAAATGTGTGTTATTTTGGGTA
9150803 AGGAACCCATTAATGGTTATTTCGACTTTGGATGGGGTATGGAAGGTCTAATCTTGCTCCTTATC
711 AGGAACCCATTAATGGTTATTTCGACTTTGGATGGGGTATGGAAGGTCTAATCTTGCTCCTTATC
9150868 AAAGATATATAATTAATGAAGTAGTAAAATAACATTTAATTCATTCAATATTCAAATAATTACAA
776 AAAGATATATAATTAATGAAGTAGTAAAATAACATTTAATTCATTCAATATTCAAATAATTACAA
9150933 GATTAAAACTTGATTTATTGCTCATA
841 GATTAAAACTTGATTTATTGCTCATA
9150959 ATGATATCTTGTTATTTCTTCCTATGACTTGCCTTTGTAGCAAAATCCAGATTGATGATGTTCAC
1 ATGATATCTTGTTATTTCTTCCTATGACTTGCCTTTGTAGCAAAATCCAGATTGATGATGTTCAC
*
9151024 TCATGCGAGCAGATGTCCTTCATCTTTGCCCCCTAGAGTGGAGGGTGGTCCTTGGTTAAGGTTGA
66 TCATGCGAGCAAATGTCCTTCATCTTTGCCCCCTAGAGTGGAGGGTGGTCCTTGGTTAAGGTTGA
9151089 ATCAGAAGAAACAATATTATAGACTCAAAAGGGGACAACAAGGG-ATATATATATATATATACAT
131 ATCAGAAGAAACAATATTATAGACTCAAAAGGGGACAACAAGGGAATATATATATATATATACAT
9151153 ATACATATTTTTGAAAGGATAAATGAAACAAAGTCGTTCATCATCTCATATATGGAAGTCTTTGT
196 ATACATATTTTTGAAAGGATAAATGAAACAAAGTCGTTCATCATCTCATATATGGAAGTCTTTGT
9151218 AAAAGAGGTATCATAGGGGGACGAGTATTCAGGATTAATCTTATTTACATGAAAAGAATGTAATT
261 AAAAGAGGTATCATAGGGGGACGAGTATTCAGGATTAATCTTATTTACATGAAAAGAATGTAATT
9151283 AATGCATGATAGAATTATTTCAATGATTCTCTTTATTTCTTCTTCTTCCATTCACTCCCAGTATG
326 AATGCATGATAGAATTATTTCAATGATTCTCTTTATTTCTTCTTCTTCCATTCACTCCCAGTATG
9151348 CTCCAATTATTCAAATTCTCAAAAACTTGATCCGCAACACTCCATCTTGTCTTTCTTTCAGGAAA
391 CTCCAATTATTCAAATTCTCAAAAACTTGATCCGCAACACTCCATCTTGTCTTTCTTTCAGGAAA
9151413 GGTCCTCATCATGCCCCCAGGATTTATTGAGGTTGGGAAATGAATGTTGGTTTTGTGTCTAGAAA
456 GGTCCTCATCATGCCCCCAGGATTTATTGAGGTTGGGAAATGAATGTTGGTTTTGTGTCTAGAAA
9151478 GGGAAATGTGTGACTTTAAAATCATGATTCTATAAAAAAAGGTAATGTTATGGAAATGTTAGCTC
521 GGGAAATGTGTGACTTTAAAATCATGATTCTATAAAAAAAGGTAATGTTATGGAAATGTTAGCTC
*
9151543 TGTATGGGAAGGTAAAAGTACTGATTTTGGGGCCTCGAGGAGGATAAGGGAATGACTTTACTGTT
586 TGTATGGGAAGGTAAAAGTACTGATTTTGGGGCCTCGAGGAGGATAAGAGAATGACTTTACTGTT
9151608 TCAAAGAGAAGTGATGTCAAAGTTCGATCTTTTGGGAGTAAATGTGTGTTATTTTGGGTAAGGAA
651 TCAAAGAGAAGTGATGTCAAAGTTCGATCTTTTGGGAGTAAATGTGTGTTATTTTGGGTAAGGAA
* *
9151673 CCCATTAATGGTTATTTCGGCTTTGGATGGGGTATGGAAGGTCTAATCTTGCTCCTTGTCAAAGA
716 CCCATTAATGGTTATTTCGACTTTGGATGGGGTATGGAAGGTCTAATCTTGCTCCTTATCAAAGA
9151738 TATATAATTAATGAAGTAGTAAAATAACATTTAATTCATTCAATATTCAAATAATTACAAGATTA
781 TATATAATTAATGAAGTAGTAAAATAACATTTAATTCATTCAATATTCAAATAATTACAAGATTA
9151803 AAACTTGATTTATTGCTCATA
846 AAACTTGATTTATTGCTCATA
9151824 A
1 A
9151825 CCTTAGAAAA
Statistics
Matches: 858, Mismatches: 8, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
865 687 0.80
871 171 0.20
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (866 bp):
ATGATATCTTGTTATTTCTTCCTATGACTTGCCTTTGTAGCAAAATCCAGATTGATGATGTTCAC
TCATGCGAGCAAATGTCCTTCATCTTTGCCCCCTAGAGTGGAGGGTGGTCCTTGGTTAAGGTTGA
ATCAGAAGAAACAATATTATAGACTCAAAAGGGGACAACAAGGGAATATATATATATATATACAT
ATACATATTTTTGAAAGGATAAATGAAACAAAGTCGTTCATCATCTCATATATGGAAGTCTTTGT
AAAAGAGGTATCATAGGGGGACGAGTATTCAGGATTAATCTTATTTACATGAAAAGAATGTAATT
AATGCATGATAGAATTATTTCAATGATTCTCTTTATTTCTTCTTCTTCCATTCACTCCCAGTATG
CTCCAATTATTCAAATTCTCAAAAACTTGATCCGCAACACTCCATCTTGTCTTTCTTTCAGGAAA
GGTCCTCATCATGCCCCCAGGATTTATTGAGGTTGGGAAATGAATGTTGGTTTTGTGTCTAGAAA
GGGAAATGTGTGACTTTAAAATCATGATTCTATAAAAAAAGGTAATGTTATGGAAATGTTAGCTC
TGTATGGGAAGGTAAAAGTACTGATTTTGGGGCCTCGAGGAGGATAAGAGAATGACTTTACTGTT
TCAAAGAGAAGTGATGTCAAAGTTCGATCTTTTGGGAGTAAATGTGTGTTATTTTGGGTAAGGAA
CCCATTAATGGTTATTTCGACTTTGGATGGGGTATGGAAGGTCTAATCTTGCTCCTTATCAAAGA
TATATAATTAATGAAGTAGTAAAATAACATTTAATTCATTCAATATTCAAATAATTACAAGATTA
AAACTTGATTTATTGCTCATA
Found at i:9153607 original size:22 final size:22
Alignment explanation
Indices: 9153555--9153597 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9153545 CTTTCACTCC
9153555 CACTTAAAGGTGAAAGAGCTCA
1 CACTTAAAGGTGAAAGAGCTCA
9153577 CACTTAAAGGTGAAAGAGCTC
1 CACTTAAAGGTGAAAGAGCTC
9153598 GAGTATAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.19
Consensus pattern (22 bp):
CACTTAAAGGTGAAAGAGCTCA
Found at i:9154093 original size:21 final size:21
Alignment explanation
Indices: 9154067--9154109 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9154057 TCAGTCTATG
9154067 TGTAACTAGAGATTTATTCTT
1 TGTAACTAGAGATTTATTCTT
9154088 TGTAACTAGAGATTTATTCTT
1 TGTAACTAGAGATTTATTCTT
9154109 T
1 T
9154110 TTTGTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (21 bp):
TGTAACTAGAGATTTATTCTT
Found at i:9154983 original size:17 final size:17
Alignment explanation
Indices: 9154935--9154999 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 17
9154925 TAATTGAAAC
* *
9154935 AACAAATTAATATAAAA
1 AACAAAATAAAATAAAA
* * *
9154952 AATAAAA-ATAGTAAAA
1 AACAAAATAAAATAAAA
* *
9154968 AGCAACATAAAATAAAA
1 AACAAAATAAAATAAAA
*
9154985 AATAAAATAAAATAA
1 AACAAAATAAAATAA
9155000 TTACAAAGAC
Statistics
Matches: 34, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
16 10 0.29
17 24 0.71
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (17 bp):
AACAAAATAAAATAAAA
Found at i:9161236 original size:105 final size:105
Alignment explanation
Indices: 9161045--9161339 Score: 333
Period size: 105 Copynumber: 2.8 Consensus size: 105
9161035 CGCATAAGAG
* * * * * *
9161045 TGCTGTATGTGACAACATTAGGCTCAATC-CCTTGATTTATCATTGTGTCAACAATACCTTTAGC
1 TGCTATATGTGACAACATTAGGCTCAA-CGCCTTGCTTTCTCATTGTGTCAACGATATCTTCAGC
* * * * *
9161109 TTTGTAAACC-GCTCCCTCCTTGCAATGGGCATCCACCAGCA
65 TTTGGAAACCATC-CCCTTCTTGCAAAGGGCATCCACCAACA
* *
9161150 TGGTATATGTGACAACATTAGGCTCAACGCCTTGCTTTCTCATTGTGTCAATGATATCTTCAGCT
1 TGCTATATGTGACAACATTAGGCTCAACGCCTTGCTTTCTCATTGTGTCAACGATATCTTCAGCT
* * * *
9161215 TTGGAAACCATCCCCTTCTTGCAAAGTGCATCGATCAATA
66 TTGGAAACCATCCCCTTCTTGCAAAGGGCATCCACCAACA
*** ** * * *
9161255 TGCTATACAAGACAACATCGGGCTCAATGCCTTGCTTTCTCATTGTGTCAACGACATATTCAGCT
1 TGCTATATGTGACAACATTAGGCTCAACGCCTTGCTTTCTCATTGTGTCAACGATATCTTCAGCT
9161320 TTGGAAACCATCCCCTTCTT
66 TTGGAAACCATCCCCTTCTT
9161340 ACACATAGCA
Statistics
Matches: 161, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
104 1 0.01
105 159 0.99
106 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (105 bp):
TGCTATATGTGACAACATTAGGCTCAACGCCTTGCTTTCTCATTGTGTCAACGATATCTTCAGCT
TTGGAAACCATCCCCTTCTTGCAAAGGGCATCCACCAACA
Found at i:9163120 original size:27 final size:29
Alignment explanation
Indices: 9163071--9163130 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
9163061 ATTGACCTAA
* *
9163071 AAAATAAATCAAATTAATGTTAAAT-AAT
1 AAAATAAATCAAATAAATATTAAATAAAT
9163099 AAAATAAAT-AAATAAATATTAAATAAAT
1 AAAATAAATCAAATAAATATTAAATAAAT
9163127 AAAA
1 AAAA
9163131 GAATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 13 0.45
28 16 0.55
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (29 bp):
AAAATAAATCAAATAAATATTAAATAAAT
Found at i:9164314 original size:7 final size:7
Alignment explanation
Indices: 9164304--9164478 Score: 162
Period size: 7 Copynumber: 24.4 Consensus size: 7
9164294 ATAATACTAC
9164304 ATATAAT
1 ATATAAT
9164311 ATAT-AT
1 ATATAAT
9164317 ATAT-AT
1 ATATAAT
9164323 ACTA-AAT
1 A-TATAAT
*
9164330 ATATTA-
1 ATATAAT
9164336 ATAT-AT
1 ATATAAT
9164342 ATATAAT
1 ATATAAT
9164349 ATATACACT
1 ATATA-A-T
9164358 ATATAAT
1 ATATAAT
9164365 ATATGATAT
1 ATAT-A-AT
9164374 ATATAAT
1 ATATAAT
*
9164381 ATATAAA
1 ATATAAT
*
9164388 ATATATT
1 ATATAAT
9164395 AATATAAT
1 -ATATAAT
*
9164403 ATATACT
1 ATATAAT
9164410 ATATAAT
1 ATATAAT
9164417 ATATAAT
1 ATATAAT
*
9164424 ATATGAT
1 ATATAAT
9164431 ATATAAT
1 ATATAAT
*
9164438 ACATAAT
1 ATATAAT
*
9164445 AATACTATT
1 -ATA-TAAT
9164454 ATATAAT
1 ATATAAT
*
9164461 ATCTTAAT
1 AT-ATAAT
9164469 ATATAAT
1 ATATAAT
9164476 ATA
1 ATA
9164479 ATATCCTAGA
Statistics
Matches: 140, Mismatches: 15, Indels: 26
0.77 0.08 0.14
Matches are distributed among these distances:
5 1 0.01
6 19 0.14
7 84 0.60
8 21 0.15
9 15 0.11
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:9164316 original size:2 final size:2
Alignment explanation
Indices: 9164304--9164482 Score: 112
Period size: 2 Copynumber: 97.0 Consensus size: 2
9164294 ATAATACTAC
*
9164304 AT AT A- AT AT AT AT AT AT AT ACT AA AT AT AT -T A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
*
9164344 AT A- AT AT AT AC ACT AT AT A- AT AT AT GAT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
*
9164385 A- AA AT AT AT -T A- AT AT A- AT AT AT ACT AT AT A- AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
*
9164422 AT AT AT GAT AT AT A- AT AC AT A- AT A- AT ACT AT -T AT AT A- AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
9164461 AT CT -T A- AT AT AT A- AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9164483 CCTAGACGAA
Statistics
Matches: 142, Mismatches: 8, Indels: 54
0.70 0.04 0.26
Matches are distributed among these distances:
1 21 0.15
2 110 0.77
3 11 0.08
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Found at i:9164331 original size:9 final size:8
Alignment explanation
Indices: 9164304--9164436 Score: 85
Period size: 9 Copynumber: 15.8 Consensus size: 8
9164294 ATAATACTAC
9164304 ATATAATAT
1 ATATAA-AT
*
9164313 ATATATAT
1 ATATAAAT
9164321 ATACTAAAT
1 ATA-TAAAT
9164330 ATATTAATAT
1 ATA-TAA-AT
9164340 ATATATAAT
1 ATATA-AAT
*
9164349 ATATACACT
1 ATATA-AAT
9164358 ATAT-AAT
1 ATATAAAT
*
9164365 ATAT-GAT
1 ATATAAAT
9164372 ATATATAAT
1 ATATA-AAT
9164381 ATATAAAAT
1 ATAT-AAAT
*
9164390 ATATTAAT
1 ATATAAAT
*
9164398 ATAATATAT
1 AT-ATAAAT
9164407 ACTATATAAT
1 A-TATA-AAT
9164417 ATAT-AAT
1 ATATAAAT
*
9164424 ATAT-GAT
1 ATATAAAT
9164431 ATATAA
1 ATATAA
9164437 TACATAATAA
Statistics
Matches: 100, Mismatches: 14, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
7 25 0.25
8 10 0.10
9 54 0.54
10 11 0.11
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (8 bp):
ATATAAAT
Found at i:9164454 original size:59 final size:57
Alignment explanation
Indices: 9164304--9164478 Score: 218
Period size: 59 Copynumber: 3.1 Consensus size: 57
9164294 ATAATACTAC
9164304 ATATAATATAT-ATATAT-ATAC-T-AAATATATTAATAT-ATATATAATATATACACT
1 ATATAATATATGATATATAATACATAAAATATATTAATATAATATATAATATATA-A-T
* *
9164358 ATATAATATATGATATATATAATATATAAAATATATTAATATAATATATACTATATAAT
1 ATATAATATATG--ATATATAATACATAAAATATATTAATATAATATATAATATATAAT
*
9164417 ATATAATATATGATATATAATACATAATAATACTATT-ATATAATATCTTAATATATAAT
1 ATATAATATATGATATATAATACATAA-AATA-TATTAATATAATAT-ATAATATATAAT
9164476 ATA
1 ATA
9164479 ATATCCTAGA
Statistics
Matches: 106, Mismatches: 5, Indels: 15
0.84 0.04 0.12
Matches are distributed among these distances:
54 11 0.10
57 20 0.19
58 16 0.15
59 31 0.29
60 15 0.14
61 13 0.12
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (57 bp):
ATATAATATATGATATATAATACATAAAATATATTAATATAATATATAATATATAAT
Found at i:9169940 original size:76 final size:76
Alignment explanation
Indices: 9169737--9169942 Score: 274
Period size: 75 Copynumber: 2.7 Consensus size: 76
9169727 CCGTTGTACA
* * * *
9169737 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGC-ATACTGGAATTCTCGGA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAAT-CTGGAAATCTCGGA
** *
9169800 ACAAAACTGTTT
65 ACAAAACCATTC
* * *
9169812 AGGGGGGAATCGGTTCCTCCAAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAA
*
9169876 CCAAACCATTC
66 CAAAACCATTC
*
9169887 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAA
9169943 TTTTTGGCTT
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
75 82 0.72
76 32 0.28
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.22
