Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 70 of 193
Found at i:22492495 original size:77 final size:77
Alignment explanation
Indices: 22492368--22492554 Score: 295
Period size: 77 Copynumber: 2.4 Consensus size: 77
22492358 AAGTTCTTGT
* * * *
22492368 GCCCAGCGCTAGTCGGAT-AATCGACAAATATAAAATGTGAGCTCAGCTCTAATCGGATATACCA
1 GCCCAGCGCTAGTCGGATAAACCGACAAATATAAAATGTGAGCCCAACTCTAATCGAATATACCA
22492432 ACAATGTTTTGC
66 ACAATGTTTTGC
* *
22492444 GCCCAGCGCTAGTCGGATAAACCGACAAATATAAAATGTGAGCCCAACTCTAGTTGAATATACCA
1 GCCCAGCGCTAGTCGGATAAACCGACAAATATAAAATGTGAGCCCAACTCTAATCGAATATACCA
22492509 ACAATGTTTTGC
66 ACAATGTTTTGC
* *
22492521 GCCCAGCGCTAGTTGGATAAACCGACGAATATAA
1 GCCCAGCGCTAGTCGGATAAACCGACAAATATAA
22492555 GAAACGTGCC
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
76 18 0.18
77 84 0.82
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (77 bp):
GCCCAGCGCTAGTCGGATAAACCGACAAATATAAAATGTGAGCCCAACTCTAATCGAATATACCA
ACAATGTTTTGC
Found at i:22494617 original size:222 final size:222
Alignment explanation
Indices: 22494231--22494677 Score: 885
Period size: 222 Copynumber: 2.0 Consensus size: 222
22494221 AAGTATAAAA
*
22494231 ATTATCTATATGAATGGATTTTAGCAACAAATAAACACAATTCACAAAAATTAATAACATAAATA
1 ATTATCTATATAAATGGATTTTAGCAACAAATAAACACAATTCACAAAAATTAATAACATAAATA
22494296 AAATAGGACAATCACATTAATTAATTTAATTCATTACTAACATGCTTAATAATATTCAGAAAACA
66 AAATAGGACAATCACATTAATTAATTTAATTCATTACTAACATGCTTAATAATATTCAGAAAACA
22494361 TTCCATGACAACTCGATCTTTCATGAGTTTGGAAACCGAATTAGGTCCTTTCGAAAACCTTTACT
131 TTCCATGACAACTCGATCTTTCATGAGTTTGGAAACCGAATTAGGTCCTTTCGAAAACCTTTACT
22494426 TAGCAAATATGCATTTTACTGATCATT
196 TAGCAAATATGCATTTTACTGATCATT
22494453 ATTATCTATATAAATGGATTTTAGCAACAAATAAACACAATTCACAAAAATTAATAACATAAATA
1 ATTATCTATATAAATGGATTTTAGCAACAAATAAACACAATTCACAAAAATTAATAACATAAATA
22494518 AAATAGGACAATCACATTAATTAATTTAATTCATTACTAACATGCTTAATAATATTCAGAAAACA
66 AAATAGGACAATCACATTAATTAATTTAATTCATTACTAACATGCTTAATAATATTCAGAAAACA
22494583 TTCCATGACAACTCGATCTTTCATGAGTTTGGAAACCGAATTAGGTCCTTTCGAAAACCTTTACT
131 TTCCATGACAACTCGATCTTTCATGAGTTTGGAAACCGAATTAGGTCCTTTCGAAAACCTTTACT
22494648 TAGCAAATATGCATTTTACTGATCATT
196 TAGCAAATATGCATTTTACTGATCATT
22494675 ATT
1 ATT
22494678 CACTAAGGGT
Statistics
Matches: 224, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
222 224 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (222 bp):
ATTATCTATATAAATGGATTTTAGCAACAAATAAACACAATTCACAAAAATTAATAACATAAATA
AAATAGGACAATCACATTAATTAATTTAATTCATTACTAACATGCTTAATAATATTCAGAAAACA
TTCCATGACAACTCGATCTTTCATGAGTTTGGAAACCGAATTAGGTCCTTTCGAAAACCTTTACT
TAGCAAATATGCATTTTACTGATCATT
Found at i:22499022 original size:25 final size:24
Alignment explanation
Indices: 22498994--22499059 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 24
22498984 GACCCCCTTT
* *
22498994 ATTAAACATAAAAAATAGAATTAAA
1 ATTAAA-ATAAAAAATACAATAAAA
22499019 ATTAAAATTAAAAACA-ACAATAAAA
1 ATTAAAA-TAAAAA-ATACAATAAAA
*
22499044 ATGAAAAATAAAAAAT
1 AT-TAAAATAAAAAAT
22499060 TCAAAACCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
24 2 0.06
25 27 0.79
26 5 0.15
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (24 bp):
ATTAAAATAAAAAATACAATAAAA
Found at i:22509621 original size:53 final size:53
Alignment explanation
Indices: 22509527--22509667 Score: 201
Period size: 53 Copynumber: 2.7 Consensus size: 53
22509517 GCCATAAATG
* *
22509527 TAAAAGGTCCGATGATTTTGTGTCATCGTGAGTATACGAATCCTATTACGGAT
1 TAAAAGGTCCGATGATTTTATGTCATCGTGAGTATACGAATCCTATTACGAAT
* * * *
22509580 TAACAGGTTCGATGATTTTTTGTCATCGTGAGTATATGAATCCTATTACGAAT
1 TAAAAGGTCCGATGATTTTATGTCATCGTGAGTATACGAATCCTATTACGAAT
* * *
22509633 TAAAAAGTCCGATGACTATATGTCATCGTGAGTAT
1 TAAAAGGTCCGATGATTTTATGTCATCGTGAGTAT
22509668 TAAATGAGAA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 77 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (53 bp):
TAAAAGGTCCGATGATTTTATGTCATCGTGAGTATACGAATCCTATTACGAAT
Found at i:22512391 original size:19 final size:20
Alignment explanation
Indices: 22512367--22512408 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22512357 ATTCGACTAG
* *
22512367 TTTTGGG-TCTCAGTCTCAA
1 TTTTGGGCTCCCAGACTCAA
22512386 TTTTGGGCTCCCAGACTCAA
1 TTTTGGGCTCCCAGACTCAA
22512406 TTT
1 TTT
22512409 ACGATCTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.40
Consensus pattern (20 bp):
TTTTGGGCTCCCAGACTCAA
Found at i:22514406 original size:18 final size:19
Alignment explanation
Indices: 22514379--22514414 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22514369 CAAAAAATTA
*
22514379 TAAATATAAAAAATAATAT
1 TAAATATAAAAAAGAATAT
22514398 TAAAT-TAAAAAAGAATA
1 TAAATATAAAAAAGAATA
22514415 AAAAAGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
TAAATATAAAAAAGAATAT
Found at i:22514832 original size:2 final size:2
Alignment explanation
Indices: 22514827--22514863 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22514817 TAAAAAACTA
22514827 AT 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 AT A
22514864 AAAAGGGACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22514987 original size:18 final size:20
Alignment explanation
Indices: 22514937--22514987 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
22514927 CCAAATACCT
*
22514937 TTTTTATAATTTTAGATTTA
1 TTTTTATAATTTTAGATATA
**
22514957 TTTTTATTGTTTT-GA-ATA
1 TTTTTATAATTTTAGATATA
22514975 TTTTTATAATTTT
1 TTTTTATAATTTT
22514988 TAAATTATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 13 0.50
19 2 0.08
20 11 0.42
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTTTATAATTTTAGATATA
Found at i:22515889 original size:20 final size:19
Alignment explanation
Indices: 22515866--22515917 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
22515856 GTAAAATAGT
22515866 TTTTATAATTTTAAATAAAA
1 TTTTATAATTTTAAA-AAAA
* *
22515886 TTTTA-CATTTTAAAAAGA
1 TTTTATAATTTTAAAAAAA
*
22515904 TTTTTTAGATTTTA
1 TTTTATA-ATTTTA
22515918 TATTTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 11 0.42
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (19 bp):
TTTTATAATTTTAAAAAAA
Found at i:22523182 original size:22 final size:22
Alignment explanation
Indices: 22523157--22523202 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
22523147 TATTAAATGG
22523157 ATTT-AAAA-TATTATAGAAAATT
1 ATTTCAAAATTATTA-AG-AAATT
22523179 ATTTCAAAATTATTAAGAAATT
1 ATTTCAAAATTATTAAGAAATT
22523201 AT
1 AT
22523203 AAATAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 11 0.50
23 6 0.27
24 5 0.23
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (22 bp):
ATTTCAAAATTATTAAGAAATT
Found at i:22523187 original size:23 final size:21
Alignment explanation
Indices: 22523157--22523215 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 21
22523147 TATTAAATGG
22523157 ATTTAAAA-TATTATAGAAAATT
1 ATTTAAAATTATTA-AG-AAATT
22523179 ATTTCAAAATTATTAAGAAATT
1 ATTT-AAAATTATTAAGAAATT
*
22523201 A-TAAATAATTATTAA
1 ATTTAA-AATTATTAA
22523216 TTGTTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 2 0.06
21 10 0.30
22 10 0.30
23 6 0.18
24 5 0.15
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (21 bp):
ATTTAAAATTATTAAGAAATT
Found at i:22523363 original size:19 final size:18
Alignment explanation
Indices: 22523332--22523382 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
22523322 AATGAATCCT
22523332 ATTCTATAAATTTATTATA
1 ATTCT-TAAATTTATTATA
*
22523351 ATTCTTAATATTTTTTATA
1 ATTCTTAA-ATTTATTATA
22523370 ATTTCTTATAATT
1 A-TTCTTA-AATT
22523383 CAAATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 15 0.54
20 9 0.32
21 1 0.04
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTCTTAAATTTATTATA
Found at i:22523503 original size:20 final size:19
Alignment explanation
Indices: 22523480--22523529 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
22523470 ATAATTAATA
22523480 ATAATTTTTTAAAATTTTAT
1 ATAATTTTTTAAAATTTT-T
* *
22523500 ATAATTTTGT-ATATTTTT
1 ATAATTTTTTAAAATTTTT
*
22523518 ATAATTATTTAA
1 ATAATTTTTTAA
22523530 GCAATTGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 9 0.36
19 7 0.28
20 9 0.36
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATAATTTTTTAAAATTTTT
Found at i:22524511 original size:16 final size:17
Alignment explanation
Indices: 22524492--22524528 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
22524482 AAATTTATAA
*
22524492 TATATTATT-TTTATTT
1 TATATTATTATTTAATT
22524508 TATA-TATTATTTAATT
1 TATATTATTATTTAATT
22524524 TATAT
1 TATAT
22524529 CACATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATATTATTATTTAATT
Found at i:22524518 original size:21 final size:22
Alignment explanation
Indices: 22524474--22524519 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 22
22524464 TGAACTCAAC
22524474 TTATTTTTAAATTTATAATATA
1 TTATTTTTAAATTTATAATATA
22524496 TTATTTTT--ATTT-T-ATATA
1 TTATTTTTAAATTTATAATATA
22524514 TTATTT
1 TTATTT
22524520 AATTTATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.46
19 1 0.04
20 4 0.17
22 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTTTTAAATTTATAATATA
Found at i:22525219 original size:2 final size:2
Alignment explanation
Indices: 22525212--22525263 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
22525202 CAATGAGTAT
* * * *
22525212 TA TA TA TA TA TA CA CA CA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22525254 TA TA TA TA TA
1 TA TA TA TA TA
22525264 AGGGTGAGCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:22525687 original size:23 final size:23
Alignment explanation
Indices: 22525654--22525707 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
22525644 AATAATTTTT
**
22525654 AATTTTTGAAAATGTA-TTTATA
1 AATTTTTGAAAAAATATTTTATA
22525676 AATTTTTGGAAAAAATATTTTATA
1 AATTTTT-GAAAAAATATTTTATA
22525700 AATATTTT
1 AAT-TTTT
22525708 AAATTTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 7 0.26
23 7 0.26
24 9 0.33
25 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
AATTTTTGAAAAAATATTTTATA
Found at i:22526953 original size:14 final size:14
Alignment explanation
Indices: 22526934--22526964 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
22526924 TCTGATTTTC
22526934 TTTAAAATAAAAAT
1 TTTAAAATAAAAAT
22526948 TTT-AAATAAAAAT
1 TTTAAAATAAAAAT
22526961 TTTA
1 TTTA
22526965 TTATTTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.81
14 3 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAAAATAAAAAT
Found at i:22529158 original size:2 final size:2
Alignment explanation
Indices: 22529153--22529179 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22529143 TATATATATA
22529153 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
22529180 TAAAAATGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:22539056 original size:57 final size:57
Alignment explanation
Indices: 22538989--22539106 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 57
22538979 ATATTAATAA
*
22538989 TCACTCAATTACCAGT-ATAAATTTTTTATCATCCAACTATGAAAATTTATAAAACGG
1 TCACTCAATTACCAGTAAT-AATTTTTTATCATCCAACTATGAAAAGTTATAAAACGG
* ** ** * * *
22539046 TCACTTAATTATTAGTAATTTTTTTTTGTCATCTAACTATGAAAAGTTATAAAATGG
1 TCACTCAATTACCAGTAATAATTTTTTATCATCCAACTATGAAAAGTTATAAAACGG
22539103 TCAC
1 TCAC
22539107 CCAACTATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 49 0.96
58 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.40
Consensus pattern (57 bp):
TCACTCAATTACCAGTAATAATTTTTTATCATCCAACTATGAAAAGTTATAAAACGG
Found at i:22540117 original size:60 final size:58
Alignment explanation
Indices: 22540038--22540209 Score: 193
Period size: 60 Copynumber: 2.9 Consensus size: 58
22540028 AATTGAATCT
* * * *
22540038 AAAAAA-GCTTAGGTACCAAATTAGGAAGAAATACCAAGTTCAAATACCAAATTAGGTCC
1 AAAAAATGTTTAGGTACCAAATTAGGAA-AAATATCAAGTTCAGATACCAAATTAGGT-A
* ** * *
22540097 AAAAAATGTTTAGGTGCCAAATTAGGAAAAATTATCAAGTTTGGATATCAAATTGGGTA
1 AAAAAATGTTTAGGTACCAAATTAGGAAAAA-TATCAAGTTCAGATACCAAATTAGGTA
* *
22540156 AAAAAATGTTTAAGTACCAAATTAGAAAAAAAATATCAAGTTCAGATACCAAAT
1 AAAAAATGTTTAGGTACCAAATTAG--GAAAAATATCAAGTTCAGATACCAAAT
22540210 GTTATATTAA
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
59 32 0.34
60 57 0.61
61 5 0.05
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (58 bp):
AAAAAATGTTTAGGTACCAAATTAGGAAAAATATCAAGTTCAGATACCAAATTAGGTA
Found at i:22540291 original size:27 final size:27
Alignment explanation
Indices: 22540261--22540315 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
22540251 TACCCTAAAA
22540261 GTTTTAAGTATTGAAGTTGGATATTGT
1 GTTTTAAGTATTGAAGTTGGATATTGT
22540288 GTTTTAAGTATTGAAGTTGGATATTGT
1 GTTTTAAGTATTGAAGTTGGATATTGT
22540315 G
1 G
22540316 ATATTCGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (27 bp):
GTTTTAAGTATTGAAGTTGGATATTGT
Found at i:22543920 original size:17 final size:16
Alignment explanation
Indices: 22543887--22543926 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
22543877 TAATTTATTA
22543887 AATAAAA-ATTATTTT
1 AATAAAATATTATTTT
*
22543902 AATTAAAATATTTTTTT
1 AA-TAAAATATTATTTT
22543919 AATAAAAT
1 AATAAAAT
22543927 GTTTAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 11 0.50
17 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAAAATATTATTTT
Found at i:22552695 original size:25 final size:25
Alignment explanation
Indices: 22552667--22552757 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
22552657 ACTTTGTCTA
*
22552667 GGCTTATAAGAGCTAACCCTATATG
1 GGCTCATAAGAGCTAACCCTATATG
* *
