Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008752.1 Hibiscus syriacus cultivar Beakdansim tig00111843_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1143363
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:726540 original size:2 final size:2
Alignment explanation
Indices: 726533--726609 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
726523 AAAAATTTTA
726533 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
726575 AT AT AT 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 AT AT AT A
726610 AACTATTTAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:728811 original size:28 final size:28
Alignment explanation
Indices: 728757--728819 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
728747 ATAAATAAGT
* **
728757 ATTTAAAGTATGTTATTTTTATTTAAAC
1 ATTTAAAGTATGTTATTTTAAAATAAAC
*
728785 ATTTAAAGTATG-TATTGTTAAAATAAAT
1 ATTTAAAGTATGTTATT-TTAAAATAAAC
728813 ATTTAAA
1 ATTTAAA
728820 TTTATCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.48
Consensus pattern (28 bp):
ATTTAAAGTATGTTATTTTAAAATAAAC
Found at i:748912 original size:19 final size:19
Alignment explanation
Indices: 748888--748925 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
748878 AATGTAAATA
748888 GTGTACCGATACACTTGGT
1 GTGTACCGATACACTTGGT
748907 GTGTACCGATACACTTGGT
1 GTGTACCGATACACTTGGT
748926 CATATAACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (19 bp):
GTGTACCGATACACTTGGT
Found at i:750555 original size:16 final size:16
Alignment explanation
Indices: 750534--750564 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
750524 TCATTACTCG
*
750534 ACTTGTTATCAACCTA
1 ACTTGTTATAAACCTA
750550 ACTTGTTATAAACCT
1 ACTTGTTATAAACCT
750565 GATCTCTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (16 bp):
ACTTGTTATAAACCTA
Found at i:750893 original size:19 final size:20
Alignment explanation
Indices: 750869--750915 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
750859 GTAATGATCA
750869 TTATATTACTAAATTTA-CT
1 TTATATTACTAAATTTATCT
* *
750888 TTATATTATTGAATTTATCT
1 TTATATTACTAAATTTATCT
750908 TCTATATT
1 T-TATATT
750916 TAATATGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.62
20 3 0.12
21 6 0.25
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (20 bp):
TTATATTACTAAATTTATCT
Found at i:756068 original size:31 final size:31
Alignment explanation
Indices: 756033--756098 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
756023 AACGATAAAT
*
756033 AGTCACCAACGTTATTGATCCGTCCGATTTA
1 AGTCACCAACGTTATCGATCCGTCCGATTTA
* * *
756064 AGTCACTAACGTTATCGATTCGTCCGGTTTA
1 AGTCACCAACGTTATCGATCCGTCCGATTTA
756095 AGTC
1 AGTC
756099 CCTCAACTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (31 bp):
AGTCACCAACGTTATCGATCCGTCCGATTTA
Found at i:758099 original size:29 final size:28
Alignment explanation
Indices: 758056--758145 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 28
758046 TAAAAATATA
*
758056 ATATTTTATTTTTATCTTAACTTAAAAAT
1 ATATTTTA-TTTTATATTAACTTAAAAAT
* *
758085 ATATTTTATTCTTATTTTAAATTTAAAAAAT
1 ATATTTTATT-TTATATT-AACTT-AAAAAT
* *
758116 TTATTTTATTTTTTATTAACTT-AAAAT
1 ATATTTTATTTTATATTAACTTAAAAAT
758143 ATA
1 ATA
758146 CAATTTTATG
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
27 7 0.14
28 2 0.04
29 18 0.35
30 9 0.18
31 15 0.29
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (28 bp):
ATATTTTATTTTATATTAACTTAAAAAT
Found at i:758154 original size:30 final size:28
Alignment explanation
Indices: 758048--758154 Score: 90
Period size: 30 Copynumber: 3.6 Consensus size: 28
758038 CTTAGCATTA
758048 AAAATATAATATTTTATTTTTATCTTAACTT
1 AAAATATAA-ATTTTATTTTT-T-TTAACTT
* *
758079 AAAA-ATATATTTTATTCTTATTTTAAATTT
1 AAAATATAAATTTTATT-TT-TTTT-AACTT
* **
758109 AAAAAATTTATTTTATTTTTTATTAACTT
1 AAAATATAAATTTTATTTTTT-TTAACTT
758138 AAAATATACAATTTTAT
1 AAAATATA-AATTTTAT
758155 GTTAAAATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
29 22 0.35
30 25 0.40
31 16 0.25
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (28 bp):
AAAATATAAATTTTATTTTTTTTAACTT
Found at i:758201 original size:30 final size:30
Alignment explanation
Indices: 758137--758207 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
758127 TTTATTAACT
* **
758137 TAAAATATACAATTTTATGTTAAAATTAGAA
1 TAAAATATA-TATTTTATGTTAAAACAAGAA
*
758168 TAAAATATATATTTTATGTTAAAACAAGGA
1 TAAAATATATATTTTATGTTAAAACAAGAA
*
758198 TAAATTATAT
1 TAAAATATAT
758208 TTAATAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 26 0.74
31 9 0.26
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (30 bp):
TAAAATATATATTTTATGTTAAAACAAGAA
Found at i:758238 original size:30 final size:30
Alignment explanation
Indices: 758203--758279 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
758193 AAGGATAAAT
*
758203 TATATTTAATAATTTAAGGTAAGACCATAA
1 TATATTTAATAATTTAAGGTAAGAACATAA
* *
758233 TATATTTAATAATTTAAGTTAAGAATATAA
1 TATATTTAATAATTTAAGGTAAGAACATAA
* *
758263 TATATATAATAAGTTAA
1 TATATTTAATAATTTAA
758280 AATAAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (30 bp):
TATATTTAATAATTTAAGGTAAGAACATAA
Found at i:759441 original size:23 final size:23
Alignment explanation
Indices: 759409--759501 Score: 115
Period size: 23 Copynumber: 4.3 Consensus size: 23
759399 ACCGAAATGC
* *
759409 CATATATTTGTCCCAAAGGACCA
1 CATAGATTTGTCCCGAAGGACCA
* *
759432 CATAGGTTTGTCCCGAATGACCA
1 CATAGATTTGTCCCGAAGGACCA
759455 CATAGATTTGTCCC----GA-CA
1 CATAGATTTGTCCCGAAGGACCA
759473 CATAGATTTGTCCCGAAGGACCA
1 CATAGATTTGTCCCGAAGGACCA
759496 CATAGA
1 CATAGA
759502 ACCCTAGACT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
18 16 0.27
19 2 0.03
22 2 0.03
23 40 0.67
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (23 bp):
CATAGATTTGTCCCGAAGGACCA
Found at i:759476 original size:18 final size:18
Alignment explanation
Indices: 759453--759488 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
759443 CCCGAATGAC
759453 CACATAGATTTGTCCCGA
1 CACATAGATTTGTCCCGA
759471 CACATAGATTTGTCCCGA
1 CACATAGATTTGTCCCGA
759489 AGGACCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (18 bp):
CACATAGATTTGTCCCGA
Found at i:761168 original size:10 final size:10
Alignment explanation
Indices: 761153--761177 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
761143 TTGAACTTTT
761153 CAATTTATTC
1 CAATTTATTC
761163 CAATTTATTC
1 CAATTTATTC
761173 CAATT
1 CAATT
761178 AAACTACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (10 bp):
CAATTTATTC
Found at i:761714 original size:32 final size:31
Alignment explanation
Indices: 761657--761731 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
761647 GATAAAAATT
* *
761657 GATAAATTTGAATATTATTTATAACAGTTATAA
1 GATAAATTT-AATAATATTTATAACAATT-TAA
*
761690 GATAAATTTAATAATATTTTTAACAATTTAA
1 GATAAATTTAATAATATTTATAACAATTTAA
*
761721 TA-AAATTTAAT
1 GATAAATTTAAT
761732 GATTAATTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 9 0.24
31 4 0.11
32 16 0.42
33 9 0.24
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (31 bp):
GATAAATTTAATAATATTTATAACAATTTAA
Found at i:763257 original size:14 final size:15
Alignment explanation
Indices: 763225--763258 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
763215 AAATTAAAAA
763225 TTTATTTTGAAGGGGT
1 TTTATTTTGAA-GGGT
763241 TTTATTTTGAA-GGT
1 TTTATTTTGAAGGGT
763255 TTTA
1 TTTA
763259 AAACTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.56
Consensus pattern (15 bp):
TTTATTTTGAAGGGT
Found at i:763601 original size:2 final size:2
Alignment explanation
Indices: 763596--763646 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
763586 ACACACACAC
763596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
763638 AT AT AT AT A
1 AT AT AT AT A
763647 ATAATAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:764329 original size:85 final size:84
Alignment explanation
Indices: 764212--765382 Score: 1270
Period size: 85 Copynumber: 13.8 Consensus size: 84
764202 ACGTGACATC
* * * * * * * *
764212 GAGCTGAATGAAATTGAACTCGAAAGTTTTTGTTGACATAT-AGCTTTCCTCGACTTAAGTTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTT-CTCGCCTTGAGTTATG
* * * *
764276 CTATAAATCTAACATGCCCTT
65 CTGTAAAT-TGATATGCCTTT
* * *
764297 GAGCTGAATGGAATCGAACTCGAAGGTATTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
*
764362 TGTAAATTTGATGTGCCTTT
66 TGTAAA-TTGATATGCCTTT
* * * *
764382 AAGCTGAATGTAATCAAACTCGAAGGTTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGT
1 GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
764447 TGTACAATTGGATATGCCTTT
66 TGTA-AATT-GATATGCCTTT
* * *
764468 GAGCTGAATGTAATCGAACTCGAAGGCCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATA
1 GAGCTGAATGTAATCGAACTCGAAGG-TTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
* *
764533 TTGTAAATTTGATGTGCCTTT
65 CTGTAAA-TTGATATGCCTTT
* * * * * * **
764554 AAGCTGAGTGTAATCGAACTTGAAGGTCTTGGTTGACAGATAACCCTTCTCGCGTTGAGTTATAT
1 GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
764619 TGTAAATTGATATGCCTTT
66 TGTAAATTGATATGCCTTT
* * * * *
764638 GAGCT-AAGTGTAATCGAAATAGAAGGTATTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTAT
1 GAGCTGAA-TGTAATCGAACTCGAAGGT-TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
**
764702 GCTGTAAATTTGATATATCTTT
64 GCTGTAAA-TTGATATGCCTTT
* * * * * *
764724 GAGCTGAGTGTAATCGAGCTCGAAGGTCTTGGTTGCCAGATAACCCTTCTCTCCTTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
*
764789 TATAAATTGATATGCCTTT
66 TGTAAATTGATATGCCTTT
* * * * * * *
764808 GAGCTGAGTGTAATCTAACTCGAAGGTCTTTTGTTGATATATATCCCTTCTTGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGT-TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
*
764873 CTGTAAATTTGATGTGCCTTT
65 CTGTAAA-TTGATATGCCTTT
* * * * *
764894 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACGCTTATCGCCTTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
764959 TGTAAATTGATATGCCTTT
66 TGTAAATTGATATGCCTTT
* * * * * * *
764978 GAGCT-AAGTGTAATAGAACTCGAAGGTCTTGGTTAACATATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAA-TGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
* *
765042 CTGTAGATTTGATGTGCCTTT
65 CTGTA-AATTGATATGCCTTT
* * * * *
765063 GAGCTGAGTGTAATCAAACTCAAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGT-TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
*
765128 CTGTAAATTTGATGTGCCTTT
65 CTGTAAA-TTGATATGCCTTT
* * * * * * *
765149 AAGCTGAGTGTAATCGAACTCAAAGG-TCTTGATTGACAGATAGCCCTTCACGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTTTTTG-TTGACAGATAACCCTTCTCGCCTTGAGTTATG
* *
765213 CTGTAAATTTGATGTGCATTT
65 CTGTAAA-TTGATATGCCTTT
* * * *
765234 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAAATAACCCTTCTCGCCTTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
*
765299 TGTAAATTAATATGCCTTT
66 TGTAAATTGATATGCCTTT
* * * * ** * * *
765318 GAGCTTAGTGTAATCGAACTCGAATGTCTTTGTCAACAAATATCCCTTCTCGCCTTGAGATATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
765383 CTTTGAGCTG
Statistics
Matches: 933, Mismatches: 134, Indels: 39