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAA
CAAAACCATTC
Found at i:9170571 original size:17 final size:17
Alignment explanation
Indices: 9170549--9170592 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
9170539 TTCATAAATC
9170549 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
9170566 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
9170583 -AAATATCCAA
1 CAAA-ATCCAA
9170593 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:9170584 original size:9 final size:8
Alignment explanation
Indices: 9170544--9170594 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
9170534 CACCATTCAT
9170544 AAATCC-A
1 AAATCCAA
9170551 AAATCCAA
1 AAATCCAA
*
9170559 CAATCCACA
1 AAATCCA-A
9170568 AAAT-CAA
1 AAATCCAA
9170575 ACAATCCAA
1 A-AATCCAA
9170584 AATATCCAA
1 AA-ATCCAA
9170593 AA
1 AA
9170595 TGTTGAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 8 0.22
8 13 0.35
9 16 0.43
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATCCAA
Found at i:9172549 original size:21 final size:21
Alignment explanation
Indices: 9172523--9172562 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9172513 CAGAACCCCA
*
9172523 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
9172544 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
9172563 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:9172597 original size:20 final size:21
Alignment explanation
Indices: 9172543--9172605 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
9172533 GATTCCCCTG
9172543 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
9172567 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
9172587 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
9172606 TGCACAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:9178475 original size:75 final size:76
Alignment explanation
Indices: 9178375--9178581 Score: 258
Period size: 75 Copynumber: 2.7 Consensus size: 76
9178365 CGTTGTACAA
* * *
9178375 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
1 GGGGGAATCGGTTCCTCCTAAGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
** *
9178439 AAACTGTTTAG
66 AAACCATTCAG
* * * * * *
9178450 GGGGGAATCGGTTCCTCC-AATGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCC
1 GGGGGAATCGGTTCCTCCTAAGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
9178514 AAACCATTCAG
66 AAACCATTCAG
*
9178525 GGGGGAATCGGTTCCTCCTAAGGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 GGGGGAATCGGTTCCTCCTAAGGGGGGG-ATCGGTTCCCTCCGAGCATA-CTGGAATT
9178582 TTTGGCTTTG
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
75 80 0.72
76 7 0.06
77 24 0.22
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTAAGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
AAACCATTCAG
Found at i:9179776 original size:34 final size:34
Alignment explanation
Indices: 9179730--9179796 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
9179720 CCTTTACAAC
* *
9179730 TCCCTAGTTTTTCACGGGCTAAACTAGAACCTTA
1 TCCCTAGCTTTTCAAGGGCTAAACTAGAACCTTA
* *
9179764 TCCCTAGCTTTTCAAGGGCTCAGCTAGAACCTT
1 TCCCTAGCTTTTCAAGGGCTAAACTAGAACCTT
9179797 TCATTTTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (34 bp):
TCCCTAGCTTTTCAAGGGCTAAACTAGAACCTTA
Found at i:9180257 original size:20 final size:19
Alignment explanation
Indices: 9180227--9180274 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
9180217 GGTTCTGTTC
* *
9180227 AATACTGTTCATACAGTAT
1 AATACTATTCATACAATAT
*
9180246 CGATACTATTCATACAATAT
1 -AATACTATTCATACAATAT
9180266 AATACTATT
1 AATACTATT
9180275 TATAAAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (19 bp):
AATACTATTCATACAATAT
Found at i:9184554 original size:18 final size:19
Alignment explanation
Indices: 9184531--9184568 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9184521 ATTTGAATTT
9184531 AAAGAA-ATGAAAAAATGC
1 AAAGAATATGAAAAAATGC
*
9184549 AAAGAATATGCAAAAATGC
1 AAAGAATATGAAAAAATGC
9184568 A
1 A
9184569 CGATGCATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.63, C:0.08, G:0.16, T:0.13
Consensus pattern (19 bp):
AAAGAATATGAAAAAATGC
Found at i:9189051 original size:2 final size:2
Alignment explanation
Indices: 9189012--9189395 Score: 168
Period size: 2 Copynumber: 207.0 Consensus size: 2
9189002 AATAATATTG
* * *
9189012 AT AT A- AT AT A- AT AA AT AT A- AT A- AT AA AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
9189050 AT A- AT AA AT AC AT A- AT ACT AC AT AT A- AT AT AT AT AT ACT AA
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT
* * *
9189091 AT AT AT -T A- AT AT AT A- AA AT AT AT AT A- AC AT AT CAT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
* * *
9189130 AT AT AA AT AT AT AT AT AT AT GT A- AT A- AT AT A- AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
9189169 ACT CT A- AT AT CT ACT AT AT GAT AT AT ACT AT AT AT A- AT AT A-
1 A-T AT AT AT AT AT A-T AT AT -AT AT AT A-T AT AT AT AT AT AT AT
* *
9189210 AC CT AT AT A- AT AT AT AT AT A- AT AT AT A- AT ACT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
*
9189249 AT A- AT AT AT AT AC A- AT AT AT -T AT AT A- AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
9189286 AT AT AT A- AA AT AT -T A- AT AT A- AT AT AT CT -T AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
9189322 AT AT AT A- AT AT A- AT TT AT GAT AT AT ACT AC AT A- AT A- AT ACT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT A-T AT AT AT AT AT AT A-T
9189363 AT -T AT AT A- AT AT CAT -T A- AT AT AT A- AT AT A- AT AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
9189396 CTTGGACGGA
Statistics
Matches: 290, Mismatches: 38, Indels: 108
0.67 0.09 0.25
Matches are distributed among these distances:
1 42 0.14
2 225 0.78
3 23 0.08
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (2 bp):
AT
Found at i:9189055 original size:7 final size:7
Alignment explanation
Indices: 9189012--9189391 Score: 222
Period size: 7 Copynumber: 53.4 Consensus size: 7
9189002 AATAATATTG
9189012 ATATAAT
1 ATATAAT
9189019 ATAATAA-
1 AT-ATAAT
9189026 ATATAAT
1 ATATAAT
9189033 A-ATAAAT
1 ATAT-AAT
9189040 ATATAAAT
1 ATAT-AAT
9189048 ATATAAT
1 ATATAAT
*
9189055 AAATACAT
1 ATATA-AT
*
9189063 A-ATACTAC
1 ATATA--AT
9189071 ATATAAT
1 ATATAAT
9189078 ATAT-AT
1 ATATAAT
9189084 ATACTAAAT
1 ATA-T-AAT
9189093 ATATTAAT
1 ATA-TAAT
9189101 ATATAA-
1 ATATAAT
9189107 A-AT-AT
1 ATATAAT
*
9189112 ATATAAC
1 ATATAAT
*
9189119 ATATCAT
1 ATATAAT
9189126 ATA-AAT
1 ATATAAT
9189132 ATA-AAT
1 ATATAAT
9189138 ATATATAT
1 ATATA-AT
9189146 ATATGTAAT
1 ATA--TAAT
9189155 AATATAAT
1 -ATATAAT
*
9189163 AAAT-AT
1 ATATAAT
*
9189169 ACTCTAAT
1 A-TATAAT
* *
9189177 ATCTACT
1 ATATAAT
*
9189184 ATATGAT
1 ATATAAT
9189191 ATATACTAT
1 ATATA--AT
9189200 ATATAAT
1 ATATAAT
*
9189207 ATA-ACCT
1 ATATA-AT
9189214 ATAT-A-
1 ATATAAT
9189219 ATAT-AT
1 ATATAAT
9189225 ATATAAT
1 ATATAAT
9189232 ATATAAT
1 ATATAAT
9189239 ACTATAAT
1 A-TATAAT
9189247 ATATAAT
1 ATATAAT
*
9189254 ATATATACA
1 ATATA-A-T
*
9189263 ATATATT
1 ATATAAT
9189270 ATATAAT
1 ATATAAT
9189277 ATATAAT
1 ATATAAT
9189284 ATAT-AT
1 ATATAAT
9189290 ATA-AA-
1 ATATAAT
*
9189295 ATATTA-
1 ATATAAT
9189301 ATATAAT
1 ATATAAT
**
9189308 ATATCTT
1 ATATAAT
9189315 ATATAAT
1 ATATAAT
9189322 ATAT-AT
1 ATATAAT
9189328 AATATAAT
1 -ATATAAT
* *
9189336 TTATGAT
1 ATATAAT
*
9189343 ATATACT
1 ATATAAT
*
9189350 ACATAAT
1 ATATAAT
*
9189357 AATACTATT
1 -ATA-TAAT
9189366 ATATAAT
1 ATATAAT
9189373 ATCATTAAT
1 AT-A-TAAT
9189382 ATATAAT
1 ATATAAT
9189389 ATA
1 ATA
9189392 ATATCTTGGA
Statistics
Matches: 296, Mismatches: 39, Indels: 76
0.72 0.09 0.18
Matches are distributed among these distances:
4 1 0.00
5 11 0.04
6 47 0.16
7 146 0.49
8 54 0.18
9 32 0.11
10 5 0.02
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (7 bp):
ATATAAT
Found at i:9189159 original size:65 final size:65
Alignment explanation
Indices: 9189012--9189333 Score: 199
Period size: 66 Copynumber: 4.7 Consensus size: 65
9189002 AATAATATTG
* * * * *
9189012 ATATA-ATATAATAAATATAATAATAAATATATAA-ATATATAATAAAT-ACAT-AATACTACAT
1 ATATATATATAAT-AATATATTAAT--ATATAAAATATATATAATATATCATATAAATA-TAAAT
9189073 ATA-
62 ATAT
* *
9189076 ATATATATATACTAAATATATTAATATATAAAATATATATAACATATCATATAAATATAAATATA
1 ATATATATATAAT-AATATATTAATATATAAAATATATATAATATATCATATAAATATAAATATA
9189141 T
65 T
* * * *
9189142 ATATATATGTAATAATATAATAAATATACTCTAATATCTACTATATGATATATACTATATATAAT
1 ATATATATATAATAATAT-ATTAATATA---TAA-A-ATA-TATATAATATAT-C-ATATA-AAT
*
9189207 ATAACCTATAT
56 ATAA-ATATAT
* * *
9189218 AATATATATATAATATATAATACTATAATATATAATATATATACAATATATTATAT-AATATATA
1 -ATATATATATAATA-AT-ATA-T-TAATATATAAAATATATATAATATATCATATAAATATA-A
9189282 ATATAT
60 ATATAT
* * * * *
9189288 ATATA-AAATATTAATATAATATATCTTATATAATATATATAATATA
1 ATATATATATAATAATATATTA-AT-ATATAAAATATATATAATATA
9189334 ATTTATGATA
Statistics
Matches: 205, Mismatches: 29, Indels: 46
0.73 0.10 0.16
Matches are distributed among these distances:
63 7 0.03
64 18 0.09
65 34 0.17
66 43 0.21
67 2 0.01
68 6 0.03
69 8 0.04
70 12 0.06
71 3 0.01
72 14 0.07
73 1 0.00
74 15 0.07
75 9 0.04
76 5 0.02
77 16 0.08
78 3 0.01
79 3 0.01
80 6 0.03
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (65 bp):
ATATATATATAATAATATATTAATATATAAAATATATATAATATATCATATAAATATAAATATAT
Found at i:9196686 original size:20 final size:20
Alignment explanation
Indices: 9196635--9196710 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
9196625 GTGAAATTAT
9196635 TAAGGGTAGTATCGATACCTG
1 TAAGGGTAGTATCGATA-CTG
* *
9196656 T-TGAG--GTATCGATACTG
1 TAAGGGTAGTATCGATACTG
9196673 TAAGGGTAGTATCGATACTG
1 TAAGGGTAGTATCGATACTG
9196693 TAAGGGTAGTATCGATAC
1 TAAGGGTAGTATCGATAC
9196711 CCTTGAAACA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
17 4 0.08
18 11 0.23
20 32 0.67
21 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (20 bp):
TAAGGGTAGTATCGATACTG
Found at i:9197173 original size:21 final size:21
Alignment explanation
Indices: 9197147--9197200 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
9197137 ATGAATATGG
9197147 AAATGTGAACATTAAATCAGC
1 AAATGTGAACATTAAATCAGC
* * *
9197168 AAATGTGAACTTTGAATCAGT
1 AAATGTGAACATTAAATCAGC
*
9197189 GAATGTGAACAT
1 AAATGTGAACAT
9197201 ACTCTATGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (21 bp):
AAATGTGAACATTAAATCAGC
Found at i:9197359 original size:21 final size:21
Alignment explanation
Indices: 9197332--9197388 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 21
9197322 TCGAGGGTTT
9197332 TATGTGGTCCTTCGGGAC-AA
1 TATGTGGTCCTTCGGGACAAA
9197352 TCATGTGGTCCTTCGGGACAAA
1 T-ATGTGGTCCTTCGGGACAAA
9197374 TATGTGG-CACTTCGG
1 TATGTGGTC-CTTCGG
9197389 TGCAAACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.06
21 29 0.85
22 3 0.09
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACAAA
Found at i:9197394 original size:21 final size:22
Alignment explanation
Indices: 9197332--9197410 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 22
9197322 TCGAGGGTTT
*
9197332 TATGTGGTC-CTTCGGGACAATC
1 TATGTGG-CACTTCGGGACAAAC
9197354 -ATGTGGTC-CTTCGGGACAAA-
1 TATGTGG-CACTTCGGGACAAAC
9197374 TATGTGGCACTTCGGTG-CAAAC
1 TATGTGGCACTTCGG-GACAAAC
9197396 TTATGTGGCACTTCG
1 -TATGTGGCACTTCG
9197411 ATGTAAATTA
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
20 1 0.02
21 35 0.69
22 1 0.02
23 14 0.27
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (22 bp):
TATGTGGCACTTCGGGACAAAC
