Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 279 of 325
Found at i:91297029 original size:16 final size:16
Alignment explanation
Indices: 91297005--91297050 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 16
91296995 TTAATATGTG
*
91297005 ATGAATATTATTTAAA
1 ATGATTATTATTTAAA
91297021 ATGATTATT-TTTAAA
1 ATGATTATTATTTAAA
91297036 AT--TTATTA-TTAAA
1 ATGATTATTATTTAAA
91297049 AT
1 AT
91297051 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 12 0.43
15 8 0.29
16 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (16 bp):
ATGATTATTATTTAAA
Found at i:91297085 original size:16 final size:16
Alignment explanation
Indices: 91297066--91297100 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
91297056 TAAAACATTA
*
91297066 AATAATTTATTAAAAT
1 AATAAATTATTAAAAT
*
91297082 AATAAATTATTAATAT
1 AATAAATTATTAAAAT
91297098 AAT
1 AAT
91297101 TTATTATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAAATTATTAAAAT
Found at i:91297106 original size:16 final size:15
Alignment explanation
Indices: 91297062--91297107 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
91297052 AAATTAAAAC
91297062 ATTAAATAATTTATT
1 ATTAAATAATTTATT
**
91297077 A--AAATAATAAATT
1 ATTAAATAATTTATT
91297090 ATTAATATAATTTATT
1 ATTAA-ATAATTTATT
91297106 AT
1 AT
91297108 ATGATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
13 11 0.46
15 3 0.12
16 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAAATAATTTATT
Found at i:91304875 original size:43 final size:43
Alignment explanation
Indices: 91304811--91304948 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
91304801 TCCCGGACGT
* * * * *
91304811 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGATAG
1 GGTCTTACACGTAAATCAATATCGATGCCTATGTCCCAGACAC
* * *
91304854 GGTCTTACACG-AAATCAAATAT-GATGCCGATGTCTCAGACAT
1 GGTCTTACACGTAAATC-AATATCGATGCCTATGTCCCAGACAC
* * * * *
91304896 GGTCTTATACGTAAATCTCA-ATCGAGGCTTGTGTCCCAGACAC
1 GGTCTTACACGTAAATC-AATATCGATGCCTATGTCCCAGACAC
91304939 GGTCTTACAC
1 GGTCTTACAC
91304949 AATGTCTCAG
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
42 31 0.41
43 44 0.59
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAATATCGATGCCTATGTCCCAGACAC
Found at i:91310948 original size:23 final size:23
Alignment explanation
Indices: 91310922--91310975 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
91310912 TTTAACAATA
*
91310922 GTCTCAACTTACATAATTTTCTT
1 GTCTCAACTTACATAATTTCCTT
91310945 GTCTCAACTTACATAATTTCCTT
1 GTCTCAACTTACATAATTTCCTT
*
91310968 GTATCAAC
1 GTCTCAAC
91310976 ATATCAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.43
Consensus pattern (23 bp):
GTCTCAACTTACATAATTTCCTT
Found at i:91311747 original size:182 final size:182
Alignment explanation
Indices: 91311399--91311778 Score: 573
Period size: 182 Copynumber: 2.1 Consensus size: 182
91311389 TTCAACTATG
* *
91311399 GTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATAGTCTTATTCATTTCTCATC
1 GTCTTACTCATTTTCTGTCACGTTGCCATGGTATCTTTCAACCATAGTCTTATTCATTTCCCATC
91311464 ATATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACATTGCCATGATATCTTT
66 ATATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACATTGCCATGATATCTTT
** * * *
91311529 CAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGGTATTTTTCAACCA
131 CAACCATGGTCTTACACATTTCATATCATATTGCCATGGTATCTTTCAACCA
* * * *
91311581 GTCTTATTCA-TTTCATGTCACGTTGTCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 GTCTTACTCATTTTC-TGTCACGTTGCCATGGTATCTTTCAACCATAGTCTTATTCATTTCCCAT
* * * * *
91311645 CATGTTGCCATGGTATCTTTTAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
65 CATATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACATTGCCATGATATCTT
91311710 TCAACCATGGTCTTACACATTTCATATCATATTGCCATGGTATCTTTCAACCA
130 TCAACCATGGTCTTACACATTTCATATCATATTGCCATGGTATCTTTCAACCA
*
91311763 TGGTCTTACACATTTT