0.84 0.12 0.04
Matches are distributed among these distances:
83 2 0.00
84 212 0.23
85 453 0.49
86 224 0.24
87 42 0.05
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (84 bp):
GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
TGTAAATTGATATGCCTTT
Found at i:764711 original size:170 final size:169
Alignment explanation
Indices: 764260--765382 Score: 1487
Period size: 170 Copynumber: 6.6 Consensus size: 169
764250 TATAGCTTTC
* * * * * * *
764260 CTCGACTTAAGTTATGCTATAAATCTAACATGCCCTTGAGCTGAA-TGGAATCGAACTCGAAGGT
1 CTCGCCTTGAGTTATGCTGTAAAT-TGATATGCCTTTGAGCT-AAGTGTAATCGAACTCGAAGGT
* * *
764324 ATTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTAAGCTGA
64 TTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGA
* * * * *
764389 ATGTAATCAAACTCGAAGGTTTTTGCTGACAGATAACCCTT
129 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTT
*
764430 CTCGCCTTGAGTTATGTTGTACAATTGGATATGCCTTTGAGCTGAA-TGTAATCGAACTCGAAGG
1 CTCGCCTTGAGTTATGCTGTA-AATT-GATATGCCTTTGAGCT-AAGTGTAATCGAACTCGAAGG
* * ** *
764494 CCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATATTGTAAATTTGATGTGCCTTTAAGCT
63 -TTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCT
*
764559 GAGTGTAATCGAACTTGAAGGTCTTGGTTGACAGATAACCCTT
127 GAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTT
* ** * *
764602 CTCGCGTTGAGTTATATTGTAAATTGATATGCCTTTGAGCTAAGTGTAATCGAAATAGAAGGTAT
1 CTCGCCTTGAGTTATGCTGTAAATTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGT-T
* * **
764667 TTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATATCTTTGAGCTGAG
65 TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAG
* *
764732 TGTAATCGAGCTCGAAGGTCTTGGTTGCCAGATAACCCTT
130 TGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTT
* * * *
764772 CTCTCCTTGAGTTATGCTATAAATTGATATGCCTTTGAGCTGAGTGTAATCTAACTCGAAGGTCT
1 CTCGCCTTGAGTTATGCTGTAAATTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGT-T
* * * *
764837 TTTGTTGATATATATCCCTTCTTGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAG
65 TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAG
*
764902 TGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACGCTT
130 TGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTT
* * *
764942 ATCGCCTTGAGTTATGCTGTAAATTGATATGCCTTTGAGCTAAGTGTAATAGAACTCGAAGGTCT
1 CTCGCCTTGAGTTATGCTGTAAATTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTTT
* * * *
765007 TGGTTAACATATAGCCCTTCTCGCCTTGAGCTATGCTGTAGATTTGATGTGCCTTTGAGCTGAGT
66 TTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAGT
* * * *
765072 GTAATCAAACTCAAAGGTCTTTTGTTGACAGATAGCCCTT
131 GTAATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTT
* * * * *
765112 CTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTAAGCTGAGTGTAATCGAACTCAAAGG-T
1 CTCGCCTTGAGTTATGCTGTAAA-TTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTT
* * *
765176 CTTGATTGACAGATAGCCCTTCACGCCTTGAGCTATGCTGTAAATTTGATGTGCATTTGAGCTGA
65 TTTG-TTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGA
*
765241 GTGTAATCGAACTCGAAGGTCTTGGTTGACAAATAACCCTT
129 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTT
* * * *
765282 CTCGCCTTGAGTTATGCTGTAAATTAATATGCCTTTGAGCTTAGTGTAATCGAACTCGAATGTCT
1 CTCGCCTTGAGTTATGCTGTAAATTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTTT
** * * *
765347 TTGTCAACAAATATCCCTTCTCGCCTTGAGATATGC
66 TTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
765383 CTTTGAGCTG
Statistics
Matches: 838, Mismatches: 106, Indels: 19
0.87 0.11 0.02
Matches are distributed among these distances:
169 139 0.17
170 435 0.52
171 148 0.18
172 116 0.14
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (169 bp):
CTCGCCTTGAGTTATGCTGTAAATTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTTT
TTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAGT
GTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTT
Found at i:765909 original size:16 final size:15
Alignment explanation
Indices: 765873--765907 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
765863 CTAAAGCTGT
765873 AAAAATTATGTATGC
1 AAAAATTATGTATGC
765888 AAAAATTATGTATGC
1 AAAAATTATGTATGC
765903 AAAAA
1 AAAAA
765908 ATGATAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.29
Consensus pattern (15 bp):
AAAAATTATGTATGC
Found at i:767629 original size:14 final size:14
Alignment explanation
Indices: 767610--767636 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
767600 GAACCGGTCA
767610 GACCCGACCCGACT
1 GACCCGACCCGACT
767624 GACCCGACCCGAC
1 GACCCGACCCGAC
767637 CCGACCATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.52, G:0.22, T:0.04
Consensus pattern (14 bp):
GACCCGACCCGACT
Found at i:767654 original size:5 final size:5
Alignment explanation
Indices: 767610--767642 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
767600 GAACCGGTCA
*
767610 GACCC GACCC GA-CT GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACC
767643 ATTGACCCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.21, C:0.55, G:0.21, T:0.03
Consensus pattern (5 bp):
GACCC
Found at i:778905 original size:9 final size:9
Alignment explanation
Indices: 778893--778976 Score: 62
Period size: 9 Copynumber: 9.1 Consensus size: 9
778883 TAACAATAAT
778893 AATAAAAAA
1 AATAAAAAA
778902 AATAAAAAAA
1 AAT-AAAAAA
*
778912 AATAAAGATA
1 AATAAA-AAA
***
778922 AATAAATTT
1 AATAAAAAA
*
778931 AGT-AAAAA
1 AATAAAAAA
*
778939 AATAATAAA
1 AATAAAAAA
*
778948 AATGGAAAAA
1 AAT-AAAAAA
*
778958 AATAAAACA
1 AATAAAAAA
778967 AATAAAAAA
1 AATAAAAAA
778976 A
1 A
778977 TAGTAAATAA
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
8 4 0.07
9 29 0.51
10 24 0.42
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (9 bp):
AATAAAAAA
Found at i:778964 original size:7 final size:7
Alignment explanation
Indices: 778954--779046 Score: 71
Period size: 7 Copynumber: 12.9 Consensus size: 7
778944 TAAAAATGGA
778954 AAAAAAT
1 AAAAAAT
778961 AAAACAAAT
1 -AAA-AAAT
778970 AAAAAAAT
1 -AAAAAAT
**
778978 AGTAAAT
1 AAAAAAT
778985 AAAAAAT
1 AAAAAAT
*
778992 GAAAAAT
1 AAAAAAT
*
778999 GAAAAAT
1 AAAAAAT
*
779006 GAAAAAT
1 AAAAAAT
*
779013 GAAAAAT
1 AAAAAAT
*
779020 GAAAAAT
1 AAAAAAT
*
779027 GAAAAGA-
1 -AAAAAAT
779034 AAAAAAT
1 AAAAAAT
779041 AAAAAA
1 AAAAAA
779047 GGTTAAATTC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
6 5 0.07
7 50 0.68
8 11 0.15
9 8 0.11
ACGTcount: A:0.77, C:0.01, G:0.09, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:778998 original size:14 final size:14
Alignment explanation
Indices: 778981--779046 Score: 82
Period size: 14 Copynumber: 4.7 Consensus size: 14
778971 AAAAAATAGT
778981 AAATAAAAAATGAA
1 AAATAAAAAATGAA
*
778995 AAATGAAAAATGAA
1 AAATAAAAAATGAA
*
779009 AAATGAAAAATGAA
1 AAATAAAAAATGAA
779023 AAATGAAAAGAA--AA
1 AAAT-AAAA-AATGAA
779037 AAATAAAAAA
1 AAATAAAAAA
779047 GGTTAAATTC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
12 2 0.04
13 4 0.08
14 37 0.77
15 3 0.06
16 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.12
Consensus pattern (14 bp):
AAATAAAAAATGAA
Found at i:778998 original size:21 final size:21
Alignment explanation
Indices: 778981--779031 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
778971 AAAAAATAGT
778981 AAATAAAAAATGAAAAATGAA
1 AAATAAAAAATGAAAAATGAA
*
779002 AAATGAAAAATGAAAAATGAA
1 AAATAAAAAATGAAAAATGAA
*
779023 AAATGAAAA
1 AAATAAAAA
779032 GAAAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (21 bp):
AAATAAAAAATGAAAAATGAA
Found at i:780603 original size:26 final size:26
Alignment explanation
Indices: 780566--780654 Score: 160
Period size: 26 Copynumber: 3.4 Consensus size: 26
780556 TTTTTTTGTT
780566 ACACGTCATTGGGTGGTTGGCAGGTC
1 ACACGTCATTGGGTGGTTGGCAGGTC
*
780592 ACACGTCGTTGGGTGGTTGGCAGGTC
1 ACACGTCATTGGGTGGTTGGCAGGTC
*
780618 ACACATCATTGGGTGGTTGGCAGGTC
1 ACACGTCATTGGGTGGTTGGCAGGTC
780644 ACACGTCATTG
1 ACACGTCATTG
780655 AGTGTTCGGC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 59 1.00
ACGTcount: A:0.17, C:0.20, G:0.36, T:0.27
Consensus pattern (26 bp):
ACACGTCATTGGGTGGTTGGCAGGTC
Found at i:781688 original size:3 final size:3
Alignment explanation
Indices: 781680--781754 Score: 98
Period size: 3 Copynumber: 25.3 Consensus size: 3
781670 ATATTAATTG
* * * *
781680 ATT ATT ATT ATT A-T ATA ATA ATT GTT ATT ATA ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
781727 ATT ATT ATC ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
781755 AATATATTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:781713 original size:15 final size:15
Alignment explanation
Indices: 781686--781763 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 15
781676 ATTGATTATT
781686 ATTATTA-TATAATA
1 ATTATTATTATAATA
* *
781700 ATTGTTATTATAATT
1 ATTATTATTATAATA
* *
781715 ATTATTATTATTATT
1 ATTATTATTATAATA
* * *
781730 ATTATCATTATTATT
1 ATTATTATTATAATA
781745 ATTATTATTA-AATA
1 ATTATTATTATAATA
781759 TATTA
1 -ATTA
781764 AATACATATA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
14 8 0.15
15 46 0.85
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (15 bp):
ATTATTATTATAATA
Found at i:781762 original size:9 final size:10
Alignment explanation
Indices: 781750--781788 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
781740 TTATTATTAT
781750 TATTAAAT-A
1 TATTAAATAA
781759 TATTAAATACA
1 TATTAAATA-A
781770 TATATAAATAA
1 TAT-TAAATAA
781781 TATTAAAT
1 TATTAAAT
781789 TACAAGCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 5 0.19
11 8 0.30
12 6 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:781895 original size:16 final size:16
Alignment explanation
Indices: 781874--781910 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
781864 CCTAATCCCT
781874 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
781890 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
781906 A-CCGC
1 AGCCGC
781911 TGCCACGTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.08, C:0.57, G:0.19, T:0.16
Consensus pattern (16 bp):
AGCCGCCTCTGCCTCC
Found at i:783752 original size:17 final size:18
Alignment explanation
Indices: 783718--783759 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
783708 TCTTTTTAAA
*
783718 ATTTTTATATTTACTTAT
1 ATTTTTATATATACTTAT
*
783736 ATTTTTATA-ATATTTAT
1 ATTTTTATATATACTTAT
783753 ATGTTTT
1 AT-TTTT
783760 GTTTTATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTTATATATACTTAT
Found at i:794424 original size:1 final size:1
Alignment explanation
Indices: 794418--794481 Score: 65
Period size: 1 Copynumber: 64.0 Consensus size: 1
794408 ATGCTTGAAG
* * * * * * *
794418 AAAAAAAAGAAAAAAAAAAGAAAAAAAAAGAAAAAAAAGAAAAAAAAAGAGAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
794482 GGAGGGTCAA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:794429 original size:9 final size:9
Alignment explanation
Indices: 794415--794481 Score: 89
Period size: 9 Copynumber: 7.0 Consensus size: 9
794405 ATTATGCTTG
794415 AAGAAAAAA
1 AAGAAAAAA
794424 AAGAAAAAAAA
1 AAG--AAAAAA