Found at i:9204620 original size:19 final size:19
Alignment explanation
Indices: 9204596--9204632 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9204586 GATGAGTCAC
*
9204596 ATTAAAATATTATTTTTAG
1 ATTAAAATAATATTTTTAG
9204615 ATTAAAATAATATTTTTA
1 ATTAAAATAATATTTTTA
9204633 AATAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTAAAATAATATTTTTAG
Found at i:9204638 original size:18 final size:19
Alignment explanation
Indices: 9204598--9204638 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9204588 TGAGTCACAT
* *
9204598 TAAAATATTATTTTTAGAT
1 TAAAATAATATTTTTAGAA
9204617 TAAAATAATATTTTTA-AA
1 TAAAATAATATTTTTAGAA
9204635 TAAA
1 TAAA
9204639 TAGTAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TAAAATAATATTTTTAGAA
Found at i:9205457 original size:34 final size:35
Alignment explanation
Indices: 9205419--9205495 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 35
9205409 GTATAATTAG
* *
9205419 AAACATACATAAAC-TTAGTTAAAAAAGT-AAGTAA
1 AAACATAAATAAACATT-GTTAAAAAAGTCAACTAA
* *
9205453 AAACACAAATAAGCATTGTTAAAAAAGTCCAACTAA
1 AAACATAAATAAACATTGTTAAAAAAGT-CAACTAA
9205489 AAACATA
1 AAACATA
9205496 GTTAAAATAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 22 0.63
35 2 0.06
36 11 0.31
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.21
Consensus pattern (35 bp):
AAACATAAATAAACATTGTTAAAAAAGTCAACTAA
Found at i:9205500 original size:26 final size:26
Alignment explanation
Indices: 9205470--9205519 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
9205460 AATAAGCATT
*
9205470 GTTAAAAAAGTCCAACTAAAAACATA
1 GTTAAAAAAGTACAACTAAAAACATA
*
9205496 GTTAAAATAGTACAACTAAAAACA
1 GTTAAAAAAGTACAACTAAAAACA
9205520 CACATAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.14, G:0.08, T:0.20
Consensus pattern (26 bp):
GTTAAAAAAGTACAACTAAAAACATA
Found at i:9205527 original size:26 final size:26
Alignment explanation
Indices: 9205472--9205527 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
9205462 TAAGCATTGT
* * **
9205472 TAAAAAAGTCCAACTAAAAACATAGT
1 TAAAAAAGTACAACTAAAAACACACA
*
9205498 TAAAATAGTACAACTAAAAACACACA
1 TAAAAAAGTACAACTAAAAACACACA
9205524 TAAA
1 TAAA
9205528 CTTAGTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.61, C:0.16, G:0.05, T:0.18
Consensus pattern (26 bp):
TAAAAAAGTACAACTAAAAACACACA
Found at i:9205536 original size:62 final size:60
Alignment explanation
Indices: 9205429--9205553 Score: 153
Period size: 62 Copynumber: 2.0 Consensus size: 60
9205419 AAACATACAT
* * * *
9205429 AAACTTAGTTAAAAAAGTAAGTAAAAACACAAATAAGCATTGTTAAAAAAGTCCAACTAA
1 AAACATAGTTAAAAAAGTAACTAAAAACACAAATAAACATTGTTAAAAAAGTACAACTAA
* * *
9205489 AAACATAGTTAAAATAGTACAACTAAAAACACACATAAAC-TTAGTTAAAAGAGTACAACTAA
1 AAACATAGTTAAAAAAGT--AACTAAAAACACAAATAAACATT-GTTAAAAAAGTACAACTAA
9205551 AAA
1 AAA
9205554 AATAACATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 16 0.29
61 2 0.04
62 37 0.67
ACGTcount: A:0.58, C:0.13, G:0.09, T:0.21
Consensus pattern (60 bp):
AAACATAGTTAAAAAAGTAACTAAAAACACAAATAAACATTGTTAAAAAAGTACAACTAA
Found at i:9205563 original size:37 final size:36
Alignment explanation
Indices: 9205489--9205563 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
9205479 GTCCAACTAA
* * *
9205489 AAACATAGTTAAAATAGTACAACTAAAAACACACAT
1 AAACATAGTTAAAAGAGTACAACTAAAAAAAAACAT
*
9205525 AAACTTAGTTAAAAGAGTACAACTAAAAAAATAACAT
1 AAACATAGTTAAAAGAGTACAACTAAAAAAA-AACAT
9205562 AA
1 AA
9205564 TTTTTTTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
36 28 0.82
37 6 0.18
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (36 bp):
AAACATAGTTAAAAGAGTACAACTAAAAAAAAACAT
Found at i:9218884 original size:19 final size:19
Alignment explanation
Indices: 9218839--9218884 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9218829 TTAAGAATAC
* *
9218839 AAAAAGAAGAACATAAATG
1 AAAAAGAAAAAAATAAATG
**
9218858 AATCAGAAAAAAATAAATG
1 AAAAAGAAAAAAATAAATG
9218877 AAAAAGAA
1 AAAAAGAA
9218885 TAATCTCTTC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.72, C:0.04, G:0.13, T:0.11
Consensus pattern (19 bp):
AAAAAGAAAAAAATAAATG
Found at i:9219254 original size:36 final size:38
Alignment explanation
Indices: 9219220--9219302 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 38
9219210 CCTATCAATT
9219220 TGAACCATTTGTTTGCAAAATCAAAACCCTTCAATATCAACA
1 TGAACCATTTGTTTGCAAAATCAAAACCCTTCAATAT----A
* *
9219262 TGAACCATTTGTTTGTAAAATCAAAACCCTTCAATAGA
1 TGAACCATTTGTTTGCAAAATCAAAACCCTTCAATATA
9219300 TGA
1 TGA
9219303 CTTGAAAGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
38 4 0.10
42 35 0.90
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (38 bp):
TGAACCATTTGTTTGCAAAATCAAAACCCTTCAATATA
Found at i:9221427 original size:21 final size:21
Alignment explanation
Indices: 9221397--9221454 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
9221387 TCCTTAAGTA
*
9221397 GTGGTCCTTTGGGACATTTAT
1 GTGGTCCTTTGGGACATATAT
* *
9221418 GTGGTTCTTTGGGTCATATAT
1 GTGGTCCTTTGGGACATATAT
* *
9221439 GTGGTCATTCGGGACA
1 GTGGTCCTTTGGGACA
9221455 AATTTTATGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.14, G:0.31, T:0.40
Consensus pattern (21 bp):
GTGGTCCTTTGGGACATATAT
Found at i:9228252 original size:21 final size:21
Alignment explanation
Indices: 9228226--9228283 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
9228216 TCCTTAAGGA
* *
9228226 GTGGTCCTTCGGGATATTTAT
1 GTGGTCCTTCGGGACATATAT
9228247 GTGGTCCTTCGGGACATATAT
1 GTGGTCCTTCGGGACATATAT
9228268 GTGGTCCTTCGGGACA
1 GTGGTCCTTCGGGACA
9228284 AATTTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (21 bp):
GTGGTCCTTCGGGACATATAT
Found at i:9229303 original size:23 final size:24
Alignment explanation
Indices: 9229277--9229341 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 24
9229267 TGATTATTTA
*
9229277 AATATAATATATTTTATTAATA-T
1 AATATAATATATTTTATTAAAATT
9229300 AATA-AAT-TATTTT-TTAAAATT
1 AATATAATATATTTTATTAAAATT
9229321 AATAT-ATAT-TTTTAATTAAAA
1 AATATAATATATTTT-ATTAAAA
9229342 AACTCCTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
20 5 0.14
21 17 0.47
22 4 0.11
23 10 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AATATAATATATTTTATTAAAATT
Found at i:9229330 original size:20 final size:19
Alignment explanation
Indices: 9229273--9229333 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
9229263 CGGTTGATTA
9229273 TTTAAATATAATATAT-TTT
1 TTTAAA-ATAATATATATTT
* * *
9229292 ATTAATATAATAAATTATTT
1 TTTAAAATAATATA-TATTT
9229312 TTTAAAATTAATATATATTT
1 TTTAAAA-TAATATATATTT
9229332 TT
1 TT
9229334 AATTAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 7 0.21
19 5 0.15
20 15 0.45
21 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAAAATAATATATATTT
Found at i:9232500 original size:59 final size:59
Alignment explanation
Indices: 9232428--9232560 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 59
9232418 AAAAGAAAGG
** *
9232428 GTAAAAAACACAAATGATCCTCTGACTATTG-GA-TACTATTTTGTTGAATCTC-TCGACTA
1 GTAAAAATTACAAATGATCCTCTGACTATAGAGAGT--TATTTTGTTGAATC-CATCGACTA
* * *
9232487 TTAAAAATTACAAAATGATCCTCTTACTATAGAGAGTTGTTTTGTTGAATCCATCGACTA
1 GTAAAAATTAC-AAATGATCCTCTGACTATAGAGAGTTATTTTGTTGAATCCATCGACTA
*
9232547 GTAAAAGTTACAAA
1 GTAAAAATTACAAA
9232561 ATGGTCACAC
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
59 12 0.19
60 47 0.76
61 2 0.03
62 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.34
Consensus pattern (59 bp):
GTAAAAATTACAAATGATCCTCTGACTATAGAGAGTTATTTTGTTGAATCCATCGACTA
Found at i:9236532 original size:18 final size:19
Alignment explanation
Indices: 9236509--9236554 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
9236499 TTAATTAAAT
9236509 TGATATCAAAACTCAAA-A
1 TGATATCAAAACTCAAAGA
* * *
9236527 TGATATCAATATTGAAAGA
1 TGATATCAAAACTCAAAGA
9236546 TGATATCAA
1 TGATATCAA
9236555 TACTTAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (19 bp):
TGATATCAAAACTCAAAGA
Found at i:9236563 original size:19 final size:19
Alignment explanation
Indices: 9236509--9236563 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
9236499 TTAATTAAAT
* *
9236509 TGATATCAAAACTCAAA-A
1 TGATATCAATACTTAAAGA
9236527 TGATATCAATA-TTGAAAGA
1 TGATATCAATACTT-AAAGA
9236546 TGATATCAATACTTAAAG
1 TGATATCAATACTTAAAG
9236564 GTTGGGTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 1 0.03
18 13 0.41
19 16 0.50
20 2 0.06
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (19 bp):
TGATATCAATACTTAAAGA
Found at i:9238640 original size:14 final size:13
Alignment explanation
Indices: 9238594--9238649 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 13
9238584 CTTGGACATG
9238594 AAATAAAATAAA-
1 AAATAAAATAAAT
*
9238606 AAAGTAAAACGAAAT
1 AAA-TAAAA-TAAAT
9238621 AAATAAAATAAAT
1 AAATAAAATAAAT
*
9238634 AATATAATATAAAT
1 AA-ATAAAATAAAT
9238648 AA
1 AA
9238650 TAATATACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 3 0.08
13 11 0.30
14 20 0.54
15 3 0.08
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:9238651 original size:17 final size:16
Alignment explanation
Indices: 9238618--9238671 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
9238608 AGTAAAACGA
9238618 AATA-AATAAAATAAAT
1 AATATAATAAAAT-AAT
9238634 AATATAATATAAATAAT
1 AATATAATA-AAATAAT
*
9238651 AATATACTAAATATAAT
1 AATATAATAAA-ATAAT
9238668 AATA
1 AATA
9238672 AAAACTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
16 6 0.18
17 24 0.71
18 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
AATATAATAAAATAAT
Found at i:9238767 original size:35 final size:35
Alignment explanation
Indices: 9238700--9238929 Score: 248
Period size: 36 Copynumber: 6.5 Consensus size: 35
9238690 ATATGTCTTC
9238700 AAAAAT-TATATTATATGTTTTCGAAAATCATTTTA
1 AAAAATATATATTATATGTTTTC-AAAATCATTTTA
* *
9238735 AAAAATATATATTATACGTTTTCAAAACCATTTTAA
1 AAAAATATATATTATATGTTTTCAAAATCATTTT-A
* *
9238771 AAAAACCATATACTATATG-TTTCAAAATCATTTTTA
1 AAAAA-TATATATTATATGTTTTCAAAATCA-TTTTA
* * * * *
9238807 AAAACTATATATTATACGTTTTCAGAACCATTTCA
1 AAAAATATATATTATATGTTTTCAAAATCATTTTA
*
9238842 AAAAACTATATATTATATGTTTTGCAAAATTATTTTA
1 AAAAA-TATATATTATATGTTTT-CAAAATCATTTTA
** * * *
9238879 AAAACGATATACTATATGTTTTCTAAATCGTTTTA
1 AAAAATATATATTATATGTTTTCAAAATCATTTTA
*
9238914 AAAACTATATATTATA
1 AAAAATATATATTATA
9238930 CATTTTTTTA
Statistics
Matches: 161, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
35 58 0.36
36 76 0.47
37 27 0.17
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.41
Consensus pattern (35 bp):
AAAAATATATATTATATGTTTTCAAAATCATTTTA
Found at i:9238823 original size:72 final size:72
Alignment explanation
Indices: 9238706--9238929 Score: 276
Period size: 72 Copynumber: 3.1 Consensus size: 72
9238696 CTTCAAAAAT
*
9238706 TATATTATATGTTTTCGAAAATCATTTTAAAAAATATATATTATACGTTTTCAAAACCATTTTAA
1 TATATTATATGTTTTC-AAAATCATTTTAAAAACTATATATTATACGTTTTCAAAACCATTTTAA
9238771 AAAAACCA
65 AAAAACCA
* * *
9238779 TATACTATATG-TTTCAAAATCATTTTTAAAAACTATATATTATACGTTTTCAGAACCA-TTTCA
1 TATATTATATGTTTTCAAAATCA-TTTTAAAAACTATATATTATACGTTTTCAAAACCATTTTAA
*
9238842 AAAAACTA
65 AAAAACCA
* * * * * * *
9238850 TATATTATATGTTTTGCAAAATTATTTTAAAAACGATATACTATATGTTTTCTAAATCGTTTT--
1 TATATTATATGTTTT-CAAAATCATTTTAAAAACTATATATTATACGTTTTCAAAACCATTTTAA
*
9238913 AAAAACTA
65 AAAAACCA
9238921 TATATTATA
1 TATATTATA
9238930 CATTTTTTTA
Statistics
Matches: 133, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
71 45 0.34
72 68 0.51