1 --GTCTTACTCATTTT
91311779 ATTTCAGAAA
Statistics
Matches: 176, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
181 4 0.02
182 161 0.91
184 8 0.05
185 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.43
Consensus pattern (182 bp):
GTCTTACTCATTTTCTGTCACGTTGCCATGGTATCTTTCAACCATAGTCTTATTCATTTCCCATC
ATATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACATTGCCATGATATCTTT
CAACCATGGTCTTACACATTTCATATCATATTGCCATGGTATCTTTCAACCA
Found at i:91311777 original size:46 final size:46
Alignment explanation
Indices: 91311387--91311770 Score: 524
Period size: 46 Copynumber: 8.4 Consensus size: 46
91311377 GCCATAGTGC
* * *
91311387 CTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTATTCA-TTTCATATCATGTTGCCATGGTAT
* *
91311433 CTTTCAACCATAGTCTTATTCATTTC-TCATCATATTGCCATGGTAT
1 CTTTCAACCATGGTCTTATTCATTTCAT-ATCATGTTGCCATGGTAT
** *
91311479 CTTTCAACCATGGTCTTATTCATTTCATATCACATTGCCATGATAT
1 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
*
91311525 CTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
* * * *
91311571 TTTTCAACCA--GTCTTATTCATTTCATGTCACGTTGTCATGGTAT
1 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
***
91311615 CTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
* * *
91311661 CTTTTAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
** *
91311707 CTTTCAACCATGGTCTTACACATTTCATATCATATTGCCATGGTAT
1 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
91311753 CTTTCAACCATGGTCTTA
1 CTTTCAACCATGGTCTTA
91311771 CACATTTTAT
Statistics
Matches: 302, Mismatches: 32, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
44 39 0.13
45 5 0.02
46 257 0.85
47 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.43
Consensus pattern (46 bp):
CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
Found at i:91313687 original size:24 final size:27
Alignment explanation
Indices: 91313658--91313721 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 27
91313648 TTTTTATATA
91313658 CTAATAAAATAATAAAAT-ATA-TTAT
1 CTAATAAAATAATAAAATAATATTTAT
* *
91313683 -TAATATATTAATAAAATAATATTTAT
1 CTAATAAAATAATAAAATAATATTTAT
*
91313709 CTAATTAAATAAT
1 CTAATAAAATAAT
91313722 TATAAAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 15 0.48
25 3 0.10
26 4 0.13
27 9 0.29
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (27 bp):
CTAATAAAATAATAAAATAATATTTAT
Found at i:91314945 original size:22 final size:22
Alignment explanation
Indices: 91314919--91314961 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
91314909 CACATTGTCG
91314919 CATTATTTACACATGTACTTAC
1 CATTATTTACACATGTACTTAC
91314941 CATTATTTACACATGTACTTA
1 CATTATTTACACATGTACTTA
91314962 ACTCGATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.42
Consensus pattern (22 bp):
CATTATTTACACATGTACTTAC
Found at i:91317441 original size:22 final size:22
Alignment explanation
Indices: 91317397--91317441 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
91317387 CATTAGACAT
**
91317397 AGAAGAGTTATTACAAATGCCA
1 AGAAGAGTTATTACAAACACCA
91317419 AGAAGAGTTATTACAAACACCA
1 AGAAGAGTTATTACAAACACCA
91317441 A
1 A
91317442 ATATCCCCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.20
Consensus pattern (22 bp):
AGAAGAGTTATTACAAACACCA
Found at i:91326166 original size:47 final size:47
Alignment explanation
Indices: 91326095--91326729 Score: 1072
Period size: 47 Copynumber: 13.5 Consensus size: 47
91326085 CCCTTCGGGA
* * * * * *
91326095 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
91326142 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
91326189 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
91326236 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
91326283 CTTATCATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
91326330 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