794435 AAGAAAAAAA
1 AAG-AAAAAA
794445 AAGAAAAAA
1 AAGAAAAAA
794454 AAGAAAAAAA
1 AAG-AAAAAA
*
794464 AAGAGAAAA
1 AAGAAAAAA
794473 AAGAAAAAA
1 AAGAAAAAA
794482 GGAGGGTCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
9 25 0.47
10 19 0.36
11 9 0.17
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:794433 original size:10 final size:10
Alignment explanation
Indices: 794418--794481 Score: 96
Period size: 10 Copynumber: 6.5 Consensus size: 10
794408 ATGCTTGAAG
794418 AAAAAAAAGAA
1 AAAAAAAAG-A
794429 AAAAAAAAGA
1 AAAAAAAAGA
794439 AAAAAAAAG-
1 AAAAAAAAGA
794448 AAAAAAAAGA
1 AAAAAAAAGA
794458 AAAAAAAAG-
1 AAAAAAAAGA
*
794467 AGAAAAAAGA
1 AAAAAAAAGA
794477 AAAAA
1 AAAAA
794482 GGAGGGTCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
9 17 0.35
10 23 0.47
11 9 0.18
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:794443 original size:19 final size:19
Alignment explanation
Indices: 794415--794481 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
794405 ATTATGCTTG
*
794415 AAGAAAAAAAAGAAAAAAAA
1 AAGAAAAAAAA-AGAAAAAA
794435 AAGAAAAAAAAAGAAAAAA
1 AAGAAAAAAAAAGAAAAAA
*
794454 AAGAAAAAAAAAGAGAAAA
1 AAGAAAAAAAAAGAAAAAA
794473 AAGAAAAAA
1 AAGAAAAAA
794482 GGAGGGTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 34 0.76
20 11 0.24
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (19 bp):
AAGAAAAAAAAAGAAAAAA
Found at i:796825 original size:113 final size:113
Alignment explanation
Indices: 796508--796956 Score: 701
Period size: 113 Copynumber: 4.0 Consensus size: 113
796498 TAGCAAAGAT
* *
796508 TCAAATCCATCATTTGATGGATCAGCTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
796573 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
* * *
796621 AT-GAATTCATCAATTGATGGATCAGCA-TTTCC--AGAAAGTTCATAATGAGAAGAACTCATCT
1 -TCAAATCCATCATTTGATGGATCAG-ATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
* * *
796682 GAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
64 GAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
796732 TCAAATCCATCATTTGATGGATCAGATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
796797 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
* * *
796845 TCAAATCCATCACTTGATGGAGCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
796909 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
796957 ATAATTCTAT
Statistics
Matches: 312, Mismatches: 18, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
110 2 0.01
111 101 0.32
112 75 0.24
113 133 0.43
114 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
TCAAATCCATCATTTGATGGATCAGATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
Found at i:797287 original size:3 final size:3
Alignment explanation
Indices: 797279--797380 Score: 124
Period size: 3 Copynumber: 35.3 Consensus size: 3
797269 ATATTAATTG
* *
797279 ATT ATT ATTT ATT A-T ATT ATT ATT ATT ATT A-T AAT ATA ATT A-T
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
797322 AAT ATT A-T ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
797368 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
797381 ATATATTAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
2 10 0.11
3 74 0.85
4 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:797515 original size:16 final size:16
Alignment explanation
Indices: 797494--797530 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
797484 CCTAATCCCT
797494 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
797510 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
797526 A-CCGC
1 AGCCGC
797531 TGCCACGTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.08, C:0.57, G:0.19, T:0.16
Consensus pattern (16 bp):
AGCCGCCTCTGCCTCC
Found at i:798656 original size:22 final size:23
Alignment explanation
Indices: 798621--798664 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
798611 CACCTAGAAG
*
798621 TTTTTTTGATATTTTTAAATAAA
1 TTTTTTTGATATTTTGAAATAAA
*
798644 TTTTTTTTA-ATTTTGAAATAA
1 TTTTTTTGATATTTTGAAATAA
798665 GGATTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTTTTTGATATTTTGAAATAAA
Found at i:804009 original size:93 final size:93
Alignment explanation
Indices: 803850--804036 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
803840 GTTGTGAGGG
803850 TGTTAATCCTTCCTCACACGTAACCGATTCCTGAACTCATTTTCTGGTATGCAGTCTATAAATTT
1 TGTTAATCCTTCCTCACACGTAACCGATTCCTGAACTCATTTTCTGGTATGCAGTCTATAAATTT
803915 TTCGTTTTAATTAAATTAATATTTTTTA
66 TTCGTTTTAATTAAATTAATATTTTTTA
803943 TGTTAATCCTTCCTCACACGTAACCGATTCCTGAACTCATTTTCTGGTATGCAGTCTATAAATTT
1 TGTTAATCCTTCCTCACACGTAACCGATTCCTGAACTCATTTTCTGGTATGCAGTCTATAAATTT
804008 TTCGTTTTAATTAAATTAATATTTTTTA
66 TTCGTTTTAATTAAATTAATATTTTTTA
804036 T
1 T
804037 TAAAATGACA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (93 bp):
TGTTAATCCTTCCTCACACGTAACCGATTCCTGAACTCATTTTCTGGTATGCAGTCTATAAATTT
TTCGTTTTAATTAAATTAATATTTTTTA
Found at i:807161 original size:37 final size:37
Alignment explanation
Indices: 807108--807212 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
807098 CATTTTCGTC
*
807108 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAAAATT
* * * * *
807145 TTGCTAGGATTTAAACTCCTAAAAATAGGACAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAAAATT
* * *
807182 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
807213 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAAAATT
Found at i:807599 original size:18 final size:17
Alignment explanation
Indices: 807560--807602 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
807550 ATTATATGGA
807560 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
807576 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
807594 TATTATTAT
1 TATTATTAT
807603 ACGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:807847 original size:28 final size:25
Alignment explanation
Indices: 807781--807847 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 25
807771 CGTCATTTAA
807781 TTTATTAATT-TATATATATTTACTT
1 TTTATT-ATTATATATATATTTACTT
807806 TTTATTTATTTTATATATATATTCGTACTT
1 TTTA-TTA--TTATATATATATT--TACTT
807836 TGTTATTATTAT
1 T-TTATTATTAT
807848 GTTGTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
25 5 0.14
26 2 0.06
27 2 0.06
28 14 0.40
30 9 0.26
31 3 0.09
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTATTATTATATATATATTTACTT
Found at i:813651 original size:183 final size:183
Alignment explanation
Indices: 813335--813871 Score: 932
Period size: 183 Copynumber: 2.9 Consensus size: 183
813325 ATTAAATCCG
*
813335 TAAAGCTGAGCTATTCCACTAAGGCAATTGATTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
813400 ATAGATTATGTTCAAACTATGACACTGCTCGGACCCTTGGCAATTCGGTGTTTGCTCCAATGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
813465 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCATTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
813518 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
813583 ATAGATTATGTTCAAACTATGACACTGCTCGAACACTTGGCAATTCGGTGTTTGCTCCACTACTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
813648 TTGTCAGGCCAAAGACTTTGTCATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
813701 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * *
813766 ATAGATTACATTCAAA-TCATGACATTGCTCGGACACTTGGCAATTTGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
* * *
813830 TTCGTCAGGTCAAAGACTTTATGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
813872 TAAACCTGAT
Statistics
Matches: 336, Mismatches: 17, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
182 1 0.00
183 335 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:815045 original size:36 final size:35
Alignment explanation
Indices: 815000--815103 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 35
814990 ATGCAGATGA
815000 TTATCTCACTCAAATTTGTTTTTCTTAAAACATACT
1 TTATCTCACTCAAATTTGTTTTTCTTAAAACATA-T
* * * * *
815036 TTGTCTCACTTGAGA-CTGTTTTTCTCGAAAGA-ATAT
1 TTATCTCAC-TCAAATTTGTTTTTCT-TAAA-ACATAT
* *
815072 TTATTTCACTCAAGTTTGTTTTTCTTAAAACA
1 TTATCTCACTCAAATTTGTTTTTCTTAAAACA
815104 AGATTTGTCT
Statistics
Matches: 51, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
34 1 0.02
35 6 0.12
36 34 0.67
37 9 0.18
38 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (35 bp):
TTATCTCACTCAAATTTGTTTTTCTTAAAACATAT
Found at i:815091 original size:72 final size:74
Alignment explanation
Indices: 815000--815161 Score: 213
Period size: 72 Copynumber: 2.2 Consensus size: 74
814990 ATGCAGATGA
* * * * *
815000 TTATCTCACTCAAATTTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTCG
1 TTATTTCACTCAAGTTTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTCG
*
815063 AAAGAA-TAT
65 AAAGAAGCAT
*
815072 TTATTTCACTCAAGTTTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGTTTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
815137 AAGAAGGCAT
66 AAGAA-GCAT
815147 TTCATTTCACTCAAG
1 TT-ATTTCACTCAAG
815162 GCTATTTTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
71 1 0.01
72 51 0.65
73 10 0.13
75 4 0.05
76 12 0.15
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.41
Consensus pattern (74 bp):
TTATTTCACTCAAGTTTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
AAGAAGCAT
Found at i:815325 original size:39 final size:39
Alignment explanation
Indices: 815268--815342 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
815258 CCTTGAAATT
* *
815268 AATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAA
1 AATTTTGTCTCTCCTGAGACAGTTTCCCTCGAAACAGAA
* *
815307 AATTTTGTCTC-CCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCTCC-TGAGACAGTTTCCCTCGAAACA
815343 TAAACATTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (39 bp):
AATTTTGTCTCTCCTGAGACAGTTTCCCTCGAAACAGAA
Found at i:815428 original size:106 final size:105
Alignment explanation
Indices: 815245--815564 Score: 497
Period size: 106 Copynumber: 3.1 Consensus size: 105
815235 ACAGTTTCTC
* *
815245 TTGAAAACATTTCCCTTGAAATTA-ATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
815309 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
*
815349 TTGAAAACATTTCCCTTGAAATGATGTTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAA
1 TTGAAAACATTTCCCTTGAAATGAT-ATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAA
815414 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
65 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * * *
815455 TTGAAAACATTTCCCTTGAAATGA-ATTTTATCTCGCTTTAGATAGTTTCCCTTGAAAC-G--AA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
* ** *
815516 TTTTGTCTCCTTTGAGACAGTTTCTCTCAAAACATAAACT
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
815556 TTGAAAACA
1 TTGAAAACA
815565 ATTTAACGAA
Statistics
Matches: 202, Mismatches: 12, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
101 47 0.23
103 1 0.00
104 52 0.26
106 102 0.50
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (105 bp):
TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:815511 original size:36 final size:36
Alignment explanation
