Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 52 of 106
Found at i:9111383 original size:3 final size:3
Alignment explanation
Indices: 9111375--9111420 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
9111365 TGATAGCTTG
9111375 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9111421 CTTTTTCTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:9112410 original size:18 final size:16
Alignment explanation
Indices: 9112374--9112422 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 16
9112364 TTTTATTTCC
*
9112374 AAAAGAAAAAAAATAA
1 AAAATAAAAAAAATAA
9112390 AAAATAAAAATAAAGTAA
1 AAAATAAAAA-AAA-TAA
9112408 AAAATAATAAAAAAT
1 AAAATAA-AAAAAAT
9112423 GATGAATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 9 0.31
17 4 0.14
18 13 0.45
19 3 0.10
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAAAATAA
Found at i:9112499 original size:42 final size:42
Alignment explanation
Indices: 9112440--9112527 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
9112430 GTAGACACCT
* ** *
9112440 ATTTATGTCCACACCCGTTTGGGCCCATTTGTGT-TCGGGCCC
1 ATTTATGTCCAAACCCGTTCAGGCCCATCTGTGTCT-GGGCCC
*
9112482 ATTTATGTCTAAACCCGTTCAGGCCCATCTGTGTCTGGGCCC
1 ATTTATGTCCAAACCCGTTCAGGCCCATCTGTGTCTGGGCCC
9112524 ATTT
1 ATTT
9112528 TAGGGTGGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.15, C:0.30, G:0.22, T:0.34
Consensus pattern (42 bp):
ATTTATGTCCAAACCCGTTCAGGCCCATCTGTGTCTGGGCCC
Found at i:9118837 original size:7 final size:7
Alignment explanation
Indices: 9118827--9118865 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
9118817 TTAAATATAT
9118827 AAAAATC
1 AAAAATC
9118834 AAAAATC
1 AAAAATC
9118841 -AAAATC
1 AAAAATC
*
9118847 AAAAATA
1 AAAAATC
*
9118854 AAAAATT
1 AAAAATC
9118861 AAAAA
1 AAAAA
9118866 AAAACATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATC
Found at i:9118857 original size:13 final size:13
Alignment explanation
Indices: 9118825--9118857 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
9118815 TATTAAATAT
9118825 ATAAAAATCAAAA
1 ATAAAAATCAAAA
*
9118838 ATCAAAATCAAAA
1 ATAAAAATCAAAA
9118851 ATAAAAA
1 ATAAAAA
9118858 ATTAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAATCAAAA
Found at i:9119982 original size:62 final size:62
Alignment explanation
Indices: 9119902--9120020 Score: 141
Period size: 62 Copynumber: 1.9 Consensus size: 62
9119892 AATTATGACA
* * * * *
9119902 AGAGAGATTATAGCAATTTTGG-CAAATTATAATATGAAGGTTATTTTTGTAATTATAGTATG
1 AGAGAGATTATAACAATTTTGGAAAAATGATAATAAG-AGGGTATTTTTGTAATTATAGTATG
* * **
9119964 AGAGATATTATAATAATTTTGGAAAAATGATGGTAAGAGGGTATTTTTGTAATTATA
1 AGAGAGATTATAACAATTTTGGAAAAATGATAATAAGAGGGTATTTTTGTAATTATA
9120021 ATAGTAAGGG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
62 38 0.81
63 9 0.19
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (62 bp):
AGAGAGATTATAACAATTTTGGAAAAATGATAATAAGAGGGTATTTTTGTAATTATAGTATG
Found at i:9120467 original size:86 final size:85
Alignment explanation
Indices: 9120319--9120487 Score: 198
Period size: 86 Copynumber: 2.0 Consensus size: 85
9120309 AAAAAGGTGT
* * * * ** * * *
9120319 TTTTTGTATTTATGGTTATATGGTATTATGGTAATTTTAGCCAATTATAATATGTGAGGTATTTT
1 TTTTTGTAATTATAGTTAGAGGGTATTATAATAATTTTAGCAAATTATAATATGAGAGGTATTTA
*
9120384 CATAATTATGGTAAGAAGGCA
66 CACAATTATGGTAA-AAGGCA
9120405 TTTTTGTAATTATAGTTAGAGGGTATTATAATAATTTT-GACAAATTATAATATGA-AGAGTATT
1 TTTTTGTAATTATAGTTAGAGGGTATTATAATAATTTTAG-CAAATTATAATATGAGAG-GTATT
*
9120468 TACGCAATTATGGTAAAAGG
64 TACACAATTATGGTAAAAGG
9120488 GGTATTATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 7 0.10
86 63 0.90
ACGTcount: A:0.34, C:0.04, G:0.19, T:0.43
Consensus pattern (85 bp):
TTTTTGTAATTATAGTTAGAGGGTATTATAATAATTTTAGCAAATTATAATATGAGAGGTATTTA
CACAATTATGGTAAAAGGCA
Found at i:9120963 original size:26 final size:25
Alignment explanation
Indices: 9120933--9120989 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
9120923 AATTTTATCC
* *
9120933 AATTATAATATGA-GAGATATTTTCGT
1 AATTATAATA-AATGAG-TATTTTCAT
*
9120959 AATTACAATAAATGAGTATTTTCAT
1 AATTATAATAAATGAGTATTTTCAT
9120984 AATTAT
1 AATTAT
9120990 GATTAGAGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (25 bp):
AATTATAATAAATGAGTATTTTCAT
Found at i:9121954 original size:23 final size:23
Alignment explanation
Indices: 9121924--9121967 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
9121914 GTTTTATTTT
*
9121924 TAAAAAG-AAAAATAAAAAAGGG
1 TAAAAAGAAAAAACAAAAAAGGG
9121946 TAAACAAGAAAAAACAAAAAAG
1 TAAA-AAGAAAAAACAAAAAAG
9121968 AAAGTTAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 3 0.16
24 12 0.63
ACGTcount: A:0.75, C:0.05, G:0.14, T:0.07
Consensus pattern (23 bp):
TAAAAAGAAAAAACAAAAAAGGG
Found at i:9123821 original size:62 final size:63
Alignment explanation
Indices: 9123681--9124035 Score: 231
Period size: 62 Copynumber: 5.8 Consensus size: 63
9123671 ATTTAAAGCG
* * * * * **
9123681 TAAATAATCCTCTTTAAAAAAATATT--TGAGATTATTTAAGGTATTTTTGATAAAAAA-ATGTT
1 TAAATAATTCTCTTTAAAAAAA-ATTAAAGAGATTATTTAAAGCATTTTTAATAAAAAACA--CA
9123743 T
63 T
* *
9123744 TAAATAATACTCTTTAAAAAAAATTAAAGGGTATTATTTAAAGCATTTTTAAT-AAAAA-ACAT
1 TAAATAATTCTCTTTAAAAAAAATTAAAGAG-ATTATTTAAAGCATTTTTAATAAAAAACACAT
* * * * ** * *
9123806 TAAATAATTCCCTTTAAAAAATATT--AGAGATTATTTTATGCATTTTTTGTCAAAAACACTT
1 TAAATAATTCTCTTTAAAAAAAATTAAAGAGATTATTTAAAGCATTTTTAATAAAAAACACAT
* * * * * **
9123867 TAAATAATACTCTTT-TAAAAAATTGAAA-AGTATTATTTAAGGTATTTTTTAGCAAAAACTAC-
1 TAAATAATTCTCTTTAAAAAAAATT-AAAGAG-ATTATTTAAAGCATTTTTAATAAAAAAC-ACA
9123929 T
63 T
* * ** * *
9123930 TAAATAA-TCCCTTT-AAAAAAATT-AA-AGATTATTTAAGGTGTTTTTAATAAAAAATACCT
1 TAAATAATTCTCTTTAAAAAAAATTAAAGAGATTATTTAAAGCATTTTTAATAAAAAACACAT
*
9123989 TAAATAATT-TTTATTAAAAAAATATT--AGAGATTATTTAAAGCATTTT
1 TAAATAATTCTCT-TTAAAAAAA-ATTAAAGAGATTATTTAAAGCATTTT
9124036 ACTCTTCAAA
Statistics
Matches: 237, Mismatches: 39, Indels: 33
0.77 0.13 0.11
Matches are distributed among these distances:
58 2 0.01
59 49 0.21
60 22 0.09
61 23 0.10
62 60 0.25
63 53 0.22
64 10 0.04
65 18 0.08
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (63 bp):
TAAATAATTCTCTTTAAAAAAAATTAAAGAGATTATTTAAAGCATTTTTAATAAAAAACACAT
Found at i:9123983 original size:122 final size:121
Alignment explanation
Indices: 9123681--9124035 Score: 364
Period size: 122 Copynumber: 2.9 Consensus size: 121
9123671 ATTTAAAGCG
* * *
9123681 TAAATAATCCTCTTTAAAAAAATATTTGAGATTATTTAAGGTATTTTTGATAAAAAAATGTTTTA
1 TAAATAATCC-CTTT-AAAAAATATTAGAGATTATTTAAGGTATTTTTAATAAAAAAA--CTTTA
* *
9123746 AATAATACTCTTTAAAAAAAATTAAAGGGTATTATTTAAAGCATTTTTAATAAAAAACAT
62 AATAATACTCTTTAAAAAAAATTAAAGAGTATTATTTAAAGCATTTTTAAGAAAAAACAT
* * * ** *
9123806 TAAATAATTCCCTTTAAAAAATATTAGAGATTATTTTATGCATTTTTTGTCAAAAACACTTTAAA
1 TAAATAA-TCCCTTTAAAAAATATTAGAGATTATTTAAGGTATTTTTAAT-AAAAAAACTTTAAA
* * * * *
9123871 TAATACTCTTT-TAAAAAATTGAAA-AGTATTATTTAAGGTATTTTTTAGCAAAAACTACT
64 TAATACTCTTTAAAAAAAATT-AAAGAGTATTATTTAAAGCATTTTTAAGAAAAAAC-A-T
* * *
9123930 TAAATAATCCCTTTAAAAAA-ATTAAAGATTATTTAAGGTGTTTTTAATAAAAAATACCTTAAAT
1 TAAATAATCCCTTTAAAAAATATTAGAGATTATTTAAGGTATTTTTAATAAAAAA-ACTTTAAAT
* *
9123994 AAT-TTTTATTAAAAAAATATT--AGAG-ATTATTTAAAGCATTTT
65 AATACTCT-TTAAAAAAA-ATTAAAGAGTATTATTTAAAGCATTTT
9124036 ACTCTTCAAA
Statistics
Matches: 191, Mismatches: 29, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
121 23 0.12
122 69 0.36
123 39 0.20
124 40 0.21
125 17 0.09
126 3 0.02
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (121 bp):
TAAATAATCCCTTTAAAAAATATTAGAGATTATTTAAGGTATTTTTAATAAAAAAACTTTAAATA
ATACTCTTTAAAAAAAATTAAAGAGTATTATTTAAAGCATTTTTAAGAAAAAACAT
Found at i:9124141 original size:40 final size:40
Alignment explanation
Indices: 9124002--9124150 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 40
9123992 ATAATTTTTA
*
9124002 TTAAAAAAATATTAGAGATTATTTAAAGCATTTTACTC--T
1 TTAAAAAAATATTAGAGATTATTTAAGGCATTTT-CTCTTT
* * ** * *
9124041 TCAAAAAATTAAAAGATATTATTTAAGGCGTTTTCTCTTTTT
1 TTAAAAAAATATTAGAGATTATTTAAGGCATTTTCTC--TTT
*
9124083 TTAAAAAAAAAATTAGAGATTATTTAAGGCATTTTCTCTTT
1 TT-AAAAAAATATTAGAGATTATTTAAGGCATTTTCTCTTT
*
9124124 TTAAAAAAATGTTAGAGATTATTTAAG
1 TTAAAAAAATATTAGAGATTATTTAAG
9124151 ATATTTTTGA
Statistics
Matches: 89, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
38 3 0.03
39 27 0.30
40 23 0.26
41 5 0.06
42 2 0.02
43 29 0.33
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (40 bp):
TTAAAAAAATATTAGAGATTATTTAAGGCATTTTCTCTTT
Found at i:9124510 original size:26 final size:26
Alignment explanation
Indices: 9124475--9124525 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
9124465 TTAAAAAATA
* * *
9124475 AAAAATATTTAAAATATTTTTTAATC
1 AAAAACATTTAAAATAATCTTTAATC
*
9124501 AAAAACATTTTAAATAATCTTTAAT
1 AAAAACATTTAAAATAATCTTTAAT
9124526 ATTTTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (26 bp):
AAAAACATTTAAAATAATCTTTAATC
Found at i:9127626 original size:2 final size:2
Alignment explanation
Indices: 9127619--9127647 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9127609 GGTAAGCACC
9127619 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9127648 CAGGTGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9133237 original size:597 final size:598
Alignment explanation
Indices: 9132038--9134429 Score: 4193
Period size: 598 Copynumber: 4.0 Consensus size: 598
9132028 GCCTATTAAT
*
9132038 CCATCTTTTGCTAATCTATCCATTCTTTGTTGACTTATATGGCTAAGTCTAGCATGTCAAATA-T
1 CCATCTTTTGCTAATCTATCCATTCTTTGTTGACCTATATGGCTAAGTCTAGCATGTCAAATATT
*
9132102 ---ATCAATATTTGTATCAAAATCAATCACAAAAGAAAAGTTAGATTATTGTATGAAATAATATC
66 CACATCAATATTTGTATCAAAATCAATCACAAAAAAAAAGTTAGATTATTGTATGAAATAATATC
9132164 TAACATAATAAAATCATCTAACAAATATAGAGAGCCATAATAAGTTGTATCCAAATACAAACTCA
131 TAACATAATAAAATCATCTAACAAATATAGAGAGCCATAATAAGTTGTATCCAAATACAAACTCA
* * * * * * *
9132229 AATTAGTACTATTGAAATTCAAAACAAATTTTAAACTAAGAGAAACTATGATAGAAATCAAAATT
196 AATTAATATTGTTAAAATTCAAAACAAATTTTAAACTAAGAGGAACTGTAATAGAAATC-AAATT
*
9132294 TCATCAAATATTAAGAGTAAAAAGGACATCATGTAGGATAAGGGTTTTTCCACCAAGCATGTATA
260 TCATCAAATATTAAGAGTAAAAAAGACATCATGTAGGATAAGGGTTTTTCCACCAAGCATGTATA
* * * *
9132359 GCTTGCAGGCGCCAATTTCCCTTACTTTAATCCATGAATTATTCTTACGTAGATTCATTTTGTTC
325 GCTTACAGGTGCCAATTTCCCTTACTTCAATCCAAGAATTATTCTTACGTAGATTCATTTTGTTC
* * *
9132424 CACATGAAATTTGACAAAAATCCATGAACGCATTTATATCTTGTGCTACATGGTATGTGGTCCCT
390 CACATAAAATTTGACAAAAATCCATGAACGCGTTCATATCTTGTGCTACATGGTATGTGGTCCCT
9132489 AAGTCTATAATCCACAAAGGATATAATTCACTCATTATAATAGTACTAGAAACAAACAAAATACT
455 AAGTCTATAATCCACAAAGGATATAATTCACTCATTATAATAGTACTAGAAACAAACAAAATACT
* * * * *
9132554 TTTAGCATCAAGTAAAAATGCTTTAAGGGTTTGTACCTTTTTTGGCTCATTACATTTATGAATAA
520 TTTAGCATCAAGTAAAAATACTTTAAAGGTTTGTACCTTTTTTGGCTCGTTACATTTACGAACAA
*
9132619 AGTGACCCTTTTTG
585 AGTGACCCCTTTTG
* * *
9132633 CCATCTTTTGCTAATCTATCCATTCTTTGTTGACCTATATGGCTAAGTCTAACATGTTAAATATA
1 CCATCTTTTGCTAATCTATCCATTCTTTGTTGACCTATATGGCTAAGTCTAGCATGTCAAATATT
*
9132698 CACATCAATATTTGTATCAAAATCAATCACAAAAAAAAAGTTAGATTATTGTATGGAATAATATC
66 CACATCAATATTTGTATCAAAATCAATCACAAAAAAAAAGTTAGATTATTGTATGAAATAATATC