73 20 0.15
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (72 bp):
TATATTATATGTTTTCAAAATCATTTTAAAAACTATATATTATACGTTTTCAAAACCATTTTAAA
AAAACCA
Found at i:9246858 original size:46 final size:46
Alignment explanation
Indices: 9246791--9246903 Score: 185
Period size: 46 Copynumber: 2.5 Consensus size: 46
9246781 AATTACTCCC
9246791 CCTTACTTTAACACTTCTCCCATTTAGCATTTAGAAAACGCATTTA
1 CCTTACTTTAACACTTCTCCCATTTAGCATTTAGAAAACGCATTTA
9246837 CCTTACTTTAACACTTCTCCCATTTAGCATTTAGAAAACGCATTTA
1 CCTTACTTTAACACTTCTCCCATTTAGCATTTAGAAAACGCATTTA
*
9246883 AC--ACCATTTAACACTTCTCCC
1 CCTTA-C-TTTAACACTTCTCCC
9246904 CCTTTTTGTT
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
44 1 0.02
45 1 0.02
46 62 0.97
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.35
Consensus pattern (46 bp):
CCTTACTTTAACACTTCTCCCATTTAGCATTTAGAAAACGCATTTA
Found at i:9249200 original size:23 final size:21
Alignment explanation
Indices: 9249148--9249227 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
9249138 CCAGAAACCT
* *
9249148 AGGGGGTATCGATTCCCCTGT-
1 AGGGGGAATCGGTTCCCCT-TA
*
9249169 GGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTT--A
9249192 AGGGGGAATCGGTT-CCCTTA
1 AGGGGGAATCGGTTCCCCTTA
*
9249212 AGGGGG-ATCGATTCCC
1 AGGGGGAATCGGTTCCC
9249228 TCTGCACCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.12
20 10 0.20
21 16 0.32
22 5 0.10
23 13 0.26
ACGTcount: A:0.17, C:0.24, G:0.35, T:0.24
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCCTTA
Found at i:9255028 original size:21 final size:21
Alignment explanation
Indices: 9255002--9255060 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
9254992 CGTTATAAAA
*
9255002 TGGGGGAATCAGTTCCCCCTG
1 TGGGGGAATCGGTTCCCCCTG
9255023 TGGGGGAATCGGTTCCCCCTG
1 TGGGGGAATCGGTTCCCCCTG
9255044 TGGGGGAATCGGTTCCC
1 TGGGGGAATCGGTTCCC
9255061 TCCGAGCATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.12, C:0.27, G:0.37, T:0.24
Consensus pattern (21 bp):
TGGGGGAATCGGTTCCCCCTG
Found at i:9255122 original size:21 final size:21
Alignment explanation
Indices: 9255091--9255153 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
9255081 CGGAGCCAAA
*
9255091 CCATTCAGGGGGAATTGGTACC
1 CCATT-AGGGGGAATCGGTACC
*
9255113 CCATTAGGGGGGAATCGGTTCC
1 CCATTA-GGGGGAATCGGTACC
*
9255135 CCCTTAGGGGGGAATCGGT
1 CCATTA-GGGGGAATCGGT
9255154 TCCCTTTGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 1 0.03
22 36 0.97
ACGTcount: A:0.19, C:0.22, G:0.37, T:0.22
Consensus pattern (21 bp):
CCATTAGGGGGAATCGGTACC
Found at i:9255154 original size:22 final size:22
Alignment explanation
Indices: 9255098--9255157 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
9255088 AAACCATTCA
* *
9255098 GGGGGAATTGGTACCCCATTAG
1 GGGGGAATCGGTTCCCCATTAG
*
9255120 GGGGGAATCGGTTCCCCCTTAG
1 GGGGGAATCGGTTCCCCATTAG
9255142 GGGGGAATCGGTTCCC
1 GGGGGAATCGGTTCCC
9255158 TTTGAGAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.17, C:0.23, G:0.38, T:0.22
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCATTAG
Found at i:9262051 original size:20 final size:20
Alignment explanation
Indices: 9262022--9262060 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9262012 AGAGCCCATG
*
9262022 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
9262042 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
9262061 GTGGTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:9262719 original size:18 final size:18
Alignment explanation
Indices: 9262681--9262721 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9262671 AGGGAGTGGC
* *
9262681 GAGCTAGGTGTCTGAGAG
1 GAGCTAGGTGGCCGAGAG
*
9262699 GAGCTAGGTGGCCGAGGG
1 GAGCTAGGTGGCCGAGAG
9262717 GAGCT
1 GAGCT
9262722 CAGGCAGTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.49, T:0.17
Consensus pattern (18 bp):
GAGCTAGGTGGCCGAGAG
Found at i:9285814 original size:5 final size:5
Alignment explanation
Indices: 9285804--9285905 Score: 50
Period size: 5 Copynumber: 20.0 Consensus size: 5
9285794 GATTTGGACC
* **
9285804 TAAAA TAAAA TTTAAAA AAAAA GTAAAA CGAAA T-AAA TAAAA T-AAA
1 TAAAA TAAAA --TAAAA TAAAA -TAAAA TAAAA TAAAA TAAAA TAAAA
* * * * *
9285850 TAACA TAAAA T-AAA TAATA TAATA T-AAA TAATAA TATAC TAAATA TAATAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAA-A TAA-AA
9285901 TAAAA
1 TAAAA
9285906 ACTATAATTT
Statistics
Matches: 74, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
4 15 0.20
5 38 0.51
6 15 0.20
7 6 0.08
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (5 bp):
TAAAA
Found at i:9285846 original size:9 final size:9
Alignment explanation
Indices: 9285834--9285885 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
9285824 AAGTAAAACG
9285834 AAATAAATA
1 AAATAAATA
9285843 AAATAAATA
1 AAATAAATA
*
9285852 ACATAAA-A
1 AAATAAATA
9285860 TAAATAATATA
1 -AAATAA-ATA
*
9285871 ATATAAATA
1 AAATAAATA
9285880 ATAATA
1 A-AATA
9285886 TACTAAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 1 0.03
9 24 0.69
10 9 0.26
11 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
AAATAAATA
Found at i:9285860 original size:19 final size:19
Alignment explanation
Indices: 9285838--9285887 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
9285828 AAAACGAAAT
9285838 AAATAAAATAA-ATAACATA
1 AAAT-AAATAATATAACATA
*
9285857 AAATAAATAATATAATAT-
1 AAATAAATAATATAACATA
9285875 AAAT-AATAATATA
1 AAATAAATAATATA
9285888 CTAAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 9 0.31
18 10 0.34
19 10 0.34
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATAAATAATATAACATA
Found at i:9285881 original size:14 final size:14
Alignment explanation
Indices: 9285834--9285882 Score: 73
Period size: 14 Copynumber: 3.6 Consensus size: 14
9285824 AAGTAAAACG
9285834 AAATAA-ATAAAAT
1 AAATAATATAAAAT
*
9285847 AAATAACATAAAAT
1 AAATAATATAAAAT
*
9285861 AAATAATATAATAT
1 AAATAATATAAAAT
9285875 AAATAATA
1 AAATAATA
9285883 ATATACTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
13 6 0.18
14 27 0.82
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATAATATAAAAT
Found at i:9285882 original size:17 final size:17
Alignment explanation
Indices: 9285844--9285902 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
9285834 AAATAAATAA
*
9285844 AATAA-ATAACATAAAAT
1 AATAATATAATAT-AAAT
9285861 AAATAATATAATATAAAT
1 -AATAATATAATATAAAT
*
9285879 AATAATATACTA-AATAT
1 AATAATATAATATAA-AT
9285896 AATAATA
1 AATAATA
9285903 AAAACTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
16 2 0.05
17 20 0.54
18 9 0.24
19 6 0.16
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAATATAATATAAAT
Found at i:9285957 original size:36 final size:38
Alignment explanation
Indices: 9285933--9286067 Score: 111
Period size: 37 Copynumber: 3.7 Consensus size: 38
9285923 ATGTCTTCAA
*
9285933 AAAT-TATATTATATGATTTCAAAAATCGTTTTTAAAG
1 AAATATATATTATATGATTTCAAAAATCGTTCTTAAAG
* *
9285970 AAATATATATTATATGTTTTC-AAAATCATT-TTAAA-
1 AAATATATATTATATGATTTCAAAAATCGTTCTTAAAG
* * * * * *
9286005 AAACCATATAATATATGTTTTC-AAAACCATTTTTAAA-
1 AAA-TATATATTATATGATTTCAAAAATCGTTCTTAAAG
* *
9286042 AAATCATATACTATATGTTTTCAAAA
1 AAAT-ATATATTATATGATTTCAAAA
9286068 CCGTTTTTGA
Statistics
Matches: 86, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
35 3 0.03
36 29 0.34
37 36 0.42
38 18 0.21
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.41
Consensus pattern (38 bp):
AAATATATATTATATGATTTCAAAAATCGTTCTTAAAG
Found at i:9286158 original size:35 final size:35
Alignment explanation
Indices: 9285937--9286303 Score: 298
Period size: 35 Copynumber: 10.3 Consensus size: 35
9285927 CTTCAAAAAT
* * *
9285937 TATATTATATGATTTCAAAAATCGTTTTTAAAGAAATA
1 TATATTATATGTTTTCAAAACT-G-TTTTAAA-AACTA
* *
9285975 TATATTATATGTTTTCAAAATCAT-TTTAAAAAACCA
1 TATATTATATGTTTTCAAAA-C-TGTTTTAAAAACTA
* *
9286011 TATAATATATGTTTTCAAAACCAT-TTTTAAAAAATCA
1 TATATTATATGTTTTCAAAA-C-TGTTTTAAAAACT-A
* * * *
9286048 TATACTATATGTTTTCAAAACCGTTTTTGAAAACTG
1 TATATTATATGTTTTCAAAACTG-TTTTAAAAACTA
* * ** *
9286084 TATACTT-TACGTTTTCAGAACCATTTCAAAAAACTA
1 TATA-TTATATGTTTTCAAAACTGTTT-TAAAAACTA
*
9286120 TATATTATATGTTTTCAACACTGTTTTAAAAACTA
1 TATATTATATGTTTTCAAAACTGTTTTAAAAACTA
* **
9286155 TATATTATACGTTTTC--AA-T-TTAAAAAAAAATCTA
1 TATATTATATGTTTTCAAAACTGTT--TTAAAAA-CTA
* *
9286189 TATATTATATGTTTTTCAAAATTATTTTAAAAACTA
1 TATATTATATG-TTTTCAAAACTGTTTTAAAAACTA
* *
9286225 TATACTATATGTTTTCAAAACCGTTTTAAAAACTA
1 TATATTATATGTTTTCAAAACTGTTTTAAAAACTA
* ** *
9286260 TATACTATATGCGTTCAAAACCGTTTTAAAAACTA
1 TATATTATATGTTTTCAAAACTGTTTTAAAAACTA
9286295 TATATTATA
1 TATATTATA
9286304 CTTTTTTTAA
Statistics
Matches: 271, Mismatches: 42, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
31 2 0.01
32 1 0.00
33 6 0.02
34 13 0.05
35 95 0.35
36 88 0.32
37 43 0.16
38 20 0.07
39 2 0.01
40 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.42
Consensus pattern (35 bp):
TATATTATATGTTTTCAAAACTGTTTTAAAAACTA
Found at i:9286228 original size:70 final size:68
Alignment explanation
Indices: 9285973--9286242 Score: 217
Period size: 73 Copynumber: 3.8 Consensus size: 68
9285963 TTTAAAGAAA
* * *
9285973 TATATATTATATGTTTTCAAAA-TCATTTTAAAAAACCATATAATATATGTTTTCAAAACCATTT
1 TATATATTATATGTTTTCAAAACT-ATTTT-AAAAACTATATACTATACGTTTTC---A--ATTT
** *
9286037 TTAAAAAATC
59 AAAAAAAAAC
* * * *
9286047 -ATATACTATATGTTTTCAAAACCGT-TTTTGAAAACTGTATACTTTACGTTTTCAGAACCATTT
1 TATATATTATATGTTTTCAAAA-C-TATTTTAAAAACTATATACTATACGTTTTC---A--ATTT
*
9286110 --CAAAAAAC
59 AAAAAAAAAC
* * *
9286118 TATATATTATATGTTTTCAACACTGTTTTAAAAACTATATATTATACGTTTTCAATTTAAAAAAA
1 TATATATTATATGTTTTCAAAACTATTTTAAAAACTATATACTATACGTTTTCAATTTAAAAAAA
9286183 AATC
66 AA-C
* *
9286187 TATATATTATATGTTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTCAA
1 TATATATTATATG-TTTTCAAAACTATTTTAAAAACTATATACTATACGTTTTCAA
9286243 AACCGTTTTA
Statistics
Matches: 165, Mismatches: 22, Indels: 22
0.79 0.11 0.11
Matches are distributed among these distances:
66 4 0.02
68 7 0.04
69 14 0.08
70 38 0.23
71 31 0.19
72 19 0.12
73 47 0.28
74 4 0.02
76 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (68 bp):
TATATATTATATGTTTTCAAAACTATTTTAAAAACTATATACTATACGTTTTCAATTTAAAAAAA
AAC
Found at i:9287115 original size:40 final size:40
Alignment explanation
Indices: 9287071--9287235 Score: 321
Period size: 40 Copynumber: 4.1 Consensus size: 40
9287061 CTCTCTAAAA
*
9287071 ATCATGGATTCAAACAATTACTTCTACATAATGTATGTAC
1 ATCATAGATTCAAACAATTACTTCTACATAATGTATGTAC
9287111 ATCATAGATTCAAACAATTACTTCTACATAATGTATGTAC
1 ATCATAGATTCAAACAATTACTTCTACATAATGTATGTAC
9287151 ATCATAGATTCAAACAATTACTTCTACATAATGTATGTAC
1 ATCATAGATTCAAACAATTACTTCTACATAATGTATGTAC
9287191 ATCATAGATTCAAACAATTACTTCTACATAATGTATGTAC
1 ATCATAGATTCAAACAATTACTTCTACATAATGTATGTAC
9287231 ATCAT
1 ATCAT
9287236 CGATAATTAA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 124 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (40 bp):
ATCATAGATTCAAACAATTACTTCTACATAATGTATGTAC
Found at i:9291214 original size:29 final size:28
Alignment explanation
Indices: 9291177--9291234 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
9291167 GTTTGTAACG
*
9291177 TTAGTCACCTAAATTAACAAAAAAAAAGT
1 TTAGGCACC-AAATTAACAAAAAAAAAGT
* **
9291206 TTAGGCACCAATTTAGGAAAAAAAAAGT
1 TTAGGCACCAAATTAACAAAAAAAAAGT
9291234 T
1 T
9291235 ATAATTTGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (28 bp):
TTAGGCACCAAATTAACAAAAAAAAAGT