22552692 GGCTCGTAAGAGCTAACCCTATCTG
1 GGCTCATAAGAGCTAACCCTATATG
* ***
22552717 GGCTCATACGAGCTAAATTTATATG
1 GGCTCATAAGAGCTAACCCTATATG
* *
22552742 GGCTCGTATGAGCTAA
1 GGCTCATAAGAGCTAA
22552758 TCTCTGGAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
GGCTCATAAGAGCTAACCCTATATG
Found at i:22562573 original size:25 final size:25
Alignment explanation
Indices: 22562539--22562589 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
22562529 GTTTTGGAAT
*
22562539 TTTTATTTTTCATT-TTTATGGTTAA
1 TTTTAATTTT-ATTGTTTATGGTTAA
*
22562564 TTTTAATTTTATTGTTTATGTTTAA
1 TTTTAATTTTATTGTTTATGGTTAA
22562589 T
1 T
22562590 AAGGGGTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.08, T:0.69
Consensus pattern (25 bp):
TTTTAATTTTATTGTTTATGGTTAA
Found at i:22564513 original size:11 final size:11
Alignment explanation
Indices: 22564497--22564528 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
22564487 CCAAAGTCAA
22564497 ACCGTTGACCG
1 ACCGTTGACCG
*
22564508 ATCGTTGACCG
1 ACCGTTGACCG
22564519 ACCGTTGACC
1 ACCGTTGACC
22564529 ATTGACAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.34, G:0.25, T:0.22
Consensus pattern (11 bp):
ACCGTTGACCG
Found at i:22564552 original size:21 final size:20
Alignment explanation
Indices: 22564523--22564575 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
22564513 TGACCGACCG
22564523 TTGACCATTGACAGTTGATCA
1 TTGACCATTGACAGTTGA-CA
* * *
22564544 TTGATCATTGACCGTTGACT
1 TTGACCATTGACAGTTGACA
22564564 TTGACCATTGAC
1 TTGACCATTGAC
22564576 TTTTTTCGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (20 bp):
TTGACCATTGACAGTTGACA
Found at i:22564569 original size:13 final size:13
Alignment explanation
Indices: 22564523--22564578 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 13
22564513 TGACCGACCG
*
22564523 TTGACCATTGACAG
1 TTGACCATTGAC-T
* *
22564537 TTGATCATTGATCA
1 TTGACCATTGA-CT
*
22564551 TTGACCGTTGACT
1 TTGACCATTGACT
22564564 TTGACCATTGACT
1 TTGACCATTGACT
22564577 TT
1 TT
22564579 TTTCGAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
13 15 0.43
14 19 0.54
15 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (13 bp):
TTGACCATTGACT
Found at i:22565843 original size:34 final size:34
Alignment explanation
Indices: 22565800--22565867 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
22565790 GTATAATTAT
22565800 GTTTATCTTTGGGAATGAATGTGAATGATTTTGG
1 GTTTATCTTTGGGAATGAATGTGAATGATTTTGG
22565834 GTTTATCTTTGGGAATGAATGTGAATGATTTTGG
1 GTTTATCTTTGGGAATGAATGTGAATGATTTTGG
22565868 ATTGTTGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.44
Consensus pattern (34 bp):
GTTTATCTTTGGGAATGAATGTGAATGATTTTGG
Found at i:22566363 original size:27 final size:27
Alignment explanation
Indices: 22566324--22566375 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
22566314 AGGATATGAG
*
22566324 GAGGAGCCAAACAA-TCCTAAACCAACT
1 GAGGAACCAAACAACT-CTAAACCAACT
*
22566351 GAGGAACCTAACAACTCTAAACCAA
1 GAGGAACCAAACAACTCTAAACCAA
22566376 AAGTTAAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.46, C:0.29, G:0.13, T:0.12
Consensus pattern (27 bp):
GAGGAACCAAACAACTCTAAACCAACT
Found at i:22575361 original size:56 final size:56
Alignment explanation
Indices: 22575294--22575406 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
22575284 CTTGCCAAAG
* * * *
22575294 AATCCAGAGAAACACTCGCACCCTTTGAGGTGCCTTAACCTTCTAAATTAACTCCC
1 AATCAAGAGAAACACTCACACCCTCTGAGGTACCTTAACCTTCTAAATTAACTCCC
22575350 AATCAAGAGAAACACTCACACCCTCTGAGGTACCTTAACCTTCTAAATTAACTCCC
1 AATCAAGAGAAACACTCACACCCTCTGAGGTACCTTAACCTTCTAAATTAACTCCC
22575406 A
1 A
22575407 CACTTTAGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.34, C:0.32, G:0.11, T:0.24
Consensus pattern (56 bp):
AATCAAGAGAAACACTCACACCCTCTGAGGTACCTTAACCTTCTAAATTAACTCCC
Found at i:22599075 original size:79 final size:79
Alignment explanation
Indices: 22598980--22599529 Score: 541
Period size: 79 Copynumber: 6.9 Consensus size: 79
22598970 TTGCGGTTTC
* * * *
22598980 AATCTACCTCATGATCGGGGTAAGAGATTAGATGGTTGCGATCTGCCCCAAGATCGAGGTAAGAG
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGAGGTAAGAG
22599045 ATCGGATGGTTTTT
66 ATCGGATGGTTTTT
* * * * **
22599059 AATCTGTCCCATGATCGGGGTAAGAGATTGGATGGCTACGATCTGCCCTAAAATCGAGGTAA-AC
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGAGGTAAGA-
22599123 GATCGGATGGTTTTT
65 GATCGGATGGTTTTT
* * *
22599138 AATCTGCCCCATGATCGGGGTATGAGATTGGATGGCTGCGATCTGCCCCATGATCGGGGTAAGAG
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGAGGTAAGAG
22599203 ATCGGATGGTTTTT
66 ATCGGATGGTTTTT
* * ** *
22599217 AATTTGCCCCATGATCGAGGTAAGAGATTGGATGGTTGCGATCTATCCCATGATAG-GAGTAAGA
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGAG-GTAAGA
*
22599281 GATCGGATGGCTTTT
65 GATCGGATGGTTTTT
* *** * * *
22599296 AATCTGCCCCATGATCGGGGTAAGAGATCGGATGGTTTTTAATCTACCCCATGATTGGGGTAAGA
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGG-TTGCGATCTGCCCCATGATCGAGGTAAGA
* * **
22599361 GATTGGAT-GTCTAC
65 GATCGGATGGTTTTT
* * * *** * *
22599375 AATCTGCCTCATGATCGGGGTAAGAGATCGGATGTTTTTTAATCTGCCCCATGATTGGGGTAAGA
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATG-GTTGCGATCTGCCCCATGATCGAGGTAAGA
* *****
22599440 GATTGGAT-GACCGC
65 GATCGGATGGTTTTT
* * * * * * * * *
22599454 GATTTGTCCCATGATCGGAGTAAGAGATCGGATGGTTTTCAATTTGCCCCATGATCGGGGTAAGA
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGG-TTGCGATCTGCCCCATGATCGAGGTAAGA
*
22599519 GATTGGATGGT
65 GATCGGATGGT
22599530 GATGTAACTT
Statistics
Matches: 411, Mismatches: 52, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
78 2 0.00
79 377 0.92
80 31 0.08
81 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (79 bp):
AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGAGGTAAGAG
ATCGGATGGTTTTT
Found at i:22599333 original size:198 final size:198
Alignment explanation
Indices: 22598979--22599529 Score: 687
Period size: 198 Copynumber: 2.8 Consensus size: 198
22598969 GTTGCGGTTT
* * ** *** *
22598979 CAATCTACCTCATGATCGGGGTAAGAGATTAGATGG-TTGCGATCTGCCCCAAGATCGAGGTAAG
1 CAATCTGCCCCATGATCGGGGTAAGAGATCGGATGGTTTTTAATCTGCCCCATGATCGAGGTAAG
* *** * * ***
22599043 AGATCGGATGGTTTTTAATCTGTCCCATGATCGGGGTAAGAGATTGGATGGC-TACGATCTGCCC
66 AGATTGGATGG-TTGCGATCTGTCCCATGATCGGAGTAAGAGATCGGATGGCTTTTAATCTGCCC
* ** * * *
22599107 TAAAATCGAGGTAA-ACGATCGGATGGTTTTTAATCTGCCCCATGATCGGGGTATGAGATTGGAT
130 CATGATCGGGGTAAGA-GATCGGATGGTTTTTAATCTACCCCATGATCGGGGTAAGAGATTGGAT
*
22599171 GGCTG
194 GGCTA
* *
22599176 CGATCTGCCCCATGATCGGGGTAAGAGATCGGATGGTTTTTAATTTGCCCCATGATCGAGGTAAG
1 CAATCTGCCCCATGATCGGGGTAAGAGATCGGATGGTTTTTAATCTGCCCCATGATCGAGGTAAG
* *
22599241 AGATTGGATGGTTGCGATCTATCCCATGATAGGAGTAAGAGATCGGATGGCTTTTAATCTGCCCC
66 AGATTGGATGGTTGCGATCTGTCCCATGATCGGAGTAAGAGATCGGATGGCTTTTAATCTGCCCC
* *
22599306 ATGATCGGGGTAAGAGATCGGATGGTTTTTAATCTACCCCATGATTGGGGTAAGAGATTGGATGT
131 ATGATCGGGGTAAGAGATCGGATGGTTTTTAATCTACCCCATGATCGGGGTAAGAGATTGGATGG
22599371 CTA
196 CTA
* * * *
22599374 CAATCTGCCTCATGATCGGGGTAAGAGATCGGATGTTTTTTAATCTGCCCCATGATTGGGGTAAG
1 CAATCTGCCCCATGATCGGGGTAAGAGATCGGATGGTTTTTAATCTGCCCCATGATCGAGGTAAG
*** * *
22599439 AGATTGGATGACCGCGATTTGTCCCATGATCGGAGTAAGAGATCGGATGG-TTTTCAATTTGCCC
66 AGATTGGATGGTTGCGATCTGTCCCATGATCGGAGTAAGAGATCGGATGGCTTTT-AATCTGCCC
*
22599503 CATGATCGGGGTAAGAGATTGGATGGT
130 CATGATCGGGGTAAGAGATCGGATGGT
22599530 GATGTAACTT
Statistics
Matches: 306, Mismatches: 44, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
197 68 0.22
198 237 0.77
199 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (198 bp):
CAATCTGCCCCATGATCGGGGTAAGAGATCGGATGGTTTTTAATCTGCCCCATGATCGAGGTAAG
AGATTGGATGGTTGCGATCTGTCCCATGATCGGAGTAAGAGATCGGATGGCTTTTAATCTGCCCC
ATGATCGGGGTAAGAGATCGGATGGTTTTTAATCTACCCCATGATCGGGGTAAGAGATTGGATGG
CTA
Found at i:22599959 original size:49 final size:50
Alignment explanation
Indices: 22599809--22599998 Score: 149
Period size: 49 Copynumber: 3.9 Consensus size: 50
22599799 TCTTGTCAAG
* * * *
22599809 CTTCTAAGGTACTAGGTTCACCGTTGCGGCCTCAACCTTTTCCCTTTATAT
1 CTTCTAAGGTACCAAGTTCACCGTTGCGGCCTCAACC-TTTCCCTTCAAAT
* * * * *
22599860 -TTCCATGGTA-CTAGATTCACCGTTGCGGCCTCAATCC--TCCCATCACAT
1 CTTCTAAGGTACCAAG-TTCACCGTTGCGGCCTCAA-CCTTTCCCTTCAAAT
* *
22599908 CTTCTAAGGTACCAAGTTC-GCGTTACGGCCTCAACCTTTCCCTTCAAAT
1 CTTCTAAGGTACCAAGTTCACCGTTGCGGCCTCAACCTTTCCCTTCAAAT
** ** ** *
22599957 CTT-TGTGGTACCGGGTTCGTCGTTGCGGCCTCAACCCTTCCC
1 CTTCTAAGGTACCAAGTTCACCGTTGCGGCCTCAACCTTTCCC
22599999 ATCACATTTC
Statistics
Matches: 110, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
47 2 0.02
48 32 0.29
49 44 0.40
50 30 0.27
51 2 0.02
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.32
Consensus pattern (50 bp):
CTTCTAAGGTACCAAGTTCACCGTTGCGGCCTCAACCTTTCCCTTCAAAT
Found at i:22600044 original size:97 final size:98
Alignment explanation
Indices: 22599880--22600056 Score: 216
Period size: 97 Copynumber: 1.8 Consensus size: 98
22599870 CTAGATTCAC
* * *
22599880 CGTTGCGGCCTCAATCCTCCCATCACATCTTCTAAGGTACCAAGTTCGCGTTACGGCCTCAACCT
1 CGTTGCGGCCTCAACCCTCCCATCACATCTTCTAAGATACCAAATTCGCGTTACGGCCTCAACCT
*
22599945 TTCCCT-TCAAATCTTTGTGGTACCGGGTTCGT
66 TTCCCTGCCAAATCTTTGTGGTACCGGGTTCGT
* * ** * * *
22599977 CGTTGCGGCCTCAACCCTTCCCATCACAT-TTC-ATGATGCCAAATTCATTGTTGCGGCTTCAAT
1 CGTTGCGGCCTCAACCC-TCCCATCACATCTTCTAAGATACCAAATTC-GCGTTACGGCCTCAAC
22600040 CTTTCCCTGCCAAATCT
64 CTTTCCCTGCCAAATCT
22600057 GTAGAATATG
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
96 10 0.15
97 38 0.58
98 18 0.27
ACGTcount: A:0.19, C:0.33, G:0.16, T:0.32
Consensus pattern (98 bp):
CGTTGCGGCCTCAACCCTCCCATCACATCTTCTAAGATACCAAATTCGCGTTACGGCCTCAACCT
TTCCCTGCCAAATCTTTGTGGTACCGGGTTCGT
Found at i:22600651 original size:112 final size:112
Alignment explanation
Indices: 22600454--22600764 Score: 444
Period size: 112 Copynumber: 2.8 Consensus size: 112
22600444 TAACCGTCAT
* *
22600454 TTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTAAATTTTATTGGAGGCAAAG
1 TTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATTTTATTGGAGGCAGAG
* *** *
22600519 CTCGCGTGAATGAAAAGATTAAGAATCATTAGTTGA-TAGACTGTTAA
66 CTCACGTGAATGAAAAGATTAAGAATCATTAGCCCACT-GACAGTTAA
*
22600566 TTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATTTTATCGGAGGCAGAG
1 TTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATTTTATTGGAGGCAGAG
* * *
22600631 CTCATGTGAATGAAAAGATTAAGAATTATTAGCCCACTGACAGTTAT
66 CTCACGTGAATGAAAAGATTAAGAATCATTAGCCCACTGACAGTTAA
** *
22600678 TTCAATGCAAATGTGCTTGAACAGGGTTGTAAGGTGGATAAAATTGAATTTTATTGGAGGCAGAG
1 TTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATTTTATTGGAGGCAGAG
* * * *
22600743 CTCGCATGAATAAAAAGGTTAA
66 CTCACGTGAATGAAAAGATTAA
22600765 AAATGACCCA
Statistics
Matches: 178, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
112 177 0.99
113 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (112 bp):
TTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATTTTATTGGAGGCAGAG
CTCACGTGAATGAAAAGATTAAGAATCATTAGCCCACTGACAGTTAA
Found at i:22601979 original size:22 final size:22
Alignment explanation
Indices: 22601954--22602001 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22601944 CATTTGCGGG
22601954 CTTTCATCTTGTCTTTT-TTTTC
1 CTTT-ATCTTGTCTTTTCTTTTC
* *
22601976 CTTTTTCTTTTCTTTTCTTTTC
1 CTTTATCTTGTCTTTTCTTTTC
22601998 CTTT
1 CTTT
22602002 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (22 bp):
CTTTATCTTGTCTTTTCTTTTC
Found at i:22601981 original size:10 final size:10
Alignment explanation
Indices: 22601966--22602006 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
22601956 TTCATCTTGT
22601966 CTTTTTTTTC
1 CTTTTTTTTC
*
22601976 CTTTTTCTTTT
1 CTTTTT-TTTC
22601987 CTTTTCTTTTC
1 CTTTT-TTTTC
22601998 CTTTTTTTT
1 CTTTTTTTT
22602007 TAAAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 10 0.37
11 16 0.59
12 1 0.04
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTTTTTTC
Found at i:22602007 original size:16 final size:16
Alignment explanation
Indices: 22601966--22602007 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
22601956 TTCATCTTGT
* *
22601966 CTTTTTTTTCCTTTTT
1 CTTTTTTTTTCTTTTC
*
22601982 CTTTTCTTTTCTTTTC
1 CTTTTTTTTTCTTTTC
22601998 CTTTTTTTTT
1 CTTTTTTTTT
22602008 AAAAAAAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTTTTTTTTCTTTTC
Found at i:22608552 original size:103 final size:102
Alignment explanation
Indices: 22608354--22608631 Score: 290
Period size: 103 Copynumber: 2.7 Consensus size: 102
22608344 TAAAATTTTT
* * * * * * * * *
22608354 AAAATCGAGACAATGTTTCTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACATACTTGGTATA
1 AAAATCGAGGCAATATTT-TTTATTTAGGAAACTCAAAAAATTGTGCTCAAACGTACTGGGTATG
* *
22608419 ATTTTTCTTTGAACCGAAGTAATTGAATATCCTATTTG
65 ATTTTTCTTTGAACCGAAATAATCGAATATCCTATTTG
*
22608457 AAAAACGAGGCAATATTTATTTATTTAGGAAACTCAAAAAATTGTGCTCAAACGTACTGGGTATG
1 AAAATCGAGGCAATATTT-TTTATTTAGGAAACTCAAAAAATTGTGCTCAAACGTACTGGGTATG
* * * *
22608522 ATTTTTCTTTGGACCTAAATCATCGAATATCCTATTTT
65 ATTTTTCTTTGAACCGAAATAATCGAATATCCTATTTG
* * * * * * *
22608560 AAAATCGAGGCAATATCCTTTTGA-GT-GAAAATCTCAAAAAATTGTGCCCTAACGTGCTGGGTG
1 AAAATCGAGGCAATAT--TTTTTATTTAGGAAA-CTCAAAAAATTGTGCTCAAACGTACTGGGTA
22608623 TGATTTTTC
63 TGATTTTTC
22608632 GTGAAATTTG
Statistics
Matches: 147, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
102 4 0.03
103 138 0.94
104 3 0.02
105 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (102 bp):