Indices: 815464--815539 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
815454 ATTGAAAACA
* *
815464 TTTCCCTTGAAATGAATTTTATCTCGCTTT-AGATAG
1 TTTCCCTTGAAACGAATTTTATCTC-CTTTGAGACAG
*
815500 TTTCCCTTGAAACGAATTTTGTCTCCTTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCTTTGAGACAG
815536 TTTC
1 TTTC
815540 TCTCAAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 4 0.11
36 32 0.89
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCTTTGAGACAG
Found at i:815927 original size:105 final size:105
Alignment explanation
Indices: 815706--816367 Score: 928
Period size: 105 Copynumber: 6.3 Consensus size: 105
815696 CAAACATCTG
* * * * * *
815706 CAATTTCAACTCCACGACG-AGGATATCGTGACACTCGAGACAAC-AAAGTTCAACTTCACAACG
1 CAATTTCAACTTCACAACGAAGGATAT--TG-GACTCCAGACAACGCAAGTTCAACTTCACGACG
* * * * * *
815769 AAAGAACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGC
63 AAGGGACCGCTGCTTGTCAACAAA-AACTTCCCAATCTCAGAGC
815813 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
815878 GGACCGCTGCTTGTCAACAAAAACTTCCCAATCTCAGAGC
66 GGACCGCTGCTTGTCAACAAAAACTTCCCAATCTCAGAGC
*
815918 CAATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
815983 GGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGC
66 GGACCGCTGCTTGTCAACAAAAACTTCCCAATCTCAGAGC
*
816023 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
816088 GGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGC
66 GGACCGCTGCTTGTCAACAAAAACTTCCCAATCTCAGAGC
816128 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC-TCTACGACGAA
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC-ACGACGAA
* *
816192 GGGACCGCTGCTTGTCAAC-AAAA-TT-TC-AT-TCAGAGT
65 GGGACCGCTGCTTGTCAACAAAAACTTCCCAATCTCAGAGC
* * * *
816228 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * **
816293 GGACGGCTGGTTGTCAACAAACAATTTCCCGGT-TCCAGAGC
66 GGACCGCTGCTTGTCAACAAA-AACTTCCCAATCT-CAGAGC
* * *
816334 CAATTTCAACTTCACGATGGAGGATATTGGACTC
1 CAATTTCAACTTCACAACGAAGGATATTGGACTC
816368 GAAACAATGC
Statistics
Matches: 512, Mismatches: 33, Indels: 21
0.90 0.06 0.04
Matches are distributed among these distances:
100 80 0.16
101 6 0.01
102 3 0.01
103 4 0.01
104 6 0.01
105 315 0.62
106 74 0.14
107 17 0.03
108 7 0.01
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (105 bp):
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGCTTGTCAACAAAAACTTCCCAATCTCAGAGC
Found at i:816948 original size:37 final size:37
Alignment explanation
Indices: 816895--816999 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
816885 CATTTTCGTC
816895 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
816932 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
816969 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
817000 CCTCAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:817394 original size:18 final size:17
Alignment explanation
Indices: 817355--817397 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
817345 ATTATATGGA
*
817355 TATT-TTATTCATTTAT
1 TATTATTATTCAGTTAT
*
817371 TTTTATTATTCAAGTTAT
1 TATTATTATTC-AGTTAT
817389 TATTATTAT
1 TATTATTAT
817398 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 6 0.27
18 13 0.59
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (17 bp):
TATTATTATTCAGTTAT
Found at i:822401 original size:41 final size:42
Alignment explanation
Indices: 822308--822406 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 42
822298 TAGTAAGACC
* * **
822308 TTCGGGCTATCAGTAAGTATTTTGAGCGTGATGATTAAATCA
1 TTCGGGCCATCTGTAAGTATTTTGAGCAAGATGATTAAATCA
* * * *
822350 -TCAGGTCATCTGTAAGTCTTTTGAGCAAGATGA-TAAGTCA
1 TTCGGGCCATCTGTAAGTATTTTGAGCAAGATGATTAAATCA
*
822390 TTCGGGCCATCTATAAG
1 TTCGGGCCATCTGTAAG
822407 ACCTTCGGGC
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
40 6 0.13
41 39 0.87
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (42 bp):
TTCGGGCCATCTGTAAGTATTTTGAGCAAGATGATTAAATCA
Found at i:822639 original size:41 final size:42
Alignment explanation
Indices: 822538--822631 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
822528 TCTTACTTAG
* * *
822538 TAAGTCCTTCGGGTCATCAGTAATTCTTTCGAGCATAATGAT
1 TAAGTCCTTCGGGTCATCTGTAAGTCTTTCGAGCAGAATGAT
* *
822580 TAAATCCTTCGGGTCATCTGTAAGTCTTTTGAG-AGAGATGA-
1 TAAGTCCTTCGGGTCATCTGTAAGTCTTTCGAGCAGA-ATGAT
822621 TAAGTCCTTCG
1 TAAGTCCTTCG
822632 AGCCATCTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 12 0.27
42 33 0.73
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (42 bp):
TAAGTCCTTCGGGTCATCTGTAAGTCTTTCGAGCAGAATGAT
Found at i:822901 original size:250 final size:248
Alignment explanation
Indices: 822218--822952 Score: 874
Period size: 250 Copynumber: 3.0 Consensus size: 248
822208 TGAGAAAGCA
* ** * * * **
822218 ATTTCCAAAGTTTCTCATTTAAATATTTT-TTAAAATGGAATTTTTGAAAATTAAGAAAATGATT
1 ATTTTCAAAGTTTCTCATTT-AATATTTTCAGAAAATGAAATCTTTGAAAAATAAGAAAGCGATT
* * * * * *
822282 TCCAAAGTTTCTTACTTAGTAAGACCTTCGGGCTATCAGTAAGTATTTTGAGCGTGATGATTAAA
65 TCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATAATGATTAAA
* * * * *
822347 TCA-TCAGG-TCATCTGTAAGTCTTTTGAGCA-AGATGATAAGTCATTCGGGCCATCTATAAGAC
130 TCATTC-GGATCATCTGTAAGTCTTTCGAG-AGAGATGACAAGTCCTTCGAGCCATCCATAAGAC
* * * *
822409 CTTCGGGCAGGATATTTTCACATGATTTTC-AAAAACTGAGAAA--G----T----G
193 CTTCGGGTAGGATGTTTTCACATGAATTTCGAAAAA-TGAGAAAGCGATTTTCAAAT
* * *
822455 ATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTT
1 ATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATCTTTGAAAAATAAGAAAGCGATTT
* *
822520 CCAAAGTTTCTTACTTAGTAAGTCCTTCGGGTCATCAGTAATTCTTTCGAGCATAATGATTAAAT
66 CCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATAATGATTAAAT
* * * * * *
822585 CCTTCGGGTCATCTGTAAGTCTTTTGAGAGAGATGATAAGTCCTTCGAGCCATCTATAATACCTT
131 CATTCGGATCATCTGTAAGTCTTTCGAGAGAGATGACAAGTCCTTCGAGCCATCCATAAGACCTT
822650 CGGGTAGGATGTTTTCACATGAATTT-GAAAAAAAATGAGAAAGCGATTTTCAAAT
196 CGGGTAGGATGTTTTCACATGAATTTCG---AAAAATGAGAAAGCGATTTTCAAAT
* * *
822705 ATTTTCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATCTTTGAAAAATATGAAAGCGGTTT
1 ATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATCTTTGAAAAATAAGAAAGCGATTT
* *
822770 CCAAGGTTTCTTACTTAGTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATAATGATTAAAT
66 CCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATAATGATTAAAT
* * * *
822835 CATTCGGATCATCTGTCAGTCTTTCGAGCA-AGATGACAAGTCCTTTGGGCCATCCGTAAGACCT
131 CATTCGGATCATCTGTAAGTCTTTCGAG-AGAGATGACAAGTCCTTCGAGCCATCCATAAGACCT
* *
822899 TCGGGTAGGATGTTTTCACATGAATTTCGAAAAATGAGGAAGTGATTTTCAAAT
195 TCGGGTAGGATGTTTTCACATGAATTTCGAAAAATGAGAAAGCGATTTTCAAAT
822953 TCTCTCAATC
Statistics
Matches: 432, Mismatches: 46, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
236 7 0.02
237 110 0.25
238 77 0.18
240 7 0.02
241 5 0.01
242 1 0.00
246 1 0.00
248 23 0.05
250 199 0.46
251 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (248 bp):
ATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATCTTTGAAAAATAAGAAAGCGATTT
CCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATAATGATTAAAT
CATTCGGATCATCTGTAAGTCTTTCGAGAGAGATGACAAGTCCTTCGAGCCATCCATAAGACCTT
CGGGTAGGATGTTTTCACATGAATTTCGAAAAATGAGAAAGCGATTTTCAAAT
Found at i:823264 original size:12 final size:13
Alignment explanation
Indices: 823233--823278 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 13
823223 TTAAAATAAT
823233 AAAAAATAAAGAAG
1 AAAAAA-AAAGAAG
823247 AAAAAAAAAGAGAG
1 AAAAAAAAAGA-AG
823261 AAAAAGAAAAGGAAG
1 AAAAA-AAAA-GAAG
823276 AAA
1 AAA
823279 GAGAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.17
14 13 0.45
15 9 0.31
16 2 0.07
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:823621 original size:45 final size:45
Alignment explanation
Indices: 823502--823875 Score: 340
Period size: 45 Copynumber: 8.2 Consensus size: 45
823492 ACAAATTGAT
* *
823502 AGAGGAGTCAATC-TTTAGTGTTGTAATTCTTGACTTTCTCGTAA
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGA
* * * * *
823546 ATATGATTCAAT-TTTTAGTGTTGTTATTCTTGCCTTTCTCGTGA
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGA
* * *
823590 AGAGGATTTAATCTTTCAGTGTTGTCATTCTTGACTTTCTCGTGA
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGA
* * * *
823635 AGAGAAGTCAATCTTTGAATGTTGT-ATTCCTTGACTTTCTCGTGG
1 AGAGGAGTCAATCTTTTAGTGTTGTCATT-CTTGACTTTCTCGTGA
* * * * **
823680 AGAGAAGTCAACCTTTTAGTGATGTCATCCTTGACTTTCTCGCAA
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGA
* * * * *
823725 AGAGGATTCAATTTTTTAGTGTTTTCCTACTTGACTTTCTCGTGA
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGA
* * * ** *
823770 AGAGAAGTCAACCTTTTAGTGGTGTTGTTCTTAACTTTCTCGTGA
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGA
* * * * * *
823815 AGAGAAGTCAACCTTTTAATGATGTCATTTTCATCTTGACTTTCTCGCGG
1 AGAGGAGTCAATCTTTTAGTGTTGTCA---T--TCTTGACTTTCTCGTGA
823865 AGAGGAGTCAA
1 AGAGGAGTCAA
823876 GTTTTCAATA
Statistics
Matches: 267, Mismatches: 54, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
44 49 0.18
45 191 0.72
46 2 0.01
48 1 0.00
50 24 0.09
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (45 bp):
AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGA
Found at i:823747 original size:135 final size:133
Alignment explanation
Indices: 823502--823842 Score: 398
Period size: 135 Copynumber: 2.5 Consensus size: 133
823492 ACAAATTGAT
* * * * *
823502 AGAGGAGTCAATCTTTAGTGTTGTAATTCTTGACTTTCTCGTAAATATG-ATTCAA-TTTTTAGT
1 AGAGAAGTCAATCTTTAGTGTTGT-ATTCTTGACTTTCTCGTGAAGA-GAAGTCAACCTTTTAGT
* * * * ** * *
823565 GTTGTTATTCTTGCCTTTCTCGTGAAGAGGATTTAATCTTTCAGTGTTGTCATTCTTGACTTTCT
64 GATGTCATCCTTGACTTTCTCGCAAAGAGGATTCAATCTTTCAGTGTTGTCATACTTGACTTTCT
823630 CGTGA
129 CGTGA
* *
823635 AGAGAAGTCAATCTTTGAATGTTGTATTCCTTGACTTTCTCGTGGAGAGAAGTCAACCTTTTAGT
1 AGAGAAGTCAATCTTT-AGTGTTGTATT-CTTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGT
* * * *
823700 GATGTCATCCTTGACTTTCTCGCAAAGAGGATTCAATTTTTTAGTGTTTTCCTACTTGACTTTCT
64 GATGTCATCCTTGACTTTCTCGCAAAGAGGATTCAATCTTTCAGTGTTGTCATACTTGACTTTCT
823765 CGTGA
129 CGTGA
* * * * *
823770 AGAGAAGTCAACCTTTTAGTGGTGTTGTTCTTAACTTTCTCGTGAAGAGAAGTCAACCTTTTAAT
1 AGAGAAGTCAATC-TTTAGTGTTG-TATTCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGT
823835 GATGTCAT
64 GATGTCAT
823843 TTTCATCTTG
Statistics
Matches: 176, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
133 19 0.11
134 28 0.16
135 123 0.70
136 6 0.03
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (133 bp):
AGAGAAGTCAATCTTTAGTGTTGTATTCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGA
TGTCATCCTTGACTTTCTCGCAAAGAGGATTCAATCTTTCAGTGTTGTCATACTTGACTTTCTCG
TGA
Found at i:823925 original size:51 final size:49
Alignment explanation
Indices: 823619--823931 Score: 132
Period size: 45 Copynumber: 6.6 Consensus size: 49
823609 TGTTGTCATT
* * * *
823619 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGAATGTTGT-A-T-TC--
1 CTTGACTTTCTCGT-AAGAGAAGTCAACCTTTTAATGATATCATTCTCAA
* * *
823664 CTTGACTTTCTCGTGGAGAGAAGTCAACCTTTTAGTGATGTCA---TC--
1 CTTGACTTTCTCGT-AAGAGAAGTCAACCTTTTAATGATATCATTCTCAA