91326377 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
91326424 CTTATCACATATATACACTTTCACATTCACCACAACGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
91326471 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
91326518 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
91326565 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
91326612 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
91326661 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
91326708 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
91326730 TGTTAATTTT
Statistics
Matches: 559, Mismatches: 27, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
47 514 0.92
49 45 0.08
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:91326173 original size:25 final size:25
Alignment explanation
Indices: 91326145--91326223 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
91326135 ACTCGGCCCT
91326145 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
91326170 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
91326192 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
91326217 ATCACAT
1 ATCACAT
91326224 CGGCCATTCG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:91329410 original size:12 final size:12
Alignment explanation
Indices: 91329393--91329417 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91329383 TGCCGACTAT
91329393 GTTACTGTTACC
1 GTTACTGTTACC
91329405 GTTACTGTTACC
1 GTTACTGTTACC
91329417 G
1 G
91329418 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:91329718 original size:19 final size:19
Alignment explanation
Indices: 91329696--91329749 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 19
91329686 GGAAAGATCG
91329696 ATTGTTACTGAATAATTTA
1 ATTGTTACTGAATAATTTA
* *
91329715 ATTGTTACTGTAT-ATCTA
1 ATTGTTACTGAATAATTTA
* *
91329733 ATTTTTACTGAAGAATT
1 ATTGTTACTGAATAATT
91329750 GACTGTTACT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (19 bp):
ATTGTTACTGAATAATTTA
Found at i:91329806 original size:18 final size:18
Alignment explanation
Indices: 91329782--91329845 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
91329772 AATTGATTGA
91329782 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* * * *
91329800 TATTGAAAAATTGATTGT
1 TACTGAATAACTGATTAT
* * *
91329818 TACCGAATAACTGACTGT
1 TACTGAATAACTGATTAT
91329836 TACTGAATAA
1 TACTGAATAA
91329846 ATAATTATTT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:91334373 original size:96 final size:96
Alignment explanation
Indices: 91334251--91334518 Score: 455
Period size: 96 Copynumber: 2.8 Consensus size: 96
91334241 GAATTCTTTC
* * * * * * * * *
91334251 ATCGAAGGGAATGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAACCAA
1 ATCGAAGGGAACGATGGAGCAAACAAGGAGTCTAAGAAGCTTGGTTCAAACAAAGGAAAAGCCGA
91334316 AGCCAAGAGGGCAAAGAAGAACAAGTCTATT
66 AGCCAAGAGGGCAAAGAAGAACAAGTCTATT
91334347 ATCGAAGGGAACGATGGAGCAAACAAGGAGTCTAAGAAGCTTGGTTCAAACAAAGGAAAAGCCGA
1 ATCGAAGGGAACGATGGAGCAAACAAGGAGTCTAAGAAGCTTGGTTCAAACAAAGGAAAAGCCGA
91334412 AGCCAAGAGGGCAAAGAAGAACAAGTCTATT
66 AGCCAAGAGGGCAAAGAAGAACAAGTCTATT
91334443 ATCGAAGGGAACGATGGAGCAAACAAGGAGTCTAAGAAGCTTGGTTCAAACAAAGGAAAAGCCGA
1 ATCGAAGGGAACGATGGAGCAAACAAGGAGTCTAAGAAGCTTGGTTCAAACAAAGGAAAAGCCGA
91334508 AGCCAAGAGGG
66 AGCCAAGAGGG
91334519 AAAAAAGGAG
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 163 1.00
ACGTcount: A:0.43, C:0.16, G:0.30, T:0.12
Consensus pattern (96 bp):
ATCGAAGGGAACGATGGAGCAAACAAGGAGTCTAAGAAGCTTGGTTCAAACAAAGGAAAAGCCGA
AGCCAAGAGGGCAAAGAAGAACAAGTCTATT
Found at i:91337439 original size:43 final size:43
Alignment explanation
Indices: 91337391--91337551 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 43
91337381 TGTGATAACA
91337391 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACG
* * * * *
91337434 TGTAAGACCATGTTTGGGATATTGGCATTGCTAAT-CGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGAGATTACG
* * * ** * * *
91337477 TGTAAGACCCTGTCTGGGACAGTGGC-GTCCATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGAGATTACG
* *
91337520 TGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATTGTAT
91337552 GAGCGTATGT
Statistics
Matches: 91, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
41 1 0.01
42 6 0.07
43 81 0.89
44 3 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACG
Found at i:91338759 original size:94 final size:94
Alignment explanation
Indices: 91338639--91339424 Score: 1421
Period size: 94 Copynumber: 8.3 Consensus size: 94
91338629 CATACATATC
* ** **
91338639 TCACATTAGCCATTCGG-CTTCGCCACATATATACACTTCCACGTTTATCACATTGGCCATTCTA
1 TCACATTGGCCATTCGGCCTT-ATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGG
91338703 CCTTATCACACATATGCATGTTCACATTCA
65 CCTTATCACACATATGCATGTTCACATTCA
*
91338733 TCACATTGGCCATTCGGCCTTACCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGC
91338798 CTTATCACACATATGCATGTTCACATTCA
66 CTTATCACACATATGCATGTTCACATTCA
91338827 TCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGC
91338892 CTTATCACACATATGCATGTTCACATTCA
66 CTTATCACACATATGCATGTTCACATTCA
*
91338921 TCACATTGGTCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGC
91338986 CTTATCACACATATGCATGTTCACATTCA
66 CTTATCACACATATGCATGTTCACATTCA
91339015 TCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGC
91339080 CTTATCACACATATGCATGTTCACATTCA
66 CTTATCACACATATGCATGTTCACATTCA
91339109 TCACATTGGCCATTCGGCCTTATCACATATATATACACTTCCACGTTTATCACATTGGCCATTCG
1 TCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTCCACGTTTATCACATTGGCCATTCG
91339174 GCCTTATCACACATATGCATGTTCACATTCA
64 GCCTTATCACACATATGCATGTTCACATTCA
* **
91339205 TCACATTGGCCATTCGGCCTTATCTCATATATACACTTCCACGTTTATCACATTGGCCATTCTAC
1 TCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGC
91339270 CTTATCACACATATGCATGTTCACATTCA
66 CTTATCACACATATGCATGTTCACATTCA
**
91339299 TCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCTAC
1 TCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGC
91339364 CTTATCACACATATGCATGTTCACATTCA
66 CTTATCACACATATGCATGTTCACATTCA
*
91339393 TCACATTGGCCATTCGGCCTTATCACACATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
91339425 GCATGTTCAC
Statistics
Matches: 677, Mismatches: 12, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
94 581 0.86
95 3 0.00
96 93 0.14
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (94 bp):
TCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGC
CTTATCACACATATGCATGTTCACATTCA
Found at i:91339275 original size:22 final size:22
Alignment explanation
Indices: 91339249--91339372 Score: 74
Period size: 23 Copynumber: 5.4 Consensus size: 22
91339239 ACTTCCACGT
91339249 TTATCACATTGGCCATTCTACC
1 TTATCACATTGGCCATTCTACC
*
91339271 TTATCACACATAT-G-CATGT-TCACA
1 TTAT--CACAT-TGGCCAT-TCT-ACC
**
91339295 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCTACC
*** * *
91339318 TTATCACATATATACACTTCCACGT
1 TTATCACAT-TGGCCA-TTCTAC-C
91339343 TTATCACATTGGCCATTCTACC
1 TTATCACATTGGCCATTCTACC
91339365 TTATCACA
1 TTATCACA
91339373 CATATGCATG
Statistics
Matches: 75, Mismatches: 15, Indels: 24
0.66 0.13 0.21
Matches are distributed among these distances:
22 20 0.27
23 22 0.29
24 21 0.28
25 12 0.16
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.35
Consensus pattern (22 bp):
TTATCACATTGGCCATTCTACC
Found at i:91339396 original size:25 final size:25
Alignment explanation
Indices: 91339367--91339441 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 25
91339357 ATTCTACCTT
91339367 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
91339392 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
91339414 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
91339439 ATC
1 ATC
91339442 TCATAAAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 18