AAAATCGAGGCAATATTTTTTATTTAGGAAACTCAAAAAATTGTGCTCAAACGTACTGGGTATGA
TTTTTCTTTGAACCGAAATAATCGAATATCCTATTTG
Found at i:22611590 original size:23 final size:23
Alignment explanation
Indices: 22611554--22611601 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
22611544 CGATGCCTTG
* *
22611554 TTGCATGTATTTCAT-CATTCAT
1 TTGCATGTACTTCATGCATTAAT
22611576 TTGCATTGTACTTCATGCATTAAT
1 TTGCA-TGTACTTCATGCATTAAT
22611600 TT
1 TT
22611602 TAATAAGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (23 bp):
TTGCATGTACTTCATGCATTAAT
Found at i:22614512 original size:98 final size:98
Alignment explanation
Indices: 22614262--22614707 Score: 526
Period size: 98 Copynumber: 4.6 Consensus size: 98
22614252 AAATTTGACA
* * * * *
22614262 GGGAAAGATTGAAGTCGCAACGGTGAATCTGGTACTACAAAAATATGGAGGGAAAGGTTGAAGTC
1 GGGAAAGATTGAAGCCGCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTC
** * * *
22614327 AAAACGGCGAACCTTGTACGTCAGAAACATG-T
66 GCAACGACGAACCTTGTACCTCAAAAACATGCT
* * * * * *
22614359 TGG---GATTAAAACCGCAACGATGAATTTGGTACCACAAAGATATAGAGGGAAAGGTTGAAGTC
1 GGGAAAGATTGAAGCCGCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTC
*
22614421 GCAACGACAAACCTTGTACCTCAAAAACATGCT
66 GCAACGACGAACCTTGTACCTCAAAAACATGCT
*
22614454 GGGAAAGATTGAAGCTGCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTC
1 GGGAAAGATTGAAGCCGCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTC
22614519 GC-A-GAGCGAACCTTGTACCTCAAAAACATGCT
66 GCAACGA-CGAACCTTGTACCTCAAAAACATGCT
* * * *
22614551 GGGAAAGATTGAAGCCACAACGGTGAATTTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTT
1 GGGAAAGATTGAAGCCGCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTC
* * * * *
22614616 GTAACGGCGGACCTTGTACCTCAGAAACATGTT
66 GCAACGACGAACCTTGTACCTCAAAAACATGCT
* * ** ** * *
22614649 GGGAAAGATTGAAGCCGCAACAACGAATCCAGTACCTTGAAGATATGAAGAGAAAGGTT
1 GGGAAAGATTGAAGCCGCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTT
22614708 TAGGCCGCAA
Statistics
Matches: 298, Mismatches: 44, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
94 76 0.26
95 3 0.01
96 2 0.01
97 89 0.30
98 127 0.43
99 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.20
Consensus pattern (98 bp):
GGGAAAGATTGAAGCCGCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTC
GCAACGACGAACCTTGTACCTCAAAAACATGCT
Found at i:22614635 original size:49 final size:49
Alignment explanation
Indices: 22614261--22614635 Score: 212
Period size: 49 Copynumber: 7.8 Consensus size: 49
22614251 CAAATTTGAC
* * * * * *
22614261 AGGGAAAGATTGAAGTCGCAACGGTGAATCTGGTACTACAAAAATATGG
1 AGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCACAAAGATATGG
** ** * *
22614310 AGGGAAAGGTTGAAGTCAAAACGGCGAACCTTGTACGTCAGAA-ACATGT
1 AGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCACA-AAGATATGG
* * ** ** * *
22614359 TGGG--A--TTAAAACCGCAACGATGAA-TTTGGTACCACAAAGATATAG
1 AGGGAAAGGTTGAAGTCGCAACGGCGAACCTT-GTACCACAAAGATATGG
* * * * * *
22614404 AGGGAAAGGTTGAAGTCGCAACGACAAACCTTGTACCTCAAAAACATGC
1 AGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCACAAAGATATGG
* * ** * * *
22614453 TGGGAAAGATTGAAG-CTGCAACGATGAATCTGGTACCACGAAGATATGG
1 AGGGAAAGGTTGAAGTC-GCAACGGCGAACCTTGTACCACAAAGATATGG
* * * *
22614502 AGGGAAAGGTTGAAGTCGC-A-GAGCGAACCTTGTACCTCAAAAACATGC
1 AGGGAAAGGTTGAAGTCGCAACG-GCGAACCTTGTACCACAAAGATATGG
* * * * * * *
22614550 TGGGAAAGATTGAAGCCACAACGGTGAA-TTTGGTACCACGAAGATATGG
1 AGGGAAAGGTTGAAGTCGCAACGGCGAACCTT-GTACCACAAAGATATGG
* * *
22614599 AGGGAAAGGTTGAAGTTGTAACGGCGGACCTTGTACC
1 AGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACC
22614636 TCAGAAACAT
Statistics
Matches: 233, Mismatches: 78, Indels: 30
0.68 0.23 0.09
Matches are distributed among these distances:
44 4 0.02
45 24 0.10
47 3 0.01
48 36 0.15
49 158 0.68
50 8 0.03
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (49 bp):
AGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCACAAAGATATGG
Found at i:22614635 original size:195 final size:191
Alignment explanation
Indices: 22614262--22614707 Score: 536
Period size: 195 Copynumber: 2.3 Consensus size: 191
22614252 AAATTTGACA
* * * *
22614262 GGGAAAGATTGAAG-TCGCAACGGTGAATCTGGTACTACAAAAATATGGAGGGAAAGGTTGAAGT
1 GGGAAAGATTGAAGCT-GCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGT
* * * *
22614326 CAAAACGGCGAACCTTGTACGTCAGAAACATGTTGGGATTAAAACCGCAACGATGAATTTGGTAC
65 CAAAAC-GCGAACCTTGTACCTCAAAAACATGTGGGGATTAAAACCACAACGATGAATTTGGTAC
22614391 CACAAAGATATAGAGGGAAAGGTTGAAGTCGCAACGACAAACCTTGTACCTCAAAAACATGCT
129 CACAAAGATATAGAGGGAAAGGTTGAAGTCGCAACGACAAACCTTGTACCTCAAAAACATGCT
22614454 GGGAAAGATTGAAGCTGCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTC
1 GGGAAAGATTGAAGCTGCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTC
* * * * *
22614519 GCAGA-GCGAACCTTGTACCTCAAAAACATGCTGGGAAAGATTGAAGCCACAACGGTGAATTTGG
66 -AAAACGCGAACCTTGTACCTCAAAAACATG-TGGG---GATTAAAACCACAACGATGAATTTGG
* * * * * ** * *
22614583 TACCACGAAGATATGGAGGGAAAGGTTGAAGTTGTAACGGCGGACCTTGTACCTCAGAAACATGT
126 TACCACAAAGATATAGAGGGAAAGGTTGAAGTCGCAACGACAAACCTTGTACCTCAAAAACATGC
22614648 T
191 T
* * * ** ** * *
22614649 GGGAAAGATTGAAGCCGCAACAACGAATCCAGTACCTTGAAGATATGAAGAGAAAGGTT
1 GGGAAAGATTGAAGCTGCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTT
22614708 TAGGCCGCAA
Statistics
Matches: 217, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
191 23 0.11
192 62 0.29
193 3 0.01
195 129 0.59
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.20
Consensus pattern (191 bp):
GGGAAAGATTGAAGCTGCAACGATGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTC
AAAACGCGAACCTTGTACCTCAAAAACATGTGGGGATTAAAACCACAACGATGAATTTGGTACCA
CAAAGATATAGAGGGAAAGGTTGAAGTCGCAACGACAAACCTTGTACCTCAAAAACATGCT
Found at i:22614704 original size:49 final size:49
Alignment explanation
Indices: 22614649--22615218 Score: 302
Period size: 50 Copynumber: 11.5 Consensus size: 49
22614639 GAAACATGTT
* **
22614649 GGGAAAGATTGAAGCCGCAACAACGAATCCAGTACCTTGAAGATATGAA
1 GGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCTTGAAGATATGAA
* * * * * * * * *
22614698 GAGAAAGGTTTAGGCCGCAATGGC-AAACCCGATGCCTTAGAAGATGTGAT
1 GGGAAAGATTGAGGCCGCAACGGCGAATCCAG-TACCTT-GAAGATATGAA
* ** * * * *
22614748 GGGAAGGATTGAGGCCATAACAGCGAATTCGGTACCATGAAGATATGAA
1 GGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCTTGAAGATATGAA
* * * * * * * *
22614797 GGGAAAGGTTGGGGCCACAACGGCAAACCCTGTACCTTAAAAGATGTG-A
1 GGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCTT-GAAGATATGAA
* * * * * *
22614846 TGAAAAGGATTGAGGTCGCAACGACGAATCC-GATACCATGAAGATATAAA
1 GGGAAA-GATTGAGGCCGCAACGGCGAATCCAG-TACCTTGAAGATATGAA
* * * * * * *
22614896 GGGAAAGATTGAGACCACAATGGCAAACCCTA-TACCTTAGAAGATGTGAT
1 GGGAAAGATTGAGGCCGCAACGGCGAATCC-AGTACCTT-GAAGATATGAA
* * * * *
22614946 GGGAAGGATTGAGGCCGCAATGACGAATCCAATACCATGAAGATATGAA
1 GGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCTTGAAGATATGAA
* ** * * * * *
22614995 GGGAAAGGTTGAGGCCGCAACGGTAAACCCTGTACCTTAAAAGATGTGAT
1 GGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCTT-GAAGATATGAA
* * * * ** *
22615045 GGGAAGGATTGAGGCTGCAACGGTGAATCTAACACCATGAAGATATGAA
1 GGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCTTGAAGATATGAA
** ** *** * * * *
22615094 GAAAAAGGCTGAGGCCGCAACGATAAACCCTGTACCTTAAAAGATATGAT
1 GGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCTT-GAAGATATGAA
* ** * * * *
22615144 GGGAAAGATTGAGGCCGTAACGGAAAATTCGGTACCATTAAAATATATGAA
1 GGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACC-TT-GAAGATATGAA
*
22615195 GGGAAAGGTTGAGGCCGCAACGGC
1 GGGAAAGATTGAGGCCGCAACGGC
22615219 TAACCTGGTA
Statistics
Matches: 376, Mismatches: 131, Indels: 26
0.71 0.25 0.05
Matches are distributed among these distances:
48 5 0.01
49 163 0.43
50 171 0.45
51 37 0.10
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (49 bp):
GGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCTTGAAGATATGAA
Found at i:22614783 original size:99 final size:99
Alignment explanation
Indices: 22614395--22615259 Score: 638
Period size: 99 Copynumber: 8.8 Consensus size: 99
22614385 TGGTACCACA
* * * * * ** *
22614395 AAGATAT-AGAGGGAAAGGTTGAAGTCGCAACGACAAACCTTGTACCTCAAAA-ACATGCTGGGA
1 AAGATATGA-AGGGAAAGGTTGAGGCCGCAACGGCAAACCCTGTACCTTAAAAGATGTGATGGGA
* * * * *** *
22614458 AAGATTGAAGCTGCAAC-GATGAATCTGGTACCACG
65 AGGATTGAGGCCGCAACAG-CGAATCCAATACCATG
* * * * * * ** *
22614493 AAGATATGGAGGGAAAGGTTGAAGTCGC-A-GAGCGAACCTTGTACCTCAAAA-ACATGCTGGGA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACG-GCAAACCCTGTACCTTAAAAGATGTGATGGGA
* * * * * **** *
22614555 AAGATTGAAGCCACAACGGTGAATTTGGTACCACG
65 AGGATTGAGGCCGCAACAGCGAATCCAATACCATG
* * ** * ** * * *
22614590 AAGATATGGAGGGAAAGGTTGAAGTTGTAACGGCGGACCTTGTACCTCAGAAACATGT--TGGGA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCTGTACCTTA-AAAGATGTGATGGGA
* * * * *
22614653 AAGATTGAAGCCGCAACAACGAATCCAGTACCTTG
65 AGGATTGAGGCCGCAACAGCGAATCCAATACCATG
* * * * *
22614688 AAGATATGAAGAGAAAGGTTTAGGCCGCAATGGCAAACCC-GATGCCTTAGAAGATGTGATGGGA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCTG-TACCTTAAAAGATGTGATGGGA
** * **
22614752 AGGATTGAGGCCATAACAGCGAATTCGGTACCATG
65 AGGATTGAGGCCGCAACAGCGAATCCAATACCATG
* * **
22614787 AAGATATGAAGGGAAAGGTTGGGGCCACAACGGCAAACCCTGTACCTTAAAAGATGTGATGAAAA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCTGTACCTTAAAAGATGTGATGGGAA
* *
22614852 GGATTGAGGTCGCAAC-GACGAATCCGATACCATG
66 GGATTGAGGCCGCAACAG-CGAATCCAATACCATG
* * * * * * *
22614886 AAGATATAAAGGGAAAGATTGAGACCACAATGGCAAACCCTATACCTTAGAAGATGTGATGGGAA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCTGTACCTTAAAAGATGTGATGGGAA
*
22614951 GGATTGAGGCCGCAA-TGACGAATCCAATACCATG
66 GGATTGAGGCCGCAACAG-CGAATCCAATACCATG
*
22614985 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTAAACCCTGTACCTTAAAAGATGTGATGGGAA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCTGTACCTTAAAAGATGTGATGGGAA
* * * * *
22615050 GGATTGAGGCTGCAACGGTGAATCTAACACCATG
66 GGATTGAGGCCGCAACAGCGAATCCAATACCATG
** * ** *
22615084 AAGATATGAAGAAAAAGGCTGAGGCCGCAACGATAAACCCTGTACCTTAAAAGATATGATGGGAA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCTGTACCTTAAAAGATGTGATGGGAA
* * * ** * ** *
22615149 AGATTGAGGCCGTAACGGAAAATTCGGTACCATTAA
66 GGATTGAGGCCGCAACAGCGAATCCAATACCA-T-G
* * * * *
22615185 AATATATGAAGGGAAAGGTTGAGGCCGCAACGGCTAA-CCTGGTACCTTAGAAGACGTGATGAGA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCT-GTACCTTAAAAGATGTGATGGGA
* *
22615249 AAGATCGAGGC
65 AGGATTGAGGC
22615260 TATAACGACG
Statistics
Matches: 641, Mismatches: 109, Indels: 31
0.82 0.14 0.04
Matches are distributed among these distances:
96 1 0.00
97 93 0.15
98 110 0.17
99 370 0.58
100 8 0.01
101 59 0.09
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (99 bp):
AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCTGTACCTTAAAAGATGTGATGGGAA
GGATTGAGGCCGCAACAGCGAATCCAATACCATG
Found at i:22615041 original size:297 final size:298
Alignment explanation
Indices: 22614648--22615259 Score: 723
Period size: 297 Copynumber: 2.1 Consensus size: 298
22614638 AGAAACATGT
* * * *
22614648 TGGGAAAGATTGAAGCCGCAACAACGAATCCAGTACCTTGAAGATATGAAGAGAAAGGTTTAGGC
1 TGGGAAAGATTGAGGCCGCAACAACGAATCCAATACCATGAAGATATGAAGAGAAAGGTTGAGGC
* * * *
22614713 CGCAATGGCAAACCCGATGCCTTAGAAGATGTGATGGGAAGGATTGAGGCCATAACAGCGAAT-T
66 CGCAACGGCAAACCCGATACCTTAAAAGATGTGATGGGAAGGATTGAGGCCACAACAGCGAATCT
*** ** * * *
22614777 CGGTACCATGAAGATATGAAGGGAAAGGTTGGGGCCACAACGGCAAACCCTGTACCTTAAAAGAT
131 -AACACCATGAAGATATGAAGAAAAAGGCTGAGGCCACAACGACAAACCCTGTACCTTAAAAGAT
* * * *
22614842 GTGAT-GAAAAGGATTGAGGTCGCAAC-GACGAATCCGATACCATGAAGATATA-AAGGGAAAGA
195 ATGATGGAAAA-GATTGAGGCCGCAACGGA-AAATCCGATACCATGAAAATATAGAAGGGAAAGA
* *
22614904 TTGAGACCACAATGGCAAACCCT-ATACCTTAGAAGATGTGA
258 TTGAGACCACAACGGCAAA-CCTGATACCTTAGAAGACGTGA
* ** *
22614945 TGGGAAGGATTGAGGCCGCAATGACGAATCCAATACCATGAAGATATGAAGGGAAAGGTTGAGGC
1 TGGGAAAGATTGAGGCCGCAACAACGAATCCAATACCATGAAGATATGAAGAGAAAGGTTGAGGC
* ** * *
22615010 CGCAACGGTAAACCCTG-TACCTTAAAAGATGTGATGGGAAGGATTGAGGCTGCAACGGTGAATC
66 CGCAACGGCAAACCC-GATACCTTAAAAGATGTGATGGGAAGGATTGAGGCCACAACAGCGAATC
* *
22615074 TAACACCATGAAGATATGAAGAAAAAGGCTGAGGCCGCAACGATAAACCCTGTACCTTAAAAGAT
130 TAACACCATGAAGATATGAAGAAAAAGGCTGAGGCCACAACGACAAACCCTGTACCTTAAAAGAT
* * * * * *
22615139 ATGATGGGAAAGATTGAGGCCGTAACGGAAAATTCGGTACCATTAAAATATATGAAGGGAAAGGT
195 ATGATGGAAAAGATTGAGGCCGCAACGGAAAATCCGATACCATGAAAATATA-GAAGGGAAAGAT
* * * *
22615204 TGAGGCCGCAACGGCTAACCTGGTACCTTAGAAGACGTGA
259 TGAGACCACAACGGCAAACCTGATACCTTAGAAGACGTGA
* *
22615244 TGAGAAAGATCGAGGC
1 TGGGAAAGATTGAGGC
22615260 TATAACGACG
Statistics
Matches: 262, Mismatches: 46, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
297 198 0.76
298 11 0.04
299 53 0.20
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (298 bp):
TGGGAAAGATTGAGGCCGCAACAACGAATCCAATACCATGAAGATATGAAGAGAAAGGTTGAGGC
CGCAACGGCAAACCCGATACCTTAAAAGATGTGATGGGAAGGATTGAGGCCACAACAGCGAATCT
AACACCATGAAGATATGAAGAAAAAGGCTGAGGCCACAACGACAAACCCTGTACCTTAAAAGATA
TGATGGAAAAGATTGAGGCCGCAACGGAAAATCCGATACCATGAAAATATAGAAGGGAAAGATTG
AGACCACAACGGCAAACCTGATACCTTAGAAGACGTGA
Found at i:22615298 original size:297 final size:297
Alignment explanation
Indices: 22614651--22615330 Score: 712
Period size: 297 Copynumber: 2.3 Consensus size: 297
22614641 AACATGTTGG
* * * * * * * *
22614651 GAAAGATTGAAGCCGCAACAACGAATCCAGTACCTTGAAGATATGAAGAGAAAGGTTTAGGCCGC