Found at i:9293862 original size:22 final size:20
Alignment explanation
Indices: 9293837--9293876 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
9293827 TTATCAATTA
*
9293837 CAAATTTTAAATAATAATGAGT
1 CAAAGTTTAAA-AA-AATGAGT
9293859 CAAAGTTTAAAAAAATGA
1 CAAAGTTTAAAAAAATGA
9293877 CAAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (20 bp):
CAAAGTTTAAAAAAATGAGT
Found at i:9295898 original size:4 final size:4
Alignment explanation
Indices: 9295889--9295915 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9295879 AATGATGAGA
9295889 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
9295916 GTAGAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:9308027 original size:178 final size:175
Alignment explanation
Indices: 9307762--9308081 Score: 534
Period size: 178 Copynumber: 1.8 Consensus size: 175
9307752 ATTAATTTCA
*
9307762 AGACTTAACACTCTCACATGGATTCACTCAATACTCTCAAAGTGCTTAGGGTGTATTCAACTCTC
1 AGACTTAACACTCTCACATGGATTCACTAAATACTCTCAAAGTGCTTAGGGTGTATTCAACTCTC
*
9307827 AAAGTCAAAGCGTAAGACAATATTACCATAGGATTGAAAGTGAATTAAATCTCTACCATTGGATA
66 AAAGTCAAAGCGTAAGACAATATTACCATAGGATTGAAAGTGAATCAAATCTC-A-C--TGGATA
9307892 TGAATATGATCCAAAACATCCCATTAATCTACTAATTTCAAATATAATG
127 TGAATATGATCCAAAACATCCCATTAATCTACTAATTTCAAATATAATG
*
9307941 AGACTTAACGCTCTCACATGG-TTCACTAAATACTCTCAAAGTGCTTAGGGTGTATTCAACTCTC
1 AGACTTAACACTCTCACATGGATTCACTAAATACTCTCAAAGTGCTTAGGGTGTATTCAACTCTC
* * *
9308005 AAAGTCAAAGCGTAAGACAATATTACCATAGGCTTGCAAGTGAATCAAATCTCACTGTATATGAA
66 AAAGTCAAAGCGTAAGACAATATTACCATAGGATTGAAAGTGAATCAAATCTCACTGGATATGAA
*
9308070 TATGATGCAAAA
131 TATGATCCAAAA
9308082 ATCAAATGTT
Statistics
Matches: 134, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
174 20 0.15
176 1 0.01
177 1 0.01
178 92 0.69
179 20 0.15
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (175 bp):
AGACTTAACACTCTCACATGGATTCACTAAATACTCTCAAAGTGCTTAGGGTGTATTCAACTCTC
AAAGTCAAAGCGTAAGACAATATTACCATAGGATTGAAAGTGAATCAAATCTCACTGGATATGAA
TATGATCCAAAACATCCCATTAATCTACTAATTTCAAATATAATG
Found at i:9310652 original size:20 final size:19
Alignment explanation
Indices: 9310618--9310655 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
9310608 AAACACAATT
*
9310618 CATAACTCATGATTCATAA
1 CATAACTCATCATTCATAA
9310637 CATAATCTCATCATTCATA
1 CATAA-CTCATCATTCATA
9310656 TGCATCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (19 bp):
CATAACTCATCATTCATAA
Found at i:9313545 original size:22 final size:22
Alignment explanation
Indices: 9313498--9313545 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
9313488 GATAAAATTC
* * *
9313498 ATAGATGGTCATTAAATTTTGT
1 ATAGATGGCCACTAAATTTTGA
9313520 ATAGATGGCCACTAATATTTT-A
1 ATAGATGGCCACTAA-ATTTTGA
9313542 ATAG
1 ATAG
9313546 GATAAAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (22 bp):
ATAGATGGCCACTAAATTTTGA
Found at i:9322904 original size:20 final size:21
Alignment explanation
Indices: 9322861--9322901 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
9322851 AAACCATTCA
9322861 GGGGGAATCGGTTCCCTCTTTG
1 GGGGGAATCGGTTCCCTC-TTG
9322883 GGGGGAATCGGTTCCCTCT
1 GGGGGAATCGGTTCCCTCT
9322902 GGGCAATCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.10, C:0.24, G:0.37, T:0.29
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCTTG
Found at i:9323422 original size:13 final size:13
Alignment explanation
Indices: 9323404--9323428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9323394 AGCCATTAGT
9323404 TTCATAATCAATA
1 TTCATAATCAATA
9323417 TTCATAATCAAT
1 TTCATAATCAAT
9323429 GTGACATGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
TTCATAATCAATA
Found at i:9326664 original size:20 final size:21
Alignment explanation
Indices: 9326626--9326664 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9326616 TATCAAGGTC
*
9326626 TTTGTTGATACCATGAAATCT
1 TTTGTCGATACCATGAAATCT
*
9326647 TTTGTCGATGCCAT-AAAT
1 TTTGTCGATACCATGAAAT
9326665 TACTACAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (21 bp):
TTTGTCGATACCATGAAATCT
Found at i:9332399 original size:2 final size:2
Alignment explanation
Indices: 9332392--9332436 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
9332382 TAAAAGTCTA
9332392 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9332434 AT A
1 AT A
9332437 AAAGTGCTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9333124 original size:82 final size:82
Alignment explanation
Indices: 9332864--9333362 Score: 643
Period size: 82 Copynumber: 6.1 Consensus size: 82
9332854 CATTTGTAGC
* * * * * * *
9332864 GGCGTTTTTAGAAAAAACGCCGCTAAAGACTCCT-ACTATAGCGGCATTTTTATACAAACGCCGC
1 GGCGTTTTTA-TACAAACGCCGCTATAGACTCATGA-TTTAGTGGCGTTTTTATACAAACGCCGC
* *
9332928 TAAAGAAT-GTAATTTAGT
64 TAAAGACTCGTACTTTAGT
* * *
9332946 GGCGTTTTTATACAAACGCCGCTAAAGTCT-ATAATTTAGTGGCGTTTTTATACAAACGCCGCTA
1 GGCGTTTTTATACAAACGCCGCTATAGACTCATGATTTAGTGGCGTTTTTATACAAACGCCGCTA
* *
9333010 TAGACTTGTACTTTAGT
66 AAGACTCGTACTTTAGT
* *
9333027 GGTGTTTTTTATACAAATGCCGCTATAGACTCATGATTTAGTGGCGTTTTTATACAAACGCCGCT
1 GGCG-TTTTTATACAAACGCCGCTATAGACTCATGATTTAGTGGCGTTTTTATACAAACGCCGCT
9333092 AAAGACTCGTACTTTAGT
65 AAAGACTCGTACTTTAGT
* *
9333110 GGCGTTTTTATACAAACGCCGCTATAGACTCATGATTTAGTGGCGTTTTTATATAAACTCCGCTA
1 GGCGTTTTTATACAAACGCCGCTATAGACTCATGATTTAGTGGCGTTTTTATACAAACGCCGCTA
9333175 AAGACTCGTACTTTAGT
66 AAGACTCGTACTTTAGT
* * *
9333192 GGCGTTTTTATACAAATGCCGCTAAAGACTCAT-ACTTTAGTGGCGTGTTTGT-TACAAACGTCG
1 GGCGTTTTTATACAAACGCCGCTATAGACTCATGA-TTTAGTGGCGT-TTT-TATACAAACGCCG
*
9333255 CTATAGACTCGTGA-TTTAGT
63 CTAAAGACTCGT-ACTTTAGT
*
9333275 GGCGTTTTT-TACAAACACCGCTATAGACTCATGATTTAGTGGCGTTTTTATACAAACGCCGCTA
1 GGCGTTTTTATACAAACGCCGCTATAGACTCATGATTTAGTGGCGTTTTTATACAAACGCCGCTA
* ** *
9333339 TAGACTCGTGTTTTTGT
66 AAGACTCGTACTTTAGT
9333356 GGCGTTT
1 GGCGTTT
9333363 GTGTTTACAA
Statistics
Matches: 373, Mismatches: 33, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
80 33 0.09
81 68 0.18
82 181 0.49
83 89 0.24
84 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (82 bp):
GGCGTTTTTATACAAACGCCGCTATAGACTCATGATTTAGTGGCGTTTTTATACAAACGCCGCTA
AAGACTCGTACTTTAGT
Found at i:9333358 original size:41 final size:41
Alignment explanation
Indices: 9332864--9333362 Score: 583
Period size: 41 Copynumber: 12.2 Consensus size: 41
9332854 CATTTGTAGC
* * * * * * *
9332864 GGCGTTTTTAGAAAAAACGCCGCTAAAGACTCCTACTATAGC
1 GGCGTTTTTA-TACAAACGCCGCTATAGACTCGTAATTTAGT
* * *
9332906 GGCATTTTTATACAAACGCCGCTAAAGAAT-GTAATTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTAATTTAGT
* * *
9332946 GGCGTTTTTATACAAACGCCGCTAAAGTCT-ATAATTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTAATTTAGT
* *
9332986 GGCGTTTTTATACAAACGCCGCTATAGACTTGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTAATTTAGT
* * * *
9333027 GGTGTTTTTTATACAAATGCCGCTATAGACTCATGATTTAGT
1 GGCG-TTTTTATACAAACGCCGCTATAGACTCGTAATTTAGT
* *
9333069 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTAATTTAGT
* *
9333110 GGCGTTTTTATACAAACGCCGCTATAGACTCATGATTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTAATTTAGT
* * * *
9333151 GGCGTTTTTATATAAACTCCGCTAAAGACTCGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTAATTTAGT
* * * *
9333192 GGCGTTTTTATACAAATGCCGCTAAAGACTCATACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTAATTTAGT
* *
9333233 GGCGTGTTTGT-TACAAACGTCGCTATAGACTCGTGATTTAGT
1 GGCGT-TTT-TATACAAACGCCGCTATAGACTCGTAATTTAGT
* * *
9333275 GGCGTTTTT-TACAAACACCGCTATAGACTCATGATTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTAATTTAGT
** *
9333315 GGCGTTTTTATACAAACGCCGCTATAGACTCGTGTTTTTGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTAATTTAGT
9333356 GGCGTTT
1 GGCGTTT
9333363 GTGTTTACAA
Statistics
Matches: 397, Mismatches: 55, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
40 108 0.27
41 211 0.53
42 77 0.19
43 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (41 bp):
GGCGTTTTTATACAAACGCCGCTATAGACTCGTAATTTAGT
Found at i:9333799 original size:10 final size:11
Alignment explanation
Indices: 9333773--9333815 Score: 54
Period size: 10 Copynumber: 4.1 Consensus size: 11
9333763 ATTAATCAAT
9333773 TTATTATT-AA
1 TTATTATTAAA
*
9333783 TGATTATTAAA
1 TTATTATTAAA
9333794 TT-TTATTAAA
1 TTATTATTAAA
*
9333804 TTATTATAAAA
1 TTATTATTAAA
9333815 T
1 T
9333816 AAACGTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 17 0.61
11 11 0.39
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
TTATTATTAAA
Found at i:9333813 original size:20 final size:20
Alignment explanation
Indices: 9333737--9333813 Score: 52
Period size: 22 Copynumber: 3.8 Consensus size: 20
9333727 TTAAATACCT
* *
9333737 TTAAATAATTATCAAATATTTT
1 TTAAATTATTAT-AAAT-TTTA
*
9333759 TTAAATTA--ATCAA-TTTA
1 TTAAATTATTATAAATTTTA
*
9333776 TTATTAATGATTATTAAATTTTA
1 TTA--AATTATTA-TAAATTTTA
9333799 TTAAATTATTATAAA
1 TTAAATTATTATAAA
9333814 ATAAACGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
17 6 0.14
19 6 0.14
20 6 0.14
21 8 0.19
22 10 0.23
23 7 0.16
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (20 bp):
TTAAATTATTATAAATTTTA
Found at i:9333827 original size:22 final size:22
Alignment explanation
Indices: 9333798--9333849 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
9333788 ATTAAATTTT
9333798 ATTAAATTATTATAAAATAAAC
1 ATTAAATTATTATAAAATAAAC
*
9333820 GTTAAATTATTATAAAATAAAC
1 ATTAAATTATTATAAAATAAAC
9333842 ATTAAATT
1 ATTAAATT
9333850 TATCAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTAAATTATTATAAAATAAAC
Found at i:9336752 original size:43 final size:43
Alignment explanation
Indices: 9336628--9336794 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 43
9336618 ACAAATGTCA
* * *
9336628 CTAAATACACAGTCAATAGCGACGTTTGTAAAGAAAAATGTCG
1 CTAAATACACAGACAATAGCGACGTTTGTAAAGAAAAACGCCG
* * * *
9336671 CTAAATACACA-ATTAATAGCGGCATTTATAAAGAAAAACGCCG
1 CTAAATACACAGA-CAATAGCGACGTTTGTAAAGAAAAACGCCG
* *
9336714 CTAAATACACAGACAATAACGACGTTTGTAAAGAAAAACACCG
1 CTAAATACACAGACAATAGCGACGTTTGTAAAGAAAAACGCCG
* * * ** *
9336757 CTAAATATAAAGTCAATAGCGGTGTTTGTTAA-AAAAAC
1 CTAAATACACAGACAATAGCGACGTTTGTAAAGAAAAAC
9336795 ATACACAGTC
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 6 0.06
43 95 0.93
44 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.16, T:0.22
Consensus pattern (43 bp):
CTAAATACACAGACAATAGCGACGTTTGTAAAGAAAAACGCCG
Found at i:9336874 original size:43 final size:43
Alignment explanation
Indices: 9336804--9336897 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
9336794 CATACACAGT
* * * * *
9336804 CAAATGCCGCTAAATACACAATCAATAGCGGCGTTTGTATATA
1 CAAACGCCACTAAATACACAATCAATAGCGGCATTTGTAAAGA
* *
9336847 CAAACGCCACTAAATACACATTCAATAGCGGCATTTTTAAAGA
1 CAAACGCCACTAAATACACAATCAATAGCGGCATTTGTAAAGA
9336890 CAAACGCC
1 CAAACGCC
9336898 GCTATATGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.22
Consensus pattern (43 bp):
CAAACGCCACTAAATACACAATCAATAGCGGCATTTGTAAAGA
Found at i:9338653 original size:15 final size:15
Alignment explanation
Indices: 9338633--9338687 Score: 101
Period size: 15 Copynumber: 3.7 Consensus size: 15
9338623 TATAAAATAA
9338633 AGGCATGAAAATTAG
1 AGGCATGAAAATTAG
9338648 AGGCATGAAAATTAG
1 AGGCATGAAAATTAG
9338663 AGGCATGAAAATTAG
1 AGGCATGAAAATTAG
*
9338678 ACGCATGAAA
1 AGGCATGAAA
9338688 TAAAGACTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.18
Consensus pattern (15 bp):
AGGCATGAAAATTAG
Found at i:9340894 original size:13 final size:12