* * * ** * *
823709 CTTGACTTTCTCGCAAAGAGGATTCAATTTTTTAGTG-T-T--TTC-CTA
1 CTTGACTTTCTCG-TAAGAGAAGTCAACCTTTTAATGATATCATTCTCAA
* * *
823754 CTTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGGTGT--TGT-T---
1 CTTGACTTTCTCGT-AAGAGAAGTCAACCTTTTAATGATATCAT-TCTCAA
* * * *
823799 CTTAACTTTCTCGTGAAGAGAAGTCAACCTTTTAATGATGTCATTTTCAT
1 CTTGACTTTCTCGT-AAGAGAAGTCAACCTTTTAATGATATCATTCTCAA
** * *
823849 CTTGACTTTCTCGCGGAGAGGAGTCAA-GTTTTCAAT-AGTATCATTCCTCAA
1 CTTGACTTTCTCG-TAAGAGAAGTCAACCTTTT-AATGA-TATCATT-CTCAA
*
823900 CTTGACTTTCTCGTATAGAGAAGTCAATCTTT
1 CTTGACTTTCTCGTA-AGAGAAGTCAACCTTT
823932 CTGTAATGAC
Statistics
Matches: 213, Mismatches: 31, Indels: 41
0.75 0.11 0.14
Matches are distributed among these distances:
43 2 0.01
44 1 0.00
45 137 0.64
46 3 0.01
47 4 0.02
48 1 0.00
49 5 0.02
50 31 0.15
51 26 0.12
52 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (49 bp):
CTTGACTTTCTCGTAAGAGAAGTCAACCTTTTAATGATATCATTCTCAA
Found at i:824990 original size:134 final size:133
Alignment explanation
Indices: 824542--825144 Score: 728
Period size: 134 Copynumber: 4.5 Consensus size: 133
824532 GAAAATAAGG
* * *
824542 GAAGCAAATCACA-TTCAATTCAATCTTCCCTAAAGAGCAGCAAAGTGAATCAAACTTTTCTCGA
1 GAAGCAAATCA-AGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAA-TTTTCTCGA
* * * *
824606 GTCTGACCTCCCCTAAAGAGTAGCAGAGCAGTGTTCTTCTTCTTTCAGATTTTTGTCTTCCTGAA
64 GTCTGACCTCCCCTAAAGAGTAGCAGAGAAG-ATTATTCTTCTTTCAGA-TTTGGTCTTCCTGAA
*
824671 GAGCAGT
127 GAGCAGC
* * * **
824678 AAAGCAAATCAATTTCGATTTAATCTTCTGTGAAGAGCAGCGAAGTGAATCAAATTATTCTCGAG
1 GAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAATT-TTCTCGAG
* * * *
824743 TATGATCTCCCCTAAAGAGTAGCAGAGAAGATTCTTTTTTCTTTCAGATTTGGTCTTCCTGAAGA
65 TCTGACCTCCCCTAAAGAGTAGCAGAGAAGATT-ATTCTTCTTTCAGATTTGGTCTTCCTGAAGA
824808 GCAGC
129 GCAGC
824813 GAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAATTATTCTCGAG
1 GAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAATT-TTCTCGAG
* * * * * *
824878 TCTGATCTCCCCTAAATAGTAGCGGAGCAGATTATTCTTCTTCCAGATTTGGTCTTCCTGAAGAA
65 TCTGACCTCCCCTAAAGAGTAGCAGAGAAGATTATTCTTCTTTCAGATTTGGTCTTCCTGAAGAG
824943 CAGC
130 CAGC
* * * * *
824947 GAAGCAAATCACA-TTCTATTCAATCTTCCGTAAAGTGCAGCGAAGTAAATCAAAATTTTCTCGA
1 GAAGCAAATCA-AGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATC-AAATTTTCTCGA
** * * * *
825011 GTCTGACCTCCCCTAAAGAGTAGTGGAGAAGATTATTGTTCTTTCGGATTTGGTATTCTTGAAGA
64 GTCTGACCTCCCCTAAAGAGTAGCAGAGAAGATTATTCTTCTTTCAGATTTGGTCTTCCTGAAGA
* *
825076 GTAAC
129 GCAGC
* * *
825081 GAAG-AAAGTCAAGTTTGATTCAATCTTCCCTGAATAGCAGTGAAGTGAATCAAAATTTT-TCGA
1 GAAGCAAA-TCAAGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATC-AAATTTTCTCGA
825144 G
64 G
825145 ATATGATTAC
Statistics
Matches: 407, Mismatches: 53, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
133 9 0.02
134 186 0.46
135 120 0.29
136 92 0.23
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (133 bp):
GAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAATTTTCTCGAGT
CTGACCTCCCCTAAAGAGTAGCAGAGAAGATTATTCTTCTTTCAGATTTGGTCTTCCTGAAGAGC
AGC
Found at i:825042 original size:269 final size:270
Alignment explanation
Indices: 824542--825144 Score: 790
Period size: 269 Copynumber: 2.2 Consensus size: 270
824532 GAAAATAAGG
* * *
824542 GAAGCAAATCACA-TTCAATTCAATCTTCCCTAAAGAGCAGCAAAGTGAATCAAACTTTTCTCGA
1 GAAGCAAATCA-AGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAACTTTTCTCGA
* * * *
824606 GTCTGACCTCCCCTAAAGAGTAGCAGAGCAGTGTTCTTCTTCTTTCAGATTTTTGTCTTCCTGAA
65 GTCTGACCTCCCCTAAAGAGTAGCAGAGCAGTATTATTCTTCTTCCAGATTTTGGTCTTCCTGAA
* * * * * *
824671 GAGCAGTAAAGCAAATCAATTTCGATTTAATCTTCTGTGAAGAGCAGCGAAGTGAATCAAATTAT
130 GAACAGCAAAGCAAATCAATTTCGATTCAATCTTCCGTAAAGAGCAGCGAAGTAAATCAAATTAT
* * * *
824736 TCTCGAGTATGATCTCCCCTAAAGAGTAGCAGAGAAGATTCTTTTTTCTTTCAGATTTGGTCTTC
195 TCTCGAGTATGACCTCCCCTAAAGAGTAGCAGAGAAGATT-ATTGTTCTTTCAGATTTGGTATTC
*
824801 CTGAAGAGCAGC
259 CTGAAGAGCAAC
824813 GAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAA-TTATTCTCGA
1 GAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAACTT-TTCTCGA
* * *
824877 GTCTGATCTCCCCTAAATAGTAGCGGAGCAG-ATTATTCTTCTTCCAGA-TTTGGTCTTCCTGAA
65 GTCTGACCTCCCCTAAAGAGTAGCAGAGCAGTATTATTCTTCTTCCAGATTTTGGTCTTCCTGAA
* * *
824940 GAACAGCGAAGCAAATCACA-TTCTATTCAATCTTCCGTAAAGTGCAGCGAAGTAAATCAAAATT
130 GAACAGCAAAGCAAATCA-ATTTCGATTCAATCTTCCGTAAAGAGCAGCGAAGTAAATC-AAATT
* ** *
825004 -TTCTCGAGTCTGACCTCCCCTAAAGAGTAGTGGAGAAGATTATTGTTCTTTCGGATTTGGTATT
193 ATTCTCGAGTATGACCTCCCCTAAAGAGTAGCAGAGAAGATTATTGTTCTTTCAGATTTGGTATT
* *
825068 CTTGAAGAGTAAC
258 CCTGAAGAGCAAC
* * * *
825081 GAAG-AAAGTCAAGTTTGATTCAATCTTCCCTGAATAGCAGTGAAGTGAATCAAAATTTT-TCGA
1 GAAGCAAA-TCAAGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAACTTTTCTCGA
825144 G
65 G
825145 ATATGATTAC
Statistics
Matches: 293, Mismatches: 33, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
267 8 0.03
268 78 0.27
269 100 0.34
270 23 0.08
271 84 0.29
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (270 bp):
GAAGCAAATCAAGTTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAACTTTTCTCGAG
TCTGACCTCCCCTAAAGAGTAGCAGAGCAGTATTATTCTTCTTCCAGATTTTGGTCTTCCTGAAG
AACAGCAAAGCAAATCAATTTCGATTCAATCTTCCGTAAAGAGCAGCGAAGTAAATCAAATTATT
CTCGAGTATGACCTCCCCTAAAGAGTAGCAGAGAAGATTATTGTTCTTTCAGATTTGGTATTCCT
GAAGAGCAAC
Found at i:826569 original size:20 final size:20
Alignment explanation
Indices: 826544--826601 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
826534 TTTGGTTCAT
826544 GGAATGTAAAATTACCAGTG
1 GGAATGTAAAATTACCAGTG
*
826564 GGAATGTAAGATTACCAGTG
1 GGAATGTAAAATTACCAGTG
*
826584 GGAAT-AAAAGATTACCAG
1 GGAATGTAAA-ATTACCAG
826602 GAAATAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.22
Consensus pattern (20 bp):
GGAATGTAAAATTACCAGTG
Found at i:826609 original size:18 final size:19
Alignment explanation
Indices: 826571--826610 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
826561 GTGGGAATGT
*
826571 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGAAATAA
826591 AAGATTACCA-GGAAATAA
1 AAGATTACCAGGGAAATAA
826609 AA
1 AA
826611 TTACTGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.53, C:0.10, G:0.20, T:0.17
Consensus pattern (19 bp):
AAGATTACCAGGGAAATAA
Found at i:836173 original size:46 final size:46
Alignment explanation
Indices: 836138--836718 Score: 662
Period size: 46 Copynumber: 12.6 Consensus size: 46
836128 TGCATCAACA
* * * *
836138 CATCCATTCATACATTTTAGTTATGGTATCCTTTCAAGCCTTAATG
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
** * *
836184 CATTTGTTCATGCATTTTAGTTATGGCATCCTGTCAAGCCTTAATG
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
* *
836230 CATCCTTTCATGCATTTTAGTTATGGCATCCTTTCAAGCCTTAATG
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
* * * *
836276 CATCCGTTCATGCATTTTTATTTATGACATCCTTTCATACCTTAGTG
1 CATCCGTTCATGCA-TTTTAGTTATGGCATCCTTTCATGCCTTAATG
** * *
836323 CATCTATTCATGCACTTTAGTTATGGCATCCTTTCATACCTTAATG
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
* * * * *
836369 CATCCGTTCATGCATTTTTATTTATGGAATCCTTTGATGCCTTAGTA
1 CATCCGTTCATGCA-TTTTAGTTATGGCATCCTTTCATGCCTTAATG
* * *
836416 TATCCGTTCATGCACTTTAGTTATGGCATCCTTTCATGCCTTAATA
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
* * * * *
836462 CACCCGTCCATGTATTTT-TTTATGGCATCCTTTCATGCCTTAGTG
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
* * *
836507 CATTCGTTCATGCACTTTAGTTATGGCATCATTTCATGCCTTAATG
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
* * * * *
836553 CATCCATTCATGAATTTTTATTTATGGCATCCTTTCATACCTTAGTG
1 CATCCGTTCATGCA-TTTTAGTTATGGCATCCTTTCATGCCTTAATG
* * **
836600 CATCCGTTCATTCACTTTAGTTATGTAATCCTTTCATGCCTTAATG
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
* * * *
836646 CATTCGTTCATGCATTTTTATTTATGGCATCCTTTCATGCCTTAGTA
1 CATCCGTTCATGCA-TTTTAGTTATGGCATCCTTTCATGCCTTAATG
**
836693 CATATGTTCATGCACTTTT-GTTATGG
1 CATCCGTTCATGCA-TTTTAGTTATGG
836719 TATAGTCAAT
Statistics
Matches: 448, Mismatches: 82, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
45 37 0.08
46 254 0.57
47 157 0.35
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (46 bp):
CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
Found at i:836280 original size:20 final size:20
Alignment explanation
Indices: 836209--836285 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 20
836199 TTTAGTTATG
*
836209 GCATCCTGTCAAGCCTTAAT
1 GCATCCTTTCAAGCCTTAAT
* *
836229 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCAAGC--CTTA---AT
836254 GGCATCCTTTCAAGCCTTAAT
1 -GCATCCTTTCAAGCCTTAAT
*
836275 GCATCCGTTCA
1 GCATCCTTTCA
836286 TGCATTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
20 22 0.49
21 2 0.04
22 3 0.07
24 3 0.07
25 2 0.04
26 13 0.29
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.36
Consensus pattern (20 bp):
GCATCCTTTCAAGCCTTAAT
Found at i:836347 original size:93 final size:93
Alignment explanation
Indices: 836144--836718 Score: 732
Period size: 93 Copynumber: 6.2 Consensus size: 93
836134 AACACATCCA
* * * ** *
836144 TTCATACATTTTAGTTATGGTATCCTTTCAAGCCTTAATGCATTTGTTCATGCA-TTTTAGTTAT
1 TTCATGCACTTTAGTTATGGCATCCTTTCAAGCCTTAATGCATCCGTTCATGCATTTTTATTTAT
* *
836208 GGCATCCTGTCA-AGCCTTAATGCATCCT-
66 GGCATCCTTTCATA-CCTTAGTGCAT-CTG
*
836236 TTCATGCATTTTAGTTATGGCATCCTTTCAAGCCTTAATGCATCCGTTCATGCATTTTTATTTAT
1 TTCATGCACTTTAGTTATGGCATCCTTTCAAGCCTTAATGCATCCGTTCATGCATTTTTATTTAT
* *
836301 GACATCCTTTCATACCTTAGTGCATCTA
66 GGCATCCTTTCATACCTTAGTGCATCTG
836329 TTCATGCACTTTAGTTATGGCATCCTTTCATA-CCTTAATGCATCCGTTCATGCATTTTTATTTA
1 TTCATGCACTTTAGTTATGGCATCCTTTCA-AGCCTTAATGCATCCGTTCATGCATTTTTATTTA
* * * ** *
836393 TGGAATCCTTTGATGCCTTAGTATATCCG
65 TGGCATCCTTTCATACCTTAGTGCATCTG
* * * * *
836422 TTCATGCACTTTAGTTATGGCATCCTTTCATGCCTTAATACACCCGTCCATGTA-TTTT-TTTAT
1 TTCATGCACTTTAGTTATGGCATCCTTTCAAGCCTTAATGCATCCGTTCATGCATTTTTATTTAT
*
836485 GGCATCCTTTCATGCCTTAGTGCAT-TCG
66 GGCATCCTTTCATACCTTAGTGCATCT-G
* * * *
836513 TTCATGCACTTTAGTTATGGCATCATTTCATGCCTTAATGCATCCATTCATGAATTTTTATTTAT
1 TTCATGCACTTTAGTTATGGCATCCTTTCAAGCCTTAATGCATCCGTTCATGCATTTTTATTTAT
*
836578 GGCATCCTTTCATACCTTAGTGCATCCG
66 GGCATCCTTTCATACCTTAGTGCATCTG
* ** * *
836606 TTCATTCACTTTAGTTATGTAATCCTTTCATGCCTTAATGCATTCGTTCATGCATTTTTATTTAT
1 TTCATGCACTTTAGTTATGGCATCCTTTCAAGCCTTAATGCATCCGTTCATGCATTTTTATTTAT
* * *
836671 GGCATCCTTTCATGCCTTAGTACATATG
66 GGCATCCTTTCATACCTTAGTGCATCTG
*
836699 TTCATGCACTTTTGTTATGG
1 TTCATGCACTTTAGTTATGG
836719 TATAGTCAAT
Statistics
Matches: 425, Mismatches: 49, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
91 75 0.18
92 60 0.14
93 288 0.68
94 2 0.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.43
Consensus pattern (93 bp):
TTCATGCACTTTAGTTATGGCATCCTTTCAAGCCTTAATGCATCCGTTCATGCATTTTTATTTAT
GGCATCCTTTCATACCTTAGTGCATCTG
Found at i:836373 original size:20 final size:20
Alignment explanation
Indices: 836303--836379 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
836293 TTATTTATGA
*
836303 CATCCTTTCATACCTTAGTG