1 GAAAGATCGAGGCCACAACGACGAATCCAATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGC
* * * * **
22614716 AATGGCAAACCC-GATGCCTTAGAAGATGTGATGGGAAGGATTGAGGCCATAACAGCGAATTCGG
66 AATGGTAAACCCTG-TACCTTAAAAGATGTGATGGGAAGGATTGAGGCCACAACAGCGAATTCAA
* ** * * * *
22614780 TACCATGAAGATATGAAGGGAAAGGTTGGGGCCACAACGGCAAACCCTGTACCTTAAAAGATGTG
130 CACCATGAAGATATGAAGAAAAAGGCTGAGGCCACAACGACAAACCCTGTACCTTAAAAGATATG
* * *
22614845 ATGAAAAGGATTGAGGTCGCAACGACGAATCCGATACCATGAAGATATAAAGGGAAAGATTGAGA
195 ATGAAAAGGATTGAGGCCGCAACGACAAATCCGATACCATGAAAATATAAAGGGAAAGATTGAGA
* * *
22614910 CCACAATGGCAAACCCTATACCTTAGAAGATGTGATGG
260 CCACAACGGCAAACCCTATACCTTAGAAGACGTGATGA
* * * *
22614948 GAAGGATTGAGGCCGCAATGACGAATCCAATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGC
1 GAAAGATCGAGGCCACAACGACGAATCCAATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGC
* ** * *
22615013 AACGGTAAACCCTGTACCTTAAAAGATGTGATGGGAAGGATTGAGGCTGCAACGGTGAA-TCTAA
66 AATGGTAAACCCTGTACCTTAAAAGATGTGATGGGAAGGATTGAGGCCACAACAGCGAATTC-AA
* *
22615077 CACCATGAAGATATGAAGAAAAAGGCTGAGGCCGCAACGATAAACCCTGTACCTTAAAAGATATG
130 CACCATGAAGATATGAAGAAAAAGGCTGAGGCCACAACGACAAACCCTGTACCTTAAAAGATATG
* * * * * *
22615142 ATGGGAAA-GATTGAGGCCGTAACGGA-AAATTCGGTACCATTAAAATATATGAAGGGAAAGGTT
195 AT-GAAAAGGATTGAGGCCGCAAC-GACAAATCCGATACCATGAAAATATA--AAGGGAAAGATT
* * * *
22615205 GAGGCCGCAACGGCTAA-CCTGGTACCTTAGAAGACGTGATGA
256 GAGACCACAACGGCAAACCCT-ATACCTTAGAAGACGTGATGA
* * * ** * *
22615247 GAAAGATCGAGGCTATAACGACGGATGTAGTACCATG-AGA-AT-AAGGGGAAAGGCTGAGGCCG
1 GAAAGATCGAGGCCACAACGACGAATCCAATACCATGAAGATATGAA-GGGAAAGGTTGAGGCCG
*
22615309 CAATGGTGAA-CCTAGTACCTTA
65 CAATGGTAAACCCT-GTACCTTA
22615331 GACGCATGAC
Statistics
Matches: 317, Mismatches: 57, Indels: 18
0.81 0.15 0.05
Matches are distributed among these distances:
296 7 0.02
297 228 0.72
298 13 0.04
299 69 0.22
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.18
Consensus pattern (297 bp):
GAAAGATCGAGGCCACAACGACGAATCCAATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGC
AATGGTAAACCCTGTACCTTAAAAGATGTGATGGGAAGGATTGAGGCCACAACAGCGAATTCAAC
ACCATGAAGATATGAAGAAAAAGGCTGAGGCCACAACGACAAACCCTGTACCTTAAAAGATATGA
TGAAAAGGATTGAGGCCGCAACGACAAATCCGATACCATGAAAATATAAAGGGAAAGATTGAGAC
CACAACGGCAAACCCTATACCTTAGAAGACGTGATGA
Found at i:22615675 original size:42 final size:41
Alignment explanation
Indices: 22615616--22616641 Score: 1061
Period size: 42 Copynumber: 25.0 Consensus size: 41
22615606 GCTACATCAC
* * * *
22615616 CATCCAATCTCTTACCCTGGTCATAGGGCAGATTGAAGAAAA
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
* *
22615658 CATCCAATCTCTTACCCTGATCATGAGGTAGATTGAAG--A-
1 CATCCAATCTCTTACCCCGATCATG-GGCAGATTGAAGACAT
*
22615697 -ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGATAT
1 CATCCAATCTCTTACCCCGATCATG-GGCAGATTGAAGACAT
22615738 CATCCAATCTCTTACCCCGATCATGTGGCAGATTGAAGACA-
1 CATCCAATCTCTTACCCCGATCATG-GGCAGATTGAAGACAT
* **
22615779 CA-CCAATCTCTTACCACGATCATGGGGTGAATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGCAG-ATTGAAGACAT
*
22615820 CATCCAATCTCTTACCCCGATCATGGGACATATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGG-CAGATTGAAGACAT
* **
22615862 TATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGA-GG
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
22615903 CA-CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATG-GGCAGATTGAAGACAT
*
22615944 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGAC-G
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
*
22615985 CA-CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
22616026 CATCCAATCTCTTACCCCGATCATGGAGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGG-GCAGATTGAAGACAT
22616068 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
*
22616110 CATCCAATCTCTTACCCCGATCATGGGGCGGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
*
22616152 CATCCAATCTCTTACCCCGATCATGGGGCGGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
* *
22616194 CATCCAATCTCTTACCCCAATCATGAGGCAAATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATG-GGCAGATTGAAGACAT
22616236 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
* * *
22616278 CATCCAATCTCTTTCCTCGATCATGAGGCAAATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATG-GGCAGATTGAAGACAT
* * *
22616320 CATCTAATCGCTTACCCCAATCATCGGGCAGATTGAAG--AT
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
* ** * * *
22616360 GCAT-GAATCTCTTGTCTCGATCATGGGGTAGATTGAAGATAT
1 -CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
* * *
22616402 CATCCAATCTTTTACTCCGATCATGGGGCAGATT--A-A-AG
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
*** *
22616440 CATCCAATCTCTTACCTTAATCA-GAAGGCAGATAGAAG--AT
1 CATCCAATCTCTTACCCCGATCATG--GGCAGATTGAAGACAT
* *** *
22616480 AATCCAATCTCTTACCTTAATCA-GAAGGTAGATTGAAGACA-
1 CATCCAATCTCTTACCCCGATCATG--GGCAGATTGAAGACAT
* **
22616521 -AACCAATCTCTTACCCTAATCA-GAGG-ACGAATTGAAGACA-
1 CATCCAATCTCTTACCCCGATCATG-GGCA-G-ATTGAAGACAT
* *** * *
22616561 -ATCCAATCTTTTACCTTAATCA-GAATGTAGATTGAAGACA-
1 CATCCAATCTCTTACCCCGATCATG--GGCAGATTGAAGACAT
* *
22616601 -ATCCAATCTCTTACCCCAATCATGGGGCAGATTTAAG-CAT
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
22616641 C
1 C
22616642 CAATCTTTTA
Statistics
Matches: 865, Mismatches: 78, Indels: 83
0.84 0.08 0.08
Matches are distributed among these distances:
36 1 0.00
38 62 0.07
39 11 0.01
40 257 0.30
41 25 0.03
42 501 0.58
43 8 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (41 bp):
CATCCAATCTCTTACCCCGATCATGGGCAGATTGAAGACAT
Found at i:22615856 original size:124 final size:125
Alignment explanation
Indices: 22615616--22616678 Score: 1136
Period size: 124 Copynumber: 8.7 Consensus size: 125
22615606 GCTACATCAC
* * * * * *
22615616 CATCCAATCTCTTACCCTGGTCATAGGGCAGATTGAAGAAAACATCCAATCTCTTACCCTGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* * *
22615681 TGAGGTAGATTGAAG--A--ATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGATAT
66 TGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG-GGCAGATTGAAGACAT
* *
22615738 CATCCAATCTCTTACCCCGATCATGTGGCAGATTGAAGACA-CA-CCAATCTCTTACCACGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* *
22615801 TGGGG-TGAATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGACATATTGAAGACAT
66 TGGGGCAG-ATTGAAGACATCATCCAATCTCTTACCCCGATCATGGG-CAGATTGAAGACAT
* **
22615862 TATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGA-GGCA-CCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* *
22615925 TGAGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGAC-G
66 TGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
*
22615985 CA-CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
*
22616049 TGGAGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
66 TGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
*
22616110 CATCCAATCTCTTACCCCGATCATGGGGCGGATTGAAGACATCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* * *
22616175 TGGGGCGGATTGAAGACATCATCCAATCTCTTACCCCAATCATGAGGCAAATTGAAGACAT
66 TGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG-GGCAGATTGAAGACAT
* *
22616236 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTTCCTCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* * * * *
22616301 TGAGGCAAATTGAAGACATCATCTAATCGCTTACCCCAATCATCGGGCAGATTGAAG--AT
66 TGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACAT
* ** * * * * *
22616360 GCAT-GAATCTCTTGTCTCGATCATGGGGTAGATTGAAGATATCATCCAATCTTTTACTCCGATC
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
* *** *
22616424 ATGGGGCAGATT--A-A-AGCATCCAATCTCTTACCTTAATCA-GAAGGCAGATAGAAG--AT
65 ATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG--GGCAGATTGAAGACAT
* *** * * * **
22616480 AATCCAATCTCTTACCTTAATCA-GAAGGTAGATTGAAGACA--AACCAATCTCTTACCCTAATC
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
* * *** * *
22616542 A-GAGG-ACGAATTGAAGACA--ATCCAATCTTTTACCTTAATCA-GAATGTAGATTGAAGACA-
65 ATGGGGCA-G-ATTGAAGACATCATCCAATCTCTTACCCCGATCATG--GGCAGATTGAAGACAT
* * * **
22616601 -ATCCAATCTCTTACCCCAATCATGGGGCAGATTTAAG----CATCCAATCTTTTACCCTAATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
*
22616661 -GAGGGAAGATTGAAGACA
66 TG-GGGCAGATTGAAGACA
22616679 CTCTTACCCC
Statistics
Matches: 823, Mismatches: 86, Indels: 68
0.84 0.09 0.07
Matches are distributed among these distances:
116 1 0.00
117 4 0.00
118 52 0.06
119 7 0.01
120 155 0.19
121 5 0.01
122 75 0.09
123 5 0.01
124 282 0.34
125 10 0.01
126 226 0.27
127 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (125 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
TGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGCAGATTGAAGACAT
Found at i:22617013 original size:14 final size:15
Alignment explanation
Indices: 22616982--22617017 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
22616972 ACCCAAACAA
22616982 AAATAAACTAAAAAT
1 AAATAAACTAAAAAT
*
22616997 AAATAAA-TAAAATT
1 AAATAAACTAAAAAT
22617011 AAATAAA
1 AAATAAA
22617018 ATTTATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (15 bp):
AAATAAACTAAAAAT
Found at i:22619444 original size:103 final size:103
Alignment explanation
Indices: 22619221--22619448 Score: 262
Period size: 103 Copynumber: 2.2 Consensus size: 103
22619211 TAGAACTAAA
* * ** * *
22619221 ATTTTCAAAATCAAAGCAATGTTTCTTTATTTAGGGAATTCGAAAAATTGTGCTCAAACATATTG
1 ATTTT-AAAATCAAGGCAATATTTCTTTATTTAGAAAACTCGAAAAATTGTGCTCAAACATACTG
* * ** *
22619286 GGTATAATTTTTTTTTGAACCGAAGTAATTGAATATCTT
65 GATATAATTTTTTTTTGAACCGAAATAATCAAATATCCT
* * *
22619325 ATTTGAAAAAT-GAGGCAATATTTTTTTATTTAGAAAACTCGAAAAATTGTGCTCAAACATACTG
1 ATTT-TAAAATCAAGGCAATATTTCTTTATTTAGAAAACTCGAAAAATTGTGCTCAAACATACTG
* * *
22619389 GATAT-GTTTTTTCTTTGGACCTAAATAATCAAATATCCT
65 GATATAATTTTTT-TTTGAACCGAAATAATCAAATATCCT
22619428 ATTTTAAAATCAAGGCAATAT
1 ATTTTAAAATCAAGGCAATAT
22619449 CCTTTTGTGC
Statistics
Matches: 102, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
102 11 0.11
103 82 0.80
104 9 0.09
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (103 bp):
ATTTTAAAATCAAGGCAATATTTCTTTATTTAGAAAACTCGAAAAATTGTGCTCAAACATACTGG
ATATAATTTTTTTTTGAACCGAAATAATCAAATATCCT
Found at i:22624676 original size:20 final size:20
Alignment explanation
Indices: 22624652--22624707 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
22624642 GGGGCATCAG
22624652 AGTGCATATAGGGGCA-TGA
1 AGTGCATATAGGGGCATTGA
* *
22624671 ATGTGCATTTAGGAGCATTGA
1 A-GTGCATATAGGGGCATTGA
* *
22624692 AGTGCAAATCGGGGCA
1 AGTGCATATAGGGGCA
22624708 CCGGAGTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 1 0.03
20 24 0.83
21 4 0.14
ACGTcount: A:0.30, C:0.12, G:0.34, T:0.23
Consensus pattern (20 bp):
AGTGCATATAGGGGCATTGA
Found at i:22626322 original size:16 final size:15
Alignment explanation
Indices: 22626296--22626325 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22626286 ATCCATCATT
22626296 TCTTCATTCTCTCAA
1 TCTTCATTCTCTCAA
22626311 TCTTCTATTCTCTCA
1 TCTTC-ATTCTCTCA
22626326 TTTCTCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (15 bp):
TCTTCATTCTCTCAA
Found at i:22632837 original size:16 final size:16
Alignment explanation
Indices: 22632816--22632886 Score: 67
Period size: 17 Copynumber: 4.3 Consensus size: 16
22632806 AACATATATT
22632816 TCTTTTTCTTCTTTTC
1 TCTTTTTCTTCTTTTC
22632832 TCTTTTCCTCTTC-TTTC
1 TCTTTT--TCTTCTTTTC
22632849 T-TTCTTTCTT-TCTTTC
1 TCTT-TTTCTTCT-TTTC
*
22632865 TTTTTTTCCTTCTTTTC
1 TCTTTTT-CTTCTTTTC
22632882 TCTTT
1 TCTTT
22632887 CCTCTTCGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 15
0.74 0.02 0.24
Matches are distributed among these distances:
15 4 0.09
16 16 0.35
17 20 0.43
18 6 0.13
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTTTTTCTTCTTTTC
Found at i:22632851 original size:4 final size:4
Alignment explanation
Indices: 22632842--22632879 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
22632832 TCTTTTCCTC
* *
22632842 TTCT TTCT TTCT TTCT TTCT TTCT TTTT TTCC TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
22632880 TCTCTTTCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:22634515 original size:54 final size:54
Alignment explanation
Indices: 22634449--22634555 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
22634439 AAAAATCGTG
* * *
22634449 TAACTCATTGACTTGAGACATACAGCCATGTC-CTAGCCCGTGTCTCAGACCGTT
1 TAACTCACTGACTTGAGACACACAGCCATGTCTC-AACCCGTGTCTCAGACCGTT
* *
22634503 TAACTCACTGACTTGAGACACACAGTCATGTCTCAACCCGTGTCTTAGACCGT
1 TAACTCACTGACTTGAGACACACAGCCATGTCTCAACCCGTGTCTCAGACCGT
22634556 GTGAAACTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 46 0.98
55 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (54 bp):
TAACTCACTGACTTGAGACACACAGCCATGTCTCAACCCGTGTCTCAGACCGTT
Found at i:22635532 original size:20 final size:20
Alignment explanation
Indices: 22635509--22635570 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
22635499 AGTGTGTATT
*
22635509 CAGGGGCACCGAAGTGCGAA
1 CAGGGGCACCGAAGTGCAAA
* * *
22635529 CAGGAGCATCGGAGTGCAAA
1 CAGGGGCACCGAAGTGCAAA
**
22635549 TGGGGGCACCGAAGTGCAAA
1 CAGGGGCACCGAAGTGCAAA
22635569 CA
1 CA
22635571 AGGACACTTC
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.23, G:0.37, T:0.08
Consensus pattern (20 bp):
CAGGGGCACCGAAGTGCAAA
Found at i:22636321 original size:10 final size:10
Alignment explanation
Indices: 22636290--22636333 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
22636280 AATATATTAT
22636290 TAATCACATA