Alignment explanation
Indices: 9340874--9341084 Score: 66
Period size: 12 Copynumber: 17.2 Consensus size: 12
9340864 CCTGAGAATG
9340874 AAAATAAAAAAT
1 AAAATAAAAAAT
*
9340886 AATAATAAAACA-
1 AA-AATAAAAAAT
9340898 AAAATAAACAAAT
1 AAAATAAA-AAAT
9340911 -AAATAAAACAAT
1 AAAATAAAA-AAT
*
9340923 -AAATAAAGAAAA
1 AAAATAAA-AAAT
***
9340935 AAAATCAAAAGGG
1 AAAAT-AAAAAAT
9340948 AAAAT--AAAAT
1 AAAATAAAAAAT
9340958 AAAAT-AAAAAT
1 AAAATAAAAAAT
* *
9340969 ATATTAAATAAAT
1 AAAATAAA-AAAT
*
9340982 CAAAAGAAAAAATGT
1 -AAAATAAAAAA--T
*
9340997 AAAA-AAATAA-
1 AAAATAAAAAAT
*
9341007 AAATTAAAAATGAT
1 AAAATAAAAA--AT
*
9341021 AAAAT--AAATT
1 AAAATAAAAAAT
* *
9341031 AAAAGGAAAAAAG
1 AAAA-TAAAAAAT
*
9341044 ATAAAGAAATAAAT
1 A-AAATAAA-AAAT
9341058 -AAATAAATAAAT
1 AAAATAAA-AAAT
* *
9341070 AACATAATAAAT
1 AAAATAAAAAAT
9341082 AAA
1 AAA
9341085 TCAAAGAGGA
Statistics
Matches: 149, Mismatches: 27, Indels: 46
0.67 0.12 0.21
Matches are distributed among these distances:
10 15 0.10
11 19 0.13
12 47 0.32
13 45 0.30
14 22 0.15
15 1 0.01
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:9340901 original size:24 final size:23
Alignment explanation
Indices: 9340874--9340929 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 23
9340864 CCTGAGAATG
9340874 AAAATAAA-AAATAATAATAAAACA
1 AAAATAAACAAAT-A-AATAAAACA
9340898 AAAATAAACAAATAAATAAAACA
1 AAAATAAACAAATAAATAAAACA
9340921 ATAAATAAA
1 A-AAATAAA
9340930 GAAAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.33
24 16 0.53
25 4 0.13
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAATAAACAAATAAATAAAACA
Found at i:9340935 original size:34 final size:36
Alignment explanation
Indices: 9340875--9340943 Score: 83
Period size: 34 Copynumber: 2.0 Consensus size: 36
9340865 CTGAGAATGA
9340875 AAATAAAAAATAATAATAAAACAAAAATAAA-CAAAT
1 AAATAAAAAATAATAATAAAACAAAAA-AAATCAAAT
*
9340911 AAATAAAACAAT-A-AAT-AAAGAAAAAAAATCAAA
1 AAATAAAA-AATAATAATAAAACAAAAAAAATCAAA
9340944 AGGGAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
33 3 0.10
34 12 0.40
35 3 0.10
36 9 0.30
37 3 0.10
ACGTcount: A:0.78, C:0.06, G:0.01, T:0.14
Consensus pattern (36 bp):
AAATAAAAAATAATAATAAAACAAAAAAAATCAAAT
Found at i:9340969 original size:42 final size:41
Alignment explanation
Indices: 9340898--9341010 Score: 102
Period size: 42 Copynumber: 2.7 Consensus size: 41
9340888 TAATAAAACA
* *
9340898 AAAATAAACAAATAAATAAAACAATAAATAAAGAAAAAAAATC
1 AAAAGAAA-AAATAAATAAAATAA-AAATAAAGAAAAAAAATC
** * ** *
9340941 AAAAGGGAAAATAAAATAAAATAAAAATATATTAAATAAATC
1 AAAAGAAAAAAT-AAATAAAATAAAAATAAAGAAAAAAAATC
9340983 AAAAGAAAAAATGTAAA-AAAATAAAAAT
1 AAAAGAAAAAA--TAAATAAAATAAAAAT
9341011 TAAAAATGAT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
42 38 0.67
43 18 0.32
44 1 0.02
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.17
Consensus pattern (41 bp):
AAAAGAAAAAATAAATAAAATAAAAATAAAGAAAAAAAATC
Found at i:9341004 original size:23 final size:24
Alignment explanation
Indices: 9340973--9341056 Score: 82
Period size: 23 Copynumber: 3.5 Consensus size: 24
9340963 AAAAATATAT
* *
9340973 TAAATAAATCAAAAGAAAAAATG-
1 TAAAAAAATAAAAAGAAAAAATGA
**
9340996 TAAAAAAATAAAAATTAAAAATGA
1 TAAAAAAATAAAAAGAAAAAATGA
*
9341020 TAAAATAAATTAAAAGGAAAAAA-GA
1 TAAAA-AAA-TAAAAAGAAAAAATGA
*
9341045 TAAAGAAATAAA
1 TAAAAAAATAAA
9341057 TAAATAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
23 23 0.46
24 8 0.16
25 9 0.18
26 10 0.20
ACGTcount: A:0.73, C:0.01, G:0.08, T:0.18
Consensus pattern (24 bp):
TAAAAAAATAAAAAGAAAAAATGA
Found at i:9341026 original size:48 final size:48
Alignment explanation
Indices: 9340953--9341106 Score: 136
Period size: 48 Copynumber: 3.0 Consensus size: 48
9340943 AAGGGAAAAT
9340953 AAAAT-AAAATAAAAATATATTAAATAAATCAAAA-GAAAAAATG-TAAA
1 AAAATAAAAATAAAAATATA-TAAATAAATCAAAAGGAAAAAA-GATAAA
*
9341000 AAAATAAAAATTAAAAATGATA-AAATAAATTAAAAGGAAAAAAGATAAAGAA
1 AAAATAAAAA-TAAAAAT-ATATAAATAAATCAAAAGGAAAAAAGAT--A-AA
* *
9341052 ATAAATAAATAAATAAATAACATAATAAATAAATCAAAGAGGAAAAAAAATAAA
1 A-AAAT-AA-AAATAAA-AATAT-ATAAATAAATCAAA-AGGAAAAAAGATAAA
9341106 A
1 A
9341107 GACCAAAATA
Statistics
Matches: 88, Mismatches: 4, Indels: 23
0.77 0.03 0.20
Matches are distributed among these distances:
47 5 0.06
48 17 0.19
49 15 0.17
50 3 0.03
51 1 0.01
52 3 0.03
53 4 0.05
54 11 0.12
55 7 0.08
56 11 0.12
57 11 0.12
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (48 bp):
AAAATAAAAATAAAAATATATAAATAAATCAAAAGGAAAAAAGATAAA
Found at i:9341040 original size:25 final size:25
Alignment explanation
Indices: 9340948--9341048 Score: 93
Period size: 25 Copynumber: 4.1 Consensus size: 25
9340938 ATCAAAAGGG
*
9340948 AAAATAAAATAAAA-TAAAAAT-AT
1 AAAATAAATTAAAAGTAAAAATGAT
* *
9340971 ATTAAATAAATCAAAAGAAAAAATG-T
1 A--AAATAAATTAAAAGTAAAAATGAT
* *
9340997 AAAA-AAATAAAAATTAAAAATGAT
1 AAAATAAATTAAAAGTAAAAATGAT
* *
9341021 AAAATAAATTAAAAGGAAAAAAGAT
1 AAAATAAATTAAAAGTAAAAATGAT
9341046 AAA
1 AAA
9341049 GAAATAAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
23 16 0.26
24 8 0.13
25 30 0.48
26 8 0.13
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (25 bp):
AAAATAAATTAAAAGTAAAAATGAT
Found at i:9341059 original size:4 final size:4
Alignment explanation
Indices: 9341044--9341085 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
9341034 AGGAAAAAAG
*
9341044 ATAA AGAA ATAA ATAA ATAA ATAA ATAA CAT-A ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA AT
9341086 CAAAGAGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 30 0.88
5 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:9341062 original size:57 final size:57
Alignment explanation
Indices: 9340996--9341105 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
9340986 AGAAAAAATG
* * * *
9340996 TAAAAAAATAAA-AATTAAAAATGATAAAATAAATTAAA-AGGAAAAAAGATAAAGAAA
1 TAAAAAAATAAATAAAT-AAAATAAT-AAATAAATCAAAGAGGAAAAAAAATAAAGAAA
* *
9341053 TAAATAAATAAATAAATAACATAATAAATAAATCAAAGAGGAAAAAAAATAAA
1 TAAAAAAATAAATAAATAAAATAATAAATAAATCAAAGAGGAAAAAAAATAAA
9341106 AGACCAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 11 0.24
57 31 0.69
58 3 0.07
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (57 bp):
TAAAAAAATAAATAAATAAAATAATAAATAAATCAAAGAGGAAAAAAAATAAAGAAA
Found at i:9341426 original size:29 final size:29
Alignment explanation
Indices: 9341384--9341439 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
9341374 CACAGATTCA
9341384 TCCATTATTAAAGCACCACCACGTTTCCT
1 TCCATTATTAAAGCACCACCACGTTTCCT
*
9341413 TCCATTATTAAAGCACCACCACTTTTC
1 TCCATTATTAAAGCACCACCACGTTTC
9341440 ATTAAATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.34, G:0.05, T:0.32
Consensus pattern (29 bp):
TCCATTATTAAAGCACCACCACGTTTCCT
Found at i:9342991 original size:106 final size:106
Alignment explanation
Indices: 9342806--9344044 Score: 1902
Period size: 106 Copynumber: 12.0 Consensus size: 106
9342796 TATTGTTCCA
* ** * * * *
9342806 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
* * * * *
9342871 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** ** *
9342912 AGTCCAATATCCTTCGCAGTGAAGTTGAAATTGGCTCTGAGTTTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
9342977 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
9343018 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
*
9343083 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
9343124 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
*
9343189 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
9343230 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
*
9343295 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTAGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
9343336 AGTCCAATATCCTTCGTTGTGAAGTTGAAA-----T-TG-----G-GAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
9343389 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
9343430 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
9343495 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
9343536 AGTCCAATATCCTTCGTTGTGAAGTTGAAA-----T-TG-----G-GAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
* *
9343589 TAGCGGTCCCTTGGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
9343630 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
9343695 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
9343736 AGTCCATTATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
9343801 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
9343842 AGTCCAATATCCTTCGTTGTGAAGTTGAAA-----T-TG-----G-GAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
9343895 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
9343936 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
* * *
9344001 CAGCGGTCCCTTGGTCGTGAAGTTGAACTTGTGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
9344042 AGT
1 AGT
9344045 GGCACGATAT
Statistics
Matches: 1052, Mismatches: 45, Indels: 72
0.90 0.04 0.06
Matches are distributed among these distances:
94 262 0.25
95 3 0.00
99 3 0.00
100 12 0.01
101 3 0.00
105 3 0.00
106 766 0.73
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:9343364 original size:43 final size:43
Alignment explanation
Indices: 9343303--9343458 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 43
9343293 ACCAGCGGTC
9343303 CCTTCGTCGTGAAGTTGAACTTGCGTAGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTAGTCTGGAGTCCAATAT
* * * * * * * * *
9343346 CCTTCGTTGTGAAGTTGAAATTGGGAAAT-TGTTTATTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTTGCGTAGTCTG--GAGT-CCAA-TA----T
*
9343396 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTAGTCTGGAGTCCAATAT
* *
9343440 CCTTCATTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
9343459 ATTGGCTCTG
Statistics
Matches: 82, Mismatches: 21, Indels: 20
0.67 0.17 0.16
Matches are distributed among these distances:
42 2 0.02
43 41 0.50
44 3 0.04
45 3 0.04
46 1 0.01
48 1 0.01
49 3 0.04
50 3 0.04
51 23 0.28
52 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTAGTCTGGAGTCCAATAT
Found at i:9343400 original size:200 final size:205
Alignment explanation
Indices: 9342806--9344044 Score: 1784
Period size: 200 Copynumber: 6.0 Consensus size: 205
9342796 TATTGTTCCA
* ** * * * * * *
9342806 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
* * * * * **
9342871 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTCGAGTCCAATATCCTTCGCAGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
9342936 TTGAAATTGGCTCTGAGTTTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGG--C-GA----GAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
9343001 GAACTTGCGTTGTCTGG
189 GAACTTGCGTTGTCTGG
* * *
9343018 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
*
9343083 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
9343148 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGG--C-G--A--GAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
9343213 GAACTTACGTTGTCTGG
189 GAACTTGCGTTGTCTGG
9343230 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
*
9343295 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTAGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
9343360 TTGAAATT-G-G-GA-AA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
131 TTGAAATTGGCGAGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
9343420 CGTTGTCTGG
196 CGTTGTCTGG
* *
9343430 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