1 CATCCTTTCATACCTTAATG
*
836323 CAT-CTATTCATGCACTTTAGTTATGG
1 CATCCT-TTCAT--ACCTTA---AT-G
836349 CATCCTTTCATACCTTAATG
1 CATCCTTTCATACCTTAATG
*
836369 CATCCGTTCAT
1 CATCCTTTCAT
836380 GCATTTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
19 2 0.04
20 19 0.42
21 2 0.04
22 5 0.11
24 5 0.11
25 1 0.02
26 9 0.20
27 2 0.04
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.40
Consensus pattern (20 bp):
CATCCTTTCATACCTTAATG
Found at i:836572 original size:277 final size:278
Alignment explanation
Indices: 836137--836718 Score: 833
Period size: 277 Copynumber: 2.1 Consensus size: 278
836127 ATGCATCAAC
* * * * * *** *
836137 ACATCCATTCATACATTTTAGTTATGGTATCCTTTCAAGCCTTAATGCATTTGTTCATGCATTTT
1 ACATCCGTTCATGCACTTTAGTTATGGCATCCTTTCAAGCCTTAATACACCCGTCCATGCATTTT
* * *
836202 AGTTATGGCATCCTGTCAAGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCAA
66 AGTTATGGCATCCTGTCAAGCCTTAATGCATCCGTTCATGCACTTTAGTTATGGCATCATTTCAA
* * *
836267 GCCTTAATGCATCCGTTCATGCATTTTTATTTATGACATCCTTTCATACCTTAGTGCATCTATTC
131 GCCTTAATGCATCCATTCATGAATTTTTATTTATGACATCCTTTCATACCTTAGTGCATCCATTC
*
836332 ATGCACTTTAGTTATGGCATCCTTTCATACCTTAATGCATCCGTTCATGCATTTTTATTTATGGA
196 ATGCACTTTAGTTATGGAATCCTTTCATACCTTAATGCATCCGTTCATGCATTTTTATTTATGGA
*
836397 ATCCTTTGATGCCTTAGT
261 ATCCTTTCATGCCTTAGT
* * *
836415 ATATCCGTTCATGCACTTTAGTTATGGCATCCTTTCATGCCTTAATACACCCGTCCATGTATTTT
1 ACATCCGTTCATGCACTTTAGTTATGGCATCCTTTCAAGCCTTAATACACCCGTCCATGCATTTT
* * * * * *
836480 -TTTATGGCATCCTTTCATGCCTTAGTGCATTCGTTCATGCACTTTAGTTATGGCATCATTTCAT
66 AGTTATGGCATCCTGTCAAGCCTTAATGCATCCGTTCATGCACTTTAGTTATGGCATCATTTCAA
* *
836544 GCCTTAATGCATCCATTCATGAATTTTTATTTATGGCATCCTTTCATACCTTAGTGCATCCGTTC
131 GCCTTAATGCATCCATTCATGAATTTTTATTTATGACATCCTTTCATACCTTAGTGCATCCATTC
* * * * *
836609 ATTCACTTTAGTTATGTAATCCTTTCATGCCTTAATGCATTCGTTCATGCATTTTTATTTATGGC
196 ATGCACTTTAGTTATGGAATCCTTTCATACCTTAATGCATCCGTTCATGCATTTTTATTTATGGA
836674 ATCCTTTCATGCCTTAGT
261 ATCCTTTCATGCCTTAGT
** *
836692 ACATATGTTCATGCACTTTTGTTATGG
1 ACATCCGTTCATGCACTTTAGTTATGG
836719 TATAGTCAAT
Statistics
Matches: 267, Mismatches: 37, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
277 214 0.80
278 53 0.20
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (278 bp):
ACATCCGTTCATGCACTTTAGTTATGGCATCCTTTCAAGCCTTAATACACCCGTCCATGCATTTT
AGTTATGGCATCCTGTCAAGCCTTAATGCATCCGTTCATGCACTTTAGTTATGGCATCATTTCAA
GCCTTAATGCATCCATTCATGAATTTTTATTTATGACATCCTTTCATACCTTAGTGCATCCATTC
ATGCACTTTAGTTATGGAATCCTTTCATACCTTAATGCATCCGTTCATGCATTTTTATTTATGGA
ATCCTTTCATGCCTTAGT
Found at i:837151 original size:74 final size:74
Alignment explanation
Indices: 837069--837231 Score: 213
Period size: 74 Copynumber: 2.2 Consensus size: 74
837059 ACTACTACCC
* * * *
837069 TGGTATCGATACTTCTATACTATGGTATCGATAC-CCCTTTCAATATCAATATCATTTCT-ATAT
1 TGGTATCGATACTTCTACACTATGGTACCGATACTCCCTTTCAATATCAATACCATTT-TGACAT
* *
837132 TCTGTGTTGCA
65 TCTG-GATCCA
* * *
837143 TGGTATCGATACTACTACACTATGGTACCGATACTCCCTTTCAGTATCGATACCATTTTGACATT
1 TGGTATCGATACTTCTACACTATGGTACCGATACTCCCTTTCAATATCAATACCATTTTGACATT
837208 CTGGATCCA
66 CTGGATCCA
837217 TGGTATCGATACTTC
1 TGGTATCGATACTTC
837232 CCTTAGTTAA
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
74 50 0.65
75 27 0.35
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (74 bp):
TGGTATCGATACTTCTACACTATGGTACCGATACTCCCTTTCAATATCAATACCATTTTGACATT
CTGGATCCA
Found at i:840694 original size:59 final size:58
Alignment explanation
Indices: 840623--840770 Score: 201
Period size: 59 Copynumber: 2.5 Consensus size: 58
840613 TGCAAAATGT
*
840623 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGG-AACTTCGTGTGCTAACATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCAACTT-GTGTGCTAA-AGGA
* ** * *
840682 TAAGAAATTCATACTAAGTGTATAAATTTATGTATTGGGCACCTTGTGTGCTAAAGGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCAACTTGTGTGCTAAAGGA
840740 TAAGGAAA-TCATACTAAGTGTATGAATTTCC
1 TAA-GAAATTCATACTAAGTGTATGAATTTCC
840771 ATATGAGAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
58 26 0.33
59 48 0.62
60 4 0.05
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (58 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCAACTTGTGTGCTAAAGGA
Found at i:841341 original size:68 final size:68
Alignment explanation
Indices: 841144--841350 Score: 283
Period size: 68 Copynumber: 3.0 Consensus size: 68
841134 AAAAGATCAA
* *
841144 GAGGCCTAACTGTGCATAT-AATAGAAAGGTGTTATTTATACCAGTTAGATGAAAC-ACTAAGTG
1 GAGGCCTAACTGTGCATATGAA-AGAAAGGTGTCATTTATGCCAGTTAGATG-AACGACTAAGTG
841207 TCTTT
64 TCTTT
* * * *
841212 GAGGCCTAACTGTGCATATGAAAGAAATGTGTCATTTAAGTCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAACGACTAAGTGTC
841277 TTT
66 TTT
* * * *
841280 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGAATAAGTATC
1 GAGGCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAACGACTAAGTGTC
*
841345 ATT
66 TTT
841348 GAG
1 GAG
841351 TAAAAGAATA
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
67 2 0.02
68 118 0.97
69 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAACGACTAAGTGTC
TTT
Found at i:841421 original size:80 final size:80
Alignment explanation
Indices: 841282--841578 Score: 461
Period size: 80 Copynumber: 3.7 Consensus size: 80
841272 GTGTCTTTGA
* * ** *
841282 GGCCTAACTGTGCATATGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGAATAAGTATCAT
1 GGCCTAACTGTACAT-TGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
841347 TGAGTAAAAGAATAAT
65 TGAGTAAAAGAATAAT
* *
841363 GGCCTAACTGTGCATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAGTACCATT
1 GGCCTAACTGTACATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATT
*
841428 GAGTAAAAAAATAAT
66 GAGTAAAAGAATAAT
*
841443 GGCCTAACTGTACATTGGCAGAAAGGTGTCAATTATGCCAATTAGATGAACGGTTAAGTACCATT
1 GGCCTAACTGTACATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATT
*
841508 AAGTAAAAGAATAAT
66 GAGTAAAAGAATAAT
* * *
841523 GGCCTAACTGTACATTGGTAGAAAGGTGTCAATTATGTCAGTTAGACGAAC-GTTAA
1 GGCCTAACTGTACATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAA
841579 ACTCTGTTGA
Statistics
Matches: 201, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
79 5 0.02
80 181 0.90
81 15 0.07
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (80 bp):
GGCCTAACTGTACATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATT
GAGTAAAAGAATAAT
Found at i:843867 original size:26 final size:26
Alignment explanation
Indices: 843838--843889 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
843828 TTTGAAAAAC
*
843838 CTGAGAGCATCGATGCATCAAATGCA
1 CTGAGAGCATCGATGCATAAAATGCA
*
843864 CTGAGTGCATCGATGCATAAAATGCA
1 CTGAGAGCATCGATGCATAAAATGCA
843890 TTCGATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
CTGAGAGCATCGATGCATAAAATGCA
Found at i:843933 original size:20 final size:20
Alignment explanation
Indices: 843908--843946 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
843898 TTGAAAAATT
843908 AATTGGTGCATCGATGCATG
1 AATTGGTGCATCGATGCATG
*
843928 AATTGGTGCATCGGTGCAT
1 AATTGGTGCATCGATGCAT
843947 CACTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (20 bp):
AATTGGTGCATCGATGCATG
Found at i:846142 original size:13 final size:13
Alignment explanation
Indices: 846114--846152 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
846104 TGGGCAAGGT
*
846114 TTTGAAAA-ACTA
1 TTTGAAAATAATA
846126 TTTGAAAATAATA
1 TTTGAAAATAATA
*
846139 TTTGTAAATAATA
1 TTTGAAAATAATA
846152 T
1 T
846153 GTATAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (13 bp):
TTTGAAAATAATA
Found at i:850733 original size:15 final size:15
Alignment explanation
Indices: 850713--850753 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
850703 ACTTCTTGTT
850713 CCTCTTCATCGGAAC
1 CCTCTTCATCGGAAC
850728 CCTCTTCATCGGAAC
1 CCTCTTCATCGGAAC
850743 CCTCTTCATCG
1 CCTCTTCATCG
850754 CTCCATGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.17, C:0.41, G:0.12, T:0.29
Consensus pattern (15 bp):
CCTCTTCATCGGAAC
Found at i:852661 original size:45 final size:46
Alignment explanation
Indices: 852573--852663 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
852563 TTTGAAAAAC
* * *
852573 CTGAGTGCGTCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
852619 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
852664 TTCGATGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 22 0.52
46 20 0.48
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:852708 original size:20 final size:20
Alignment explanation
Indices: 852683--852720 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
852673 TGAAAAATTA
852683 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
852703 ATTGGTGCATCGATGCAT
1 ATTGGTGCATCGATGCAT
852721 CACTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:858948 original size:3 final size:3
Alignment explanation
Indices: 858940--858995 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
858930 TAAAATTTAA
* * *
858940 ATT ATT ATT TTT ATT ATT ATT ATT AAT ATAT ATAT ATAT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T AT-T AT-T ATT ATT ATT
858988 ATT ATT AT
1 ATT ATT AT
858996 ATAAATAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 35 0.76
4 11 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:858981 original size:21 final size:19
Alignment explanation
Indices: 858940--858998 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 19
858930 TAAAATTTAA
* *
858940 ATTATTATTTTTATTAT-T
1 ATTATTAATATTATTATAT
858958 ATTATTAATATATATATATAT
1 ATTATTAATAT-TAT-TATAT
*
858979 ATTATTACTATTATTATAT
1 ATTATTAATATTATTATAT
858998 A
1 A
858999 AATAAATTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 9 0.26
19 9 0.26
20 6 0.17
21 11 0.31
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTATTAATATTATTATAT
Found at i:860361 original size:4 final size:4
Alignment explanation
Indices: 860345--860376 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
860335 CTATAGTTTT
*
860345 TTTA TTCA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
860377 CAATGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:866096 original size:23 final size:23
Alignment explanation
Indices: 866030--866090 Score: 95
Period size: 23 Copynumber: 2.6 Consensus size: 23
866020 CTCATCCAGC
866030 AAAGAAAGAAGAAGGAAAAAAACAA
1 AAAGAAA-AA-AAGGAAAAAAACAA
*
866055 AAAGGAAAAAAGGAAAAAAACAA
1 AAAGAAAAAAAGGAAAAAAACAA
866078 AAAGAAAAAAAGG
1 AAAGAAAAAAAGG
866091 GGAAAATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 26 0.76
24 2 0.06
25 6 0.18
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (23 bp):
AAAGAAAAAAAGGAAAAAAACAA
Found at i:870727 original size:22 final size:22
Alignment explanation
Indices: 870701--870777 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
870691 ATCTACACTC
870701 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
870723 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
870745 TTTAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
870767 TTCAAAGATGA
1 TTCAAAGATGA