1 TAATCACATA
*
22636300 T-ATCCACTTA
1 TAAT-CACATA
22636310 TAATCACATA
1 TAATCACATA
*
22636320 TAATCACATT
1 TAATCACATA
22636330 TAAT
1 TAAT
22636334 GAAATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.36
Consensus pattern (10 bp):
TAATCACATA
Found at i:22636720 original size:36 final size:36
Alignment explanation
Indices: 22636671--22636753 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 36
22636661 CATCAACATA
22636671 ATATATTCACTGTC-ACATGGCATGAATAACATACCC
1 ATATATTCACTGTCTA-ATGGCATGAATAACATACCC
** *
22636707 ATATATTTTCTGTCTAATGGCATGAATAACATACTC
1 ATATATTCACTGTCTAATGGCATGAATAACATACCC
*
22636743 AAATATTCACT
1 ATATATTCACT
22636754 TTCACAATAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 39 0.98
37 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (36 bp):
ATATATTCACTGTCTAATGGCATGAATAACATACCC
Found at i:22644504 original size:9 final size:9
Alignment explanation
Indices: 22644476--22644535 Score: 56
Period size: 9 Copynumber: 7.0 Consensus size: 9
22644466 CCAAAATATT
22644476 ATTTAATTA
1 ATTTAATTA
*
22644485 ATCT-ATTA
1 ATTTAATTA
*
22644493 ATTTAGTTA
1 ATTTAATTA
22644502 ATTTAATTA
1 ATTTAATTA
22644511 A-TTACATTA
1 ATTTA-ATTA
22644520 ATTT--TTA
1 ATTTAATTA
*
22644527 ATTAAATTA
1 ATTTAATTA
22644536 TTTTCTCAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
7 6 0.15
8 10 0.24
9 23 0.56
10 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (9 bp):
ATTTAATTA
Found at i:22652882 original size:6 final size:6
Alignment explanation
Indices: 22652867--22652906 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
22652857 TCATTACAAA
* * *
22652867 TTCTTC TTCTTT TTCTTT TTCTTT TTCTCT TTCTTA TTCT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCT
22652907 CTCTTTTCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (6 bp):
TTCTTT
Found at i:22652894 original size:18 final size:18
Alignment explanation
Indices: 22652866--22652911 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
22652856 GTCATTACAA
*
22652866 ATTCTTCTTCTTTTTCTT
1 ATTCTTCTTCTCTTTCTT
* *
22652884 TTTCTTTTTCTCTTTCTT
1 ATTCTTCTTCTCTTTCTT
22652902 ATTCTCTCTT
1 ATTCT-TCTT
22652912 TTCCTCTTCC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTCTTCTTCTCTTTCTT
Found at i:22666286 original size:17 final size:17
Alignment explanation
Indices: 22666256--22666300 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
22666246 TTACATTTTA
* * *
22666256 ATTGTCACTACATTTGC
1 ATTGTCATTGCATTTCC
22666273 ATTGTCATTGCATTTCC
1 ATTGTCATTGCATTTCC
22666290 ATTTGTCATTG
1 A-TTGTCATTG
22666301 TAATTTAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (17 bp):
ATTGTCATTGCATTTCC
Found at i:22674791 original size:24 final size:25
Alignment explanation
Indices: 22674764--22674816 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
22674754 AACTCAGAAA
* *
22674764 AGACA-AAAATGTGCTATCAAGAGC
1 AGACAGAAAACGTGCTACCAAGAGC
*
22674788 AGACAGAAAACGTGCTACCAAGAGT
1 AGACAGAAAACGTGCTACCAAGAGC
22674813 AGAC
1 AGAC
22674817 TGGTTTATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (25 bp):
AGACAGAAAACGTGCTACCAAGAGC
Found at i:22674943 original size:28 final size:29
Alignment explanation
Indices: 22674882--22674943 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
22674872 ATTTTTTGTA
*
22674882 TTAA-TTAAAAAATTAATAATATTTAAAT
1 TTAATTTAAAAAATTAATAATATTAAAAT
*
22674910 AT-ATTTAAAAAATT-A-AATATTAAAATT
1 TTAATTTAAAAAATTAATAATATTAAAA-T
22674937 TTAATTT
1 TTAATTT
22674944 CCACTGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 9 0.32
27 4 0.14
28 15 0.54
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
TTAATTTAAAAAATTAATAATATTAAAAT
Found at i:22677184 original size:7 final size:7
Alignment explanation
Indices: 22677172--22677196 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22677162 ATAAAAATTG
22677172 ATTTTCA
1 ATTTTCA
22677179 ATTTTCA
1 ATTTTCA
22677186 ATTTTCA
1 ATTTTCA
22677193 ATTT
1 ATTT
22677197 CGTCCACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTCA
Found at i:22681108 original size:23 final size:23
Alignment explanation
Indices: 22681082--22681127 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
22681072 TGCAACCTAA
22681082 AATTCATA-AAAAATAATTAATTT
1 AATTCATATAAAAA-AATTAATTT
*
22681105 AATTGATATAAAAAAATTAATTT
1 AATTCATATAAAAAAATTAATTT
22681128 CATGCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
AATTCATATAAAAAAATTAATTT
Found at i:22685804 original size:56 final size:55
Alignment explanation
Indices: 22685737--22685867 Score: 181
Period size: 56 Copynumber: 2.3 Consensus size: 55
22685727 AGTAGTTGCG
* *
22685737 TAGGAATCAAATTGCTAAACGATAATATCCCATAATAATATCCTATAATATCACAT
1 TAGGAATCAAATTGCTAAA-GATAATATCCCATAATAATATCATATAACATCACAT
* * *
22685793 TAGGAATCAAATTGTTAAGAGATAATGTCCCATAATAATATCATATAACATCCCAT
1 TAGGAATCAAATTGCTAA-AGATAATATCCCATAATAATATCATATAACATCACAT
* *
22685849 TAGGAATAAAACTGCTAAA
1 TAGGAATCAAATTGCTAAA
22685868 AGATTTCATA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
55 1 0.02
56 64 0.97
57 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (55 bp):
TAGGAATCAAATTGCTAAAGATAATATCCCATAATAATATCATATAACATCACAT
Found at i:22691429 original size:17 final size:17
Alignment explanation
Indices: 22691406--22691497 Score: 123
Period size: 17 Copynumber: 5.4 Consensus size: 17
22691396 ACTAAACTTT
22691406 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
22691424 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
22691440 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
** *
22691457 TTTAAATTTAAATTAAG
1 TTTAAATTTATTTTAAA
22691474 TTTAAATTTACTTTTAAA
1 TTTAAATTTA-TTTTAAA
22691492 TTTAAA
1 TTTAAA
22691498 ATTCATAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
16 1 0.02
17 53 0.83
18 10 0.16
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:22691443 original size:6 final size:6
Alignment explanation
Indices: 22691406--22691497 Score: 77
Period size: 6 Copynumber: 16.0 Consensus size: 6
22691396 ACTAAACTTT
* * **
22691406 TTTAAA TTT-AT TTTAAGA -TTAAA TTT-AT TTTAAA TTTAAA TTT-GT
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* **
22691451 TTTAAA TTTAAA TTTAAA -TTAAG TTTAAA TTTACT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
22691498 ATTCATAAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
5 16 0.24
6 50 0.76
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:22691491 original size:23 final size:23
Alignment explanation
Indices: 22691406--22691493 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
22691396 ACTAAACTTT
* *
22691406 TTTAAATTT-ATTTTAAGATTAAA
1 TTTAAATTTAAATTTAA-ATTAAG
* *
22691429 TTT-ATTTTAAATTTAAATT-TG
1 TTTAAATTTAAATTTAAATTAAG
22691450 TTTTAAATTTAAATTTAAATTAAG
1 -TTTAAATTTAAATTTAAATTAAG
**
22691474 TTTAAATTTACTTTTAAATT
1 TTTAAATTTAAATTTAAATT
22691494 TAAAATTCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
22 10 0.19
23 42 0.79
24 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (23 bp):
TTTAAATTTAAATTTAAATTAAG
Found at i:22691510 original size:35 final size:33
Alignment explanation
Indices: 22691440--22691516 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 33
22691430 TTATTTTAAA
* *
22691440 TTTAAATTTGTTTTAAATTTAAATTTAAATTAAG
1 TTTAAATTTCTTTTAAATTTAAATTCAAA-TAAG
22691474 TTTAAATTTACTTTTAAATTTAAAATTCATAA-AAG
1 TTTAAATTT-CTTTTAAATTT-AAATTCA-AATAAG
*
22691509 TTCAAATT
1 TTTAAATT
22691517 ACAAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 9 0.24
35 20 0.54
36 6 0.16
37 2 0.05
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (33 bp):
TTTAAATTTCTTTTAAATTTAAATTCAAATAAG
Found at i:22692179 original size:16 final size:18
Alignment explanation
Indices: 22692153--22692186 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22692143 TTTTATTTTC
22692153 AAAACACATTAA-AATAT
1 AAAACACATTAATAATAT
22692170 AAAA-ACATTAATAATAT
1 AAAACACATTAATAATAT
22692187 TGGAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAACACATTAATAATAT
Found at i:22693348 original size:30 final size:29
Alignment explanation
Indices: 22693291--22693499 Score: 110
Period size: 30 Copynumber: 7.1 Consensus size: 29
22693281 TTCCCAAAGG
* * *
22693291 CCCCTGAACTGTCCAAAAA-TCATATTTTGA
1 CCCCCGAACTTTCCAAAAATTC-CATTTT-A
*
22693321 CCCCCAAACTTTCCAAAAATTCCATTTTTGA
1 CCCCCGAACTTTCCAAAAATTCCA-TTTT-A
* **
22693352 -TCTTGAACTTTCCAAAAATTACCATTTTA
1 CCCCCGAACTTTCCAAAAATT-CCATTTTA
** *
22693381 -CCCTTAA-TTTCCAAAAATTCCAAATTTGA
1 CCCCCGAACTTTCCAAAAATTCC--ATTTTA
* * *
22693410 -CCCCAAAC-TTCTAAAAACTACCATTTTA
1 CCCCCGAACTTTCCAAAAA-TTCCATTTTA
* *
22693438 CCCCCGAAC-TTCTAAAAAATCTCATTTTTA
1 CCCCCGAACTTTCCAAAAATTC-CA-TTTTA
**
22693468 CCCTTGAACTTT-CAAAAATTACCATTTTA
1 CCCCCGAACTTTCCAAAAATT-CCATTTTA
22693497 CCC
1 CCC
22693500 TTAAACTTCC
Statistics
Matches: 143, Mismatches: 24, Indels: 25
0.74 0.12 0.13
Matches are distributed among these distances:
27 2 0.01
28 18 0.13
29 49 0.34
30 60 0.42
31 14 0.10
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.33
Consensus pattern (29 bp):
CCCCCGAACTTTCCAAAAATTCCATTTTA
Found at i:22693402 original size:58 final size:58
Alignment explanation
Indices: 22693330--22693503 Score: 183
Period size: 58 Copynumber: 3.0 Consensus size: 58
22693320 ACCCCCAAAC
*
22693330 TTTCCAAAAATTCCATTTTTGATCTTGAACTTTCCAAAAATTACCATTTTACCCTTAA
1 TTTCCAAAAATTCCATTTTTGACCTTGAACTTTCCAAAAATTACCATTTTACCCTTAA
** *** * * **
22693388 TTTCCAAAAATTCCAAATTTGACCCCAAAC-TTCTAAAAACTACCATTTTACCCCCGAA
1 TTTCCAAAAATTCCATTTTTGACCTTGAACTTTCCAAAAATTACCATTTTA-CCCTTAA
* * *
22693446 CTTCTAAAAAATCTCATTTTT-ACCCTTGAACTTT-CAAAAATTACCATTTTACCCTTAA
1 TTTCCAAAAATTC-CATTTTTGA-CCTTGAACTTTCCAAAAATTACCATTTTACCCTTAA
22693504 ACTTCCCCGA
Statistics
Matches: 90, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
57 18 0.20
58 45 0.50
59 25 0.28
60 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (58 bp):
TTTCCAAAAATTCCATTTTTGACCTTGAACTTTCCAAAAATTACCATTTTACCCTTAA
Found at i:22693442 original size:29 final size:29
Alignment explanation
Indices: 22693410--22693508 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
22693400 CCAAATTTGA
*
22693410 CCCCAAACTTCTAAAAACTACCATTTTAC
1 CCCCAAACTTCTAAAAAATACCATTTTAC
*
22693439 CCCCGAACTTCTAAAAAAT-CTCATTTTTAC
1 CCCCAAACTTCTAAAAAATAC-CA-TTTTAC
*** *
22693469 CCTTGAACTT-TCAAAAATTACCATTTTAC
1 CCCCAAACTTCT-AAAAAATACCATTTTAC
**
22693498 CCTTAAACTTC
1 CCCCAAACTTC
22693509 CCCGAACTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.02
29 35 0.59
30 22 0.37
31 1 0.02
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.33
Consensus pattern (29 bp):
CCCCAAACTTCTAAAAAATACCATTTTAC
Found at i:22693550 original size:69 final size:68
Alignment explanation
Indices: 22693439--22693577 Score: 192
Period size: 69 Copynumber: 2.0 Consensus size: 68
22693429 ACCATTTTAC
**
22693439 CCCCGAACTTCTAAAAAATCTCATTTTTACCCTTGAACTTTCAAAAATTACCATTTTACCCTTAA
1 CCCCGAACTTCTAAAAAATCTCATTTTTACCCCCGAACTTTCAAAAATTACCA-TTTACCCTTAA
22693504 ACTT
65 ACTT
* * *
22693508 CCCCGAACTTCT-AAAAATTTACGA-TTTTACCCCCGAACTTTCAAAAATTATCATTTACCCTTG
1 CCCCGAACTTCTAAAAAATCT-C-ATTTTTACCCCCGAACTTTCAAAAATTACCATTTACCCTTA
22693571 AACTT
64 AACTT
22693576 CC
1 CC
22693578 AAAAATTACC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
68 23 0.37
69 39 0.62
70 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (68 bp):
CCCCGAACTTCTAAAAAATCTCATTTTTACCCCCGAACTTTCAAAAATTACCATTTACCCTTAAA
CTT
Found at i:22693563 original size:29 final size:29
Alignment explanation
Indices: 22693508--22693707 Score: 110
Period size: 28 Copynumber: 6.9 Consensus size: 29
22693498 CCTTAAACTT
22693508 CCCCGAAC-TTCTAAAAATT-TACGATTTTAC
1 CCCCGAACTTTC-AAAAATTAT-C-ATTTTAC
22693538 CCCCGAACTTTCAAAAATTATCA-TTTAC
1 CCCCGAACTTTCAAAAATTATCATTTTAC
** * *
22693566 CCTTGAACTTCCAAAAATTACCA-TTTAC
1 CCCCGAACTTTCAAAAATTATCATTTTAC
** *
22693594 CCTTGAAC-TTCCAAAA-TATCATTTTTGA-
1 CCCCGAACTTTCAAAAATTATCA-TTTT-AC
* *
22693622 CCCCGAATTTTTCAAAAATTACCATTTTAC
1 CCCCGAA-CTTTCAAAAATTATCATTTTAC
* * * * * * *
22693652 CCTCGAAGTGTCTAAGATTACCGTTTTAC
1 CCCCGAACTTTCAAAAATTATCATTTTAC
** *
22693681 CCCTAAAC-ATCAAAAAATTATCATTTT
1 CCCCGAACTTTC-AAAAATTATCATTTT
22693708 CGCCCCCTAG
Statistics
Matches: 133, Mismatches: 27, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
26 4 0.03
27 6 0.05
28 47 0.35
29 35 0.26
30 33 0.25
31 8 0.06
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (29 bp):
CCCCGAACTTTCAAAAATTATCATTTTAC
Found at i:22693573 original size:28 final size:28
Alignment explanation
Indices: 22693533--22693617 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
22693523 AATTTACGAT
**
22693533 TTTACCCCCGAACTTTCAAAAATTATCA
1 TTTACCCTTGAACTTTCAAAAATTATCA
* *
22693561 TTTACCCTTGAACTTCCAAAAATTACCA
1 TTTACCCTTGAACTTTCAAAAATTATCA
*
22693589 TTTACCCTTGAAC-TTCCAAAA-TATCA
1 TTTACCCTTGAACTTTCAAAAATTATCA
22693615 TTT
1 TTT
22693618 TTGACCCCGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.14
27 6 0.12
28 37 0.74
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (28 bp):
TTTACCCTTGAACTTTCAAAAATTATCA
Found at i:22693609 original size:56 final size:56
Alignment explanation
Indices: 22693512--22693617 Score: 135
Period size: 58 Copynumber: 1.9 Consensus size: 56
22693502 AAACTTCCCC
* * *
22693512 GAACTTCTAAAAATTTACGATTTTACCCCCGAACTTTCAAAAATTATCATTTACCCTT
1 GAACTTCCAAAAATTTACCATTTTACCCCCGAAC-TTCCAAAA-TATCATTTACCCTT