9132763 TAACATAATAAAATCATCTAACAAATATAGAGAGCCATAATAAGTTGTATCCAAATACAAACTCA
131 TAACATAATAAAATCATCTAACAAATATAGAGAGCCATAATAAGTTGTATCCAAATACAAACTCA
* * * * *
9132828 AATTAATATTGTTAAAATTTAAAA-AAAATTTAAACTAAGAGGAATTGTGATAAAAATCAAATTT
196 AATTAATATTGTTAAAATTCAAAACAAATTTTAAACTAAGAGGAACTGTAATAGAAATCAAATTT
*
9132892 CATCAAATATTAAGAGTAAAAAGGACATCATGTAGGATAAGGGTTTTTCCACCAAGCATGTATAG
261 CATCAAATATTAAGAGTAAAAAAGACATCATGTAGGATAAGGGTTTTTCCACCAAGCATGTATAG
* * *
9132957 CTTACAGGTGCCAATTTCCCTTACTTCAATCCATGAATTATTCTTATGTAGATTCATTTTATTCC
326 CTTACAGGTGCCAATTTCCCTTACTTCAATCCAAGAATTATTCTTACGTAGATTCATTTTGTTCC
* * *
9133022 ACATGAAATTTGACAAAAATCCATAAACGCGTTCATATCTTGTGCTACATGGTATGTGGTCCTTA
391 ACATAAAATTTGACAAAAATCCATGAACGCGTTCATATCTTGTGCTACATGGTATGTGGTCCCTA
9133087 AGTCTATAATCCACAAAGGATATAATTCACTCATTATAATAGTACTAGAAACAAACAAAATACTT
456 AGTCTATAATCCACAAAGGATATAATTCACTCATTATAATAGTACTAGAAACAAACAAAATACTT
* *
9133152 TTAGCATCAAGTAAAAATGCTTTAAAGGTTTGTACTTTTTTTGGCTCGTTACATTTACGAACAAA
521 TTAGCATCAAGTAAAAATACTTTAAAGGTTTGTACCTTTTTTGGCTCGTTACATTTACGAACAAA
9133217 GTGACCCCTTTTG
586 GTGACCCCTTTTG
*
9133230 CCATCTTTTGCTAATCTATCCATTCTTTGTTGACCTATATGGCCAAGTCTAGCATGTCAAATATT
1 CCATCTTTTGCTAATCTATCCATTCTTTGTTGACCTATATGGCTAAGTCTAGCATGTCAAATATT
*
9133295 CACATCAATATTTGTATCAAAATCAATCACAAAAAAAAAGTTAGATTATTGTATGGAATAATATC
66 CACATCAATATTTGTATCAAAATCAATCACAAAAAAAAAGTTAGATTATTGTATGAAATAATATC
*
9133360 TAACATAATAAAATCATTTAACAAATATAGAGAGCCATAATAAGTTGTATCCAAATACAAACTCA
131 TAACATAATAAAATCATCTAACAAATATAGAGAGCCATAATAAGTTGTATCCAAATACAAACTCA
9133425 AATTAATATTGTTAAAATTCAAAACAAATTTTAAACTAAGAGGAACTGTAATAGAAATCAAATTT
196 AATTAATATTGTTAAAATTCAAAACAAATTTTAAACTAAGAGGAACTGTAATAGAAATCAAATTT
9133490 CATCAAATATTAAGAGTAAAAAAGACATCATGTAGGATAAGGGTTTTTCCACCAAGCATGTATAG
261 CATCAAATATTAAGAGTAAAAAAGACATCATGTAGGATAAGGGTTTTTCCACCAAGCATGTATAG
*
9133555 CTTACAAGTGCCAATTTCCCTTACTTCAATCCAAGAATTATTCTTACGTAGATTCATTTTGTTCC
326 CTTACAGGTGCCAATTTCCCTTACTTCAATCCAAGAATTATTCTTACGTAGATTCATTTTGTTCC
*
9133620 ACATAAAATTTGATAAAAATCCATGAACGCGTTCATATCTTGTGCTACATGGTATGTGGTCCCTA
391 ACATAAAATTTGACAAAAATCCATGAACGCGTTCATATCTTGTGCTACATGGTATGTGGTCCCTA
* *
9133685 AGTCTATAATCCACGAAGGATATAATTCACTCATTATAATAGTACTAGAAACAAATAAAATACTT
456 AGTCTATAATCCACAAAGGATATAATTCACTCATTATAATAGTACTAGAAACAAACAAAATACTT
9133750 TTAGCATCAAGTAAAAATACTTTAAAGGTTTGTACCTTTTTTGGCTCGTTACATTTACGAACAAA
521 TTAGCATCAAGTAAAAATACTTTAAAGGTTTGTACCTTTTTTGGCTCGTTACATTTACGAACAAA
9133815 GTGACCCCTTTTG
586 GTGACCCCTTTTG
* *
9133828 CCATCTTTGGCTAATCTATCCATTCTTTGTTGAGCTATATGG-TCAAGTCTAGCATGTCAAATAT
1 CCATCTTTTGCTAATCTATCCATTCTTTGTTGACCTATATGGCT-AAGTCTAGCATGTCAAATAT
* *
9133892 TCACATCAATATTTGTATCAAAATCAATCACAAAAGAAAAGTTAAATTATTGTATGAAATAATAT
65 TCACATCAATATTTGTATCAAAATCAATCACAAAAAAAAAGTTAGATTATTGTATGAAATAATAT
* *
9133957 CTAACATAATAAAACCATCTAACAAATATAGAGAGTCATAATAAGTTGTATCCAAATACAAACTC
130 CTAACATAATAAAATCATCTAACAAATATAGAGAGCCATAATAAGTTGTATCCAAATACAAACTC
9134022 AAATTAATATTGTTAAAATTCAAAACAAATTTTAAACTAAGAGGAACTGTAATAGAAATCAAATT
195 AAATTAATATTGTTAAAATTCAAAACAAATTTTAAACTAAGAGGAACTGTAATAGAAATCAAATT
9134087 TCATCAAATATTAAGAGTAAAAAAGACATCATGTAGGATAAGGGTTTTTCCACCAAGCATGTATA
260 TCATCAAATATTAAGAGTAAAAAAGACATCATGTAGGATAAGGGTTTTTCCACCAAGCATGTATA
9134152 GCTTACAGGTGCCAATTTCCCTTACTTCAATCCAAGAATTATTCTTACGTAGATTCATTTTGTTC
325 GCTTACAGGTGCCAATTTCCCTTACTTCAATCCAAGAATTATTCTTACGTAGATTCATTTTGTTC
*
9134217 CATATAAAATTTGACAAAAATCCATGAACGCGTTCATATCTTGTGCTACATGGTATGTGGTCCCT
390 CACATAAAATTTGACAAAAATCCATGAACGCGTTCATATCTTGTGCTACATGGTATGTGGTCCCT
*
9134282 AAGTCTATAATCCACAAAGGATATAATTCACTCATTATAATAGTACTAGAAACAAATAAAATACT
455 AAGTCTATAATCCACAAAGGATATAATTCACTCATTATAATAGTACTAGAAACAAACAAAATACT
* * *
9134347 TTTAGCATCAAGTAAAAATACTTTAAGGGTTTGTGCTTTTTTTGGCTCGTTACATTTACGAACAA
520 TTTAGCATCAAGTAAAAATACTTTAAAGGTTTGTACCTTTTTTGGCTCGTTACATTTACGAACAA
9134412 AGTGACCCCTTTTG
585 AGTGACCCCTTTTG
9134426 CCAT
1 CCAT
9134430 AGTTAAAACA
Statistics
Matches: 1721, Mismatches: 70, Indels: 9
0.96 0.04 0.00
Matches are distributed among these distances:
595 60 0.03
597 542 0.31
598 975 0.57
599 144 0.08
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (598 bp):
CCATCTTTTGCTAATCTATCCATTCTTTGTTGACCTATATGGCTAAGTCTAGCATGTCAAATATT
CACATCAATATTTGTATCAAAATCAATCACAAAAAAAAAGTTAGATTATTGTATGAAATAATATC
TAACATAATAAAATCATCTAACAAATATAGAGAGCCATAATAAGTTGTATCCAAATACAAACTCA
AATTAATATTGTTAAAATTCAAAACAAATTTTAAACTAAGAGGAACTGTAATAGAAATCAAATTT
CATCAAATATTAAGAGTAAAAAAGACATCATGTAGGATAAGGGTTTTTCCACCAAGCATGTATAG
CTTACAGGTGCCAATTTCCCTTACTTCAATCCAAGAATTATTCTTACGTAGATTCATTTTGTTCC
ACATAAAATTTGACAAAAATCCATGAACGCGTTCATATCTTGTGCTACATGGTATGTGGTCCCTA
AGTCTATAATCCACAAAGGATATAATTCACTCATTATAATAGTACTAGAAACAAACAAAATACTT
TTAGCATCAAGTAAAAATACTTTAAAGGTTTGTACCTTTTTTGGCTCGTTACATTTACGAACAAA
GTGACCCCTTTTG
Found at i:9141534 original size:36 final size:36
Alignment explanation
Indices: 9141487--9141561 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
9141477 TCATCCATGA
9141487 TACTTTACAATAATAATAAAGATTAGTACCCCAAGT
1 TACTTTACAATAATAATAAAGATTAGTACCCCAAGT
*
9141523 TACTTTACAATAATAATAAAGATTAGTACCCTAAGT
1 TACTTTACAATAATAATAAAGATTAGTACCCCAAGT
9141559 TAC
1 TAC
9141562 CAAAGATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (36 bp):
TACTTTACAATAATAATAAAGATTAGTACCCCAAGT
Found at i:9142281 original size:7 final size:6
Alignment explanation
Indices: 9142243--9142299 Score: 64
Period size: 6 Copynumber: 9.3 Consensus size: 6
9142233 TAATATAATA
*
9142243 TTAAAT TTAAAT TTAAAT TT-AAT TAAAAAT TTAATAT TTAAAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT T-TAAAT TTAA-AT TT-AAAT TTAAAT
9142292 TTAAAT TT
1 TTAAAT TT
9142300 GATCAAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
5 9 0.20
6 21 0.48
7 12 0.27
8 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTAAAT
Found at i:9143309 original size:27 final size:27
Alignment explanation
Indices: 9143279--9143335 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
9143269 TATTATAATA
*
9143279 AATATTAAATATCTTAAATACCTTATC
1 AATATTAAATATCTTAAACACCTTATC
*
9143306 AATATTAAATATCTTGAACACCTTATC
1 AATATTAAATATCTTAAACACCTTATC
9143333 AAT
1 AAT
9143336 CTTATATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.39
Consensus pattern (27 bp):
AATATTAAATATCTTAAACACCTTATC
Found at i:9143559 original size:44 final size:44
Alignment explanation
Indices: 9143456--9143566 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
9143446 TGTGTCATCG
* * * * *
9143456 AATAAATATATTTTATTTTATTTTATGTATTTTTAATTTAAAAA
1 AATAAATATATTTAATTTGATTTGATGTATTTGTAATATAAAAA
* **
9143500 AATTAATATGCTTAATTTGATTTGAT-TCATTTGTAATATAAAAA
1 AATAAATATATTTAATTTGATTTGATGT-ATTTGTAATATAAAAA
*
9143544 AATAAATTTATTTAATTTAGATT
1 AATAAATATATTTAATTT-GATT
9143567 ATTTCATTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
43 1 0.02
44 48 0.91
45 4 0.08
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (44 bp):
AATAAATATATTTAATTTGATTTGATGTATTTGTAATATAAAAA
Found at i:9146079 original size:18 final size:17
Alignment explanation
Indices: 9146044--9146087 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
9146034 CAATCGTAAG
9146044 TTTTTTATTTTATCTTA
1 TTTTTTATTTTATCTTA
* *
9146061 TTTTTTGTTTTGATTTTA
1 TTTTTTATTTT-ATCTTA
9146079 TTTTATTAT
1 TTTT-TTAT
9146088 CATTTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 10 0.45
18 9 0.41
19 3 0.14
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTTATTTTATCTTA
Found at i:9146136 original size:35 final size:34
Alignment explanation
Indices: 9146068--9146147 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
9146058 TTATTTTTTG
* *
9146068 TTTTGATTTTATTTTATTATCATTTAATTTTTAA
1 TTTTTATTTTATTTTATTATCATTTAATCTTTAA
* *
9146102 TTTTTAATTTT-TTTTATTATTATTTTCATCTTTAA
1 TTTTT-ATTTTATTTTATTATCA-TTTAATCTTTAA
*
9146137 TTATTATTTTA
1 TTTTTATTTTA
9146148 CTCTTTACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
34 19 0.50
35 19 0.50
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (34 bp):
TTTTTATTTTATTTTATTATCATTTAATCTTTAA
Found at i:9147113 original size:15 final size:16
Alignment explanation
Indices: 9147086--9147117 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
9147076 AATTTGAGAT
9147086 TATTTTCTTTCTTTCC
1 TATTTTCTTTCTTTCC
9147102 TATTTT-TTTCTTTCC
1 TATTTTCTTTCTTTCC
9147117 T
1 T
9147118 TTGCTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTCTTTCTTTCC
Found at i:9149312 original size:16 final size:16
Alignment explanation
Indices: 9149290--9149368 Score: 88
Period size: 16 Copynumber: 4.9 Consensus size: 16
9149280 AAAACTCCTA
9149290 AAAATCCAAAATCCCT
1 AAAATCCAAAATCCCT
* *
9149306 TAAATCC-AAACCCCAT
1 AAAATCCAAAATCCC-T
*
9149322 AAAATTCAAAATCCCT
1 AAAATCCAAAATCCCT
* *
9149338 AAAATCCAAAACCCCC
1 AAAATCCAAAATCCCT
9149354 AAAAGTCCAAAATCC
1 AAAA-TCCAAAATCC
9149369 TCGAAATCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
15 6 0.12
16 30 0.59
17 15 0.29
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.16
Consensus pattern (16 bp):
AAAATCCAAAATCCCT
Found at i:9149325 original size:33 final size:33
Alignment explanation
Indices: 9149288--9149394 Score: 103
Period size: 33 Copynumber: 3.3 Consensus size: 33
9149278 CTAAAACTCC
*
9149288 TAAAAATCCAAAATCCCTTAAATCCAAACCCCA
1 TAAAAATCCAAAATCCCTAAAATCCAAACCCCA
*
9149321 T-AAAATTCAAAATCCCTAAAATCCAAAACCCC-
1 TAAAAATCCAAAATCCCTAAAATCC-AAACCCCA
* * * **
9149353 CAAAAGTCCAAAAT-CCTCGAAATCCAAAGTCCA
1 TAAAAATCCAAAATCCCT-AAAATCCAAACCCCA
*
9149386 AAAAAATCC
1 TAAAAATCC
9149395 TAAGGACACG
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
32 29 0.48
33 31 0.52
ACGTcount: A:0.50, C:0.31, G:0.03, T:0.17
Consensus pattern (33 bp):
TAAAAATCCAAAATCCCTAAAATCCAAACCCCA
Found at i:9149332 original size:32 final size:33
Alignment explanation
Indices: 9149290--9149368 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 33
9149280 AAAACTCCTA
*
9149290 AAAATCCAAAATCCCTTAAATCC-AAACCCCAT
1 AAAATCCAAAATCCCTAAAATCCAAAACCCCAT
*
9149322 AAAATTCAAAATCCCTAAAATCCAAAACCCCCA-
1 AAAATCCAAAATCCCTAAAATCCAAAA-CCCCAT
*
9149355 AAAGTCCAAAATCC
1 AAAATCCAAAATCC
9149369 TCGAAATCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
32 21 0.51
33 15 0.37
34 5 0.12
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.16
Consensus pattern (33 bp):
AAAATCCAAAATCCCTAAAATCCAAAACCCCAT
Found at i:9149380 original size:16 final size:16
Alignment explanation
Indices: 9149290--9149380 Score: 67
Period size: 16 Copynumber: 5.6 Consensus size: 16
9149280 AAAACTCCTA
* *
9149290 AAAATCCAAAATCCCT
1 AAAATCCAAAACCCCC
* *
9149306 TAAATCC-AAACCCCAT
1 AAAATCCAAAACCCC-C
* * *
9149322 AAAATTCAAAATCCCT
1 AAAATCCAAAACCCCC
9149338 AAAATCCAAAACCCCC
1 AAAATCCAAAACCCCC
* *
9149354 AAAAGTCCAAAATCCTC
1 AAAA-TCCAAAACCCCC
*
9149371 GAAATCCAAA
1 AAAATCCAAA
9149381 GTCCAAAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
15 6 0.10
16 36 0.59
17 19 0.31
ACGTcount: A:0.49, C:0.32, G:0.02, T:0.16
Consensus pattern (16 bp):
AAAATCCAAAACCCCC
Found at i:9152629 original size:11 final size:11
Alignment explanation
Indices: 9152615--9152642 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9152605 AAAAATAATG