0.63 0.07 0.31
Matches are distributed among these distances:
22 6 0.16
23 11 0.30
24 11 0.30
25 9 0.24
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:91339425 original size:47 final size:47
Alignment explanation
Indices: 91338685--91339441 Score: 988
Period size: 47 Copynumber: 16.1 Consensus size: 47
91338675 TTCCACGTTT
**
91338685 ATCACATTGGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * * *
91338732 ATCACATTGGCCATTCGGCCTTACCACATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
91338779 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * *
91338826 ATCACATTGGCCATTCGGCCTTATCACATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
91338873 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * * *
91338920 ATCACATTGGTCATTCGGCCTTATCACATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
91338967 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * *
91339014 ATCACATTGGCCATTCGGCCTTATCACATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
91339061 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * *
91339108 ATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCAC--ACATATGCA-TGTTCACATTC
91339157 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * * *
91339204 ATCACATTGGCCATTCGGCCTTATCTCATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
**
91339251 ATCACATTGGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * *
91339298 ATCACATTGGCCATTCGGCCTTATCACATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
**
91339345 ATCACATTGGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
91339392 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
91339439 ATC
1 ATC
91339442 TCATAAAATC
Statistics
Matches: 608, Mismatches: 86, Indels: 32
0.84 0.12 0.04
Matches are distributed among these distances:
46 7 0.01
47 554 0.91
48 6 0.01
49 40 0.07
50 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:91350938 original size:29 final size:30
Alignment explanation
Indices: 91350906--91350962 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
91350896 ACCATGAATA
* *
91350906 TAATTAAACTAAC-AAATTCAACCAAAAAC
1 TAATGAAACTAACAAAACTCAACCAAAAAC
*
91350935 TAATGACACTAACAAAACTCAACCAAAA
1 TAATGAAACTAACAAAACTCAACCAAAA
91350963 GCAATCTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.18
Consensus pattern (30 bp):
TAATGAAACTAACAAAACTCAACCAAAAAC
Found at i:91362764 original size:43 final size:42
Alignment explanation
Indices: 91362717--91362797 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
91362707 TCTTATAGGT
*
91362717 AATCAAACATCGATG-CCACTATCCCAGACAGGGTCTTACCCAA
1 AATCAAACA-CGATGCCCA-TATCCCAGACAGGATCTTACCCAA
* * *
91362760 AATCAAATACGATGCCCATGTCCCAGACATGATCTTAC
1 AATCAAACACGATGCCCATATCCCAGACAGGATCTTAC
91362798 ACACAAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 22 0.67
43 11 0.33
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.21
Consensus pattern (42 bp):
AATCAAACACGATGCCCATATCCCAGACAGGATCTTACCCAA
Found at i:91365020 original size:25 final size:24
Alignment explanation
Indices: 91364978--91365024 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
91364968 ACTAGCTTTT
91364978 CACAATTTATTTCACATTTCATTA
1 CACAATTTATTTCACATTTCATTA
91365002 CACAATTGTATTATC-CATTTCAT
1 CACAATT-TATT-TCACATTTCAT
91365025 ATTCATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.33
25 12 0.57
26 2 0.10
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.45
Consensus pattern (24 bp):
CACAATTTATTTCACATTTCATTA
Found at i:91365349 original size:41 final size:39
Alignment explanation
Indices: 91365227--91365353 Score: 116
Period size: 37 Copynumber: 3.2 Consensus size: 39
91365217 ACCAATTTGG
* * * *
91365227 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAATGCCTCAT-TGATAATCCGAAGTAGTAAATTGA
* * * * *