9343495 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
9343560 TTGAAATT-G-G-GA-AA-TTGTTTATTGACAACTAGCGGTCCCTTGGTCGTGAAGTTGAACTTG
131 TTGAAATTGGCGAGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
9343620 CGTTGTCTGG
196 CGTTGTCTGG
9343630 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
*
9343695 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCATTATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
9343760 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGG--C-G--A--GAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
9343825 GAACTTGCGTTGTCTGG
189 GAACTTGCGTTGTCTGG
9343842 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATT-----G-T--TTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
9343895 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
9343960 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTGGTCGTGAAGTT
131 TTGAAATTGG--C-G--A--GAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* *
9344025 GAACTTGTGTTGTCTTG
189 GAACTTGCGTTGTCTGG
9344042 AGT
1 AGT
9344045 GGCACGATAT
Statistics
Matches: 978, Mismatches: 35, Indels: 40
0.93 0.03 0.04
Matches are distributed among these distances:
200 542 0.55
201 3 0.00
202 3 0.00
203 1 0.00
205 1 0.00
207 1 0.00
208 6 0.01
210 2 0.00
211 3 0.00
212 415 0.42
214 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (205 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCGAGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTGG
Found at i:9343518 original size:306 final size:295
Alignment explanation
Indices: 9342806--9344044 Score: 1733
Period size: 306 Copynumber: 4.0 Consensus size: 295
9342796 TATTGTTCCA
* ** * * * * *
9342806 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
* * * * * **
9342871 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTCGAGTCCAATATCCTTCGCAGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
9342936 TTGAAATTGGCTCTGAGTTTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTG-AA---------A--TTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
9343001 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
184 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT-G----G----T--GA
*
9343066 AATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
238 AATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
9343124 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
*
9343189 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
9343254 TTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGG----GAAATT-----G-T--TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
9343319 GAACTTGCGTAGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG-GAAATTGTTTATT
184 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTGAAATTGTTTATT
9343383 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
249 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
9343430 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
9343495 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
9343560 TTGAAATTGGGAAATTGTTTATTGACAACTAGCGGTCCCTTGGTCGTGAAGTTGAACTTGCGTTG
131 TTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
9343625 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTG
196 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG---TGAAATT-----G-T--TTATTG
9343690 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
250 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
9343736 AGTCCATTATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
9343801 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
9343866 TTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
131 TTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
9343931 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTG
196 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT-G----G----TGA-AA-TTGTTTATTG
* * *
9343996 ACAACCAGCGGTCCCTTGGTCGTGAAGTTGAACTTGTGTTGTCTTG
250 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
9344042 AGT
1 AGT
9344045 GGCACGATAT
Statistics
Matches: 856, Mismatches: 33, Indels: 76
0.89 0.03 0.08
Matches are distributed among these distances:
294 83 0.10
296 1 0.00
297 1 0.00
298 6 0.01
302 6 0.01
303 1 0.00
304 1 0.00
306 533 0.62
307 1 0.00
308 2 0.00
309 1 0.00
310 6 0.01
311 1 0.00
312 3 0.00
313 3 0.00
314 2 0.00
315 1 0.00
316 1 0.00
317 3 0.00
318 200 0.23
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (295 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTGAAATTGTTTATTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:9343564 original size:43 final size:43
Alignment explanation
Indices: 9343503--9343658 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
9343493 ACCAGCGGTC
9343503 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * * *
9343546 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGT-T-TATTGACAACTAGCGGT
1 CCTTCGTCGTGAAGTTGAACTTGCG---TTGTCTGGAGT-CCAA-TA----T
*
9343596 CCCTTGGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
9343640 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
9343659 ATTGGCTCTG
Statistics
Matches: 86, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
43 39 0.45
44 3 0.03
45 4 0.05
46 6 0.07
48 6 0.07
49 4 0.05
50 3 0.03
51 21 0.24
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.35
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:9343870 original size:43 final size:43
Alignment explanation
Indices: 9343809--9343964 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 43
9343799 ACCAGCGGTC
9343809 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * * ** ***
9343852 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTTGCG---TTG--TCTGGA-GTCCA-ATAT
9343902 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
9343946 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
9343965 ATTGGCTCTG
Statistics
Matches: 84, Mismatches: 21, Indels: 16
0.69 0.17 0.13
Matches are distributed among these distances:
43 40 0.48
44 1 0.01
45 3 0.04
46 7 0.08
48 7 0.08
49 3 0.04
50 1 0.01
51 22 0.26
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:9348372 original size:8 final size:7
Alignment explanation
Indices: 9348303--9348532 Score: 54
Period size: 7 Copynumber: 29.6 Consensus size: 7
9348293 CCTGAGAATG
9348303 AAAATAA
1 AAAATAA
9348310 AAAATAA
1 AAAATAA
*
9348317 TAATAAAACA
1 -AA-AATA-A
9348327 AAAATAA
1 AAAATAA
9348334 AAAATAA
1 AAAATAA
*
9348341 ATAAACAA
1 A-AAATAA
9348349 ATAAATAA
1 A-AAATAA
*
9348357 AGAA-AA
1 AAAATAA
9348363 AAAATCAA
1 AAAAT-AA
***
9348371 AAGGGAA
1 AAAATAA
9348378 AATAA-AA
1 AA-AATAA
9348385 TAAAATAA
1 -AAAATAA
*
9348393 AAATATAT
1 AAA-ATAA
*
9348401 TAAATAAA
1 AAAAT-AA
*
9348409 TCAAAAGAA
1 --AAAATAA
9348418 AAAATGTAAA
1 AAAA--T-AA
9348428 AAAATAA
1 AAAATAA
*
9348435 AAATTAA
1 AAAATAA
9348442 AAATGATAAA
1 AAA--AT-AA
9348452 ATAAATTAA
1 A-AAA-TAA
9348461 AAGGAA-AA
1 AA--AATAA
*
9348469 AAGATAA
1 AAAATAA
*
9348476 AGAA-AA
1 AAAATAA
9348482 AAAATAA
1 AAAATAA
9348489 ATAAATAA
1 A-AAATAA
9348497 ATAACATAA
1 A-AA-ATAA
*
9348506 TAAATAA
1 AAAATAA
9348513 ATAAATCAA
1 A-AAAT-AA
* *
9348522 AGAAGAA
1 AAAATAA
9348529 AAAA
1 AAAA
9348533 AAATAAAAGA
Statistics
Matches: 166, Mismatches: 28, Indels: 58
0.66 0.11 0.23
Matches are distributed among these distances:
6 11 0.07
7 62 0.37
8 56 0.34
9 19 0.11
10 16 0.10
11 2 0.01
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (7 bp):
AAAATAA
Found at i:9348397 original size:42 final size:41
Alignment explanation
Indices: 9348327--9348438 Score: 102
Period size: 42 Copynumber: 2.7 Consensus size: 41
9348317 TAATAAAACA
*
9348327 AAAATAAAAAATAAATAAACA-AATAAATAAAGAAAAAAAATC
1 AAAAGAAAAAATAAATAAA-ATAA-AAATAAAGAAAAAAAATC
** * ** *
9348369 AAAAGGGAAAATAAAATAAAATAAAAATATATTAAATAAATC
1 AAAAGAAAAAAT-AAATAAAATAAAAATAAAGAAAAAAAATC
9348411 AAAAGAAAAAATGTAAA-AAAATAAAAAT
1 AAAAGAAAAAA--TAAATAAAATAAAAAT
9348439 TAAAAATGAT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
42 44 0.77
43 12 0.21
44 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (41 bp):
AAAAGAAAAAATAAATAAAATAAAAATAAAGAAAAAAAATC
Found at i:9348405 original size:25 final size:25
Alignment explanation
Indices: 9348377--9348513 Score: 78
Period size: 25 Copynumber: 5.7 Consensus size: 25
9348367 TCAAAAGGGA
9348377 AAATAAAAT-AAAATAAAAATATATT
1 AAATAAAATAAAAATAAAAATATA-T
* * *
9348402 AAAT-AAATCAAAAGAAAAA-ATGT
1 AAATAAAATAAAAATAAAAATATAT
9348425 AAA-AAAATAAAAATTAAAAATGATA-
1 AAATAAAATAAAAA-TAAAAAT-ATAT
* ** *
9348450 AAATAAATTAAAAGGAAAAA-AGAT
1 AAATAAAATAAAAATAAAAATATAT
* *
9348474 AAA-GAAA-AAAAAT--AAATAAAT
1 AAATAAAATAAAAATAAAAATATAT
*
9348495 AAATAACATAATAAATAAA
1 AAATAAAATAA-AAATAAA
9348514 TAAATCAAAG
Statistics
Matches: 83, Mismatches: 16, Indels: 25
0.67 0.13 0.20
Matches are distributed among these distances:
20 3 0.04
21 6 0.07
22 6 0.07
23 18 0.22
24 18 0.22
25 21 0.25
26 11 0.13
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (25 bp):
AAATAAAATAAAAATAAAAATATAT
Found at i:9348432 original size:23 final size:24
Alignment explanation
Indices: 9348401--9348494 Score: 77
Period size: 23 Copynumber: 3.9 Consensus size: 24
9348391 AAAAATATAT
* *
9348401 TAAATAAATCAAAAGAAAAAATG-
1 TAAAAAAATAAAAAGAAAAAATGA
**
9348424 TAAAAAAATAAAAATTAAAAATGA
1 TAAAAAAATAAAAAGAAAAAATGA
*
9348448 TAAAATAAATTAAAAGGAAAAAA-GA
1 TAAAA-AAA-TAAAAAGAAAAAATGA
* *
9348473 TAAAGAAA-AAAAATAAATAAAT
1 TAAAAAAATAAAAAGAAA-AAAT
9348495 AAATAACATA
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
22 7 0.12
23 22 0.39
24 8 0.14
25 9 0.16
26 10 0.18
ACGTcount: A:0.73, C:0.01, G:0.07, T:0.18
Consensus pattern (24 bp):
TAAAAAAATAAAAAGAAAAAATGA
Found at i:9348432 original size:47 final size:48
Alignment explanation
Indices: 9348381--9348489 Score: 129
Period size: 48 Copynumber: 2.3 Consensus size: 48
9348371 AAGGGAAAAT
9348381 AAAATAAAATAAAAAT-ATATTAAATAAATCAAAA-GAAAAAATG-TAAA-
1 AAAATAAAATAAAAATGATA--AAATAAATCAAAAGGAAAAAA-GATAAAG
*
9348428 AAAATAAAAATTAAAAATGATAAAATAAATTAAAAGGAAAAAAGATAAAG
1 AAAAT-AAAA-TAAAAATGATAAAATAAATCAAAAGGAAAAAAGATAAAG
9348478 AAAA-AAAATAAA
1 AAAATAAAATAAA
9348490 TAAATAAATA
Statistics
Matches: 55, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
47 9 0.16
48 21 0.38
49 18 0.33
50 7 0.13
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.18
Consensus pattern (48 bp):
AAAATAAAATAAAAATGATAAAATAAATCAAAAGGAAAAAAGATAAAG
Found at i:9348454 original size:48 final size:49
Alignment explanation
Indices: 9348381--9348505 Score: 127
Period size: 48 Copynumber: 2.6 Consensus size: 49
9348371 AAGGGAAAAT
9348381 AAAAT-AAAA-TAAAAATATATTAAATAAATCAAAA-GAAAAAATG-TAAA
1 AAAATAAAAATTAAAAATATA-TAAATAAATCAAAAGGAAAAAA-GATAAA
*
9348428 AAAATAAAAATTAAAAATGATA-AAATAAATTAAAAGGAAAAAAGATAAA
1 AAAATAAAAATTAAAAAT-ATATAAATAAATCAAAAGGAAAAAAGATAAA
* * *
9348477 GAAA-AAAAATAAATAAATAAATAACATAA
1 AAAATAAAAATTAA-AAATATATAA-ATAA
9348506 TAAATAAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
47 5 0.08
48 27 0.41
49 27 0.41
50 7 0.11
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.19
Consensus pattern (49 bp):
AAAATAAAAATTAAAAATATATAAATAAATCAAAAGGAAAAAAGATAAA
Found at i:9348490 original size:4 final size:4
Alignment explanation
Indices: 9348483--9348518 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
9348473 TAAAGAAAAA