**
22693570 GAACTTCCAAAAA-TTACCA-TTTACCCTTGAACTTCCAAAATATCATTT
1 GAACTTCCAAAAATTTACCATTTTACCCCCGAACTTCCAAAATATCATTT
22693618 TTGACCCCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
54 8 0.19
55 7 0.16
56 11 0.26
57 5 0.12
58 12 0.28
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (56 bp):
GAACTTCCAAAAATTTACCATTTTACCCCCGAACTTCCAAAATATCATTTACCCTT
Found at i:22706242 original size:124 final size:124
Alignment explanation
Indices: 22706085--22706323 Score: 361
Period size: 124 Copynumber: 1.9 Consensus size: 124
22706075 TATACCAACT
* * * * * * *
22706085 CAAGGCTCGATGTGAACGAATCTTCGAACCCCAGCTTCCTGATAAGATATTGAGAAGTAGGTCGA
1 CAAGGCTCAAAGTGAACGAAACTTCGAACCCCAGCTTCCTGATAAGATACTGAGAAGCAAGTCAA
*
22706150 AGCAATAAAGCGGTTAACTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAGC
66 AGCAATAAAACGGTTAACTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAGC
* *
22706209 CAAGGCTCAAAGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCAA
1 CAAGGCTCAAAGTGAACGAAACTTCGAACCCCAGCTTCCTGATAAGATACTGAGAAGCAAGTCAA
* * *
22706274 AGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAAT
66 AGCAATAAAACGGTTAACTTCCTGATGAGATACTGAGAAGTAGACCAAAT
22706324 TCATCTTCCT
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
124 102 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (124 bp):
CAAGGCTCAAAGTGAACGAAACTTCGAACCCCAGCTTCCTGATAAGATACTGAGAAGCAAGTCAA
AGCAATAAAACGGTTAACTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAGC
Found at i:22706483 original size:208 final size:208
Alignment explanation
Indices: 22706167--22707014 Score: 922
Period size: 209 Copynumber: 4.2 Consensus size: 208
22706157 AAGCGGTTAA
*
22706167 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAGCCAAGGCTCAAAGTGAGCGAAACT
1 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAA-ACAAGGCTCAAAGTGAGC-AAACT
** *
22706232 TCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCAAAGCAATAAAATGGTTAGCTTCCT
64 TCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCAAAGCAATAAAGCGGTTACCTTCCT
* *
22706297 GATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAAATACAGAGAAGTGGATCGAAAT
129 GATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAAATACAGAGAAGCGGATCGAAAC
*
22706362 AA-AAATGTGATCAT
194 AAGAAATGCGATCAT
* * *
22706376 CTTCTTGATGAGATACTGAGAAGTAGACCAAATCAACGAAACTAGGCTCAAAGTGAGCAAATCTT
1 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAACAAGGCTCAAAGTGAGCAAA-CTT
* *
22706441 CGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAGCGGTTACCTTCCTG
65 CGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCAAAGCAATAAAGCGGTTACCTTCCTG
* * *
22706506 ATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACA
130 ATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAAATACAGAGAAGCGGATCGAAACA
** * *
22706571 AGTGATGCGGTCGT
195 AGAAATGCGATCAT
* * * *
22706585 CTTCCTGATGAGATATTCAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAACCTT
1 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAACAAGGCTCAAAGTGAGCAAA-CTT
* * * * * *
22706650 CGAACCCCAGCTTCTTAATGAGATACTAAGAAGTAAGTCGAAGCAATAAAGCGGTTACCTTTCTG
65 CGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCAAAGCAATAAAGCGGTTACCTTCCTG
* * *
22706715 ATGAGATACTGAGAAGTGGACCAAA-T--TCGT--GGATTG-AA-AC----AAG-TGAT-G---C
130 ATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGA-TGAAATACAGAGAAGCGGATCGAAAC
*
22706764 --G--GT-CG----T
194 AAGAAATGCGATCAT
* * * ** *
22706770 CTTCCTGATAAAATACTGAGAAGTAGACCAAATCAATGAAACCAA-GCTCAAAGCAAGTAAACCT
1 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAA-CAAGGCTCAAAGTGAGCAAA-CT
* * * *
22706834 TCGAACCCCAGCGTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCAGTTACCTTCCT
64 TCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCAAAGCAATAAAGCGGTTACCTTCCT
** * * * * * * * * * *
22706899 GATGAGATACAAAGAAGTGAACCAGATCCGTTTTCCTGATGAGACAAAGAGAAGTGGATCAAAAC
129 GATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAAATACAGAGAAGCGGATCGAAAC
** *
22706964 AAGTGATGCGGTCAT
194 AAGAAATGCGATCAT
22706979 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAA
1 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAA
22707015 TAACACCAAA
Statistics
Matches: 541, Mismatches: 69, Indels: 58
0.81 0.10 0.09
Matches are distributed among these distances:
185 133 0.25
186 2 0.00
188 2 0.00
189 4 0.01
190 4 0.01
191 1 0.00
192 1 0.00
194 1 0.00
195 3 0.01
196 3 0.01
197 1 0.00
198 3 0.01
199 3 0.01
200 1 0.00
202 1 0.00
203 2 0.00
204 4 0.01
205 4 0.01
206 3 0.01
207 3 0.01
208 141 0.26
209 221 0.41
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (208 bp):
CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAACAAGGCTCAAAGTGAGCAAACTTC
GAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCAAAGCAATAAAGCGGTTACCTTCCTGA
TGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAAATACAGAGAAGCGGATCGAAACAA
GAAATGCGATCAT
Found at i:22706511 original size:332 final size:321
Alignment explanation
Indices: 22705846--22706531 Score: 917
Period size: 332 Copynumber: 2.1 Consensus size: 321
22705836 ATGCGGTCAT
*
22705846 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAAAGTGAGCAAATCTT
1 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAACCAAGCTCAAAGTGAGCAAATCTT
* * **
22705911 CGAACCCCAGCTTCCTGATAATACGAGAAGTAGGTTGAAGCAATAAAATAGTTAGCTTCCTCATA
66 CGAACCCCAGCTTCCTGATAATACGAGAAGCAAGTCAAAGCAATAAAATAGTTAGCTTCCTCATA
** * * * *
22705976 AGATACTGAGAAGTGAATGAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGT
131 AGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAAATACAGAGAAGCGGATCGAAACAAGA
* * * * * * *
22706041 GAGGTGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCGATGTGAACGAAT
196 AAGGTGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAACACAAGGCTCAAAGTGAACAAAT
* * * *
22706106 CTTCGAACCCCAGCTTCCTGATAAGATATTGAGAAGTAGGTCGAAGCAATAAAGCGGTTAA
261 CTTCGAACCCCAACTTCCTGATAAGATACTGAGAAGCAGGTCAAAGCAATAAAGCGGTTAA
*
22706167 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAGCCAAGGCTCAAAGTGAGCGAAA-C
1 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAACCAA-GCTCAAAGTGAGC-AAATC
*
22706231 TTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCAAAGCAATAAAATGGTTAGCTTCC
64 TTCGAACCCCAGCTTCCTGAT-A-ATAC-GAGAAGCAAGTCAAAGCAATAAAATAGTTAGCTTCC
* * * *
22706296 TGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAAATACAGAGAAGTGGATCGAAA
126 TCATAAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAAATACAGAGAAGCGGATCGAAA
* * * *
22706361 TAA-AAATGTGATCATCTTCTTGATGAGATACTGAGAAGTAGACCAAATCAACGAAACTAGGCTC
191 CAAGAAAGGTGATCATCTTCCTGATGAGATACAGAGAAGTAGACC-AA-C-AC---A--AGGCTC
* *
22706425 AAAGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAA
248 AAAGTGAACAAATCTTCGAACCCCAACTTCCTGATAAGATACTGAGAAGCAGGTCAAAGCAATAA
*
22706490 AGCGGTTAC
313 AGCGGTTAA
*
22706499 CTTCCTGATGAGATACTGAGAAGTGGACCAAAT
1 CTTCCTGATGAGATACTGAGAAGTAGACCAAAT
22706532 TCGTCTTCCT
Statistics
Matches: 316, Mismatches: 36, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
321 43 0.14
322 35 0.11
323 4 0.01
324 38 0.12
325 91 0.29
326 1 0.00
327 1 0.00
330 1 0.00
332 102 0.32
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (321 bp):
CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAAGAAACCAAGCTCAAAGTGAGCAAATCTT
CGAACCCCAGCTTCCTGATAATACGAGAAGCAAGTCAAAGCAATAAAATAGTTAGCTTCCTCATA
AGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAAATACAGAGAAGCGGATCGAAACAAGA
AAGGTGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAACACAAGGCTCAAAGTGAACAAAT
CTTCGAACCCCAACTTCCTGATAAGATACTGAGAAGCAGGTCAAAGCAATAAAGCGGTTAA
Found at i:22706877 original size:185 final size:185
Alignment explanation
Indices: 22706560--22706922 Score: 555
Period size: 185 Copynumber: 2.0 Consensus size: 185
22706550 ACAGAGAAGC
* * *
22706560 GGATTGAAACAAGTGATGCGGTCGTCTTCCTGATGAGATATTCAGAAGTAGACCAAATCAATGAA
1 GGATTGAAACAAGTGATGCGGTCGTCTTCCTGATAAAATACTCAGAAGTAGACCAAATCAATGAA
* ** * * *
22706625 ACCAGGCTCAAAGTGAGCAAACCTTCGAACCCCAGCTTCTTAATGAGATACTAAGAAGTAAGTCG
66 ACCAAGCTCAAAGCAAGCAAACCTTCGAACCCCAGCGTCCTAATGAGATACTAAGAAGCAAGTCG
* * ** *
22706690 AAGCAATAAAGCGGTTACCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCGT
131 AAGCAATAAAGCAGTTACCTTCCTGATGAGATACAAAGAAGTGAACCAAATTCGT
*
22706745 GGATTGAAACAAGTGATGCGGTCGTCTTCCTGATAAAATACTGAGAAGTAGACCAAATCAATGAA
1 GGATTGAAACAAGTGATGCGGTCGTCTTCCTGATAAAATACTCAGAAGTAGACCAAATCAATGAA
* * * *
22706810 ACCAAGCTCAAAGCAAGTAAACCTTCGAACCCCAGCGTCCTGATGAGATACTGAGAAGCAGGTCG
66 ACCAAGCTCAAAGCAAGCAAACCTTCGAACCCCAGCGTCCTAATGAGATACTAAGAAGCAAGTCG
22706875 AAGCAATAAAGCAGTTACCTTCCTGATGAGATACAAAGAAGTGAACCA
131 AAGCAATAAAGCAGTTACCTTCCTGATGAGATACAAAGAAGTGAACCA
22706923 GATCCGTTTT
Statistics
Matches: 159, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
185 159 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (185 bp):
GGATTGAAACAAGTGATGCGGTCGTCTTCCTGATAAAATACTCAGAAGTAGACCAAATCAATGAA
ACCAAGCTCAAAGCAAGCAAACCTTCGAACCCCAGCGTCCTAATGAGATACTAAGAAGCAAGTCG
AAGCAATAAAGCAGTTACCTTCCTGATGAGATACAAAGAAGTGAACCAAATTCGT
Found at i:22707331 original size:17 final size:17
Alignment explanation
Indices: 22707308--22707400 Score: 107
Period size: 17 Copynumber: 5.4 Consensus size: 17
22707298 ACTAAATCTT
22707308 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
22707326 -TTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
** *
22707342 TTTAAATTTAAATTAAG
1 TTTAAATTTATTTTAAA
22707359 TTTAAATTTACTTTTAAA
1 TTTAAATTTA-TTTTAAA
*
22707377 TTTAAAATTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
22707395 TTTAAA
1 TTTAAA
22707401 ATTCATAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
16 1 0.02
17 36 0.57
18 26 0.41
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:22707345 original size:6 final size:6
Alignment explanation
Indices: 22707336--22707400 Score: 69
Period size: 6 Copynumber: 11.0 Consensus size: 6
22707326 TTAAATTTGT
* **
22707336 TTTAAA TTTAAA TTTAAA -TTAAG TTTAAA TTTACT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* **
22707383 ATTATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
22707401 ATTCATAAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
5 4 0.09
6 42 0.91
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:22708142 original size:9 final size:9
Alignment explanation
Indices: 22708078--22708142 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
22708068 ATATAAAAAC
22708078 ATTAATAAT
1 ATTAATAAT
22708087 ATTGGAAATAAT
1 ATT---AATAAT
* *
22708099 AAT-ATACT
1 ATTAATAAT
22708107 ATTAATAAT
1 ATTAATAAT
*
22708116 ATTATTAAT
1 ATTAATAAT
*
22708125 GTTAAATAAT
1 ATT-AATAAT
22708135 ATTAATAA
1 ATTAATAA
22708143 AAAGAAATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
8 6 0.14
9 22 0.51
10 7 0.16
12 8 0.19
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (9 bp):
ATTAATAAT
Found at i:22709153 original size:30 final size:28
Alignment explanation
Indices: 22709119--22709348 Score: 209
Period size: 29 Copynumber: 8.0 Consensus size: 28
22709109 ATATTTTGAC
22709119 CCCCAAACTTTCCAAAAATT-CCATTTTTGA
1 CCCCAAAC-TTCCAAAAATTACCA-TTTT-A
22709149 CCCCAAACTTTCCAAAAATTACCATTTTA
1 CCCCAAAC-TTCCAAAAATTACCATTTTA
* * * * *
22709178 TCCTCGAATTTCCAAAAATTTCAATTTTCA
1 -CCCCAAACTTCCAAAAATTACCATTTT-A
*
22709208 CCCCGAACTTCCAAAAATTACCATTTTA
1 CCCCAAACTTCCAAAAATTACCATTTTA
*
22709236 CCCTTAAACTTCCATAAAA-T-CTCATTTTGA
1 CCC-CAAACTTCCA-AAAATTAC-CATTTT-A
* * *
22709266 CCCCAAACTTTCAAAAATTACGATCTTA
1 CCCCAAACTTCCAAAAATTACCATTTTA
22709294 CCCTCAAACTTCCAAAAATTACCA-TTTA
1 CCC-CAAACTTCCAAAAATTACCATTTTA
* *
22709322 CTCCCGAACTTCCAAAAA-TATCATTTT
1 C-CCCAAACTTCCAAAAATTACCATTTT
22709349 TGACCTTGAA
Statistics
Matches: 168, Mismatches: 20, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
27 4 0.02
28 33 0.20
29 89 0.53
30 39 0.23
31 3 0.02
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.33
Consensus pattern (28 bp):
CCCCAAACTTCCAAAAATTACCATTTTA
Found at i:22709249 original size:58 final size:58
Alignment explanation
Indices: 22709111--22709348 Score: 250
Period size: 58 Copynumber: 4.1 Consensus size: 58
22709101 CAGAAACCAT
* * *
22709111 ATTTTGACCCCCAAACTTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACC
1 ATTTT-ACCCTCAAAC-TTCCAAAAATTTCAATTTTGACCCCAAAC-TTCCAAAAATTACC
* * * * *
22709172 ATTTTATCCTCGAATTTCCAAAAATTTCAATTTTCACCCCGAACTTCCAAAAATTACC
1 ATTTTACCCTCAAACTTCCAAAAATTTCAATTTTGACCCCAAACTTCCAAAAATTACC
* * * *
22709230 ATTTTACCCTTAAACTTCCATAAAATCTC-ATTTTGACCCCAAACTTTCAAAAATTACG
1 ATTTTACCCTCAAACTTCCA-AAAATTTCAATTTTGACCCCAAACTTCCAAAAATTACC
* * * * *
22709288 ATCTTACCCTCAAACTTCCAAAAATTACCA-TTT-ACTCCCGAACTTCCAAAAA-TATC
1 ATTTTACCCTCAAACTTCCAAAAATTTCAATTTTGAC-CCCAAACTTCCAAAAATTACC
22709344 ATTTT
1 ATTTT
22709349 TGACCTTGAA
Statistics
Matches: 148, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
56 8 0.05
57 23 0.16
58 74 0.50
59 32 0.22
60 6 0.04
61 5 0.03
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (58 bp):
ATTTTACCCTCAAACTTCCAAAAATTTCAATTTTGACCCCAAACTTCCAAAAATTACC
Found at i:22709437 original size:29 final size:29
Alignment explanation
Indices: 22709128--22709468 Score: 204
Period size: 29 Copynumber: 11.7 Consensus size: 29
22709118 CCCCCAAACT
*
22709128 TTCCAAAAATT-CCATTTTTGACCC-CAAAC
1 TTCCAAAAATTACCA-TTTT-ACCCTCGAAC
* *
22709157 TTTCCAAAAATTACCATTTTATCCTCGAAT
1 -TTCCAAAAATTACCATTTTACCCTCGAAC
* *
22709187 TTCCAAAAATTTCAATTTTCACCC-CGAAC