870778 AAGCTTTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:871634 original size:76 final size:76
Alignment explanation
Indices: 871453--872391 Score: 1681
Period size: 76 Copynumber: 12.4 Consensus size: 76
871443 CTATTTCCCA
871453 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
871517 AGGCTTAGGGT
66 AGCCTTAGGGT
*
871528 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
871593 AGCCTTAGGGT
66 AGCCTTAGGGT
871604 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
871668 AAGCCTTAGGGT
65 AAGCCTTAGGGT
* * *
871680 CATCTGTATGTCCTACAGTGCATGATGTTTCCAAAAAACTTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
871745 AGCCTTAGGGT
66 AGCCTTAGGGT
871756 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
871821 AGCCTTAGGGT
66 AGCCTTAGGGT
*
871832 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
871896 AGCCTTAGGGT
66 AGCCTTAGGGT
871907 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
871972 AAGCCTTAGGGT
65 AAGCCTTAGGGT
*
871984 CATCTGTAAGTCCTACAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
872049 AGCCTTAGGGT
66 AGCCTTAGGGT
872060 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
872124 AGCCTTAGGGT
66 AGCCTTAGGGT
*
872135 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
872199 AGCCTTAGGGT
66 AGCCTTAGGGT
*
872210 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
872275 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * *
872286 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAACCTTCGGGAGATTGTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
872351 AACCTTAGGGT
66 AGCCTTAGGGT
**
872362 CATCTGTAAGTCCTTTAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
872392 TCAACATTTC
Statistics
Matches: 837, Mismatches: 20, Indels: 13
0.96 0.02 0.01
Matches are distributed among these distances:
75 270 0.32
76 502 0.60
77 65 0.08
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:872538 original size:3 final size:3
Alignment explanation
Indices: 872530--872585 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
872520 TAAAATTAAA
* *
872530 ATT ATT ATT TTT ATT ATT ATT ATT ATT ATT AAT A-T ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
872575 ATT ATT ATT AT
1 ATT ATT ATT AT
872586 ATAAATAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
2 2 0.04
3 43 0.90
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:874003 original size:12 final size:13
Alignment explanation
Indices: 873978--874006 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
873968 CTATAGTTTT
873978 TTTATTTCATTTA
1 TTTATTTCATTTA
873991 TTTATTT-ATTTA
1 TTTATTTCATTTA
874003 TTTA
1 TTTA
874007 CAATGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTTCATTTA
Found at i:878065 original size:25 final size:25
Alignment explanation
Indices: 878037--878087 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
878027 TAATAAATAG
878037 TGATAATACAAAACATATCATATAA
1 TGATAATACAAAACATATCATATAA
** *
878062 TGATAATATGAAAGATATCATATAA
1 TGATAATACAAAACATATCATATAA
878087 T
1 T
878088 AATATATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (25 bp):
TGATAATACAAAACATATCATATAA
Found at i:882553 original size:31 final size:31
Alignment explanation
Indices: 882515--882575 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
882505 CTTATTAGGG
*
882515 AGAGATACTAGAGTCTCTTTGAATTCAATTA
1 AGAGATACTAGAGTCTCTTTGAATCCAATTA
882546 AGAGATACTAGAGTCTCTTTGAATCCAATT
1 AGAGATACTAGAGTCTCTTTGAATCCAATT
882576 GAATTGGTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (31 bp):
AGAGATACTAGAGTCTCTTTGAATCCAATTA
Found at i:883971 original size:17 final size:17
Alignment explanation
Indices: 883938--884020 Score: 67
Period size: 17 Copynumber: 4.8 Consensus size: 17
883928 AATCTACGTT
*
883938 TGATAATTGTAAAACATC
1 TGATAACTGT-AAACATC
883956 TGATAACTGTAAACATC
1 TGATAACTGTAAACATC
* * * *
883973 TTATAATTGAAAATCATA
1 TGATAACTGTAAA-CATC
* * *
883991 TAATAACTTTAAATATC
1 TGATAACTGTAAACATC
*
884008 TGATAAATGTAAA
1 TGATAACTGTAAA
884021 TATTTAGAAT
Statistics
Matches: 50, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
17 29 0.58
18 21 0.42
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (17 bp):
TGATAACTGTAAACATC
Found at i:883979 original size:35 final size:36
Alignment explanation
Indices: 883938--884020 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 36
883928 AATCTACGTT
* *
883938 TGATAATTGTAAAA-CATCTGATAACTGTAAACATC
1 TGATAATTGTAAAATCATATAATAACTGTAAACATC
* * *
883973 TTATAATTG-AAAATCATATAATAACTTTAAATATC
1 TGATAATTGTAAAATCATATAATAACTGTAAACATC
*
884008 TGATAAATGTAAA
1 TGATAATTGTAAA
884021 TATTTAGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
34 4 0.10
35 32 0.82
36 3 0.08
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (36 bp):
TGATAATTGTAAAATCATATAATAACTGTAAACATC
Found at i:897598 original size:111 final size:112
Alignment explanation
Indices: 897262--897943 Score: 1020
Period size: 111 Copynumber: 6.1 Consensus size: 112
897252 TTGTCGGTTT
* * * * * *
897262 GTGTCGATATTTTATAAAAATATATTGATCCATAACAATATAACATGTAAGAAAATAATAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACACGTAAAAAAATGACAAAACC
* * * *
897327 GGTTTATAAATGACAAAACAGGTAAAACGTTACCAGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
897374 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACACGTAAAAAAAATGACAAAAT
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACACGT-AAAAAAATGACAAAAC
897439 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
897487 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACACGT-AAAAAATGACAAAACT
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACACGTAAAAAAATGACAAAACC
*
897551 GGTCTATAAATGACAAAACAGCTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
897598 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACATGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACACGTAAAAAAATGACAAAACC
*
897662 GGTATATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
897709 GTGTCGATACTTTATAAAAATATATCGATCAATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACACGTAAAAAAATGACAAAACC
897774 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* ** * *
897821 GTGTCGATACTTTATAAAAATGTATTAAGT-CATAACAATGTAACA-GATAAAAAAATGCCAAAA
1 GTGTCGATACTTTATAAAAATATATCGA-TCCATAACAATATAACACG-TAAAAAAATGACAAAA
* * *
897884 CCGGTATATAAATGACAAAACAGGT----CGCTACCGGATATGTTGATA
64 CCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
897929 GCGTCGATATTTTAT
1 GTGTCGATACTTTAT
897944 TATAAGTATC
Statistics
Matches: 532, Mismatches: 34, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
108 31 0.06
111 213 0.40
112 185 0.35
113 103 0.19
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACACGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:898187 original size:181 final size:177
Alignment explanation
Indices: 897818--898265 Score: 621
Period size: 181 Copynumber: 2.5 Consensus size: 177
897808 GGATATATTG
* * * *
897818 AAAGTGTCGATACTTTATAAAAATGTATTAAGT-CATAACAATGTAACAGATAAAAAAATGCCAA
1 AAAGTGTCGATACTTTATAAAAATGTATTGA-TCCATAACAATATAACAG-TAAAAATATGACAA
** * * * * *
897882 AACCGGTATATAAATGACAAAACAGGTCGCTACCGGATATGTTGATAGCGTCGATATTTTATTAT
64 AACCGGTATCGAAATGACAAAACCGGTAGCTACCAGATATGTTGAAAGCGTCGATACTTTATTAT
* * *
897947 AAGTATCGACGCTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
129 AAGTATCGACGATTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
* *
897996 AAAGTGTCGATATTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACA-GTAAAAATATGACAAA
* *
898061 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTAT
65 ACCGGTATCGAAATGACAAAACCGGT----AGCTACCAGATATGTTGAAAGCGTCGATACTTTAT
898126 TATAAGTATCGAC-ATTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
126 TATAAGTATCGACGATTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
* *
898177 AAAGTGTCGATACTTTATAAAAATGTATTGATCCATAATAATATAACAGGAAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACA-GTAAAAATATGACAAA
*
898242 ATCGGTATCGAAATGACAAAACCG
65 ACCGGTATCGAAATGACAAAACCG
898266 ATAATAAAAA
Statistics
Matches: 239, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
177 1 0.00
178 77 0.32
179 1 0.00
181 117 0.49
182 43 0.18
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (177 bp):
AAAGTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAGTAAAAATATGACAAAA
CCGGTATCGAAATGACAAAACCGGTAGCTACCAGATATGTTGAAAGCGTCGATACTTTATTATAA
GTATCGACGATTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
Found at i:899135 original size:2 final size:2
Alignment explanation
Indices: 899128--899152 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
899118 AAGATAGAAA
899128 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 A
899153 AGTTAGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:902373 original size:16 final size:16
Alignment explanation
Indices: 902352--902419 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
902342 AATTGATTGG
902352 GTTATTTTCGGTTCGA
1 GTTATTTTCGGTTCGA
* *
902368 GTTATTTTCGATTCGG
1 GTTATTTTCGGTTCGA
* **
902384 GTTAATTTCACTTC-A
1 GTTATTTTCGGTTCGA
* *
902399 TGTTACTTTCGGTTCGG
1 -GTTATTTTCGGTTCGA
902416 GTTA
1 GTTA
902420 AATTGGATAT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (16 bp):
GTTATTTTCGGTTCGA
Found at i:911905 original size:25 final size:25
Alignment explanation
Indices: 911871--911918 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
911861 CCCTTAGCAG
911871 AATTTGCTTATAATAATAATTACAA
1 AATTTGCTTATAATAATAATTACAA
911896 AATTTGCTTATAATAATAATTAC
1 AATTTGCTTATAATAATAATTAC
911919 CATTCAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (25 bp):
AATTTGCTTATAATAATAATTACAA
Found at i:913205 original size:18 final size:18
Alignment explanation
Indices: 913182--913217 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
913172 GTAGAACACA
913182 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
913200 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
913218 GTAGAACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:916443 original size:18 final size:19
Alignment explanation
Indices: 916415--916453 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
916405 CTCTTAATTT
916415 TTTACTTTAATTGCTTTTA
1 TTTACTTTAATTGCTTTTA
*
916434 TTTA-TTTAATTGTTTTTA
1 TTTACTTTAATTGCTTTTA
916452 TT
1 TT
916454 ACTACTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTACTTTAATTGCTTTTA
Found at i:926759 original size:18 final size:18
Alignment explanation
Indices: 926738--926774 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
926728 TTACTTTCAA
926738 TGAACCAATAACCTGCAC
1 TGAACCAATAACCTGCAC
926756 TGAACCAATAACCTGCAC
1 TGAACCAATAACCTGCAC
926774 T
1 T
926775 TTTCAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.32, G:0.11, T:0.19
Consensus pattern (18 bp):
TGAACCAATAACCTGCAC
Found at i:928553 original size:36 final size:36
Alignment explanation
Indices: 928511--928587 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
928501 AAATGAATTA
*
928511 AAAATTTATTTTATGCTAAAAGACCTTGTTACCATT