9152615 AAAAAAAAAGA
1 AAAAAAAAAGA
9152626 AAAAAAAAAGA
1 AAAAAAAAAGA
9152637 AAAAAA
1 AAAAAA
9152643 TGAAGGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:9153820 original size:61 final size:61
Alignment explanation
Indices: 9153704--9153848 Score: 150
Period size: 61 Copynumber: 2.4 Consensus size: 61
9153694 TAGGACATGC
* * * * *
9153704 ATCACTCATTTTTTATCTTGACTTAGTTCAAATTATTTTTTTGGCCTGTGATTTGATCTCA
1 ATCACTCATTTTTTATCTTGACTTAATCCAAATCATTTTTTTGACCTGAGATTTGATCTCA
* * * **
9153765 ATTACTCATTTTTTATCTTGACTTAATCCATATCATTTTTTTTA-CTCGCAG-TTTGATCTTG
1 ATCACTCATTTTTTATCTTGACTTAATCCAAATCATTTTTTTGACCT-G-AGATTTGATCTCA
* *
9153826 ATCATTTATTTTTTATCTTGACT
1 ATCACTCATTTTTTATCTTGACT
9153849 CGATCCTAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 2 0.03
61 66 0.96
62 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (61 bp):
ATCACTCATTTTTTATCTTGACTTAATCCAAATCATTTTTTTGACCTGAGATTTGATCTCA
Found at i:9153997 original size:66 final size:67
Alignment explanation
Indices: 9153872--9154053 Score: 201
Period size: 66 Copynumber: 2.7 Consensus size: 67
9153862 TTCATCCCAG
* * * * **
9153872 TCATTCATTTTCGATTTTGACTTGATCTTGGTCATTTCATCTTTTTTA-TTAACGGTTTGATCTC
1 TCATTCATCTTCGATCTTGACTCGATCTTGGTCATTTCATCTTTTTGACTTAACAATTTGATCTC
9153936 GA
66 GA
* * *
9153938 TTATTCATCTTCGATCTTGACTCGATCTTGGTCATTTCATCTTTTTGACTT-GCAATTTGATCTT
1 TCATTCATCTTCGATCTTGACTCGATCTTGGTCATTTCATCTTTTTGACTTAACAATTTGATCTC
9154002 GA
66 GA
* ** *
9154004 TCATTCATCATT-AATCTCAACTCGATCTTGGTCGTGTT-ATCTTTTTGACT
1 TCATTCATC-TTCGATCTTGACTCGATCTTGGTCAT-TTCATCTTTTTGACT
9154054 CTCGATTTGA
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
66 93 0.94
67 6 0.06
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (67 bp):
TCATTCATCTTCGATCTTGACTCGATCTTGGTCATTTCATCTTTTTGACTTAACAATTTGATCTC
GA
Found at i:9154158 original size:112 final size:112
Alignment explanation
Indices: 9153957--9154166 Score: 257
Period size: 112 Copynumber: 1.9 Consensus size: 112
9153947 TTCGATCTTG
* ** * * *
9153957 ACTCGATCTTGGTCATTTCATCTTTTTGACTTGCAATTTGATCTTGATCATTCATCATTAATCTC
1 ACTCGATCTTGGTCATTTCATCTTTATGACTCACAATTGGATCCTGATCATTCATCATTAACCTC
* *
9154022 AACTCGATCTTGGTCGTGTTATCTTTTTGACTCTCGATTTGACCTTA
66 AACTCGATCCTGGTCATGTTATCTTTTTGACTCTCGATTTGACCTTA
* *
9154069 ACTCGATCTTGGTCTTTTCATCTTTATGACTCACGATTGGATCCCTG-TCATTCATC-TTCAACC
1 ACTCGATCTTGGTCATTTCATCTTTATGACTCACAATTGGAT-CCTGATCATTCATCATT-AACC
*
9154132 TCAACT-TATTCCTGGTCAT-TTCATCTTTTTGACTC
64 TCAACTCGA-TCCTGGTCATGTT-ATCTTTTTGACTC
9154167 GTGATTCGAT
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
111 5 0.06
112 75 0.90
113 3 0.04
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.44
Consensus pattern (112 bp):
ACTCGATCTTGGTCATTTCATCTTTATGACTCACAATTGGATCCTGATCATTCATCATTAACCTC
AACTCGATCCTGGTCATGTTATCTTTTTGACTCTCGATTTGACCTTA
Found at i:9154186 original size:66 final size:66
Alignment explanation
Indices: 9154063--9154232 Score: 162
Period size: 66 Copynumber: 2.6 Consensus size: 66
9154053 TCTCGATTTG
* * * * * * **
9154063 ACCTTAACTCGATCTTGGTCTTTTCATCTTTATGACTCACGATTGGATCCCTGTCATTCATCTTC
1 ACCTCAACTCAATCCTGGTCATTTCATCTTTTTGACTCACGATTCGATCCCAATCATTCATCTTC
9154128 A
66 A
* * ** * *
9154129 ACCTCAACTTATTCCTGGTCATTTCATCTTTTTGACTCGTGATTCGATCTCAATCATTCATCTTT
1 ACCTCAACTCAATCCTGGTCATTTCATCTTTTTGACTCACGATTCGATCCCAATCATTCATCTTC
*
9154194 G
66 A
** * *
9154195 ACCTTGACTCAATCTTGGTTATTTCATCTTTTTG-CTCA
1 ACCTCAACTCAATCCTGGTCATTTCATCTTTTTGACTCA
9154233 GTTCAATTGG
Statistics
Matches: 82, Mismatches: 22, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
65 3 0.04
66 79 0.96
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.44
Consensus pattern (66 bp):
ACCTCAACTCAATCCTGGTCATTTCATCTTTTTGACTCACGATTCGATCCCAATCATTCATCTTC
A
Found at i:9154573 original size:17 final size:17
Alignment explanation
Indices: 9154523--9154575 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
9154513 GTCTTTCATT
**
9154523 TTTGCGAATCTAAAAGT
1 TTTGCGAATCTAAAACC
* * *
9154540 TGTTGCAAACCTGAAACC
1 T-TTGCGAATCTAAAACC
9154558 TTTGCGAATCTAAAACC
1 TTTGCGAATCTAAAACC
9154575 T
1 T
9154576 CTGTGAAACT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (17 bp):
TTTGCGAATCTAAAACC
Found at i:9154651 original size:94 final size:88
Alignment explanation
Indices: 9154514--9154893 Score: 328
Period size: 86 Copynumber: 4.3 Consensus size: 88
9154504 CATTTGTAAG
* * * ** * *
9154514 TCTTTCATTTTTGCGAATCTAAAAGTTGTTGCAAACCTGAAACCTTTGCGAATCTAAAACCTCTG
1 TCTTTCATTCTTGCGAATTTGAAAGTCCTTGCAAACCTAAAACCTTTGCGAATCTAGAACCTCTG
*
9154579 TGAAACTTGAAATATTGAGAATTTGAGAA
66 CGAAACTTGAAAT-TT----ATTT-AGAA
* * **
9154608 TCTTTCATTCTTGCGAATTTGAAAGTCCTTGCGAACCTAAAACCTTTGTGAATCTAGAATTTCTG
1 TCTTTCATTCTTGCGAATTTGAAAGTCCTTGCAAACCTAAAACCTTTGCGAATCTAGAACCTCTG
9154673 CGAAACTTGAAATTT-TTT-GAA
66 CGAAACTTGAAATTTATTTAGAA
* * * * ** **
9154694 T-ATTCTATTCTTGCGAATTTGATAGTCCTGGCAAACCTGAAATTTTTATGAATCTAGAACCTCT
1 TCTTTC-ATTCTTGCGAATTTGAAAGTCCTTGCAAACCTAAAACCTTTGCGAATCTAGAACCTCT
*
9154758 GCGAAACTTGAAATCTTA--CA-AA
65 GCGAAACTTGAAAT-TTATTTAGAA
* * * * * *
9154780 TCTTTCAGTT-TTACGAATTTGAAAGTCCTTACGAACCTAAAACCTTTGCAAATCTACAACCTTT
1 TCTTTCA-TTCTTGCGAATTTGAAAGTCCTTGCAAACCTAAAACCTTTGCGAATCTAGAACCTCT
* **
9154844 GTGAAACTTGAAACCT-TTT-GAA
65 GCGAAACTTGAAATTTATTTAGAA
* *
9154866 TCTTCCATTCTTGCAAATTTGAAAGTCC
1 TCTTTCATTCTTGCGAATTTGAAAGTCC
9154894 CAGTGAACCT
Statistics
Matches: 232, Mismatches: 44, Indels: 28
0.76 0.14 0.09
Matches are distributed among these distances:
85 6 0.03
86 148 0.64
87 7 0.03
88 3 0.01
93 2 0.01
94 66 0.28
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (88 bp):
TCTTTCATTCTTGCGAATTTGAAAGTCCTTGCAAACCTAAAACCTTTGCGAATCTAGAACCTCTG
CGAAACTTGAAATTTATTTAGAA
Found at i:9154852 original size:172 final size:172
Alignment explanation
Indices: 9154606--9154927 Score: 450
Period size: 172 Copynumber: 1.9 Consensus size: 172
9154596 AGAATTTGAG
* * ** * *
9154606 AATCTTTCATTCTTGCGAATTTGAAAGTCCTTGCGAACCTAAAACCTTTGTGAATCTAGAATTTC
1 AATCTTTCATTCTTACGAATTTGAAAGTCCTTACGAACCTAAAACCTTTGCAAATCTACAACTTC
** * * * **
9154671 TGCGAAACTTGAAATTTTTTGAATATTCTATTCTTGCGAATTTGATAGTCCTGGCAAACCTGAAA
66 TGCGAAACTTGAAACCTTTTGAATATTCCATTCTTGCAAATTTGAAAGTCCCAGCAAACCTGAAA
*
9154736 TTTTTATGAATCTAGAACCTCTGCGAAACTTGAAATCTTACA
131 CTTTTATGAATCTAGAACCTCTGCGAAACTTGAAATCTTACA
9154778 AATCTTTCAGTT-TTACGAATTTGAAAGTCCTTACGAACCTAAAACCTTTGCAAATCTACAACCT
1 AATCTTTCA-TTCTTACGAATTTGAAAGTCCTTACGAACCTAAAACCTTTGCAAATCTACAA-CT
* * **
9154842 T-TGTGAAACTTGAAACCTTTTGAATCTTCCATTCTTGCAAATTTGAAAGTCCCAGTGAACCTGA
64 TCTGCGAAACTTGAAACCTTTTGAATATTCCATTCTTGCAAATTTGAAAGTCCCAGCAAACCTGA
9154906 AACTTTTATGAATCTAGAACCT
129 AACTTTTATGAATCTAGAACCT
9154928 TTATGATTTT
Statistics
Matches: 130, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
172 126 0.97
173 4 0.03
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (172 bp):
AATCTTTCATTCTTACGAATTTGAAAGTCCTTACGAACCTAAAACCTTTGCAAATCTACAACTTC
TGCGAAACTTGAAACCTTTTGAATATTCCATTCTTGCAAATTTGAAAGTCCCAGCAAACCTGAAA
CTTTTATGAATCTAGAACCTCTGCGAAACTTGAAATCTTACA
Found at i:9154928 original size:86 final size:86
Alignment explanation
Indices: 9154605--9154929 Score: 332
Period size: 86 Copynumber: 3.8 Consensus size: 86
9154595 GAGAATTTGA
* * * *
9154605 GAATCTTTCATTCTTGCGAATTTGAAAGTCCTTGCGAACCTAAAACCTTTGTGAATCTAGAA-TT
1 GAATCTTCCATTCTTGCGAATTTGAAAGTCCTAGCGAACCTAAAACCTTTATGAATCTAGAACCT
*
9154669 TCTGCGAAACTTGAAATTTTTT
66 T-TGCGAAACTTGAAATCTTTT
* * * * * * **
9154691 GAATATTCTATTCTTGCGAATTTGATAGTCCTGGCAAACCTGAAATTTTTATGAATCTAGAACCT
1 GAATCTTCCATTCTTGCGAATTTGAAAGTCCTAGCGAACCTAAAACCTTTATGAATCTAGAACCT
* **
9154756 CTGCGAAACTTGAAATCTTAC
66 TTGCGAAACTTGAAATCTTTT
* * * *** *
9154777 AAATCTTTCAGTT-TTACGAATTTGAAAGTCCTTA-CGAACCTAAAACCTTTGCAAATCTACAAC
1 GAATCTTCCA-TTCTTGCGAATTTGAAAGTCC-TAGCGAACCTAAAACCTTTATGAATCTAGAAC
* *
9154840 CTTTGTGAAACTTGAAACCTTTT
64 CTTTGCGAAACTTGAAATCTTTT
* * * * *
9154863 GAATCTTCCATTCTTGCAAATTTGAAAGTCCCAGTGAACCTGAAACTTTTATGAATCTAGAACCT
1 GAATCTTCCATTCTTGCGAATTTGAAAGTCCTAGCGAACCTAAAACCTTTATGAATCTAGAACCT
9154928 TT
66 TT
9154930 ATGATTTTGT
Statistics
Matches: 187, Mismatches: 47, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
85 3 0.02
86 180 0.96
87 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (86 bp):
GAATCTTCCATTCTTGCGAATTTGAAAGTCCTAGCGAACCTAAAACCTTTATGAATCTAGAACCT
TTGCGAAACTTGAAATCTTTT
Found at i:9155986 original size:51 final size:51
Alignment explanation
Indices: 9155926--9156023 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
9155916 TCAACCATAA
* *
9155926 TTGAAAGATTTTTTGGATTTACTTCTAAAATCAATTCACATTAAAATGATG
1 TTGAAAGATTTTTTGGATTTAATTCCAAAATCAATTCACATTAAAATGATG
* *
9155977 TTGAGAGATTTTTTGGATTTAATTCCATAATCAATTCACATTAAAAT
1 TTGAAAGATTTTTTGGATTTAATTCCAAAATCAATTCACATTAAAAT
9156024 TAAATCAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (51 bp):
TTGAAAGATTTTTTGGATTTAATTCCAAAATCAATTCACATTAAAATGATG
Found at i:9156445 original size:17 final size:18
Alignment explanation
Indices: 9156402--9156435 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9156392 CATGATGCTG
9156402 AAACTAAAACTCAAACTC
1 AAACTAAAACTCAAACTC
9156420 AAACTAAAA-TCAAACT
1 AAACTAAAACTCAAACT
9156436 GAAATCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.18
Consensus pattern (18 bp):
AAACTAAAACTCAAACTC
Found at i:9156915 original size:25 final size:24
Alignment explanation
Indices: 9156881--9156931 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
9156871 CTATTTTATG
9156881 TTTTAATTTAATTTAATTTAACTTT
1 TTTTAATTTAATTTAATTTAA-TTT
* * *
9156906 TTTTATTTTATTTTCATTTAATTT
1 TTTTAATTTAATTTAATTTAATTT
9156930 TT
1 TT
9156932 AGATTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTAATTTAATTTAATTTAATTT
Found at i:9159433 original size:43 final size:43
Alignment explanation
Indices: 9159363--9159469 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 43
9159353 TCATCTAATA
* * * * *
9159363 AATATATTTTATTTTATTTTATGCATTTTTAATTTAAAAAATT
1 AATATATTTAATTTGATTTGATGCATTTGTAATGTAAAAAATT
* * *
9159406 AATATGTTTAATTTGATTTGATTCATTTGTAATGTAAAAAAAGTA
1 AATATATTTAATTTGATTTGATGCATTTGTAATGT-AAAAAA-TT
*
9159451 AATTTATTTAATTTAGATT
1 AATATATTTAATTT-GATT
9159470 ATTTCATTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
43 28 0.55
44 6 0.12
45 13 0.25
46 4 0.08
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (43 bp):
AATATATTTAATTTGATTTGATGCATTTGTAATGTAAAAAATT
Found at i:9162728 original size:12 final size:12
Alignment explanation
Indices: 9162711--9162736 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9162701 TAATACAATA
9162711 AATAAATAAAAT
1 AATAAATAAAAT
9162723 AATAAATAAAAT
1 AATAAATAAAAT
9162735 AA
1 AA
9162737 AAAGTAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAAATAAAAT
Found at i:9162728 original size:16 final size:17
Alignment explanation
Indices: 9162707--9162738 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9162697 TATCTAATAC
9162707 AATAAAT-AAATAAAAT
1 AATAAATAAAATAAAAT
9162723 AATAAATAAAATAAAA
1 AATAAATAAAATAAAA