9348483 AAAT AAAT AAAT AAAT AACAT -AAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT
9348519 CAAAGAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 26 0.87
5 2 0.07
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:9348860 original size:29 final size:28
Alignment explanation
Indices: 9348818--9348873 Score: 103
Period size: 29 Copynumber: 2.0 Consensus size: 28
9348808 CACAGATTCA
9348818 TCCATTATTAAAGCACCACCACGTTTTCT
1 TCCATTATTAAAGCACCACCAC-TTTTCT
9348847 TCCATTATTAAAGCACCACCACTTTTC
1 TCCATTATTAAAGCACCACCACTTTTC
9348874 ATTAAATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.29, C:0.32, G:0.05, T:0.34
Consensus pattern (28 bp):
TCCATTATTAAAGCACCACCACTTTTCT
Found at i:9349996 original size:22 final size:22
Alignment explanation
Indices: 9349971--9350014 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9349961 AAATTTTAAC
*
9349971 AAAT-TATTATATGTATTTTTTA
1 AAATATATTA-ATGTATTATTTA
*
9349993 AAATATGTTAATGTATTATTTA
1 AAATATATTAATGTATTATTTA
9350015 TATGAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
AAATATATTAATGTATTATTTA
Found at i:9350030 original size:26 final size:23
Alignment explanation
Indices: 9349975--9350042 Score: 63
Period size: 26 Copynumber: 2.9 Consensus size: 23
9349965 TTTAACAAAT
9349975 TATTAT-ATGTATT-TTTTAAAA
1 TATTATAATGTATTATTTTAAAA
9349996 TATGT-TAATGTATTATTTATATGAAA
1 TAT-TATAATGTATTATTT-TA--AAA
9350022 TATTATAATAGT-TTATTTTAA
1 TATTATAAT-GTATTATTTTAA
9350043 CATAGATTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
21 4 0.10
22 8 0.21
23 4 0.10
24 2 0.05
25 3 0.08
26 16 0.41
27 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.54
Consensus pattern (23 bp):
TATTATAATGTATTATTTTAAAA
Found at i:9353674 original size:18 final size:18
Alignment explanation
Indices: 9353651--9353691 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
9353641 AGTAATGATG
9353651 ATGTCTCATCATAAGACA
1 ATGTCTCATCATAAGACA
*
9353669 ATGTCTCATCATAAGGCA
1 ATGTCTCATCATAAGACA
9353687 ATGTC
1 ATGTC
9353692 ATGTCACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (18 bp):
ATGTCTCATCATAAGACA
Found at i:9357106 original size:18 final size:18
Alignment explanation
Indices: 9357083--9357140 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
9357073 TTTTCATAAT
9357083 ATATAATAAATTATTAGA
1 ATATAATAAATTATTAGA
*
9357101 ATATAA-AAATATATT--T
1 ATATAATAAAT-TATTAGA
9357117 AT-TAATAAATT-TTAGA
1 ATATAATAAATTATTAGA
9357133 ATATAATA
1 ATATAATA
9357141 TAATATTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
14 2 0.06
15 4 0.12
16 8 0.24
17 9 0.27
18 10 0.30
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
ATATAATAAATTATTAGA
Found at i:9357147 original size:32 final size:32
Alignment explanation
Indices: 9357086--9357162 Score: 95
Period size: 31 Copynumber: 2.4 Consensus size: 32
9357076 TCATAATATA
9357086 TAATAAATTATTAGAATATAAAAATATATTTAT
1 TAATAAATTATTAGAATATAAAAATATA-TTAT
* *
9357119 TAATAAATT-TTAGAATAT-AATATAATATTCT
1 TAATAAATTATTAGAATATAAAAAT-ATATTAT
*
9357150 TAATAAATAATTA
1 TAATAAATTATTA
9357163 ATCTAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
31 15 0.38
32 15 0.38
33 9 0.23
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (32 bp):
TAATAAATTATTAGAATATAAAAATATATTAT
Found at i:9357169 original size:16 final size:17
Alignment explanation
Indices: 9357083--9357187 Score: 53
Period size: 16 Copynumber: 6.5 Consensus size: 17
9357073 TTTTCATAAT
* *
9357083 ATATAATAAATTATTAGA
1 ATATAATAAA-TAATATA
9357101 ATATAA-AAAT-ATAT-
1 ATATAATAAATAATATA
* ** *
9357115 TTATTAATAAATTTTAGA
1 ATA-TAATAAATAATATA
*
9357133 ATATAAT--ATAATATT
1 ATATAATAAATAATATA
*
9357148 CT-TAATAAATAAT-TA
1 ATATAATAAATAATATA
* *
9357163 ATCTAATTAATAATATA
1 ATATAATAAATAATATA
9357180 ATATAATA
1 ATATAATA
9357188 TTTTTTATTT
Statistics
Matches: 63, Mismatches: 16, Indels: 17
0.66 0.17 0.18
Matches are distributed among these distances:
14 6 0.10
15 12 0.19
16 20 0.32
17 17 0.27
18 8 0.13
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
ATATAATAAATAATATA
Found at i:9357186 original size:17 final size:17
Alignment explanation
Indices: 9357135--9357186 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
9357125 ATTTTAGAAT
**
9357135 ATAATATAATATTCTTA
1 ATAATATAATATAATTA
*
9357152 ATAAATAATTAATCTAATTA
1 AT-AAT-A-TAATATAATTA
9357172 ATAATATAATATAAT
1 ATAATATAATATAAT
9357187 ATTTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 10 0.36
18 4 0.14
19 4 0.14
20 10 0.36
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAATATAATATAATTA
Found at i:9357220 original size:28 final size:32
Alignment explanation
Indices: 9357166--9357226 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
9357156 ATAATTAATC
* *
9357166 TAATTAATAATATAATATAATATTTTTTATTT
1 TAATAAATAATATAATATAATATTTTTAATTT
9357198 TAATAAATAAT-TAATA-AA-A-TTTTAATTT
1 TAATAAATAATATAATATAATATTTTTAATTT
9357226 T
1 T
9357227 TTATAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 9 0.33
29 1 0.04
30 2 0.07
31 5 0.19
32 10 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TAATAAATAATATAATATAATATTTTTAATTT
Found at i:9357535 original size:26 final size:26
Alignment explanation
Indices: 9357506--9357557 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
9357496 TATTTCAATA
9357506 TTTTAA-AAATAATAATATTAAATTAT
1 TTTTAATAAATAATAATATT-AATTAT
*
9357532 TTTTAATAAATAATATTATTAATTAT
1 TTTTAATAAATAATAATATTAATTAT
9357558 ATTTGATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTAATAAATAATAATATTAATTAT
Found at i:9361672 original size:36 final size:35
Alignment explanation
Indices: 9361631--9361753 Score: 102
Period size: 36 Copynumber: 3.3 Consensus size: 35
9361621 AAGCGAGATG
9361631 AAATTTGTTTTAAGAAAAACAATCTCAAGTGAAAT
1 AAATTTGTTTTAAGAAAAACAATCTCAAGTGAAAT
** ** **
9361666 ATAATTTCTTGTTTCGAGTAAAAACTGTCTCAAGTGAGACG
1 A-AA--T-TTGTTTTAAG-AAAAACAATCTCAAGTGA-AAT
* *
9361707 AAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
1 AAATTTGTTTTAAGAAAAACAATCTCAAGTGAAAT
*
9361742 AAAATTTCTTTT
1 -AAATTTGTTTT
9361754 TTGAGTGAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 13
0.69 0.17 0.14
Matches are distributed among these distances:
35 1 0.02
36 27 0.42
37 8 0.12
38 2 0.03
39 8 0.12
40 17 0.26
41 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (35 bp):
AAATTTGTTTTAAGAAAAACAATCTCAAGTGAAAT
Found at i:9361815 original size:75 final size:76
Alignment explanation
Indices: 9361619--9361821 Score: 284
Period size: 75 Copynumber: 2.7 Consensus size: 76
9361609 GGAAACTTTA
* * *
9361619 TCAAGCGAGATGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAAATATAATTTCTTGTTTCGAG
1 TCAAGCGAGACGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTTGTTTCGAG
9361684 TAAAAACTGTC
66 TAAAAACTGTC
* * *
9361695 TCAAGTGAGACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTT-TTTTGAG
1 TCAAGCGAGACGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTTGTTTCGAG
* *
9361759 TGAAACCTGTC
66 TAAAAACTGTC
* * *
9361770 TCAAGCGAGACGAAACTTGTTTTGAGAAGAACAATCTCACA-TGAGATAAAAT
1 TCAAGCGAGACGAAATTTGTTTTAAGAAAAACAATCTCA-AGTGAGATAAAAT
9361822 GTTGAATCTG
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
75 60 0.53
76 53 0.47
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (76 bp):
TCAAGCGAGACGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTTGTTTCGAG
TAAAAACTGTC
Found at i:9368568 original size:6 final size:6
Alignment explanation
Indices: 9368549--9369813 Score: 2050
Period size: 6 Copynumber: 211.2 Consensus size: 6
9368539 AATTGTTTTC
9368549 ACATAT ACATTAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACA-TAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9368598 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * *
9368646 ACATAT ACATAT ACATAT ACATAT CCATAT CCATAT CCATAT CCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
9368694 CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
9368742 CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * *
9368790 CCATAT CCATAT CCATAT CCATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * *
9368838 ACATAT CCATAT ACATAT ACATAT ACATAT ACATAT CCATAT CCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
9368886 CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * * *
9368934 CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * * * * * *
9368982 CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369030 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369078 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369126 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369174 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369222 ACATAT ACATAT ACATAT ACATAT ACATAT AC--AT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369268 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369316 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369364 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369412 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369460 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369508 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369556 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369604 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369652 ACATAT ACATAT AC-TAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369699 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369747 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9369795 ACATAT ACATAT ACATAT A
1 ACATAT ACATAT ACATAT A
9369814 TTTTTTAAAA
Statistics
Matches: 1249, Mismatches: 6, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.00
5 5 0.00
6 1234 0.99
7 6 0.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:9375023 original size:9 final size:9
Alignment explanation
Indices: 9375009--9375078 Score: 79
Period size: 9 Copynumber: 7.7 Consensus size: 9
9374999 GTACTTCGCC
9375009 AAAAAAAG-
1 AAAAAAAGA
9375017 AAAAAAAGA
1 AAAAAAAGA
9375026 AAAAAAAGA
1 AAAAAAAGA
*
9375035 GAAAAAAGA
1 AAAAAAAGA
9375044 GAAAAAAAGA
1 -AAAAAAAGA
*
9375054 GAAAAAAGA
1 AAAAAAAGA
* *
9375063 AGAATAAATA
1 A-AAAAAAGA
9375073 AAAAAA
1 AAAAAA
9375079 GAATAAGGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
8 8 0.15
9 29 0.56
10 15 0.29
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:9375030 original size:10 final size:10
Alignment explanation
Indices: 9375009--9375066 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
9374999 GTACTTCGCC
9375009 AAAAAAAG--
1 AAAAAAAGAA
9375017 AAAAAAAG-A
1 AAAAAAAGAA
9375026 AAAAAAAGAGA
1 AAAAAAAGA-A
*
9375037 AAAAAGAGAA
1 AAAAAAAGAA
*
9375047 AAAAAGAGAA
1 AAAAAAAGAA
*
9375057 AAAAGAAGAA
1 AAAAAAAGAA
9375067 TAAATAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
8 8 0.18
9 8 0.18
10 19 0.43
11 9 0.20
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:9375040 original size:28 final size:27
Alignment explanation
Indices: 9375009--9375081 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 27
9374999 GTACTTCGCC
9375009 AAAAAAAGAAAAAAAGAAAAAAAAGAGA
1 AAAAAAAGAAAAAAAGAAAAAAAAGA-A
* *
9375037 AAAAAGAGAAAAAAAGAGAAAAAAGAA
1 AAAAAAAGAAAAAAAGAAAAAAAAGAA
* * *
9375064 GAATAAATAAAAAAAGAA
1 AAAAAAAGAAAAAAAGAA
9375082 TAAGGAAGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 14 0.37
28 24 0.63
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (27 bp):
AAAAAAAGAAAAAAAGAAAAAAAAGAA
Done.