91365267 CACCCAGTGTCTCATTGGCTAAACC-AA--AGTAAATTGG
1 CACCCAATGCCTCATT-GATAATCCGAAGTAGTAAATTGA
91365304 CACCCAATGCCTCATTGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAATGCCTCATTG-A-TAATCCGAAGTAGTAAATTGA
91365345 CACCCAATG
1 CACCCAATG
91365354 TCTCGTCAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
36 1 0.01
37 22 0.32
38 5 0.07
39 4 0.06
40 19 0.28
41 18 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (39 bp):
CACCCAATGCCTCATTGATAATCCGAAGTAGTAAATTGA
Found at i:91366205 original size:11 final size:10
Alignment explanation
Indices: 91366189--91366250 Score: 54
Period size: 11 Copynumber: 5.8 Consensus size: 10
91366179 GTCTTTCTCC
91366189 TTTTCTTTCAT
1 TTTTCTTTC-T
91366200 TTTTCTTTCT
1 TTTTCTTTCT
*
91366210 GTTTCGTTTCT
1 TTTTC-TTTCT
*
91366221 ATCTTTGTTTCT
1 -T-TTTCTTTCT
91366233 TTCTT-TTTCT
1 TT-TTCTTTCT
91366243 TTTTCTTT
1 TTTTCTTT
91366251 TATTTAATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
9 2 0.05
10 16 0.37
11 17 0.40
12 5 0.12
13 3 0.07
ACGTcount: A:0.03, C:0.18, G:0.05, T:0.74
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:91366952 original size:25 final size:25
Alignment explanation
Indices: 91366924--91366996 Score: 60
Period size: 27 Copynumber: 2.8 Consensus size: 25
91366914 CCCAATATAT
91366924 GGCTCCTCAGAGCTTTCCGATTAAA
1 GGCTCCTCAGAGCTTTCCGATTAAA
* * *
91366949 GGCTCTTTTATGAGC-TTCCTGATTAAT
1 GGCTC-CTCA-GAGCTTTCC-GATTAAA
*
91366976 GGCT-CTCCAGAGCTTCCCGAT
1 GGCTCCT-CAGAGCTTTCCGAT
91366997 ATTGGCTTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
25 13 0.35
26 10 0.27
27 14 0.38
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (25 bp):
GGCTCCTCAGAGCTTTCCGATTAAA
Found at i:91367052 original size:24 final size:25
Alignment explanation
Indices: 91367025--91367094 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 25
91367015 CCCAATATTT
91367025 GCTCATATGAGCTTCCCGTTA-AAG
1 GCTCATATGAGCTTCCCGTTACAAG
* * *
91367049 GCTC-TCTAGAGCTTCCCATTACATG
1 GCTCATAT-GAGCTTCCCGTTACAAG
* * *
91367074 GCTCACATAACCTTCCCGTTA
1 GCTCATATGAGCTTCCCGTTA
91367095 TATGGCTCGA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
23 2 0.06
24 16 0.46
25 16 0.46
26 1 0.03
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (25 bp):
GCTCATATGAGCTTCCCGTTACAAG
Found at i:91369883 original size:20 final size:20
Alignment explanation
Indices: 91369845--91369883 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
91369835 TATTCAAACT
*
91369845 ATATTAATTGAATAGTTATA
1 ATATTAATTGAATAATTATA
91369865 ATATTAGATTG-ATAATTAT
1 ATATTA-ATTGAATAATTAT
91369884 GTCTCTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (20 bp):
ATATTAATTGAATAATTATA
Found at i:91373076 original size:40 final size:40
Alignment explanation
Indices: 91373014--91373108 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
91373004 CCATCTCCGA
* * *
91373014 CCAACCCAACACACC-A-TGTGGGGATAGAATCGACCCA-
1 CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAT
* *
91373051 CCTAACCCTACACGCCAAGTATGGGGATATAATCAACCCAT
1 CC-AACCCTACACACCAAGTATGGGGATAGAATCAACCCAT
91373092 CCAACCCTACACACCAA
1 CCAACCCTACACACCAA
91373109 AAGGTACCGT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
37 2 0.04
38 11 0.23
39 1 0.02
40 32 0.67
41 2 0.04
ACGTcount: A:0.36, C:0.37, G:0.14, T:0.14
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAT
Found at i:91375396 original size:20 final size:20
Alignment explanation
Indices: 91375358--91375398 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
91375348 GATTTTTGTA
*
91375358 TCCTCCATTATAGACAAACT
1 TCCTCCATTATAGAAAAACT
* *
91375378 TCCTCCATTTTGGAAAAACT
1 TCCTCCATTATAGAAAAACT
91375398 T
1 T
91375399 TAAAAGAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (20 bp):
TCCTCCATTATAGAAAAACT
Found at i:91377500 original size:18 final size:18
Alignment explanation