9162739 AGTAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAATAAAATAAAAT
Found at i:9164130 original size:2 final size:2
Alignment explanation
Indices: 9164123--9164149 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9164113 ATAAGATGAA
9164123 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9164150 ATTCAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9165143 original size:14 final size:13
Alignment explanation
Indices: 9165101--9165153 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
9165091 TATCTATTGT
* *
9165101 TAAAATAAATAAA
1 TAAAAAAAAGAAA
* *
9165114 TAAATAAAATAAA
1 TAAAAAAAAGAAA
9165127 TAAAAAAAGAGAAA
1 TAAAAAAA-AGAAA
9165141 TAATAAAAAAGAA
1 TAA-AAAAAAGAA
9165154 TTTGGTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
13 18 0.53
14 11 0.32
15 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (13 bp):
TAAAAAAAAGAAA
Found at i:9169295 original size:17 final size:17
Alignment explanation
Indices: 9169273--9169305 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9169263 GCAATAATTT
*
9169273 ATTATAATTTTTTTTCA
1 ATTATAACTTTTTTTCA
9169290 ATTATAACTTTTTTTC
1 ATTATAACTTTTTTTC
9169306 TATAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTATAACTTTTTTTCA
Found at i:9171925 original size:14 final size:14
Alignment explanation
Indices: 9171901--9171934 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9171891 AGTTGTTAGA
9171901 AAAAAATAAATAAT
1 AAAAAATAAATAAT
9171915 AGAAAAA-AAATAAT
1 A-AAAAATAAATAAT
9171929 AAAAAA
1 AAAAAA
9171935 GAATTTTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 9 0.47
15 5 0.26
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAAATAAATAAT
Found at i:9176371 original size:54 final size:53
Alignment explanation
Indices: 9176264--9176435 Score: 181
Period size: 53 Copynumber: 3.2 Consensus size: 53
9176254 AACAATTTAT
* * * *
9176264 ATAATTTTAAAAAATAAGAAAAAATTGAAATATTAAAATTTCCTTAAACAAAA
1 ATAATTTCAAAAAATAAGAAAAAGTTGAAATATCAAAATTTTCTTAAACAAAA
**
9176317 ATAATTTCAAAAAATGAAG-AAAAGTTG-AATATCAATTTTTTCTTAAACCAAAA
1 ATAATTTCAAAAAAT-AAGAAAAAGTTGAAATATCAAAATTTTCTTAAA-CAAAA
* * *
9176370 A-AA-ATCAAAAGATTAAGAAGAAAGTTGAAATATCAAAATTTTCTTAAAACGAAA
1 ATAATTTCAAAA-AATAAGAA-AAAGTTGAAATATCAAAATTTTCTT-AAACAAAA
*
9176424 GTAATTTCAAAA
1 ATAATTTCAAAA
9176436 TTTTAAGGAA
Statistics
Matches: 97, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
51 9 0.09
52 21 0.22
53 34 0.35
54 22 0.23
55 5 0.05
56 6 0.06
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.29
Consensus pattern (53 bp):
ATAATTTCAAAAAATAAGAAAAAGTTGAAATATCAAAATTTTCTTAAACAAAA
Found at i:9176452 original size:24 final size:24
Alignment explanation
Indices: 9176425--9176472 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
9176415 AAAACGAAAG
*
9176425 TAATTTCAAAATTTTAAGGAAAAA
1 TAATTTCAAAATTTTAAGAAAAAA
*
9176449 TAATTTCCAAATTTTAAGAAAAAA
1 TAATTTCAAAATTTTAAGAAAAAA
9176473 GTTGAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.33
Consensus pattern (24 bp):
TAATTTCAAAATTTTAAGAAAAAA
Found at i:9176541 original size:78 final size:78
Alignment explanation
Indices: 9176382--9176526 Score: 186
Period size: 78 Copynumber: 1.8 Consensus size: 78
9176372 AATCAAAAGA
* * *
9176382 TTAAGAAGAAAGTTGAAATATCAAAATTTTCTTAAAACGAAAGTAATTTCAAAATTTTAAGGAAA
1 TTAAGAAAAAAGTTGAAATATC-AAATTTTCTTAAAACAAAAATAATTTCAAAATTTTAA-GAAA
*
9176447 AATAATTTCCAAATT
64 AATAATGTCCAAATT
* * *
9176462 TTAAGAAAAAAGTTGAAATATC-AATTTTCTTCAAATAAAAATAATTTCAAGATTTTGAA-AAAA
1 TTAAGAAAAAAGTTGAAATATCAAATTTTCTTAAAACAAAAATAATTTCAAAATTTT-AAGAAAA
9176525 AT
65 AT
9176527 TGAAATGTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
77 6 0.10
78 29 0.50
79 2 0.03
80 21 0.36
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (78 bp):
TTAAGAAAAAAGTTGAAATATCAAATTTTCTTAAAACAAAAATAATTTCAAAATTTTAAGAAAAA
TAATGTCCAAATT
Found at i:9180091 original size:107 final size:106
Alignment explanation
Indices: 9179890--9180099 Score: 273
Period size: 107 Copynumber: 2.0 Consensus size: 106
9179880 AAGCATTCAC
* * *
9179890 ATTTTAAAATTTTGAGAAAAAAGGTTAAAATATCATTTTTCCTTTAAACAAAAATAATTGCAAAA
1 ATTTTAAAATTTTGAGAAAAAAGGCTAAAATATCAATTTTCCTTTAAACAAAAAGAATTGCAAAA
*
9179955 TTTTGAGGAAAAGTTGAAATATTAATTTTTCCTTAAAAATATA
66 TTTTGAGAAAAAGTTGAAATATTAATTTTT--TTAAAAATATA
* * * * *
9179998 ATTTTAAAATTTTGAGAAAAAA-GCTGAAATATCAAATTTT-CTTTAAATAACAAGAATTTCAAG
1 ATTTTAAAATTTTGAGAAAAAAGGCTAAAATATC-AATTTTCCTTTAAACAAAAAGAATTGCAAA
*
9180061 CTTTTG-GAAAAAGTTGAAATATTAATTTTTTTTAAAAAT
65 ATTTTGAGAAAAAGTTGAAATATTAA-TTTTTTTAAAAAT
9180100 TAAGTTCTGT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
105 8 0.09
106 18 0.20
107 37 0.41
108 27 0.30
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.39
Consensus pattern (106 bp):
ATTTTAAAATTTTGAGAAAAAAGGCTAAAATATCAATTTTCCTTTAAACAAAAAGAATTGCAAAA
TTTTGAGAAAAAGTTGAAATATTAATTTTTTTAAAAATATA
Found at i:9187650 original size:10 final size:10
Alignment explanation
Indices: 9187637--9187665 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9187627 TCTCTCTCTC
9187637 TCTTTATTTT
1 TCTTTATTTT
9187647 TCTTTATTTT
1 TCTTTATTTT
9187657 TCTTT-TTTT
1 TCTTTATTTT
9187666 AGCATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (10 bp):
TCTTTATTTT
Found at i:9188728 original size:10 final size:9
Alignment explanation
Indices: 9188702--9188727 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9188692 GCAAAAGGGC
9188702 AAAAAAAAG
1 AAAAAAAAG
9188711 AAAAAAAAG
1 AAAAAAAAG
9188720 AAAAAAAA
1 AAAAAAAA
9188728 AACATCTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:9194449 original size:5 final size:5
Alignment explanation
Indices: 9194439--9194484 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
9194429 TCTTTAGGTC
9194439 TTTAT TTTAT TTTAGT TTTATT TTTAT TTTA- TTTA- TTTA- TTTAT TT
1 TTTAT TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TT
9194485 CTAAAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
4 12 0.32
5 16 0.42
6 10 0.26
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:9194459 original size:11 final size:10
Alignment explanation
Indices: 9194439--9194484 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
9194429 TCTTTAGGTC
9194439 TTTATTTTAT
1 TTTATTTTAT
9194449 TTTAGTTTTATT
1 TTTA-TTTTA-T
9194461 TTTATTTTA-
1 TTTATTTTAT
9194470 TTTA-TTTA-
1 TTTATTTTAT
9194478 TTTATTT
1 TTTATTT
9194485 CTAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 8 0.24
9 6 0.18
10 4 0.12
11 10 0.30
12 5 0.15
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:9194481 original size:17 final size:17
Alignment explanation
Indices: 9194439--9194484 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
9194429 TCTTTAGGTC
9194439 TTTATTTTATTTTAGTTT
1 TTTA-TTTATTTTAGTTT
9194457 TATT-TTTATTTTA-TTT
1 T-TTATTTATTTTAGTTT
9194473 ATTTATTTATTT
1 -TTTATTTATTT
9194485 CTAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.20
17 17 0.68
18 1 0.04
19 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTATTTATTTTAGTTT
Found at i:9194501 original size:3 final size:3
Alignment explanation
Indices: 9194495--9194539 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
9194485 CTAAAAAAAT
* *
9194495 TAA TAA TAA TAA T-A TAA -AA TAA CAA TAA TAA TAA TAA TAA CAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9194540 TCATAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:9194551 original size:12 final size:12
Alignment explanation
Indices: 9194536--9194585 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
9194526 TAATAATAAC
*
9194536 AATATCATAAAA
1 AATAACATAAAA
9194548 AATAACATAAAA
1 AATAACATAAAA
*
9194560 AATAATAT-AAA
1 AATAACATAAAA
9194571 AATCAACATAAAA
1 AAT-AACATAAAA
9194584 AA
1 AA
9194586 ATCAAAATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 6 0.18
12 22 0.67
13 5 0.15
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (12 bp):
AATAACATAAAA
Found at i:9194563 original size:24 final size:26
Alignment explanation
Indices: 9194536--9194589 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
9194526 TAATAATAAC
9194536 AATATCATA-AAAAAT-AACATAAAA
1 AATATCATATAAAAATCAACATAAAA
9194560 AATA--ATATAAAAATCAACATAAAA
1 AATATCATATAAAAATCAACATAAAA
9194584 AA-ATCA
1 AATATCA
9194590 AAATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 3 0.12
23 7 0.27
24 15 0.58
25 1 0.04
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.20
Consensus pattern (26 bp):
AATATCATATAAAAATCAACATAAAA
Found at i:9194564 original size:36 final size:35
Alignment explanation
Indices: 9194486--9194585 Score: 91
Period size: 36 Copynumber: 2.9 Consensus size: 35
9194476 TATTTATTTC
* * *
9194486 TAAAAAA-ATTAATAATAATA-ATATAAAATAACAA
1 TAAAAAATAATAATAAAAATACATAAAAAATAAC-A
* *
9194520 T-AATAATAATAATAACAATATCATAAAAAATAACA
1 TAAAAAATAATAATAAAAATA-CATAAAAAATAACA
9194555 TAAAAAATAAT-ATAAAAATCAACATAAAAAA
1 TAAAAAATAATAATAAAAAT--ACATAAAAAA
9194586 ATCAAAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
33 4 0.07
34 12 0.22
35 9 0.17
36 28 0.52
37 1 0.02
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (35 bp):
TAAAAAATAATAATAAAAATACATAAAAAATAACA
Found at i:9194594 original size:20 final size:19
Alignment explanation
Indices: 9194566--9194624 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
9194556 AAAAAATAAT
9194566 ATAAAAATCAACATAAAAAA
1 ATAAAAATCAA-ATAAAAAA
*
9194586 ATCAAAATCAAA-ACAAAAA
1 ATAAAAATCAAATA-AAAAA
*
9194605 ATAAAAATAAAAATAAAAAA
1 ATAAAAAT-CAAATAAAAAA
9194625 CTTGCGAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.03
19 13 0.39
20 18 0.55
21 1 0.03
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (19 bp):
ATAAAAATCAAATAAAAAA
Found at i:9194605 original size:19 final size:19
Alignment explanation
Indices: 9194581--9194624 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
9194571 AATCAACATA
* *
9194581 AAAAAATCAAAATCAAAAC
1 AAAAAATAAAAATAAAAAC
*
9194600 AAAAAATAAAAATAAAAAT
1 AAAAAATAAAAATAAAAAC
9194619 AAAAAA
1 AAAAAA
9194625 CTTGCGAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAATAAAAATAAAAAC
Found at i:9194624 original size:7 final size:6
Alignment explanation
Indices: 9194489--9194623 Score: 55
Period size: 6 Copynumber: 21.8 Consensus size: 6
9194479 TTATTTCTAA
* * * * * *
9194489 AAAAATT AATAAT AATAAT ATAAAAT AACAAT AATAAT AATAAT AACAAT
1 AAAAA-T AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT
** * *
9194539 -ATCAT AAAAA- ATAACAT AAAAA- ATAATAT AAAAAT CAACATAA- AAAAAT
1 AAAAAT AAAAAT A-AAAAT AAAAAT A-AAAAT AAAAAT -AA-A-AAT AAAAAT
*
9194588 CAAAAT CAAAACA- AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT -AAAA-AT AAAAAT AAAAAT AAAAAT AAAAA
9194624 ACTTGCGAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
5 8 0.08
6 70 0.70
7 18 0.18
8 2 0.02
9 2 0.02
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:9195418 original size:3 final size:3
Alignment explanation
Indices: 9195410--9195447 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9195400 TGTTTTAAAG
9195410 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9195448 AAAAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9195644 original size:39 final size:39