1 TTCCAAAAATTACCATTTT-ACCCTCGAAC
**
22709216 TTCCAAAAATTACCATTTTACCCTTAAAC
1 TTCCAAAAATTACCATTTTACCCTCGAAC
*
22709245 TTCCATAAAA-T-CTCATTTTGACCC-CAAAC
1 TTCCA-AAAATTAC-CATTTT-ACCCTCGAAC
* * * *
22709274 TTTCAAAAATTACGATCTTACCCTCAAAC
1 TTCCAAAAATTACCATTTTACCCTCGAAC
22709303 TTCCAAAAATTACCA-TTTACTCC-CGAAC
1 TTCCAAAAATTACCATTTTAC-CCTCGAAC
* * *
22709331 TTCCAAAAA-TATCATTTTTGA-CCTTGAATT
1 TTCCAAAAATTACCA-TTTT-ACCCTCGAA-C
* * *
22709361 TTTCGAAAATTA-CAGTTTTACCCTCGAAG
1 TTCCAAAAATTACCA-TTTTACCCTCGAAC
* * * *
22709390 TGT-CTAAGATTATCGTTTTACCCTCGAAC
1 T-TCCAAAAATTACCATTTTACCCTCGAAC
* * * *
22709419 ATCCGAAAATTACCATTTTCGCCCTCG-AG
1 TTCCAAAAATTACCATTTT-ACCCTCGAAC
* *
22709448 TGTCTAAAAATTATCATTTTA
1 T-TCCAAAAATTACCATTTTA
22709469 ACCCAGGGTA
Statistics
Matches: 245, Mismatches: 43, Indels: 47
0.73 0.13 0.14
Matches are distributed among these distances:
27 4 0.02
28 33 0.13
29 130 0.53
30 73 0.30
31 5 0.02
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (29 bp):
TTCCAAAAATTACCATTTTACCCTCGAAC
Found at i:22714990 original size:3 final size:3
Alignment explanation
Indices: 22714982--22715029 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
22714972 CTCAAGTTAT
*
22714982 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22715030 CATACCAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:22716239 original size:19 final size:19
Alignment explanation
Indices: 22716215--22716253 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22716205 TCAATTTGGA
22716215 TAAAATACTTTTTTACTCT
1 TAAAATACTTTTTTACTCT
22716234 TAAAATACTTTTTTACTCT
1 TAAAATACTTTTTTACTCT
22716253 T
1 T
22716254 TGTCTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (19 bp):
TAAAATACTTTTTTACTCT
Found at i:22719480 original size:154 final size:154
Alignment explanation
Indices: 22719196--22719508 Score: 448
Period size: 154 Copynumber: 2.0 Consensus size: 154
22719186 TTCGACATTT
* **
22719196 AGGCCGAATGCCAAGCTTCCTTTGTCCACAACTGTTGGGCCACGAATTGATGAATTAACAAAGAA
1 AGGCCGAATGCCAAGCTGCCTTTGTCCACAACCATTGGGCCACGAATTGATGAATTAACAAAGAA
* * * *
22719261 TGATCCAATTGACCTTCCTCTTAGGCCAATGACGTGGGCTAGAGCTAAGAGGCTTAACGACCCAC
66 TAATCCAATTCACCTTCCTCTTAGGCCAATGACGTGGACTAGAGCTAAAAGGCTTAACGACCCAC
* * *
22719326 TTGTGGGATTAATCTAGAAAATTG
131 TTGTAGAATTAATCTAGAAAATCG
* *
22719350 AGGCCGAATGCCAAGCTGCCTTTGTCCATAACCATTGGGCCGCGAATTGATGAATTAACAAAGAA
1 AGGCCGAATGCCAAGCTGCCTTTGTCCACAACCATTGGGCCACGAATTGATGAATTAACAAAGAA
* * * *
22719415 TAATCCAATTCAGCTTCCTCTT-GTGCTAATGGCGTGGACTAGAGCTAAAAGGCTTAACGAGCCA
66 TAATCCAATTCACCTTCCTCTTAG-GCCAATGACGTGGACTAGAGCTAAAAGGCTTAACGACCCA
* *
22719479 CTTTTAGAATTAATCTAGCAAATCG
130 CTTGTAGAATTAATCTAGAAAATCG
22719504 AGGCC
1 AGGCC
22719509 TAATATTACA
Statistics
Matches: 140, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
153 1 0.01
154 139 0.99
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (154 bp):
AGGCCGAATGCCAAGCTGCCTTTGTCCACAACCATTGGGCCACGAATTGATGAATTAACAAAGAA
TAATCCAATTCACCTTCCTCTTAGGCCAATGACGTGGACTAGAGCTAAAAGGCTTAACGACCCAC
TTGTAGAATTAATCTAGAAAATCG
Found at i:22721771 original size:23 final size:23
Alignment explanation
Indices: 22721730--22721773 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
22721720 GATGAGATTG
*
22721730 AGAGAAAAAGAAAGTAAAAATAA
1 AGAGAAAAAGAAAGAAAAAATAA
22721753 AGAGAAAAAGAGAA-AAAAAAT
1 AGAGAAAAAGA-AAGAAAAAAT
22721774 GAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (23 bp):
AGAGAAAAAGAAAGAAAAAATAA
Found at i:22753175 original size:15 final size:15
Alignment explanation
Indices: 22753155--22753183 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22753145 GTATTGTTGC
22753155 TTGATAACACGGTGA
1 TTGATAACACGGTGA
22753170 TTGATAACACGGTG
1 TTGATAACACGGTG
22753184 TGTGTAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:22756423 original size:15 final size:15
Alignment explanation
Indices: 22756403--22756432 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22756393 CACTAGAAAA
22756403 TGAAAAATAAAATTT
1 TGAAAAATAAAATTT
22756418 TGAAAAATAAAATTT
1 TGAAAAATAAAATTT
22756433 AATTATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
TGAAAAATAAAATTT
Found at i:22760683 original size:19 final size:17
Alignment explanation
Indices: 22760611--22760688 Score: 61
Period size: 18 Copynumber: 4.2 Consensus size: 17
22760601 ATTTAGTCCC
22760611 TTTTTATTTTTA-TTAT
1 TTTTTATTTTTATTTAT
22760627 TTGTATTA-TTTTATTTAGTT
1 TT-T-TTATTTTTATTTA--T
22760647 GGTATTTTATTTTTATTTAAT
1 --T-TTTTATTTTTATTT-AT
22760668 TTTTTATTTGTTATTTAT
1 TTTTTATTT-TTATTTAT
22760686 TTT
1 TTT
22760689 CATTACTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 20
0.72 0.00 0.28
Matches are distributed among these distances:
16 2 0.04
17 6 0.12
18 19 0.37
19 7 0.14
20 1 0.02
21 4 0.08
22 10 0.20
23 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTTTATTTTTATTTAT
Found at i:22760683 original size:30 final size:28
Alignment explanation
Indices: 22760611--22760693 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 28
22760601 ATTTAGTCCC
* *
22760611 TTTTTATTT-TTA-TTATTTGTATTATT
1 TTTTTATTTGTTATTTATTTTTATTAAT
* *
22760637 TTATTTAGTTGGTATTTTATTTTTATTTAAT
1 TT-TTTATTTGTTA-TTTATTTTTA-TTAAT
*
22760668 TTTTTATTTGTTATTTATTTTCATTA
1 TTTTTATTTGTTATTTATTTTTATTA
22760694 CTATTTATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
26 2 0.04
27 6 0.13
28 5 0.11
29 9 0.20
30 17 0.38
31 6 0.13
ACGTcount: A:0.20, C:0.01, G:0.06, T:0.72
Consensus pattern (28 bp):
TTTTTATTTGTTATTTATTTTTATTAAT
Found at i:22765536 original size:69 final size:66
Alignment explanation
Indices: 22765421--22765567 Score: 163
Period size: 69 Copynumber: 2.2 Consensus size: 66
22765411 AAAACAATGA
*
22765421 TCGAGATGAAAACCCACAAAAGGCATCTTGGAATAAAAAAATAAAAAAAATGATGAAAAG-AAAA
1 TCGAGATGAAAACCCACAAAAGGCATCTTGAAAT-AAAAAATAAAAAAAA--A-GAAAAGAAAAA
*
22765485 AGAGG
62 AGAAG
** * * *
22765490 TCGAGATGAAAACCCGTAAAGGGCATCTTGAAATCTAAACA-AAAAAAAAAGAAAAGAAAAAAGA
1 TCGAGATGAAAACCCACAAAAGGCATCTTGAAAT-AAAAAATAAAAAAAAAGAAAAGAAAAAAGA
22765554 AG
65 AG
*
22765556 TCAAGATGAAAA
1 TCGAGATGAAAA
22765568 TTTGCACAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
65 6 0.09
66 20 0.29
68 8 0.12
69 34 0.50
ACGTcount: A:0.58, C:0.11, G:0.18, T:0.13
Consensus pattern (66 bp):
TCGAGATGAAAACCCACAAAAGGCATCTTGAAATAAAAAATAAAAAAAAAGAAAAGAAAAAAGAA
G
Found at i:22766833 original size:16 final size:16
Alignment explanation
Indices: 22766804--22766941 Score: 83
Period size: 15 Copynumber: 8.6 Consensus size: 16
22766794 AATTCGGCGA
*
22766804 AAAGAAAA-AGAAAAG
1 AAAGAAAAGAAAAAAG
22766819 AAAGAAAAGAAAAAA-
1 AAAGAAAAGAAAAAAG
22766834 AGAAGAAAAG-AAAAAG
1 A-AAGAAAAGAAAAAAG
22766850 --AGAAAA-AAAAAAG
1 AAAGAAAAGAAAAAAG
* *
22766863 AAAG-AAGGAAAAAGG
1 AAAGAAAAGAAAAAAG
* *
22766878 TAAAAGGAAAAAAAAAGAAA
1 --AAA-GAAAAGAAAA-AAG
*
22766898 AAAGAAAAAGACAAAAG
1 AAAG-AAAAGAAAAAAG
* *
22766915 CACAAGAAGAGGAAAAAG
1 -A-AAGAAAAGAAAAAAG
22766933 AAAGAAAAG
1 AAAGAAAAG
22766942 GAGAGGTCGA
Statistics
Matches: 94, Mismatches: 14, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
13 12 0.13
14 2 0.02
15 22 0.23
16 20 0.21
17 7 0.07
18 21 0.22
19 9 0.10
20 1 0.01
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.01
Consensus pattern (16 bp):
AAAGAAAAGAAAAAAG
Found at i:22766836 original size:8 final size:8
Alignment explanation
Indices: 22766814--22766906 Score: 80
Period size: 8 Copynumber: 11.2 Consensus size: 8
22766804 AAAGAAAAAG
22766814 AAAAGAAA
1 AAAAGAAA
22766822 GAAAAGAAA
1 -AAAAGAAA
*
22766831 AAAAGAAG
1 AAAAGAAA
22766839 AAAAGAAA
1 AAAAGAAA
*
22766847 AAGAGAAA
1 AAAAGAAA
22766855 AAAA-AAA
1 AAAAGAAA
*
22766862 GAAAGAAGGA
1 AAAAGAA--A
**
22766872 AAAAGGTA
1 AAAAGAAA
*
22766880 AAAGGAAA
1 AAAAGAAA
*
22766888 AAAAAAGAA
1 AAAAGA-AA
22766897 AAAAGAAA
1 AAAAGAAA
22766905 AA
1 AA
22766907 GACAAAAGCA
Statistics
Matches: 66, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
7 6 0.09
8 40 0.61
9 15 0.23
10 5 0.08
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (8 bp):
AAAAGAAA
Found at i:22766842 original size:31 final size:30
Alignment explanation
Indices: 22766805--22766914 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 30
22766795 ATTCGGCGAA
22766805 AAGAAAAAG-AAAAGAAAGAAAAGAAAAAAAG
1 AAGAAAAAGAAAAAGAAA-AAAA-AAAAAAAG
22766836 AAG-AAAAGAAAAAGAGAAAAAAAAAAGAAAG
1 AAGAAAAAGAAAAAGA-AAAAAAAAAA-AAAG
* *
22766867 AAGGAAAAAGGTAAAAGGAAAAAAAAAGAAAA-
1 AA-GAAAAA-G-AAAAAGAAAAAAAAAAAAAAG
22766899 AAGAAAAAGACAAAAG
1 AAGAAAAAGA-AAAAG
22766915 CACAAGAAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 17
0.77 0.03 0.19
Matches are distributed among these distances:
29 1 0.01
30 14 0.21
31 25 0.37
32 5 0.07
33 7 0.10
34 10 0.15
35 6 0.09
ACGTcount: A:0.78, C:0.01, G:0.20, T:0.01
Consensus pattern (30 bp):
AAGAAAAAGAAAAAGAAAAAAAAAAAAAAG
Found at i:22766855 original size:44 final size:43
Alignment explanation
Indices: 22766806--22766937 Score: 119
Period size: 44 Copynumber: 3.0 Consensus size: 43
22766796 TTCGGCGAAA
22766806 AGAAAAAGAAAAGAAAGAAAAGAAAAA-AAGAA-GAAAAGAAAAAG
1 AGAAAAAGAAAAGAAAG-AAAGAAAAAGAA-AAGGAAAA-AAAAAG
* *
22766850 AGAAAAAAAAAAGAAAGAAGGAAAAAGGTAAAAGGAAAAAAAAAG
1 AGAAAAAGAAAAGAAAGAAAGAAAAA-G-AAAAGGAAAAAAAAAG
* * * * *
22766895 A-AAAAAGAAAAAGACA-AAAGCACAAGAAGAGGAAAAAGAAAG
1 AGAAAAAG-AAAAGAAAGAAAGAAAAAGAAAAGGAAAAAAAAAG
22766937 A
1 A
22766938 AAAGGAGAGG
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
42 15 0.20
43 9 0.12
44 27 0.36
45 16 0.22
46 7 0.09
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.01
Consensus pattern (43 bp):
AGAAAAAGAAAAGAAAGAAAGAAAAAGAAAAGGAAAAAAAAAG
Found at i:22766891 original size:17 final size:17
Alignment explanation
Indices: 22766803--22766906 Score: 75
Period size: 17 Copynumber: 5.6 Consensus size: 17
22766793 AAATTCGGCG
22766803 AAAAGAAAAAGAAAAGAA
1 AAAAGAAAAA-AAAAGAA
*
22766821 AGAAA-AGAAAAAAAGAA
1 A-AAAGAAAAAAAAAGAA
*
22766838 GAAAAGAAAAAGAGAAAAAA
1 -AAAAGAAAAA-A-AAAGAA
*
22766858 AAAAGAAAGAAGGAAAAAGGTA
1 AAAAG-AA-AA--AAAAA-GAA
*
22766880 AAAGGAAAAAAAAAGAA
1 AAAAGAAAAAAAAAGAA
22766897 AAAAGAAAAA
1 AAAAGAAAAA
22766907 GACAAAAGCA
Statistics
Matches: 68, Mismatches: 8, Indels: 21
0.70 0.08 0.22
Matches are distributed among these distances:
17 21 0.31
18 15 0.22
19 9 0.13
20 9 0.13
21 7 0.10
22 6 0.09
23 1 0.01
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (17 bp):
AAAAGAAAAAAAAAGAA
Found at i:22766891 original size:35 final size:35
Alignment explanation
Indices: 22766802--22766908 Score: 112
Period size: 35 Copynumber: 3.1 Consensus size: 35
22766792 TAAATTCGGC
* *
22766802 GAAAAGAAAAAGAAAAGAAAGAAAAGAAAAAAAGAA
1 GAAAAGAAAAAGAAAA-AAAAAAAAGAAAGAAAGAA
* *
22766838 GAAAAGAAAAAGAGAAAAAAAAAAGAAAGAAGGAA
1 GAAAAGAAAAAGAAAAAAAAAAAAGAAAGAAAGAA
* *
22766873 -AAAGGTAAAAGGAAAAAAAAAGAAA-AAAGAAA-AA
1 GAAAAG-AAAAAGAAAAAAAAA-AAAGAAAGAAAGAA
22766907 GA
1 GA
22766909 CAAAAGCACA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
34 6 0.10
35 36 0.60
36 18 0.30
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.01
Consensus pattern (35 bp):
GAAAAGAAAAAGAAAAAAAAAAAAGAAAGAAAGAA
Found at i:22766905 original size:5 final size:5
Alignment explanation
Indices: 22766802--22766865 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
22766792 TAAATTCGGC
*
22766802 GAAAA GAAAAA GAAAA G-AAA GAAAA GAAAA AAAGAA GAAAA GAAAAA
1 GAAAA G-AAAA GAAAA GAAAA GAAAA GAAAA GAA-AA GAAAA G-AAAA
*
22766849 GAGAA -AAAA -AAAA GAAA
1 GAAAA GAAAA GAAAA GAAA
22766866 GAAGGAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
4 11 0.22
5 25 0.50
6 14 0.28
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:22766913 original size:25 final size:24
Alignment explanation
Indices: 22766803--22766913 Score: 91
Period size: 24 Copynumber: 4.5 Consensus size: 24
22766793 AAATTCGGCG
*
22766803 AAAAGAAAAAGAAAAGAAAGAAAAGA
1 AAAAGAAAAAAAAAAG-AA-AAAAGA
* *
22766829 AAAA-AAGAAGAAAAGAAAAAGAGA
1 AAAAGAAAAAAAAAAGAAAAA-AGA
* *
22766853 AAAA-AAAAAGAAAGAAGGAAAAAGGT
1 AAAAGAAAAA-AAA-AA-GAAAAAAGA
*
22766879 AAAAGGAAAAAAAAAGAAAAAAGA
1 AAAAGAAAAAAAAAAGAAAAAAGA
*
22766903 AAAAGACAAAA
1 AAAAGAAAAAA
22766914 GCACAAGAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
23 3 0.04
24 29 0.41
25 14 0.20
26 14 0.20
27 10 0.14
ACGTcount: A:0.79, C:0.01, G:0.19, T:0.01
Consensus pattern (24 bp):
AAAAGAAAAAAAAAAGAAAAAAGA
Found at i:22766941 original size:58 final size:60
Alignment explanation
Indices: 22766803--22766943 Score: 151
Period size: 58 Copynumber: 2.5 Consensus size: 60
22766793 AAATTCGGCG
*
22766803 AAAAGAAA-AA-G-AAAAGAAAGAAAA-G-AAAAAAAGAAGAAAAGAAAAAGAGAAAAAA
1 AAAAGAAAGAAGGAAAAAGAAAGAAAAGGAAAAAAAAGAAGAAAAGAAAAAGACAAAAAA
**
22766858 AAAAGAAAGAAGGAAAAAG---GTAAAAGGAAAAAAAAAGAA-AAAAGAAAAAGACAAAAGC
1 AAAAGAAAGAAGGAAAAAGAAAG-AAAAGG-AAAAAAAAGAAGAAAAGAAAAAGACAAAAAA
*
22766916 ACAAG-AAG-AGGAAAAAGAAAGAAAAGGA
1 AAAAGAAAGAAGGAAAAAGAAAGAAAAGGA
22766944 GAGGTCGAGA
Statistics
Matches: 72, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
55 9 0.12
56 15 0.21
57 6 0.08
58 31 0.43
59 11 0.15
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.01
Consensus pattern (60 bp):
AAAAGAAAGAAGGAAAAAGAAAGAAAAGGAAAAAAAAGAAGAAAAGAAAAAGACAAAAAA
Found at i:22766943 original size:16 final size:15
Alignment explanation
Indices: 22766804--22766908 Score: 80
Period size: 13 Copynumber: 7.1 Consensus size: 15