Indices: 91377477--91377530 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
91377467 AATCGAATAG
91377477 GAGACCTTAAGGCAAACT
1 GAGACCTTAAGGCAAACT
91377495 GAGACCTTAAGGCAAACT
1 GAGACCTTAAGGCAAACT
* *
91377513 GAAACCTTAGGGCAAACT
1 GAGACCTTAAGGCAAACT
91377531 AACACCTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (18 bp):
GAGACCTTAAGGCAAACT
Found at i:91377537 original size:18 final size:17
Alignment explanation
Indices: 91377480--91377539 Score: 75
Period size: 18 Copynumber: 3.4 Consensus size: 17
91377470 CGAATAGGAG
*
91377480 ACCTTAAGGCAAACTGAG
1 ACCTTAAGGCAAACT-AA
91377498 ACCTTAAGGCAAACTGAA
1 ACCTTAAGGCAAACT-AA
*
91377516 ACCTTAGGGCAAACTAA
1 ACCTTAAGGCAAACTAA
91377533 CACCTTA
1 -ACCTTA
91377540 CCACTTGAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
17 2 0.05
18 37 0.95
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (17 bp):
ACCTTAAGGCAAACTAA
Found at i:91378638 original size:22 final size:22
Alignment explanation
Indices: 91378594--91378638 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
91378584 AATAAATTAT
* *
91378594 TTTAAATTAAATTATATTTATA
1 TTTAAATTAAATTATAGTAATA
* *
91378616 TTTAAATTGAATTTTAGTAATA
1 TTTAAATTAAATTATAGTAATA
91378638 T
1 T
91378639 GACAAAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTAAATTAAATTATAGTAATA
Found at i:91382253 original size:172 final size:173
Alignment explanation
Indices: 91381962--91382312 Score: 695
Period size: 172 Copynumber: 2.0 Consensus size: 173
91381952 ATGCCTACAT
91381962 ATGACTTAATTTATCTCTTGCTTGTGTAATCTTTCCATGCTTTCTGTTATTCATCTTTGATTCGA
1 ATGACTTAATTTATCTCTTGCTTGTGTAATCTTTCCATGCTTTCTGTTATTCATCTTTGATTCGA
91382027 GAAGTGTAGTAAAACTCAACTTCTCGAGATGCGGAATACATGCAGGTATGATTTAGCCTAATATA
66 GAAGTGTAGTAAAACTCAACTTCTCGAGATGCGGAATACATGCAGGTATGATTTAGCCTAATATA
91382092 AAGGTGCAACATTCTTTTACTTCATACTTCGATGGCATGCTTC
131 AAGGTGCAACATTCTTTTACTTCATACTTCGATGGCATGCTTC
91382135 ATGA-TTAATTTATCTCTTGCTTGTGTAATCTTTCCATGCTTTCTGTTATTCATCTTTGATTCGA
1 ATGACTTAATTTATCTCTTGCTTGTGTAATCTTTCCATGCTTTCTGTTATTCATCTTTGATTCGA
91382199 GAAGTGTAGTAAAACTCAACTTCTCGAGATGCGGAATACATGCAGGTATGATTTAGCCTAATATA
66 GAAGTGTAGTAAAACTCAACTTCTCGAGATGCGGAATACATGCAGGTATGATTTAGCCTAATATA
91382264 AAGGTGCAACATTCTTTTACTTCATACTTCGATGGCATGCTTC
131 AAGGTGCAACATTCTTTTACTTCATACTTCGATGGCATGCTTC
91382307 ATGACT
1 ATGACT
91382313 GTTCTTGTTT
Statistics
Matches: 177, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
172 172 0.97
173 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (173 bp):
ATGACTTAATTTATCTCTTGCTTGTGTAATCTTTCCATGCTTTCTGTTATTCATCTTTGATTCGA
GAAGTGTAGTAAAACTCAACTTCTCGAGATGCGGAATACATGCAGGTATGATTTAGCCTAATATA
AAGGTGCAACATTCTTTTACTTCATACTTCGATGGCATGCTTC
Found at i:91383062 original size:26 final size:26
Alignment explanation
Indices: 91383018--91383068 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
91383008 CCTTCACTTA
*
91383018 GTTTTTTCCTTTTAATTTTTGAATTT
1 GTTTTTTCCTTTTAATTTTTAAATTT
* **
91383044 GTTTTTTTCTTTTTCTTTTTAAATT
1 GTTTTTTCCTTTTAATTTTTAAATT
91383069 GCTTCAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.73
Consensus pattern (26 bp):
GTTTTTTCCTTTTAATTTTTAAATTT
Found at i:91383180 original size:19 final size:19
Alignment explanation
Indices: 91383149--91383202 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
91383139 TAGATGGAGA
91383149 TATAAACATTTTATTAATAT
1 TATAAA-ATTTTATTAATAT
* *
91383169 TTTAAAATTTTAATAATAT
1 TATAAAATTTTATTAATAT
*
91383188 TAAAAAATATTTATT
1 TATAAAAT-TTTATT
91383203 TTATAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAAAATTTTATTAATAT
Found at i:91383222 original size:34 final size:32
Alignment explanation
Indices: 91383166--91383256 Score: 83
Period size: 33 Copynumber: 2.7 Consensus size: 32
91383156 ATTTTATTAA
91383166 TATTTTAAAATTTTAATAATATTAAAAAATATT
1 TATTTTAAAATTTTAATAATATTAAAAAAT-TT
* * * *
91383199 TATTTTATAATTTTTATGCATATTAAATAATTTT