Alignment explanation
Indices: 9195601--9195918 Score: 289
Period size: 40 Copynumber: 8.1 Consensus size: 39
9195591 TTTTGAGAGA
* * *
9195601 AAATTTGAAAAGCTCCTCTAAACAGAGGCTACAAACTTT
1 AAATTTGAAAAGCTCCTCTAACCAAAGGCAACAAACTTT
** * * * *
9195640 AAATTCAAAAAGCTCATTTAACCAAAGTCAATAAACTTT
1 AAATTTGAAAAGCTCCTCTAACCAAAGGCAACAAACTTT
* * *
9195679 AAATTTCAAAAAGCTCCTTTAACCAAAGGCAACAAACTCT
1 AAATTT-GAAAAGCTCCTCTAACCAAAGGCAACAAACTTT
* * * * * *
9195719 AAATTTCAAAGGCTTCTCTGACTAGAGGCAACAAACTTT
1 AAATTTGAAAAGCTCCTCTAACCAAAGGCAACAAACTTT
* * *
9195758 AAA-TTCAAAAGCTCATTTAACCAAAGGCAACAAACTTT
1 AAATTTGAAAAGCTCCTCTAACCAAAGGCAACAAACTTT
* * * *
9195796 AAATATTG-AAAGCTCCTCTGACTAGAGGCAACGAACTTT
1 AAAT-TTGAAAAGCTCCTCTAACCAAAGGCAACAAACTTT
* * * *
9195835 AAATGTTTAAAGGCTCTTTTAACCAAAGGCAACAAACTTT
1 AAAT-TTGAAAAGCTCCTCTAACCAAAGGCAACAAACTTT
* * **
9195875 AAATATTGAAAGGCTCCTCTAACCAAAGGTAATGAACTTT
1 AAAT-TTGAAAAGCTCCTCTAACCAAAGGCAACAAACTTT
9195915 AAAT
1 AAAT
9195919 GGCTCATTTA
Statistics
Matches: 223, Mismatches: 52, Indels: 7
0.79 0.18 0.02
Matches are distributed among these distances:
38 31 0.14
39 94 0.42
40 98 0.44
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (39 bp):
AAATTTGAAAAGCTCCTCTAACCAAAGGCAACAAACTTT
Found at i:9195716 original size:79 final size:78
Alignment explanation
Indices: 9195601--9195918 Score: 307
Period size: 79 Copynumber: 4.1 Consensus size: 78
9195591 TTTTGAGAGA
* * * * * * *
9195601 AAATTTGAAAAGCTCCTCTAAACAGAGGCTACAAACTTTAAAT-TCAAAAAGCTCATTTAACCAA
1 AAATTTCAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATATC-AAAAGCTCCTCTAACCAA
* *
9195665 AGTCAATAAACTTT
65 AGGCAACAAACTTT
* * * * * * *
9195679 AAATTTCAAAAAGCTCCTTTAACCAAAGGCAACAAACTCTAAATTTCAAAGGCTTCTCTGACTAG
1 AAATTTC-AAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATATCAAAAGCTCCTCTAACCAA
9195744 AGGCAACAAACTTT
65 AGGCAACAAACTTT
* ** * * *
9195758 AAA-TTCAAAAGCTCATTTAACCAAAGGCAACAAACTTTAAATATTGAAAGCTCCTCTGACTAGA
1 AAATTTCAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATATCAAAAGCTCCTCTAACCAAA
*
9195822 GGCAACGAACTTT
66 GGCAACAAACTTT
* * * * *
9195835 AAATGTTTAAAGGCTCTTTTAACCAAAGGCAACAAACTTTAAATATTGAAAGGCTCCTCTAACCA
1 AAAT-TTCAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATA-TCAAAAGCTCCTCTAACCA
* **
9195900 AAGGTAATGAACTTT
64 AAGGCAACAAACTTT
9195915 AAAT
1 AAAT
9195919 GGCTCATTTA
Statistics
Matches: 201, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
77 66 0.33
78 9 0.04
79 94 0.47
80 32 0.16
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (78 bp):
AAATTTCAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATATCAAAAGCTCCTCTAACCAAA
GGCAACAAACTTT
Found at i:9195789 original size:77 final size:79
Alignment explanation
Indices: 9195672--9195894 Score: 335
Period size: 77 Copynumber: 2.8 Consensus size: 79
9195662 CAAAGTCAAT
* * * *
9195672 AAACTTTAAATTTCAAAAAGCTCCTTTAACCAAAGGCAACAAACTCTAAAT-TTCAAAGGCTTCT
1 AAACTTTAAATTTC-AAAAGCTCATTTAACCAAAGGCAACAAACTTTAAATATTGAAAGGCTCCT
9195736 CTGACTAGAGGCAAC
65 CTGACTAGAGGCAAC
9195751 AAACTTTAAA-TTCAAAAGCTCATTTAACCAAAGGCAACAAACTTTAAATATTGAAA-GCTCCTC
1 AAACTTTAAATTTCAAAAGCTCATTTAACCAAAGGCAACAAACTTTAAATATTGAAAGGCTCCTC
9195814 TGACTAGAGGCAAC
66 TGACTAGAGGCAAC
* * * *
9195828 GAACTTTAAATGTTTAAAGGCTCTTTTAACCAAAGGCAACAAACTTTAAATATTGAAAGGCTCCT
1 AAACTTTAAAT-TTCAAAAGCTCATTTAACCAAAGGCAACAAACTTTAAATATTGAAAGGCTCCT
9195893 CT
65 CT
9195895 AACCAAAGGT
Statistics
Matches: 132, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
77 63 0.48
78 8 0.06
79 53 0.40
80 8 0.06
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (79 bp):
AAACTTTAAATTTCAAAAGCTCATTTAACCAAAGGCAACAAACTTTAAATATTGAAAGGCTCCTC
TGACTAGAGGCAAC
Found at i:9196155 original size:41 final size:40
Alignment explanation
Indices: 9196045--9196168 Score: 160
Period size: 39 Copynumber: 3.1 Consensus size: 40
9196035 TCTTAAAATT
* * *
9196045 AAAAAGCTCCTCTGATCAGAGGCAATGAACTTTAAATTTA
1 AAAAAGCTCCTCTGACCAGAGGCAATAAACTTTAAATTCA
* * *
9196085 AAAGA-CTCCTCTGACCAGAAGCAATAAACTTTAAACGTCA
1 AAAAAGCTCCTCTGACCAGAGGCAATAAACTTTAAA-TTCA
* *
9196125 AAAAAGCTCCTATGACCAGAGGCAACAAACTTTAAATTCA
1 AAAAAGCTCCTCTGACCAGAGGCAATAAACTTTAAATTCA
9196165 AAAA
1 AAAA
9196169 TCTAAGAGGC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
39 27 0.38
40 17 0.24
41 27 0.38
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.22
Consensus pattern (40 bp):
AAAAAGCTCCTCTGACCAGAGGCAATAAACTTTAAATTCA
Found at i:9209469 original size:11 final size:12
Alignment explanation
Indices: 9209453--9209482 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9209443 AAATCAAAGA
9209453 TTTTTTTTAACT
1 TTTTTTTTAACT
*
9209465 TTTTTTTTGACT
1 TTTTTTTTAACT
9209477 TTTTTT
1 TTTTTT
9209483 CCTTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTTTTTAACT
Found at i:9209506 original size:3 final size:3
Alignment explanation
Indices: 9209498--9209535 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9209488 TGTTTTAAAG
9209498 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9209536 AAGAAAATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9218398 original size:50 final size:49
Alignment explanation
Indices: 9218324--9218467 Score: 148
Period size: 50 Copynumber: 2.8 Consensus size: 49
9218314 ATGAAAGCAT
* * *
9218324 TTTCT-TAAAAAATAGTATAATTATTAAAAGGAATATGTAATGACAATG
1 TTTCTCTAAAAAATAGTAAAATTATTAAAAGGAATAAGTAATAACAATG
*
9218372 TTTCTCTAAAGAAATAG-AAAAGTTATTAAAAGGAATAAGTAATAAGAATG
1 TTTCTCTAAA-AAATAGTAAAA-TTATTAAAAGGAATAAGTAATAACAATG
* * *
9218422 TTTCTCAAAAAAAAAAAAAGAGAAAATTATTAAAAGGAATAAGTAA
1 TTTCTC----TAAAAAATAG-TAAAATTATTAAAAGGAATAAGTAA
9218468 AGGAGTGTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 37 0.46
53 5 0.06
54 23 0.28
55 4 0.05
ACGTcount: A:0.54, C:0.04, G:0.13, T:0.28
Consensus pattern (49 bp):
TTTCTCTAAAAAATAGTAAAATTATTAAAAGGAATAAGTAATAACAATG
Found at i:9218462 original size:54 final size:50
Alignment explanation
Indices: 9218342--9218467 Score: 153
Period size: 50 Copynumber: 2.4 Consensus size: 50
9218332 AAAATAGTAT
* * * * *
9218342 AATTATTAAAAGGAATATGTAATGACAATGTTTCTCTAAAGAAATAGAAA
1 AATTATTAAAAGGAATAAGTAATAACAATGTTTCTCAAAAAAAAAAGAAA
* *
9218392 AGTTATTAAAAGGAATAAGTAATAAGAATGTTTCTCAAAAAAAAAAAAAGAGAA
1 AATTATTAAAAGGAATAAGTAATAACAATGTTTCTC---AAAAAAAAAAGA-AA
9218446 AATTATTAAAAGGAATAAGTAA
1 AATTATTAAAAGGAATAAGTAA
9218468 AGGAGTGTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 32 0.50
53 9 0.14
54 23 0.36
ACGTcount: A:0.56, C:0.04, G:0.14, T:0.26
Consensus pattern (50 bp):
AATTATTAAAAGGAATAAGTAATAACAATGTTTCTCAAAAAAAAAAGAAA
Found at i:9218642 original size:49 final size:48
Alignment explanation
Indices: 9218483--9218682 Score: 199
Period size: 48 Copynumber: 4.1 Consensus size: 48
9218473 TGTTTTCTTG
* * *
9218483 GAAAATTTATCAAAAGGAATAGATGATGAAAGAGTTTCCTTAAAAATAA
1 GAAAA-TTATTAAAAGGAATAGATGATGAAAGTGTTTCCTAAAAAATAA
* * * *
9218532 GAAAATTATTAAAAGGACTCGAT-AAGAAAGTGTTTTCCTAAAAAATAG
1 GAAAATTATTAAAAGGAATAGATGATGAAAGTG-TTTCCTAAAAAATAA
* * *
9218580 GAAAATTAGTAAAAGGAATAGGTGATGAGAGTGTTTCCATAAAAAATAA
1 GAAAATTATTAAAAGGAATAGATGATGAAAGTGTTTCC-TAAAAAATAA
* * * * *
9218629 GAATATTATTAAAAGGAACAGGTAAAAGAATA-T-TTTCCTAAAAAATAA
1 GAAAATTATTAAAAGGAATAGAT-GATGAA-AGTGTTTCCTAAAAAATAA
9218677 GAAAAT
1 GAAAAT
9218683 CAATGATAAA
Statistics
Matches: 125, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
47 7 0.06
48 67 0.54
49 46 0.37
50 4 0.03
51 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (48 bp):
GAAAATTATTAAAAGGAATAGATGATGAAAGTGTTTCCTAAAAAATAA
Found at i:9218665 original size:97 final size:96
Alignment explanation
Indices: 9218494--9218682 Score: 247
Period size: 97 Copynumber: 2.0 Consensus size: 96
9218484 AAAATTTATC
* *
9218494 AAAAGGAATAGATGATGAAAGAGTTTCCTTAAAAATAAGAAAATTATTAAAAGGACTCGATAAGA
1 AAAAGGAATAGATGATGAAAGAGTTTCCTAAAAAATAAGAAAATTATTAAAAGGACTAGATAAGA
* * *
9218559 AAGTGTTTTCCTAAAAAATAGGAAAATTAGT
66 AAATATTTTCCTAAAAAATAAGAAAATTAGT
* * * * *
9218590 AAAAGGAATAGGTGATGAGAGTGTTTCCATAAAAAATAAGAATATTATTAAAAGGAAC-AGGTAA
1 AAAAGGAATAGATGATGAAAGAGTTTCC-TAAAAAATAAGAAAATTATTAAAAGG-ACTAGATAA
9218654 -AAGAATATTTTCCTAAAAAATAAGAAAAT
64 GAA-AATATTTTCCTAAAAAATAAGAAAAT
9218683 CAATGATAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
96 27 0.34
97 51 0.64
98 2 0.03
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.25
Consensus pattern (96 bp):
AAAAGGAATAGATGATGAAAGAGTTTCCTAAAAAATAAGAAAATTATTAAAAGGACTAGATAAGA
AAATATTTTCCTAAAAAATAAGAAAATTAGT
Found at i:9218713 original size:39 final size:39
Alignment explanation
Indices: 9218668--9218799 Score: 125
Period size: 37 Copynumber: 3.5 Consensus size: 39
9218658 ATATTTTCCT
*
9218668 AAAAAATAAGAAAATCAA-TGATAAAAGTGTTTCCCTTA
1 AAAAAATAAGAAAATCAAGTAATAAAAGTGTTTCCCTTA
* * * *
9218706 AGAAAAATAGGAGAA-CAAGTAATACAAGTGCTTCCC-TA
1 A-AAAAATAAGAAAATCAAGTAATAAAAGTGTTTCCCTTA
* *
9218744 AAAAAAT-AGAAAAAT-AAGTAATAAGAGTGTTT-CTTTA
1 AAAAAATAAG-AAAATCAAGTAATAAAAGTGTTTCCCTTA
*
9218781 AAAAAATAAGAGAAT-AAGT
1 AAAAAATAAGAAAATCAAGT
9218800 TATATAAATA
Statistics
Matches: 76, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
36 2 0.03
37 40 0.53
38 9 0.12
39 25 0.33
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.23
Consensus pattern (39 bp):
AAAAAATAAGAAAATCAAGTAATAAAAGTGTTTCCCTTA
Found at i:9218872 original size:36 final size:36
Alignment explanation
Indices: 9218695--9218877 Score: 124
Period size: 37 Copynumber: 5.0 Consensus size: 36
9218685 ATGATAAAAG
* * * *
9218695 TGTTTCCCTTAAGAAAAATAGGAGAACAAGTAATACAA
1 TGTTTCCTTTAA-AAAAATAAGAGAATAAGTAAT-GAA
* * * *
9218733 GTGCTTCC-CTAAAAAAAT-AGAAAAATAAGTAATAAGAG
1 -TGTTTCCTTTAAAAAAATAAG-AGAATAAGTAAT--GAA
*
9218771 TGTTT-CTTTAAAAAAATAAGAGAATAAGTTATATAAA
1 TGTTTCCTTTAAAAAAATAAGAGAATAAG-TA-ATGAA
* * * *
9218808 TATTT-CTTGAAAAAAA-AAAAGAACAAGTAATGAA
1 TGTTTCCTTTAAAAAAATAAGAGAATAAGTAATGAA
* *
9218842 TGTTTCCTTTAAGAAAATATGAGAATAAGTAATGAA
1 TGTTTCCTTTAAAAAAATAAGAGAATAAGTAATGAA
9218878 GATATTTTCT
Statistics
Matches: 113, Mismatches: 23, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
34 8 0.07
35 11 0.10
36 26 0.23
37 51 0.45
38 9 0.08
39 8 0.07
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (36 bp):
TGTTTCCTTTAAAAAAATAAGAGAATAAGTAATGAA
Found at i:9218902 original size:35 final size:36
Alignment explanation
Indices: 9218855--9219010 Score: 122
Period size: 36 Copynumber: 4.3 Consensus size: 36
9218845 TTCCTTTAAG
9218855 AAAATA-TGAGAATAAGTAATGAAGATATTT-TCTTA
1 AAAATAGT-AGAATAAGTAATGAAGATATTTCTCTTA
* * *
9218890 AAAATAGTAGAATAAGTAATAAAGATATTTCCCTAA
1 AAAATAGTAGAATAAGTAATGAAGATATTTCTCTTA
* * * * * *
9218926 AAAATAGGAGAACAATTAAT-AGGAGTGTTTCTTTTA
1 AAAATAGTAGAATAAGTAATGAAGA-TATTTCTCTTA
* * * *
9218962 AAAATAGAAGAATAAGTCATG-AGAATACTTCTCTAA
1 AAAATAGTAGAATAAGTAATGAAG-ATATTTCTCTTA
*
9218998 AAGAATAGGAGAA
1 AA-AATAGTAGAA
9219011 CAAATATTGT
Statistics
Matches: 94, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
35 30 0.32
36 54 0.57
37 10 0.11
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.28
Consensus pattern (36 bp):