1 AAAATTTATTTTATGCTAAAAGAACTTGTTACCATT
* *
928547 AAAATTTATTTTATGCTAAAAGAATTTTTTACCATT
1 AAAATTTATTTTATGCTAAAAGAACTTGTTACCATT
928583 AAAAT
1 AAAAT
928588 ATCATGATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.43
Consensus pattern (36 bp):
AAAATTTATTTTATGCTAAAAGAACTTGTTACCATT
Found at i:930583 original size:28 final size:28
Alignment explanation
Indices: 930543--930599 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
930533 ATGCACCGCC
930543 AATGACAAGACCACATTTACTGTTGACG
1 AATGACAAGACCACATTTACTGTTGACG
930571 AATGACAAGACCACATTTACTGTTGACG
1 AATGACAAGACCACATTTACTGTTGACG
930599 A
1 A
930600 CTTCACAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (28 bp):
AATGACAAGACCACATTTACTGTTGACG
Found at i:931426 original size:16 final size:16
Alignment explanation
Indices: 931402--931442 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
931392 TACATAGCTA
*
931402 GCACCAGCTACAACTG
1 GCACTAGCTACAACTG
*
931418 GCACTAGCTATAACTG
1 GCACTAGCTACAACTG
*
931434 GAACTAGCT
1 GCACTAGCT
931443 GATAACAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.20
Consensus pattern (16 bp):
GCACTAGCTACAACTG
Found at i:931959 original size:12 final size:13
Alignment explanation
Indices: 931942--931970 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
931932 GCTTCTCCAA
931942 TCTTTCTCTTT-C
1 TCTTTCTCTTTCC
931954 TCTTTCTCTTTCC
1 TCTTTCTCTTTCC
931967 TCTT
1 TCTT
931971 CCACTATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TCTTTCTCTTTCC
Found at i:938491 original size:30 final size:30
Alignment explanation
Indices: 938455--938535 Score: 144
Period size: 30 Copynumber: 2.7 Consensus size: 30
938445 TGGATTTTCG
*
938455 AAAAAATGACCGAAAATATTATTAGACGCT
1 AAAAAATGACCGAAAATATTACTAGACGCT
*
938485 AAAAAATGACCGAAAATATTACTAGGCGCT
1 AAAAAATGACCGAAAATATTACTAGACGCT
938515 AAAAAATGACCGAAAATATTA
1 AAAAAATGACCGAAAATATTA
938536 AAAAATGATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (30 bp):
AAAAAATGACCGAAAATATTACTAGACGCT
Found at i:949494 original size:26 final size:25
Alignment explanation
Indices: 949448--949496 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
949438 AATAAAACTT
*
949448 AAAATAAAAAAAGTGAAAACTTTGA
1 AAAATAAAAAAAGTAAAAACTTTGA
949473 AAAATAAAGAAAA-TAAAGAACTTT
1 AAAATAAA-AAAAGTAAA-AACTTT
949497 ATAAAACTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.65, C:0.04, G:0.10, T:0.20
Consensus pattern (25 bp):
AAAATAAAAAAAGTAAAAACTTTGA
Found at i:949502 original size:26 final size:26
Alignment explanation
Indices: 949447--949502 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
949437 AAATAAAACT
*
949447 TAAAATAAAAAAAGTGAAAACTTTGA
1 TAAAATAAAAAAAGTAAAAACTTTGA
949473 -AAAATAAAGAAAA-TAAAGAACTTT-A
1 TAAAATAAA-AAAAGTAAA-AACTTTGA
949498 TAAAA
1 TAAAA
949503 CTAGAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.66, C:0.04, G:0.09, T:0.21
Consensus pattern (26 bp):
TAAAATAAAAAAAGTAAAAACTTTGA
Found at i:953901 original size:23 final size:21
Alignment explanation
Indices: 953867--953926 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 21
953857 TGCACTACAT
*
953867 GGTGCATCGATGCACTAGTGGCA-
1 GGTGCATGGATGCACT--T-GCAG
953890 GGTGCATGGATGCAC-TGCAG
1 GGTGCATGGATGCACTTGCAG
953910 GGTGCATGGATGCACTT
1 GGTGCATGGATGCACTT
953927 TGACACCCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 3 0.09
20 16 0.47
21 1 0.03
23 14 0.41
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.23
Consensus pattern (21 bp):
GGTGCATGGATGCACTTGCAG
Found at i:954649 original size:9 final size:10
Alignment explanation
Indices: 954633--954659 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
954623 TAAATTTAGG
954633 TAAAAAAAAT
1 TAAAAAAAAT
954643 TAAAAAAAAT
1 TAAAAAAAAT
954653 TAAAAAA
1 TAAAAAA
954660 TCAAAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
TAAAAAAAAT
Found at i:956757 original size:21 final size:20
Alignment explanation
Indices: 956733--956784 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
956723 TGGCATGTGT
*
956733 ATGGATGCACTGCAGAGGTGC
1 ATGGATGCACTGCAG-GGTAC
*
956754 ATGGATGCACTGTAGGGTAC
1 ATGGATGCACTGCAGGGTAC
*
956774 AAGGATGCACT
1 ATGGATGCACT
956785 TTATATACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (20 bp):
ATGGATGCACTGCAGGGTAC
Found at i:959679 original size:25 final size:26
Alignment explanation
Indices: 959642--959690 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
959632 AATAAAACTT
*
959642 AAAATAAAAAAAATGAA-AACTTTGA
1 AAAATAAAAAAAATAAAGAACTTTGA
*
959667 AAAATAAAGAAAATAAAGAACTTT
1 AAAATAAAAAAAATAAAGAACTTT
959691 ATAAAACTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.20
Consensus pattern (26 bp):
AAAATAAAAAAAATAAAGAACTTTGA
Found at i:969225 original size:20 final size:20
Alignment explanation
Indices: 969200--969250 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
969190 TTCAAGCAGG
969200 GAGTATCGATACTGCTATGA
1 GAGTATCGATACTGCTATGA
969220 GAGTATCGATACTGCTATGA
1 GAGTATCGATACTGCTATGA
969240 GAGTATCGATA
1 GAGTATCGATA
969251 ATGCCCCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (20 bp):
GAGTATCGATACTGCTATGA
Found at i:980739 original size:20 final size:20
Alignment explanation
Indices: 980716--980762 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
980706 TTCTAAATAA
980716 ATAAATATCTTATTAAAAAT
1 ATAAATATCTTATTAAAAAT
* * *
980736 ATAATATATTTTCTTAAAATT
1 ATAA-ATATCTTATTAAAAAT
980757 ATAAAT
1 ATAAAT
980763 TTGAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAATATCTTATTAAAAAT
Found at i:983545 original size:26 final size:25
Alignment explanation
Indices: 983494--983555 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
983484 TATTTATTTA
*
983494 CTTA-GTATTTTATATTTATCTATT
1 CTTATGTATTTTAAATTTATCTATT
*
983518 CTATATGTATTTTAAATTTTGTCT-TT
1 CT-TATGTATTTTAAA-TTTATCTATT
*
983544 CTTATTTATTTT
1 CTTATGTATTTT
983556 TTATTAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 2 0.06
25 11 0.34
26 13 0.41
27 6 0.19
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.65
Consensus pattern (25 bp):
CTTATGTATTTTAAATTTATCTATT
Found at i:983644 original size:6 final size:6
Alignment explanation
Indices: 983629--983657 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
983619 ATATTATTTA
983629 TTTA-T TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT
983658 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:988199 original size:34 final size:34
Alignment explanation
Indices: 988122--988282 Score: 128
Period size: 34 Copynumber: 4.7 Consensus size: 34
988112 AACAAGTTTC
* *
988122 ATCTCACTCGAGACAGTTTCTCTCGAAATAAATTTT
1 ATCTCACTCAAGACAGTTTCTCTTG-AA-AAATTTT
** * * *
988158 ATCTCACTTGAGATATTTTCTCTTGAAAAATGTT
1 ATCTCACTCAAGACAGTTTCTCTTGAAAAATTTT
* ***
988192 ATCTCACTCAAGACAGTTTCCCTCT-AATTTTTTT
1 ATCTCACTCAAGACAGTTTCTCT-TGAAAAATTTT
* * *
988226 ATCTCACAT-AAGATATTTTCTCTAGAAAAATTTT
1 ATCTCAC-TCAAGACAGTTTCTCTTGAAAAATTTT
* *
988260 ATCTCACTAAAGACCGTTTCTCT
1 ATCTCACTCAAGACAGTTTCTCT
988283 CAAAACAAAA
Statistics
Matches: 97, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
33 1 0.01
34 71 0.73
35 4 0.04
36 21 0.22
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (34 bp):
ATCTCACTCAAGACAGTTTCTCTTGAAAAATTTT
Found at i:988243 original size:68 final size:70
Alignment explanation
Indices: 988122--988279 Score: 203
Period size: 68 Copynumber: 2.3 Consensus size: 70
988112 AACAAGTTTC
* * * * *
988122 ATCTCACTCGAGACAGTTTCTCTCGAAATAAATTTTATCTCACTTGAGATATTTTCTCTTGAAAA
1 ATCTCACTCAAGACAGTTTCCCTCGAAATAAATTTTATCTCACATAAGATATTTTCTCTAGAAAA
988187 ATGTT
66 ATGTT
* **
988192 ATCTCACTCAAGACAGTTTCCCTC-TAAT-TTTTTTATCTCACATAAGATATTTTCTCTAGAAAA
1 ATCTCACTCAAGACAGTTTCCCTCGAAATAAATTTTATCTCACATAAGATATTTTCTCTAGAAAA
*
988255 ATTTT
66 ATGTT
* *
988260 ATCTCACTAAAGACCGTTTC
1 ATCTCACTCAAGACAGTTTC
988280 TCTCAAAACA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
68 52 0.68
69 3 0.04
70 22 0.29
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (70 bp):
ATCTCACTCAAGACAGTTTCCCTCGAAATAAATTTTATCTCACATAAGATATTTTCTCTAGAAAA
ATGTT
Found at i:990216 original size:23 final size:24
Alignment explanation
Indices: 990173--990217 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
990163 CTATTTCTCT
*
990173 TTAAGCATATTAATATGCCAAGTG
1 TTAAGCATATTAATATACCAAGTG
990197 TTAAGCATATT-ATATACCAAG
1 TTAAGCATATTAATATACCAAG
990218 GTAAGGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (24 bp):
TTAAGCATATTAATATACCAAGTG
Found at i:990832 original size:22 final size:22
Alignment explanation
Indices: 990804--990849 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
990794 ATGAAGTGTT
990804 AATGCT-GAATTTTAATATTAGA
1 AATGCTGGAATTTTAA-ATTAGA
*
990826 AATGCTGGAATTTTAAGTTAGA
1 AATGCTGGAATTTTAAATTAGA
990848 AA
1 AA
990850 GTTGATTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.37
Consensus pattern (22 bp):
AATGCTGGAATTTTAAATTAGA
Found at i:992709 original size:105 final size:105
Alignment explanation
Indices: 992526--992844 Score: 449
Period size: 105 Copynumber: 3.0 Consensus size: 105
992516 GGTGGAGTGA
* ** * *
992526 TTATGATATAATGCGGTGTTACCGGTGGCTACACTGGTATATTTTTCAGATATGATTGCAATTTG
1 TTATGATATACTATGGTGTTACCGGTGGGTACACTAGTATATTTTTCAGATATGATTGCAATTTG
*
992591 TGTGCATATTATGATTCCGATGTGATACCATTGTGTGTGC
66 TGTGCATATTATGATTCCGATGTGATACCACTGTGTGTGC
* *
992631 TTATGATATACTATGGTGTTACCGGTGGGTACACTAGTATATTTTTCAAATATGATTGCATTTTG
1 TTATGATATACTATGGTGTTACCGGTGGGTACACTAGTATATTTTTCAGATATGATTGCAATTTG
* * *
992696 TGTGCATACTATGATTCCGATGTGATAGCACTGTGTGTTC
66 TGTGCATATTATGATTCCGATGTGATACCACTGTGTGTGC
* * * * *
992736 TTATGATATACGATGGTGTTACCAGTCGGTACACTAGTATATTTTTTAGATATGATTGCACTTTG
1 TTATGATATACTATGGTGTTACCGGTGGGTACACTAGTATATTTTTCAGATATGATTGCAATTTG
* * ** *
992801 AGTGCATATTATGATTCTGATGTGATAGTACTATGTGTGC
66 TGTGCATATTATGATTCCGATGTGATACCACTGTGTGTGC
992841 TTAT
1 TTAT
992845 ATTATTCAGA
Statistics
Matches: 191, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 191 1.00
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (105 bp):
TTATGATATACTATGGTGTTACCGGTGGGTACACTAGTATATTTTTCAGATATGATTGCAATTTG
TGTGCATATTATGATTCCGATGTGATACCACTGTGTGTGC
Found at i:1001211 original size:19 final size:20
Alignment explanation
Indices: 1001175--1001213 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1001165 GGAGCTTCTA
1001175 TCAAAATCTTTTTCAACATT
1 TCAAAATCTTTTTCAACATT
1001195 TCAAAA-CTTTCTT-AACATT
1 TCAAAATCTTT-TTCAACATT
1001214 CAAGAGTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TCAAAATCTTTTTCAACATT
Found at i:1004593 original size:30 final size:30
Alignment explanation
Indices: 1004553--1004613 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
1004543 GTCCCGAAGA
*
1004553 ACCTACCCATATGTCCCGAAGGACATAGGT
1 ACCTACCCATATATCCCGAAGGACATAGGT
* *
1004583 ACCTATCCATATATCCTGAAGGACATAGGT
1 ACCTACCCATATATCCCGAAGGACATAGGT
1004613 A
1 A
1004614 ACCCTCGACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (30 bp):
ACCTACCCATATATCCCGAAGGACATAGGT
Done.