22766794 AATTCGGCGA
22766804 AAAGAAAA-AGAAAAG
1 AAAGAAAAGA-AAAAG
*
22766819 AAAGAAAAGAAAAAA
1 AAAGAAAAGAAAAAG
22766834 AGAAGAAAAGAAAAAG
1 A-AAGAAAAGAAAAAG
*
22766850 --AGAAAAAAAAAAG
1 AAAGAAAAGAAAAAG
*
22766863 AAAG-AAGGAAAAAGG
1 AAAGAAAAGAAAAA-G
22766878 TAAAAGGAAAA-AAAAAG
1 --AAA-GAAAAGAAAAAG
22766895 -AA-AAAAGAAAAAG
1 AAAGAAAAGAAAAAG
22766908 A
1 A
22766909 CAAAAGCACA
Statistics
Matches: 73, Mismatches: 6, Indels: 23
0.72 0.06 0.23
Matches are distributed among these distances:
12 4 0.05
13 18 0.25
14 9 0.12
15 16 0.22
16 14 0.19
17 4 0.05
18 6 0.08
19 2 0.03
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:22767364 original size:20 final size:19
Alignment explanation
Indices: 22767308--22767361 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
22767298 GCCATTGTTT
* *
22767308 AATGTTTGCCATCTTTGACC
1 AATGTTTGACAT-TTTAACC
22767328 AATGTTTGACATTTTAACC
1 AATGTTTGACATTTTAACC
*
22767347 AATGTTTGATATTTT
1 AATGTTTGACATTTT
22767362 TAATTCCTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (19 bp):
AATGTTTGACATTTTAACC
Found at i:22768013 original size:50 final size:50
Alignment explanation
Indices: 22767956--22768079 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 50
22767946 CCACAATAGC
* * * *
22767956 TCCTATACCCTTAAAGTTGCAAATGAGA-AGATTAAAGCTACAAAATCAAA
1 TCCTATACCCCTAAAGTTGCAAAGGAGAGA-ATGAAAGCTACAAAACCAAA
* *
22768006 TCCTATACCCCTAAAGTTGTAAAGGAGAGAATGAAAGCTACAACACCAAA
1 TCCTATACCCCTAAAGTTGCAAAGGAGAGAATGAAAGCTACAAAACCAAA
*
22768056 TCCTATACCCCTAAAGTTACAAAG
1 TCCTATACCCCTAAAGTTGCAAAG
22768080 TGGCGGATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
50 64 0.98
51 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.22
Consensus pattern (50 bp):
TCCTATACCCCTAAAGTTGCAAAGGAGAGAATGAAAGCTACAAAACCAAA
Found at i:22768313 original size:203 final size:200
Alignment explanation
Indices: 22768083--22768775 Score: 683
Period size: 203 Copynumber: 3.4 Consensus size: 200
22768073 TACAAAGTGG
* *
22768083 CGGATTAAAACTAACCGTAGTAGATCTCAATCTCTC-TGAAGTTGCAGAGGGGCAGATTGAAGTT
1 CGGATTAAAACTAACAGTAGCAGATCTCAATCTCTCTTGAAGTTGCAGAGGGG-AGA-TGAAGTT
* * *
22768147 ATAACACCAAAT-TCTATACCTCTAAAGTTGTAAAGGGGCGAATTAAAACTAACCGTAGTAGATC
64 ACAACACCAAATCT-TATACC-CTAAAGTTGTAGAGGGGCGAATTAAAACTAACCGTAGCAGATC
*
22768211 TCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAACCACAACCTCAAATCCTATATCCTGAAGT
127 TCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGCCACAACC-CAAATCCTATATCCTGAAGT
22768276 TGTAGTAGAT
191 TGTAGTAGAT
*
22768286 CGGATTAAAACTAACAGTAGCAGATCTCAATCTC-CTTGAAGTTGCAGTGGAATGGAG-TGAAGT
1 CGGATTAAAACTAACAGTAGCAGATCTCAATCTCTCTTGAAGTTGCAGAGG---GGAGATGAAGT
* * ** * *
22768349 TACAACACCAAATCTTATATCCCTGAAGTTGTAGTGGATCGAATTAAAATTAACCATTAGCAGAT
63 TACAACACCAAATCTTATA-CCCTAAAGTTGTAGAGGGGCGAATTAAAACTAACC-GTAGCAGAT
** * * *
22768414 CTCAATCT-CTCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATTCTATACCCTTAA
126 CTCAATCTCCT-TGAAGTTGCAGTGGAATGGAGTGAAGCCACAAC-CCAAATCCTATATCC-TGA
** **
22768478 AGTTACAG-AGGGG
188 AGTTGTAGTA-GAT
** * * *
22768491 CGGATTAAAACTAACAGTAGTTGATCTCAATCTC-CCTGAAGTTACAGTAGAATGGAG-TGAAGT
1 CGGATTAAAACTAACAGTAGCAGATCTCAATCTCTCTTGAAGTTGCAG-AG--GGGAGATGAAGT
* * *
22768554 TACAACACCAAATCTTATGCCCCTAAAGTTGTAGA-GGGC-AGATTAAAAGTAACAGTAGCAGAT
63 TACAACACCAAATCTTAT-ACCCTAAAGTTGTAGAGGGGCGA-ATTAAAACTAACCGTAGCAGAT
* * * * * *
22768617 CTCAATCTCCCTAAAGGTACAGTGGAATGAAGTGAAGCCACAACCCCAAATCCTATATCCCTGAG
126 CTCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGCCACAA-CCCAAATCCTATAT-CCTGAA
*
22768682 GTTGTAGTGGAT
189 GTTGTAGTAGAT
* * * * *
22768694 CGGATTAAAGCTCACAGCAGCGGATCTCAATCT-TCTTGAAGTTGCAGTGGAATGGAG-TGAAGT
1 CGGATTAAAACTAACAGTAGCAGATCTCAATCTCTCTTGAAGTTGCAGAGG---GGAGATGAAGT
*
22768757 TACAA-ACCCAAATCCTATA
63 TACAACA-CCAAATCTTATA
22768776 TCTCTGAAGT
Statistics
Matches: 402, Mismatches: 63, Indels: 51
0.78 0.12 0.10
Matches are distributed among these distances:
202 3 0.01
203 222 0.55
204 78 0.19
205 96 0.24
206 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (200 bp):
CGGATTAAAACTAACAGTAGCAGATCTCAATCTCTCTTGAAGTTGCAGAGGGGAGATGAAGTTAC
AACACCAAATCTTATACCCTAAAGTTGTAGAGGGGCGAATTAAAACTAACCGTAGCAGATCTCAA
TCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGCCACAACCCAAATCCTATATCCTGAAGTTGTAG
TAGAT
Found at i:22768468 original size:306 final size:306
Alignment explanation
Indices: 22768040--22768789 Score: 888
Period size: 306 Copynumber: 2.5 Consensus size: 306
22768030 GAGAGAATGA
* * * ** *
22768040 AAGCTACAACACCAAATCCTATACCCCTAAAGTTACAAAGTGG--CGGATTAAAACTAACC-GTA
1 AAGCCACAACACCAAATCCTATATCCCTGAAGTT--GTAGTGGATCGAATTAAAACTAACCAGTA
* * **** * *
22768102 GTAGATCTCAATCTCTCTGAAGTTGCAGAGGGGCAGATTGAAGTTATAACACCAAATTCTATACC
64 GCAGATCTCAATCTCTCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATTCTATACC
* * * *
22768167 TCTAAAGTTGTAAAGGGGCGAATTAAAACTAACCGTAGTAGATCTCAATCTCCTTGAAGTTGCAG
129 TCTAAAGTTGCAAAGGGGCGAATTAAAACTAACAGTAGTAGATCTCAATCTCCCTGAAGTTACAG
* * * * *
22768232 TGGAATGGAGTGAAACCACAAC-CTCAAATCCTAT-ATCCTGAAGTTGTAGTAGATCGGATTAAA
194 TAGAATGGAGTGAAACCACAACAC-CAAATCCTATGACCCTAAAGTTGTAG-AGAGCAGATTAAA
* * * * *
22768295 ACTAACAGTAGCAGATCTCAATCTCCTTGAAGTTGCAGTGGAATGGAGTG
257 ACTAACAGTAGCAGATCTCAATCTCCCTAAAGGTACAGTGGAATGAAGTG
** * * *
22768345 AAGTTACAACACCAAATCTTATATCCCTGAAGTTGTAGTGGATCGAATTAAAATTAACCATTAGC
1 AAGCCACAACACCAAATCCTATATCCCTGAAGTTGTAGTGGATCGAATTAAAACTAACCAGTAGC
22768410 AGATCTCAATCTCTCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATTCTATACC-C
66 AGATCTCAATCTCTCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATTCTATACCTC
* * * *
22768474 TTAAAGTTACAGAGGGGCGGATTAAAACTAACAGTAGTTGATCTCAATCTCCCTGAAGTTACAGT
131 -TAAAGTTGCAAAGGGGCGAATTAAAACTAACAGTAGTAGATCTCAATCTCCCTGAAGTTACAGT
*** * * * *
22768539 AGAATGGAGTGAAGTTACAACACCAAATCTTATGCCCCTAAAGTTGTAGAGGGCAGATTAAAAGT
195 AGAATGGAGTGAAACCACAACACCAAATCCTATGACCCTAAAGTTGTAGAGAGCAGATTAAAACT
22768604 AACAGTAGCAGATCTCAATCTCCCTAAAGGTACAGTGGAATGAAGTG
260 AACAGTAGCAGATCTCAATCTCCCTAAAGGTACAGTGGAATGAAGTG
* * * * * *
22768651 AAGCCACAACCCCAAATCCTATATCCCTGAGGTTGTAGTGGATCGGATTAAAGCTCA-CAGCAGC
1 AAGCCACAACACCAAATCCTATATCCCTGAAGTTGTAGTGGATCGAATTAAAACTAACCAGTAGC
* * *
22768715 GGATCTCAATCT-TCTTGAAGTTGCAGTGGAATGGAGTGAAGTTACAA-ACCCAAATCCTATATC
66 AGATCTCAATCTCTC-TGAAGTTGCAGTGGAATGGAGTGAAGTTACAACA-CCAAATTCTATACC
*
22768778 TCTGAAGTTGCA
129 TCTAAAGTTGCA
22768790 GGGATCAGAT
Statistics
Matches: 378, Mismatches: 58, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
303 5 0.01
304 3 0.01
305 113 0.30
306 244 0.65
307 13 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (306 bp):
AAGCCACAACACCAAATCCTATATCCCTGAAGTTGTAGTGGATCGAATTAAAACTAACCAGTAGC
AGATCTCAATCTCTCTGAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATTCTATACCTC
TAAAGTTGCAAAGGGGCGAATTAAAACTAACAGTAGTAGATCTCAATCTCCCTGAAGTTACAGTA
GAATGGAGTGAAACCACAACACCAAATCCTATGACCCTAAAGTTGTAGAGAGCAGATTAAAACTA
ACAGTAGCAGATCTCAATCTCCCTAAAGGTACAGTGGAATGAAGTG
Found at i:22768776 original size:102 final size:102
Alignment explanation
Indices: 22768044--22768803 Score: 759
Period size: 102 Copynumber: 7.5 Consensus size: 102
22768034 GAATGAAAGC
* * ** * *
22768044 TACAACACCAAATCCTATACCCCTAAAGTTACAAAGTGG--CGGATTAAAACTAACCGTAGTAGA
1 TACAACACCAAATCCTATATCCCTGAAGTT--GTAGTGGATCGGATTAAAACTAACAGTAGCAGA
* **** *
22768107 TCTCAATCT-CTCTGAAGTTGCAGAGGGGCAGATTGAAGT
64 TCTCAATCTCCT-TGAAGTTGCAGTGGAATGGAGTGAAGT
* * * ** ** * * *
22768146 TATAACACCAAATTCTATA-CCTCTAAAGTTGTAAAGGGGCGAATTAAAACTAACCGTAGTAGAT
1 TACAACACCAAATCCTATATCC-CTGAAGTTGTAGTGGATCGGATTAAAACTAACAGTAGCAGAT
**
22768210 CTCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAAC
65 CTCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGT
* *
22768248 CACAAC-CTCAAATCCTATAT-CCTGAAGTTGTAGTAGATCGGATTAAAACTAACAGTAGCAGAT
1 TACAACAC-CAAATCCTATATCCCTGAAGTTGTAGTGGATCGGATTAAAACTAACAGTAGCAGAT
22768311 CTCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGT
65 CTCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGT
* * * *
22768349 TACAACACCAAATCTTATATCCCTGAAGTTGTAGTGGATCGAATTAAAATTAACCATTAGCAGAT
1 TACAACACCAAATCCTATATCCCTGAAGTTGTAGTGGATCGGATTAAAACTAA-CAGTAGCAGAT
22768414 CTCAATCT-CTCTGAAGTTGCAGTGGAATGGAGTGAAGT
65 CTCAATCTCCT-TGAAGTTGCAGTGGAATGGAGTGAAGT
* * ** * ** **
22768452 TACAACACCAAATTCTATA-CCCTTAAAGTTACAGAGGGGCGGATTAAAACTAACAGTAGTTGAT
1 TACAACACCAAATCCTATATCCC-TGAAGTTGTAGTGGATCGGATTAAAACTAACAGTAGCAGAT
* * *
22768516 CTCAATCTCCCTGAAGTTACAGTAGAATGGAGTGAAGT
65 CTCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGT
* ** * * * * *
22768554 TACAACACCAAATCTTATGCCCCTAAAGTTGTAGAGG-GCAGATTAAAAGTAACAGTAGCAGATC
1 TACAACACCAAATCCTATATCCCTGAAGTTGTAGTGGATCGGATTAAAACTAACAGTAGCAGATC
* * * * * *
22768618 TCAATCTCCCTAAAGGTACAGTGGAATGAAGTGAAGC
66 TCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGT
* * * * * * *
22768655 CACAACCCCAAATCCTATATCCCTGAGGTTGTAGTGGATCGGATTAAAGCTCACAGCAGCGGATC
1 TACAACACCAAATCCTATATCCCTGAAGTTGTAGTGGATCGGATTAAAACTAACAGTAGCAGATC
*
22768720 TCAATCTTCTTGAAGTTGCAGTGGAATGGAGTGAAGT
66 TCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGT
* * *
22768757 TACAA-ACCCAAATCCTATATCTCTGAAGTTGCAG-GGATCAGATTAAA
1 TACAACA-CCAAATCCTATATCCCTGAAGTTGTAGTGGATCGGATTAAA
22768804 GCTATAGTAG
Statistics
Matches: 550, Mismatches: 93, Indels: 31
0.82 0.14 0.05
Matches are distributed among these distances:
100 3 0.01
101 184 0.33
102 273 0.50
103 90 0.16
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (102 bp):
TACAACACCAAATCCTATATCCCTGAAGTTGTAGTGGATCGGATTAAAACTAACAGTAGCAGATC
TCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGT
Found at i:22769640 original size:11 final size:11
Alignment explanation
Indices: 22769620--22769680 Score: 63
Period size: 11 Copynumber: 5.4 Consensus size: 11
22769610 ATAAATAGCG
22769620 ATAA-AAATAA
1 ATAACAAATAA
22769630 ATAACAAATAA
1 ATAACAAATAA
22769641 ATAACAAAAATTAA
1 ATAAC--AAA-TAA
22769655 ATAA-AAATTAA
1 ATAACAAA-TAA
*
22769666 ATACCAAATAA
1 ATAACAAATAA
22769677 ATAA
1 ATAA
22769681 AATAATACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
10 4 0.09
11 27 0.61
12 3 0.07
13 3 0.07
14 7 0.16
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAACAAATAA
Found at i:22769656 original size:25 final size:24
Alignment explanation
Indices: 22769622--22769682 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
22769612 AAATAGCGAT
22769622 AAAAATAAATAACAAA-TAAATAAC
1 AAAAATAAATAA-AAATTAAATAAC
22769646 AAAAATTAAATAAAAATTAAAT-AC
1 AAAAA-TAAATAAAAATTAAATAAC
*
22769670 -CAAATAAATAAAA
1 AAAAATAAATAAAA
22769683 TAATACAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
22 9 0.26
23 3 0.09
24 10 0.29
25 12 0.35
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.20
Consensus pattern (24 bp):
AAAAATAAATAAAAATTAAATAAC
Found at i:22769693 original size:36 final size:35
Alignment explanation
Indices: 22769620--22769704 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 35
22769610 ATAAATAGCG
*
22769620 ATAAAAATAAATAACAAATAAATAACAAAAATTAA
1 ATAAAAATAAATAACAAATAAATAACAAAAATCAA
* *
22769655 ATAAAAATTAAATACCAAATAAATAA-AATAATACAA
1 ATAAAAA-TAAATAACAAATAAATAACAAAAAT-CAA
**
22769691 ATAACTATAAATAA
1 ATAAAAATAAATAA
22769705 AAGGGGACTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
35 18 0.43
36 24 0.57
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (35 bp):
ATAAAAATAAATAACAAATAAATAACAAAAATCAA
Found at i:22769702 original size:19 final size:19
Alignment explanation
Indices: 22769665--22769704 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
22769655 ATAAAAATTA
22769665 AATACCAAATAAATAAAAT
1 AATACCAAATAAATAAAAT
*
22769684 AATA-CAAATAACTATAAAT
1 AATACCAAATAAATA-AAAT
22769703 AA
1 AA
22769705 AAGGGGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (19 bp):
AATACCAAATAAATAAAAT
Found at i:22772520 original size:210 final size:210
Alignment explanation
Indices: 22772158--22772577 Score: 840
Period size: 210 Copynumber: 2.0 Consensus size: 210
22772148 CAAAAATGTG
22772158 ACCCTTCATCATTGATTAAGGCTCTAGGGGTCCTAAATCTTGAAAAGATGTTTCTTCTCATAAAT
1 ACCCTTCATCATTGATTAAGGCTCTAGGGGTCCTAAATCTTGAAAAGATGTTTCTTCTCATAAAT
22772223 CTCACCACTGATTTAGTATTATTAGTAGGTAATGCCACAACTTCTACCCATTTGGAGACATAATC
66 CTCACCACTGATTTAGTATTATTAGTAGGTAATGCCACAACTTCTACCCATTTGGAGACATAATC
22772288 TACTAGCAATAGAACATATTGATTTCCGAATGAACTAGGAAAAGGTCCCATCAATTCCACAAACA
131 TACTAGCAATAGAACATATTGATTTCCGAATGAACTAGGAAAAGGTCCCATCAATTCCACAAACA
22772353 TCAAATATCACTACC
196 TCAAATATCACTACC
22772368 ACCCTTCATCATTGATTAAGGCTCTAGGGGTCCTAAATCTTGAAAAGATGTTTCTTCTCATAAAT
1 ACCCTTCATCATTGATTAAGGCTCTAGGGGTCCTAAATCTTGAAAAGATGTTTCTTCTCATAAAT
22772433 CTCACCACTGATTTAGTATTATTAGTAGGTAATGCCACAACTTCTACCCATTTGGAGACATAATC
66 CTCACCACTGATTTAGTATTATTAGTAGGTAATGCCACAACTTCTACCCATTTGGAGACATAATC
22772498 TACTAGCAATAGAACATATTGATTTCCGAATGAACTAGGAAAAGGTCCCATCAATTCCACAAACA
131 TACTAGCAATAGAACATATTGATTTCCGAATGAACTAGGAAAAGGTCCCATCAATTCCACAAACA
22772563 TCAAATATCACTACC
196 TCAAATATCACTACC
22772578 TTAATAATTC
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 210 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (210 bp):
ACCCTTCATCATTGATTAAGGCTCTAGGGGTCCTAAATCTTGAAAAGATGTTTCTTCTCATAAAT
CTCACCACTGATTTAGTATTATTAGTAGGTAATGCCACAACTTCTACCCATTTGGAGACATAATC
TACTAGCAATAGAACATATTGATTTCCGAATGAACTAGGAAAAGGTCCCATCAATTCCACAAACA
TCAAATATCACTACC
Done.