AAAATAGTAGAATAAGTAATGAAGATATTTCTCTTA
Found at i:9218938 original size:107 final size:109
Alignment explanation
Indices: 9218708--9218983 Score: 266
Period size: 107 Copynumber: 2.5 Consensus size: 109
9218698 TTCCCTTAAG
* * * * *
9218708 AAAAATAGGAGAACAAGTAATACAAGTGCTTCCCTAAAAAAATAGAAAAATAAGTAAT-AAGAGT
1 AAAAATAGGAGAACAAGTAATAGAA-TGTTTCCTTTAAAAAATAGAAGAATAAGTAATGAAGAGT
* *
9218772 GTTTCTTTAAAAAAATAAGAGAATAAGTTATATAAATATTTCTTGA
65 GTTTCTTT-AAAAAATAAGAGAATAAGTAATATAAATATTTCCTGA
* **
9218818 AAAAAAAAAAGAACAAGTAAT-GAATGTTTCCTTTAAGAAAATATG-AGAATAAGTAATGAAGA-
1 AAAAATAGGAGAACAAGTAATAGAATGTTTCCTTTAA-AAAATA-GAAGAATAAGTAATGAAGAG
*
9218880 TATTT-TCTT-AAAAAT-AGTAGAATAAGTAATA-AAGATATTTCCCT-A
64 TGTTTCT-TTAAAAAATAAG-AGAATAAGTAATATAA-ATATTT-CCTGA
* * * *
9218925 AAAAATAGGAGAACAATTAATAGGAGTGTTT-CTTTTAAAAATAGAAGAATAAGTCATGA
1 AAAAATAGGAGAACAAGTAATA-GAATGTTTCCTTTAAAAAATAGAAGAATAAGTAATGA
9218984 GAATACTTCT
Statistics
Matches: 138, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
106 5 0.04
107 61 0.44
108 17 0.12
109 32 0.23
110 23 0.17
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (109 bp):
AAAAATAGGAGAACAAGTAATAGAATGTTTCCTTTAAAAAATAGAAGAATAAGTAATGAAGAGTG
TTTCTTTAAAAAATAAGAGAATAAGTAATATAAATATTTCCTGA
Found at i:9218946 original size:36 final size:35
Alignment explanation
Indices: 9218708--9218946 Score: 128
Period size: 36 Copynumber: 6.6 Consensus size: 35
9218698 TTCCCTTAAG
* * *
9218708 AAAAATAGGAGAACAAGTAATACAAG-TGCTTCCCTAA
1 AAAAATAGGAGAATAAGTAATA-AAGAT-ATTTCCT-A
* * * *
9218745 AAAAATAGAAAAATAAGTAAT-AAGAGTGTTTCTTTAA
1 AAAAATAGGAGAATAAGTAATAAAGA-TATTTC-CT-A
* * *
9218782 AAAAATAAGAGAATAAGTTATATAA-ATATTTCTTGA
1 AAAAATAGGAGAATAAGTAATA-AAGATATTTCCT-A
* ** * * *
9218818 AAAAAAAAAAGAACAAGTAAT-GA-ATGTTTCCTTTA
1 AAAAATAGGAGAATAAGTAATAAAGATATTTCC--TA
* * * *
9218853 AGAAAATATGAGAATAAGTAATGAAGATATTTTCTT
1 A-AAAATAGGAGAATAAGTAATAAAGATATTTCCTA
*
9218889 AAAAATAGTAGAATAAGTAATAAAGATATTTCCCTA
1 AAAAATAGGAGAATAAGTAATAAAGATATTT-CCTA
* *
9218925 AAAAATAGGAGAACAATTAATA
1 AAAAATAGGAGAATAAGTAATA
9218947 GGAGTGTTTC
Statistics
Matches: 156, Mismatches: 35, Indels: 23
0.73 0.16 0.11
Matches are distributed among these distances:
34 7 0.04
35 32 0.21
36 63 0.40
37 45 0.29
38 7 0.04
39 2 0.01
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (35 bp):
AAAAATAGGAGAATAAGTAATAAAGATATTTCCTA
Found at i:9224115 original size:4 final size:4
Alignment explanation
Indices: 9224108--9224150 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
9224098 CCTATATATA
9224108 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
9224151 ATAGTCTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:9224229 original size:21 final size:19
Alignment explanation
Indices: 9224191--9224233 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
9224181 TTTTTTAAAA
9224191 TTTTTAAATTGTAGATTTAT
1 TTTTTAAATTGTAGATTT-T
**
9224211 TTTTGTAAATTGTTTATTTT
1 TTTT-TAAATTGTAGATTTT
9224231 TTT
1 TTT
9224234 CTATGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTTTAAATTGTAGATTTT
Found at i:9228223 original size:2 final size:2
Alignment explanation
Indices: 9228218--9228243 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9228208 AATGTGTGTT
9228218 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9228244 AGCCTGGTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9233950 original size:22 final size:21
Alignment explanation
Indices: 9233906--9233963 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
9233896 GAGATAAGAA
*
9233906 AATATTTT-TAAA-AAATTTT
1 AATATTTTAAAAATAAATTTT
9233925 AATA-TTTAAAATATAAATATTT
1 AATATTTTAAAA-ATAAAT-TTT
9233947 AATATTTTAAAAATAAA
1 AATATTTTAAAAATAAA
9233964 ATAAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 3 0.09
19 6 0.18
20 1 0.03
21 4 0.12
22 12 0.36
23 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTTTAAAAATAAATTTT
Found at i:9233965 original size:23 final size:21
Alignment explanation
Indices: 9233917--9233966 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
9233907 ATATTTTTAA
9233917 AAAAT-TTTAATATTTAAAAT
1 AAAATATTTAATATTTAAAAT
9233937 ATAAATATTTAATATTTTAAAAAT
1 A-AAATATTTAATA-TTT-AAAAT
9233961 AAAATA
1 AAAATA
9233967 AAATAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 4 0.15
22 7 0.27
23 8 0.31
24 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATATTTAATATTTAAAAT
Found at i:9237993 original size:21 final size:22
Alignment explanation
Indices: 9237959--9238003 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
9237949 GAAAAAAAAT
*
9237959 AAATTTTCTCATTTTAAAAACA
1 AAATTTTCTAATTTTAAAAACA
**
9237981 AAATTTT-TAATTTTTGAAACA
1 AAATTTTCTAATTTTAAAAACA
9238002 AA
1 AA
9238004 GTGAAAATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATTTTCTAATTTTAAAAACA
Found at i:9238311 original size:14 final size:14
Alignment explanation
Indices: 9238294--9238325 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
9238284 AAATGTGAAT
9238294 GAATGACAATTTAA
1 GAATGACAATTTAA
*
9238308 GAATGATAATTTAA
1 GAATGACAATTTAA
9238322 GAAT
1 GAAT
9238326 ACATGTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.31
Consensus pattern (14 bp):
GAATGACAATTTAA
Found at i:9238525 original size:19 final size:20
Alignment explanation
Indices: 9238488--9238531 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9238478 TCGGGTCAAA
* * *
9238488 TTTAGGATTTTAGGATTTGT
1 TTTAGAATTTAAGGATTTGG
9238508 TTTAGAATTTAAGG-TTTGG
1 TTTAGAATTTAAGGATTTGG
9238527 TTTAG
1 TTTAG
9238532 GGTTTAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (20 bp):
TTTAGAATTTAAGGATTTGG
Found at i:9238658 original size:19 final size:19
Alignment explanation
Indices: 9238593--9238683 Score: 83
Period size: 19 Copynumber: 4.8 Consensus size: 19
9238583 AAGGTTTAGA
* *
9238593 GTTTAGATTAGGGTTTAAG
1 GTTTAGATGATGGTTTAAG
* ** **
9238612 GTTTGGACAATTATTTAAG
1 GTTTAGATGATGGTTTAAG
9238631 GTTTAGATGATGGTTTAAG
1 GTTTAGATGATGGTTTAAG
* * *
9238650 GTTTAGATGGTGGATTAGG
1 GTTTAGATGATGGTTTAAG
*
9238669 GTTTAGAGGATGGTT
1 GTTTAGATGATGGTT
9238684 CGGGGTTCAT
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 55 1.00
ACGTcount: A:0.25, C:0.01, G:0.33, T:0.41
Consensus pattern (19 bp):
GTTTAGATGATGGTTTAAG
Found at i:9240497 original size:143 final size:142
Alignment explanation
Indices: 9240170--9240500 Score: 355
Period size: 143 Copynumber: 2.3 Consensus size: 142
9240160 CTTTAGGGGT
* * * * * * *
9240170 ATTTTAATGATTTCACACCTTTCGAAGTATAATAAAGTTTTTAATATTTCAAAAATTATCAAATA
1 ATTTTAATAATTTTACACTTTTCGAAGTGTAATAAAGTTTTTAATATATCAAAAATAATAAAATA
* * ** * *
9240235 ATATAAAATCATGATCTAGAGCTTTTTAGGAAATTCCAACATCAAAAAAGTTAATTTACAAAAAT
66 ATATAAAATCATGATCTAAAGCTTTTCACAAAATTCCAACATCAAAAAAGCTAAATTACAAAAAT
*
9240300 ACTACTAAGAGT
131 ACTACTAAGAGC
* *
9240312 ATTTTAATAATTTTACACTTTTC-AATGTGTGATATGAGTTTTTAATATATCAAAAATAATAAAA
1 ATTTTAATAATTTTACACTTTTCGAA-GTGTAATA-AAGTTTTTAATATATCAAAAATAATAAAA
* * * * *
9240376 TATTATAAAATTATGA-CTTGAAAGC-TTTCACAATAATT-CAACTTCGAAAAAGCTAAATTACG
64 TAATATAAAATCATGATC-T-AAAGCTTTTCACAA-AATTCCAACATCAAAAAAGCTAAATTACA
* **
9240438 AAAATATTTTTAAGAGC
126 AAAATACTACTAAGAGC
*
9240455 ATTTTAATAATTTTACACTTTTCGAAGTGTAATCAAACTTTTTAAT
1 ATTTTAATAATTTTACACTTTTCGAAGTGTAAT-AAAGTTTTTAAT
9240501 GCTTTAAGAT
Statistics
Matches: 155, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
141 2 0.01
142 27 0.17
143 115 0.74
144 11 0.07
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (142 bp):
ATTTTAATAATTTTACACTTTTCGAAGTGTAATAAAGTTTTTAATATATCAAAAATAATAAAATA
ATATAAAATCATGATCTAAAGCTTTTCACAAAATTCCAACATCAAAAAAGCTAAATTACAAAAAT
ACTACTAAGAGC
Found at i:9243601 original size:20 final size:20
Alignment explanation
Indices: 9243575--9243628 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
9243565 ATTTTTAGAA
9243575 AATATTTTTTGAAAAATGTT
1 AATATTTTTTGAAAAATGTT
*
9243595 CATATTTTTTGAAAAATGTT
1 AATATTTTTTGAAAAATGTT
*
9243615 AATACTTTTTGAAA
1 AATATTTTTTGAAA
9243629 TGTAGAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (20 bp):
AATATTTTTTGAAAAATGTT
Found at i:9243761 original size:16 final size:16
Alignment explanation
Indices: 9243740--9243794 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
9243730 ACTATTAAAA
9243740 TATTAAAATTATTTAT
1 TATTAAAATTATTTAT
*
9243756 TATT--AA--A-GTA-
1 TATTAAAATTATTTAT
9243766 TATTAAAATTATTTAT
1 TATTAAAATTATTTAT
*
9243782 TACTAAAATTATT
1 TATTAAAATTATT
9243795 AATATTCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 12
0.67 0.07 0.27
Matches are distributed among these distances:
10 4 0.13
11 2 0.07
12 3 0.10
14 3 0.10
15 2 0.07
16 16 0.53
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
TATTAAAATTATTTAT
Found at i:9243768 original size:26 final size:25
Alignment explanation
Indices: 9243732--9243796 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 25
9243722 TTAATATAAC
9243732 TATTAAA-ATATTAAAATTATTTAT
1 TATTAAATATATTAAAATTATTTAT
9243756 TATTAAAGTATATTAAAATTATTTAT
1 TATTAAA-TATATTAAAATTATTTAT
*
9243782 TACTAAA-ATTATTAA
1 TATTAAATA-TATTAA
9243797 TATTCAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
24 8 0.22
25 6 0.16
26 23 0.62
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
TATTAAATATATTAAAATTATTTAT
Found at i:9243955 original size:20 final size:21
Alignment explanation
Indices: 9243932--9243979 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
9243922 ATTACTATTC
*
9243932 TTAAAATACT-ATTTTTAATA
1 TTAAAATACTAATATTTAATA
* *
9243952 TT-AAATAGTAATATTTATTA
1 TTAAAATACTAATATTTAATA
9243972 TTAAAATA
1 TTAAAATA
9243980 TTTTTACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 6 0.26
20 12 0.52
21 5 0.22
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TTAAAATACTAATATTTAATA
Found at i:9243981 original size:15 final size:17
Alignment explanation
Indices: 9243961--9244000 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
9243951 ATTAAATAGT
9243961 AATATTTATTA-T-TAA
1 AATATTTATTACTATAA
9243976 AATATTT-TTACTATAA
1 AATATTTATTACTATAA
9243992 AATATTTAT
1 AATATTTAT
9244001 ATTTTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.14
15 8 0.36
16 10 0.45
17 1 0.05
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATTTATTACTATAA
Found at i:9243995 original size:37 final size:38
Alignment explanation
Indices: 9243941--9244018 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
9243931 CTTAAAATAC
*
9243941 TATTTTTAATATTAAATAGTAATA-TTTAT-TATTAAAA
1 TATTTTTAATATAAAATAGTAATATTTTATAT-TTAAAA
* * *
9243978 TATTTTTACTATAAAATATTTATATTTTATATTTAAAA
1 TATTTTTAATATAAAATAGTAATATTTTATATTTAAAA
9244016 TAT
1 TAT
9244019 CTATTGTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 20 0.57
38 14 0.40
39 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (38 bp):
TATTTTTAATATAAAATAGTAATATTTTATATTTAAAA
Found at i:9244002 original size:22 final size:22
Alignment explanation
Indices: 9243977--9244018 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9243967 TATTATTAAA
9243977 ATATTTT-TACTATAAAATATTT
1 ATATTTTATA-TATAAAATATTT
*
9243999 ATATTTTATATTTAAAATAT
1 ATATTTTATATATAAAATAT
9244019 CTATTGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATTTTATATATAAAATATTT
Found at i:9244229 original size:36 final size:36
Alignment explanation
Indices: 9244184--9244261 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
9244174 TTTATTTAAC
* *
9244184 ATTAATTATTA-AAATAATAAAAATATTATA-TATGTT
1 ATTATTTATTATAAA-AATAAAAATATAATACTAT-TT
* *
9244220 ATTATTTATTATTAAAATAATAATATAATACTATTT
1 ATTATTTATTATAAAAATAAAAATATAATACTATTT
9244256 ATTATT
1 ATTATT
9244262 GAAATACTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 31 0.86
37 5 0.14
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (36 bp):
ATTATTTATTATAAAAATAAAAATATAATACTATTT
Found at i:9244245 original size:29 final size:30
Alignment explanation
Indices: 9244203--9244267 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
9244193 TAAAATAATA
* ** *
9244203 AAAATATTATATATGTTATTATTTATTATT
1 AAAATAATATATATAATACTATTTATTATT
9244233 AAAATAATA-ATATAATACTATTTATTATT
1 AAAATAATATATATAATACTATTTATTATT
*
9244262 GAAATA
1 AAAATA
9244268 CTAGAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (30 bp):
AAAATAATATATATAATACTATTTATTATT
Found at i:9245474 original size:53 final size:53
Alignment explanation
Indices: 9245394--9245499 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
9245384 AAGTAAGAAT
9245394 ATTAACAATGTAACCATTTGGGTCTTTCTTCAATGAATGTAGTCCATCATGGC
1 ATTAACAATGTAACCATTTGGGTCTTTCTTCAATGAATGTAGTCCATCATGGC
9245447 ATTAACAATGTAACCATTTGGGTCTTTCTTCAATGAATGTAGTCCATCATGGC
1 ATTAACAATGTAACCATTTGGGTCTTTCTTCAATGAATGTAGTCCATCATGGC
9245500 CAAATCACCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (53 bp):
ATTAACAATGTAACCATTTGGGTCTTTCTTCAATGAATGTAGTCCATCATGGC
Found at i:9246276 original size:122 final size:124
Alignment explanation
Indices: 9246125--9246406 Score: 331
Period size: 123 Copynumber: 2.3 Consensus size: 124
9246115 GGAAATTTGT
* * * * * **
9246125 AAGTGTTTTTGATCAGAAATACTTTGAATAA-CTCTATTCAATT-TTTGTAAGGGATTATTCAAG
1 AAGTGTTTTTGACCAAAAATACCTTGAATAATC-CCATTCAATTGTTTATAAAAGATTATTCAAG
* ** **
9246188 GAATTTTCT-AGCCCAAAACGTTTTGAATAATCCCCAAA-AACAATTTGAGGGGATTATTG-
65 GAATTTTCTGA-CCAAAAACACTTTGAATAATCCCCAAAGAA-AATGGGAGGGGATTATTGA
* *
9246247 AAGTGGTTTTGACCAAAAATACCTTGAATAATCCCATTTAATTGTTTATAAAAGATTATTCAAGG
1 AAGTGTTTTTGACCAAAAATACCTTGAATAATCCCATTCAATTGTTTATAAAAGATTATTCAAGG
*
9246312 CATTTTCTGACCAAAAACACTTTGAATAATCCCCAAAGAAAATGGGAGGGGATTATTGA
66 AATTTTCTGACCAAAAACACTTTGAATAATCCCCAAAGAAAATGGGAGGGGATTATTGA
* * *
9246371 AAGTATTTTTGGCAAAAAAATACCTTGAATAATCCC
1 AAGTGTTTTTGAC-CAAAAATACCTTGAATAATCCC
9246407 CAAAAAAATG
Statistics
Matches: 135, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
122 35 0.26
123 66 0.49
124 13 0.10
125 21 0.16
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (124 bp):
AAGTGTTTTTGACCAAAAATACCTTGAATAATCCCATTCAATTGTTTATAAAAGATTATTCAAGG
AATTTTCTGACCAAAAACACTTTGAATAATCCCCAAAGAAAATGGGAGGGGATTATTGA
Found at i:9246427 original size:123 final size:120
Alignment explanation
Indices: 9246177--9246616 Score: 342
Period size: 123 Copynumber: 3.6 Consensus size: 120
9246167 TTTTGTAAGG
* * ** * * *
9246177 GATTATTCAAGGAATTTTCTAGCCCAAAACGTTTTGAATAATCCCCAAAAACAATTTGAGGGGAT
1 GATTATTCAAGGCATTTT-TAGCCAAAAACACTTTAAATAATCCCCAAAAATAATTGGAGGGGAT
** * *** *
9246242 TATTG-AAGTGGTTTTGACCAAAAATACCTTGAATAAT-CCCATTTAATTGTTTATAAAA
65 TATTGAAAGTATTTTTGGCCAAAAATACCTTGAATAATCCCCAAAAAAATG---A-AAAA
* *
9246300 GATTATTCAAGGCATTTTCT-GACCAAAAACACTTTGAATAATCCCCAAAGAA-AATGGGAGGGG
1 GATTATTCAAGGCATTTT-TAG-CCAAAAACACTTTAAATAATCCCCAAA-AATAATTGGAGGGG
* *
9246363 ATTATTGAAAGTATTTTTGGCAAAAAAATACCTTGAATAATCCCCAAAAAAATGAAAAGG
63 ATTATTGAAAGTATTTTTGGC-CAAAAATACCTTGAATAATCCCCAAAAAAATGAAAA-A
* * * ** * *
9246423 GATTATTCAAGGGC-TTTTTAGTCAAAAACACTTTAAATAA-CCCCATTCAATTTTTTGTAAGGG
1 GATTATTCAA-GGCATTTTTAGCCAAAAACACTTTAAATAATCCCCA--AAAATAATTGGAGGGG
* ** *
9246486 ATTATTCATGGTATTTTCTAGCCAAAAATACCTTGAATAATCCCCAAAAAAATGGAAAAA
63 ATTATTGAAAGTATTTT-TGGCCAAAAATACCTTGAATAATCCCCAAAAAAAT-GAAAAA
* * * * * *
9246546 AATTATTCAAAGCATTTTTTA-CCAAAAAC-GTCTTAAATAAT-CCTAAAAAAAATTGGAGGAGA
1 GATTATTCAAGGCA-TTTTTAGCCAAAAACACT-TTAAATAATCCCCAAAAATAATTGGAGGGGA
9246608 TTATT-AAAG
64 TTATTGAAAG
9246617 GTGTTTTTTT
Statistics
Matches: 255, Mismatches: 45, Indels: 37
0.76 0.13 0.11
Matches are distributed among these distances:
120 2 0.01
121 19 0.07
122 26 0.10
123 153 0.60
124 29 0.11
125 18 0.07
126 8 0.03
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (120 bp):
GATTATTCAAGGCATTTTTAGCCAAAAACACTTTAAATAATCCCCAAAAATAATTGGAGGGGATT
ATTGAAAGTATTTTTGGCCAAAAATACCTTGAATAATCCCCAAAAAAATGAAAAA
Found at i:9246441 original size:61 final size:63
Alignment explanation
Indices: 9246324--9246450 Score: 150
Period size: 62 Copynumber: 2.0 Consensus size: 63
9246314 TTTTCTGACC
* ** * * *
9246324 AAAAACACTTTGAATAATCCCCAAAGAAAATGGGAGGGGATTATTGAAAGTATTTTT-GGCAA
1 AAAAACACCTTGAATAATCCCCAAAGAAAATGAAAAGGGATTATTCAAAGGATTTTTAGGCAA
* * * *
9246386 AAAAATACCTTGAATAATCCCCAAA-AAAATGAAAAGGGATTATTCAAGGGCTTTTTAGTCAA
1 AAAAACACCTTGAATAATCCCCAAAGAAAATGAAAAGGGATTATTCAAAGGATTTTTAGGCAA
9246448 AAA
1 AAA
9246451 CACTTTAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 24 0.44
62 30 0.56
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (63 bp):
AAAAACACCTTGAATAATCCCCAAAGAAAATGAAAAGGGATTATTCAAAGGATTTTTAGGCAA
Found at i:9246674 original size:184 final size:185
Alignment explanation
Indices: 9246446--9246845 Score: 477
Period size: 184 Copynumber: 2.2 Consensus size: 185
9246436 CTTTTTAGTC
* * *
9246446 AAAAACACTTTAAATAACCCCATTCAATTTTTTGTAAGGGATTATTCATGGTATTTTCT-AGCCA
1 AAAAATACTTTGAATAACCCCATTCAATTTTTTGTAAGGGATTATTCAAGGTATTTTCTGA-CCA
***
9246510 AAAATACCTTGAATAATC-CCCAAAAAAATGGAAA-AAAATTATTCAAAGCATTTTTTACCAAAA
65 AAAATACCTTGAATAATCAAAAAAAAAAAT-GAAAGAAAATTATTCAAAGCATTTTTTACC-AAA
* * * *
9246573 ACGTCTTAAATAAT-CCTAAAAAAAATTGGAGGAGATTATTAAAGGTGTTTTTTTAC-T
128 ACGCCTTAAATAATACCTAAAAAAAATTGGAGGAGATTATTAAAGG-CTTTTTTGACAA
* * * *
9246630 AGAAATGCTTTGAATAACCCTATTCAATTTTTTGTAAGGGATTATTCAAGGTATTTTCTGATCAA
1 AAAAATACTTTGAATAACCCCATTCAATTTTTTGTAAGGGATTATTCAAGGTATTTTCTGACCAA
* * * * * * *
9246695 AAATACTTTGAATAATCTAAAAAAAAAAATGAAAGGAGATTATTCAAGGCGTTTTTTATCAAAAT
66 AAATACCTTGAATAATC-AAAAAAAAAAATGAAAGAAAATTATTCAAAGCATTTTTTACCAAAAC
* * * *
9246760 GCCTTGAATAATACCCTTATAAAAATTGGAGGAGATTATTTAAGGCTTTTTTGACAA
130 GCCTTAAATAATA-CCTAAAAAAAATTGGAGGAGATTATTAAAGGCTTTTTTGACAA
*
9246817 AAAAATACCTTGAATAACCCCATTCAATT
1 AAAAATACTTTGAATAACCCCATTCAATT
9246846 AATTGAATAA
Statistics
Matches: 180, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
184 72 0.40
185 19 0.11
186 36 0.20
187 53 0.29
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (185 bp):
AAAAATACTTTGAATAACCCCATTCAATTTTTTGTAAGGGATTATTCAAGGTATTTTCTGACCAA
AAATACCTTGAATAATCAAAAAAAAAAATGAAAGAAAATTATTCAAAGCATTTTTTACCAAAACG
CCTTAAATAATACCTAAAAAAAATTGGAGGAGATTATTAAAGGCTTTTTTGACAA
Found at i:9247695 original size:21 final size:21
Alignment explanation
Indices: 9247669--9247713 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9247659 AACGTGCTAG
* *
9247669 AATTGAACATGAGCATGTTAA
1 AATTGAACAAGAACATGTTAA
*
9247690 AATTGAAGAAGAACATGTTAA
1 AATTGAACAAGAACATGTTAA
9247711 AAT
1 AAT
9247714 GGATCAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.27
Consensus pattern (21 bp):
AATTGAACAAGAACATGTTAA
Found at i:9258069 original size:187 final size:185
Alignment explanation
Indices: 9257512--9258451 Score: 891
Period size: 187 Copynumber: 5.0 Consensus size: 185
9257502 TAAAAACGCT
* * * * *
9257512 TTTAATAATCTTAAATATTTGTAAAAGAAAATTATTGAAGGTGTTTGTTCTCAAAAAAA-ACTTT
1 TTTAATAATCTAAAAAATTT-TAAAAAAAAATTATTGAAGGCGTTTGTTCT-AAAAAAATACATT
* ** *
9257576 CAATAATTATGTAAAAAAATTAAAATAAAA-TAGTGAAGGTATTTTTCTAGAATAAATGCTTTCA
64 CAATAATTATGT-ACAAAATT-AAATAAAATTAGTGAAGGTATTTTTCTAGAATAAACACCTTCA
* ** * **
9257640 CTAACCATCTTAAAATTTTA-GTAATGGAATATTGAAAGCGATTTTT-ACTTGAAGACACC
127 CTAACCATCTTAAAA-TTTAGGTAGTAAAATATTGAAAGCG-TTTTTCACTAGAAGATGCC
* * ** * * * *
9257699 TTTAATAATCTCAAATATTTTTTTAAAAAAATTATTGAAGGCATTTATTCTGAAAAAATACCTTC
1 TTTAATAATCT-AAAAAATTTTAAAAAAAAATTATTGAAGGCGTTTGTTCTAAAAAAATACATTC
* * *
9257764 AATAATTATGTACAAAATTTTAAA-AAAATTATTAAAGGTATTTTT-TGGAATAAACACCTTCAC
65 AATAATTATGTACAAAA--TTAAATAAAATTAGTGAAGGTATTTTTCTAGAATAAACACCTTCAC
* * *
9257827 TAGCCATCTTAAAATTTGAATGTTGGT---ATATTGAAAGCGTTTTTCACTAGAAGATGCC
128 TAACCATCTTAAAATTT--A-GGTAGTAAAATATTGAAAGCGTTTTTCACTAGAAGATGCC
* *
9257885 TTTAATAATTCGAAAAAATTTTAAAAAAAAATTATTGAAGGCGTTTGTTCTAAAAAAATGCATTC
1 TTTAATAA-TCTAAAAAATTTTAAAAAAAAATTATTGAAGGCGTTTGTTCTAAAAAAATACATTC
* ** * * * *
9257950 AATAATTATCTACATAAATTAAATGGAATTGGTGAAAGCATTTTTCTAGAATAAACAACTTCACT
65 AATAATTATGTACA-AAATTAAATAAAATTAGTGAAGGTATTTTTCTAGAATAAACACCTTCACT
* * * * *
9258015 AATCGTCTTAAAATTTAGGTAGTAAAATATTGAAGGCGTTTTTCATTGGAAGATGCC
129 AACCATCTTAAAATTTAGGTAGTAAAATATTGAAAGCGTTTTTCACTAGAAGATGCC
* * * *
9258072 TTTAATAATCTTAAATATTTTTAAAAAAAAATTACTAAAGGCGTTTGTTCTAAAAAAATACATTC
1 TTTAATAATC-TAAAAAATTTTAAAAAAAAATTATTGAAGGCGTTTGTTCTAAAAAAATACATTC
* * *
9258137 AATTATTATGTACAAAATTTTAAA-AAAATTATTGAAGGTATTTTTCTAAAATAAACACCTTCAC
65 AATAATTATGTACAAAA--TTAAATAAAATTAGTGAAGGTATTTTTCTAGAATAAACACCTTCAC
* * *** * ** ***
9258201 TAACCATTTTAAAATTTAAGT-GTTGGTATATT-AAAGGCATTTTTTGCTAGAAGACATC
128 TAACCATCTTAAAATTTAGGTAG-TAAAATATTGAAA-GCGTTTTTCACTAGAAGATGCC
* ** * * *
9258259 TTTAATAATCTAAAAAATTTTTAAAAAAAATTATTGAAGGTATTTATTCTAAAAAAATGCCTTCA
1 TTTAATAATCTAAAAAATTTTAAAAAAAAATTATTGAAGGCGTTTGTTCTAAAAAAATACATTCA
* * * **
9258324 ATAATTATGTACATAAATTAAATGAAATCAGTGAAGGCA-TTTTCTAGAATAAATGCCTTCACTA
66 ATAATTATGTACA-AAATTAAATAAAATTAGTGAAGGTATTTTTCTAGAATAAACACCTTCACTA
* * * * *
9258388 ACCGTTTTAAAATTT-GAGTAGTAAAATATTAAAAGCGTTTTGCACTAAAAGATGCC
130 ACCATCTTAAAATTTAG-GTAGTAAAATATTGAAAGCGTTTTTCACTAGAAGATGCC
*
9258444 TTCAATAA
1 TTTAATAA
9258452 ATTTCTTCAA
Statistics
Matches: 608, Mismatches: 118, Indels: 56
0.78 0.15 0.07
Matches are distributed among these distances:
184 4 0.01
185 84 0.14
186 224 0.37
187 282 0.46
188 12 0.02
189 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.36
Consensus pattern (185 bp):
TTTAATAATCTAAAAAATTTTAAAAAAAAATTATTGAAGGCGTTTGTTCTAAAAAAATACATTCA
ATAATTATGTACAAAATTAAATAAAATTAGTGAAGGTATTTTTCTAGAATAAACACCTTCACTAA
CCATCTTAAAATTTAGGTAGTAAAATATTGAAAGCGTTTTTCACTAGAAGATGCC
Found at i:9258276 original size:373 final size:370
Alignment explanation
Indices: 9257512--9258451 Score: 1149
Period size: 373 Copynumber: 2.5 Consensus size: 370
9257502 TAAAAACGCT
* * * * *
9257512 TTTAATAATCTTAAATATTTGTAAAAGAAAATTATTGAAGGTGTTTGTTCTCAAAAAAA-ACTTT
1 TTTAATAATCTAAAAAATTT-TAAAAAAAAATTATTGAAGGTGTTTGTTCT-AAAAAAATGCATT
* * * * **
9257576 CAATAATTATGTAAAAAAATTAAAAT-AAAATAGTGAAGGTATTTTTCTAGAATAAATGCTTTCA
64 CAATAATTATGTACATAAATT-AAATGAAATTAGTGAAGGCATTTTTCTAGAATAAAAAC-TTCA
* * ** **
9257640 CTAACCATCTTAAAATTTTA-GTAATGGAATATTGAAAGCGATTTTT-ACTTGAAGACACCTTTA
127 CTAACCGTCTTAAAA-TTTAGGTAGTAAAATATTGAAAGCG-TTTTTCA-TTGAAGATGCCTTTA
** * * * *
9257703 ATAATCTCAAATATTTTTTTAAAAAAATTATTGAAGGCATTTATTCTGAAAAAATACCTTCAATA
189 ATAATCTCAAATATTTTTAAAAAAAAATTACTAAAGGCATTTATTCTAAAAAAATACATTCAATA
** *
9257768 ATTATGTACAAAATTTTAAAAAAATTATTAAAGGTATTTTTTGGAATAAACACCTTCACTAGCCA
254 ATTATGTACAAAATTTTAAAAAAATTATTAAAGGTATTTTTTAAAATAAACACCTTCACTAACCA
* **
9257833 TCTTAAAATTTGAATGTTGGTATATTGAAAGCGTTTTTCACTAGAAGATGCC
319 TCTTAAAATTTGAATGTTGGTATATTGAAAGCATTTTTCACTAGAAGACACC
* *
9257885 TTTAATAATTCGAAAAAATTTTAAAAAAAAATTATTGAAGGCGTTTGTTCTAAAAAAATGCATTC
1 TTTAATAA-TCTAAAAAATTTTAAAAAAAAATTATTGAAGGTGTTTGTTCTAAAAAAATGCATTC
* * * *
9257950 AATAATTATCTACATAAATTAAATGGAATTGGTGAAAGCATTTTTCTAGAATAAACAACTTCACT
65 AATAATTATGTACATAAATTAAATGAAATTAGTGAAGGCATTTTTCTAGAATAAA-AACTTCACT
* *
9258015 AATCGTCTTAAAATTTAGGTAGTAAAATATTGAAGGCGTTTTTCATTGGAAGATGCCTTTAATAA
129 AACCGTCTTAAAATTTAGGTAGTAAAATATTGAAAGCGTTTTTCATT-GAAGATGCCTTTAATAA
* * * *
9258080 TCTTAAATATTTTTAAAAAAAAATTACTAAAGGCGTTTGTTCTAAAAAAATACATTCAATTATTA
193 TCTCAAATATTTTTAAAAAAAAATTACTAAAGGCATTTATTCTAAAAAAATACATTCAATAATTA
* *
9258145 TGTACAAAATTTTAAAAAAATTATTGAAGGTATTTTTCTAAAATAAACACCTTCACTAACCATTT
258 TGTACAAAATTTTAAAAAAATTATTAAAGGTATTTTT-TAAAATAAACACCTTCACTAACCATCT
** *
9258210 TAAAATTT-AAGTGTTGGTATATT-AAAGGCATTTTTTGCTAGAAGACATC
322 TAAAATTTGAA-TGTTGGTATATTGAAA-GCATTTTTCACTAGAAGACACC
* * * *
9258259 TTTAATAATCTAAAAAATTTTTAAAAAAAATTATTGAAGGTATTTATTCTAAAAAAATGCCTTCA
1 TTTAATAATCTAAAAAATTTTAAAAAAAAATTATTGAAGGTGTTTGTTCTAAAAAAATGCATTCA
* **
9258324 ATAATTATGTACATAAATTAAATGAAATCAGTGAAGGCA-TTTTCTAGAATAAATGCCTTCACTA
66 ATAATTATGTACATAAATTAAATGAAATTAGTGAAGGCATTTTTCTAGAATAAA-AACTTCACTA
* * * ** *
9258388 ACCGTTTTAAAATTT-GAGTAGTAAAATATTAAAAGCGTTTTGCACTAAAAGATGCCTTCAATAA
130 ACCGTCTTAAAATTTAG-GTAGTAAAATATTGAAAGCGTTTTTCA-TTGAAGATGCCTTTAATAA
9258452 ATTTCTTCAA
Statistics
Matches: 487, Mismatches: 68, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
371 1 0.00
372 96 0.20
373 313 0.64
374 77 0.16
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.36
Consensus pattern (370 bp):
TTTAATAATCTAAAAAATTTTAAAAAAAAATTATTGAAGGTGTTTGTTCTAAAAAAATGCATTCA
ATAATTATGTACATAAATTAAATGAAATTAGTGAAGGCATTTTTCTAGAATAAAAACTTCACTAA
CCGTCTTAAAATTTAGGTAGTAAAATATTGAAAGCGTTTTTCATTGAAGATGCCTTTAATAATCT
CAAATATTTTTAAAAAAAAATTACTAAAGGCATTTATTCTAAAAAAATACATTCAATAATTATGT
ACAAAATTTTAAAAAAATTATTAAAGGTATTTTTTAAAATAAACACCTTCACTAACCATCTTAAA
ATTTGAATGTTGGTATATTGAAAGCATTTTTCACTAGAAGACACC
Found at i:9265669 original size:21 final size:21
Alignment explanation
Indices: 9265645--9265697 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
9265635 AGAATAGAAG
*
9265645 CGTGCCAAAATTGAGGAAAAA
1 CGTGCCAAAATTGAGCAAAAA
* *
9265666 CGTGCTAAAATAGAGCAAAAA
1 CGTGCCAAAATTGAGCAAAAA
*
9265687 CGT-ACAAAATT
1 CGTGCCAAAATT
9265698 TCAGCAGTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (21 bp):
CGTGCCAAAATTGAGCAAAAA
Found at i:9266944 original size:14 final size:14
Alignment explanation
Indices: 9266912--9266962 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
9266902 GAATGAAATG
9266912 AATAAAAATACATAA
1 AATAAAAATACA-AA
9266927 AATAAATAATAC-AA
1 AATAAA-AATACAAA
*
9266941 AATAATAAATA-ATA
1 AATAA-AAATACAAA
9266955 AATAAAAA
1 AATAAAAA
9266963 AGCATAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
13 3 0.09
14 17 0.53
15 7 0.22
16 5 0.16
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAAAATACAAA
Found at i:9268549 original size:21 final size:21
Alignment explanation
Indices: 9268523--9268569 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9268513 GAATAGATGT
9268523 TAAAATTCAAAAATTTACATC
1 TAAAATTCAAAAATTTACATC
* * * *
9268544 TAAAATTTAAACATTTTCATT
1 TAAAATTCAAAAATTTACATC
9268565 TAAAA
1 TAAAA
9268570 ATTTTAAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATTCAAAAATTTACATC
Found at i:9268598 original size:21 final size:21
Alignment explanation
Indices: 9268522--9268659 Score: 109
Period size: 22 Copynumber: 6.4 Consensus size: 21
9268512 TGAATAGATG
* *
9268522 TTAAAATTCAAAAATTTACAT
1 TTAAAATTTAAAGATTTACAT
* * *
9268543 CTAAAATTTAAACATTTTCAT
1 TTAAAATTTAAAGATTTACAT
*
9268564 TTAAAAATTTTAAAGATATACAT
1 TT-AAAA-TTTAAAGATTTACAT
* *
9268587 TTAAAATTTAAATATTAACAGT
1 TTAAAATTTAAAGATTTACA-T
* * *
9268609 TGAAAATTTAGAGATTCACA-
1 TTAAAATTTAAAGATTTACAT
*
9268629 TAAAAATTTAAA-ATTTTACAT
1 TTAAAATTTAAAGA-TTTACAT
9268650 TTGAAAATTT
1 TT-AAAATTT
9268660 TAGAAATTCT
Statistics
Matches: 92, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.01
20 15 0.16
21 30 0.33
22 32 0.35
23 14 0.15
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (21 bp):
TTAAAATTTAAAGATTTACAT
Found at i:9268704 original size:45 final size:44
Alignment explanation
Indices: 9268533--9268748 Score: 172
Period size: 44 Copynumber: 4.9 Consensus size: 44
9268523 TAAAATTCAA
* * * ** *
9268533 AAATTTACATCTAAAATTTAAACATTTTCATTTAAAAATTTTA-
1 AAATTTACATATAAAATTCAAATATTCACATTTGAAAATTTTAG
* * * * *
9268576 AAGATATACATTTAAAATTTAAATATTAACAGTTGAAAA-TTTAG
1 AA-ATTTACATATAAAATTCAAATATTCACATTTGAAAATTTTAG
* * * *
9268620 AGATTCACATA-AAAATTTAAA-ATTTTACATTTGAAAATTTTAG
1 AAATTTACATATAAAATTCAAATA-TTCACATTTGAAAATTTTAG
* * * *
9268663 AAATTCT-TATCTAATATTCAAATATTCATATTTGAGAAATTTTAG
1 AAATT-TACATATAAAATTCAAATATTCACATTTGA-AAATTTTAG
* *
9268708 AGATTTACATATAAAATTCAAATATTCGCATTTGAAAATTT
1 AAATTTACATATAAAATTCAAATATTCACATTTGAAAATTT
9268749 AAATTTTCAT
Statistics
Matches: 137, Mismatches: 27, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 22 0.16
43 23 0.17
44 54 0.39
45 37 0.27
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (44 bp):
AAATTTACATATAAAATTCAAATATTCACATTTGAAAATTTTAG
Found at i:9268940 original size:20 final size:21
Alignment explanation
Indices: 9268917--9268960 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9268907 AAATATTTAC
* *
9268917 ATTTG-AATTGAAATTTAGAG
1 ATTTGCAAATGAAATGTAGAG
9268937 ATTTGCAAATGAAATGTAGAG
1 ATTTGCAAATGAAATGTAGAG
9268958 ATT
1 ATT
9268961 CACATCTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.36
Consensus pattern (21 bp):
ATTTGCAAATGAAATGTAGAG
Found at i:9269081 original size:31 final size:32
Alignment explanation
Indices: 9269046--9269124 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
9269036 CTTATTTGAA
*
9269046 TTAAAACT-TAGAGATTCACAA-CTCG-AAAGTG
1 TTAAAA-TGTAGAGATTCACAAGCT-GAAAAATG
*
9269077 TTAAAATGTAGAAATTCACAAGCTGAAAAATG
1 TTAAAATGTAGAGATTCACAAGCTGAAAAATG
9269109 TTAAAATGTAGAGATT
1 TTAAAATGTAGAGATT
9269125 TACATTTGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.02
31 19 0.45
32 22 0.52
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (32 bp):
TTAAAATGTAGAGATTCACAAGCTGAAAAATG
Found at i:9269114 original size:32 final size:31
Alignment explanation
Indices: 9269046--9269120 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
9269036 CTTATTTGAA
* *
9269046 TTAAAACT-TAGAGATTCACAACTCGAAAGTG
1 TTAAAA-TGTAGAAATTCACAACTCGAAAATG
9269077 TTAAAATGTAGAAATTCACAAGCT-GAAAAATG
1 TTAAAATGTAGAAATTCACAA-CTCG-AAAATG
9269109 TTAAAATGTAGA
1 TTAAAATGTAGA
9269121 GATTTACATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 1 0.03
31 19 0.49
32 19 0.49
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.27
Consensus pattern (31 bp):
TTAAAATGTAGAAATTCACAACTCGAAAATG
Found at i:9269480 original size:44 final size:45
Alignment explanation
Indices: 9269415--9269506 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 45
9269405 AAATGTTTGC
*
9269415 ATTTGAAAATTTTAGATATTCAAATCTAA-AGTTCAAAGGTTCA-A
1 ATTTGAAAATTTTAGATATTCAAATCTAATA-TTCAAAGATTCATA
* *
9269459 ATTTGAAAATTTTAGCA-ATTCACATGTAATATTCAAAGATTCATA
1 ATTTGAAAATTTTAG-ATATTCAAATCTAATATTCAAAGATTCATA
9269504 ATT
1 ATT
9269507 AAAATTAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
44 36 0.86
45 6 0.14
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (45 bp):
ATTTGAAAATTTTAGATATTCAAATCTAATATTCAAAGATTCATA
Found at i:9271123 original size:29 final size:27
Alignment explanation
Indices: 9271091--9271156 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 27
9271081 CTTTTACTCA
*
9271091 TTTTTCATTTTCTT-TTTTTTTTCCTTTT
1 TTTTTCATTTT-TTCTTTTCTTT-CTTTT
9271119 TTTTTCATCTTTTTCTTTTCTTTCTTTTT
1 TTTTTCAT-TTTTTCTTTTCTTTC-TTTT
9271148 TTTTTCATT
1 TTTTTCATT
9271157 CATCACAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 12 0.35
29 22 0.65
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (27 bp):
TTTTTCATTTTTTCTTTTCTTTCTTTT
Found at i:9271129 original size:25 final size:26
Alignment explanation
Indices: 9271101--9271149 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
9271091 TTTTTCATTT
*
9271101 TCTTTTTTTTTTCCTT-TTTTTTTCA
1 TCTTTTTCTTTTCCTTCTTTTTTTCA
*
9271126 TCTTTTTCTTTTCTTTCTTTTTTT
1 TCTTTTTCTTTTCCTTCTTTTTTT
9271150 TTTCATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (26 bp):
TCTTTTTCTTTTCCTTCTTTTTTTCA
Found at i:9271153 original size:11 final size:11
Alignment explanation
Indices: 9271098--9271149 Score: 59
Period size: 12 Copynumber: 4.4 Consensus size: 11
9271088 TCATTTTTCA
9271098 TTTTCTTTTTT
1 TTTTCTTTTTT
9271109 TTTTCCTTTTTT
1 TTTT-CTTTTTT
*
9271121 TTTCATCTTTTTC
1 TTT--TCTTTTTT
9271134 TTTTCTTTCTTT
1 TTTTCTTT-TTT
9271146 TTTT
1 TTTT
9271150 TTTCATTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 16 0.46
13 9 0.26
14 1 0.03
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:9273290 original size:46 final size:44
Alignment explanation
Indices: 9273223--9273310 Score: 106
Period size: 46 Copynumber: 2.0 Consensus size: 44
9273213 AAAAAAATTT
* *
9273223 TAAAATATTTCAAATATTTTTAAAAAGTATAAAAAAAATTAAAAAC
1 TAAAATATTTCAAAAAATTTTAAAAA-T-TAAAAAAAATTAAAAAC
* *
9273269 TAAAATA-TTCAAAAAAATTTTAAAAATTAAGAAAACTTAAAA
1 TAAAATATTTC-AAAAAATTTTAAAAATTAAAAAAAATTAAAA
9273311 TTTTTATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 13 0.35
45 4 0.11
46 20 0.54
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (44 bp):
TAAAATATTTCAAAAAATTTTAAAAATTAAAAAAAATTAAAAAC
Found at i:9273328 original size:17 final size:18
Alignment explanation
Indices: 9273303--9273336 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9273293 AATTAAGAAA
*
9273303 ACTTAAAATTTTTATAAT
1 ACTTAAAATTTTAATAAT
9273321 ACTT-AAATTTTAATAA
1 ACTTAAAATTTTAATAA
9273337 AAAATACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
ACTTAAAATTTTAATAAT
Found at i:9273564 original size:21 final size:21
Alignment explanation
Indices: 9273535--9273574 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9273525 TTAGTCTTTC
* *
9273535 AATTTTTTTATATATTTTAGG
1 AATTATTTTAGATATTTTAGG
*
9273556 AATTATTTTAGATTTTTTA
1 AATTATTTTAGATATTTTA
9273575 TTTTTTTTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (21 bp):
AATTATTTTAGATATTTTAGG
Found at i:9273751 original size:18 final size:16
Alignment explanation
Indices: 9273728--9273773 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
9273718 TGGTTTGTTA
9273728 TTAAAATTTTAAGATTTT
1 TTAAAATTTTAAG--TTT
9273746 TTAAAATTTTTAAGTTT
1 TTAAAA-TTTTAAGTTT
*
9273763 TTAAATTTTTA
1 TTAAAATTTTA
9273774 TAATTTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 5 0.19
17 8 0.31
18 6 0.23
19 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
TTAAAATTTTAAGTTT
Done.