1 TATTTTAAAATTTTAAT-AATATTAAA-AAATTT
*
91383233 AGTGATTTTAAAATTTTAAAAATA
1 --T-ATTTTAAAATTTTAATAATA
91383257 ATTTTTATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
33 15 0.33
34 10 0.22
35 3 0.07
36 4 0.09
37 13 0.29
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (32 bp):
TATTTTAAAATTTTAATAATATTAAAAAATTT
Found at i:91386732 original size:19 final size:19
Alignment explanation
Indices: 91386710--91386747 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
91386700 TCAAAATTTG
*
91386710 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
91386729 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
91386748 TAAACTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:91387101 original size:21 final size:21
Alignment explanation
Indices: 91387077--91387116 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
91387067 ACTTTTTCTA
*
91387077 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
91387098 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
91387117 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:91399557 original size:21 final size:21
Alignment explanation
Indices: 91399533--91399572 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
91399523 AGGTTTATAA
**
91399533 TTTTTAATAGTTTTTTTAAAT
1 TTTTTAATAAATTTTTTAAAT
91399554 TTTTTAATAAATTTTTTAA
1 TTTTTAATAAATTTTTTAA
91399573 TTAAATGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTTTAATAAATTTTTTAAAT
Found at i:91399577 original size:13 final size:13
Alignment explanation
Indices: 91399548--91399578 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
91399538 AATAGTTTTT
91399548 TTAAATTTTTTAA
1 TTAAATTTTTTAA
91399561 -TAAATTTTTTAA
1 TTAAATTTTTTAA
91399573 TTAAAT
1 TTAAAT
91399579 GAATTAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTAAATTTTTTAA
Found at i:91402728 original size:16 final size:16
Alignment explanation
Indices: 91402701--91402734 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
91402691 AAAAAAAATC
91402701 AATTTATTCATTTATTT
1 AATTTATTCATTT-TTT
91402718 AATTT-TTCATTTTTT
1 AATTTATTCATTTTTT
91402733 AA
1 AA
91402735 CCCTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTTATTCATTTTTT
Found at i:91406732 original size:48 final size:48
Alignment explanation
Indices: 91406673--91406770 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
91406663 TGCGATACCA
91406673 AGATAGTTTCGATTATTTGAGAAGGCACGAACTGTGCGAGATCGTTAC
1 AGATAGTTTCGATTATTTGAGAAGGCACGAACTGTGCGAGATCGTTAC
91406721 AGATAGTTTCGATTATTTGAGAAGGCACGAACTGTGCGAGATCGTTAC
1 AGATAGTTTCGATTATTTGAGAAGGCACGAACTGTGCGAGATCGTTAC
91406769 AG
1 AG
91406771 CTTCGGCTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (48 bp):
AGATAGTTTCGATTATTTGAGAAGGCACGAACTGTGCGAGATCGTTAC
Found at i:91407822 original size:12 final size:12
Alignment explanation
Indices: 91407805--91407837 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
91407795 GACACGCGGG
91407805 CGTGTGACTGGC
1 CGTGTGACTGGC
*
91407817 CGTGTGGCTGGC
1 CGTGTGACTGGC
91407829 CGTGTGACT
1 CGTGTGACT
91407838 TAACCCAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.24, G:0.42, T:0.27
Consensus pattern (12 bp):
CGTGTGACTGGC
Found at i:91414450 original size:28 final size:28
Alignment explanation
Indices: 91414406--91414462 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
91414396 CTTTGATGAA
*
91414406 AAAGCTGAACGCTTAATTAATTACCAAG
1 AAAGCTGAACGCCTAATTAATTACCAAG
*
91414434 AAAGTTGAACGCCTAATTAATTACCAAG
1 AAAGCTGAACGCCTAATTAATTACCAAG
91414462 A
1 A
91414463 TTTTGTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (28 bp):
AAAGCTGAACGCCTAATTAATTACCAAG
Found at i:91416130 original size:29 final size:30
Alignment explanation
Indices: 91416074--91416130 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
91416064 AGTTACAACC
**
91416074 AACCATATACATGCCATCATAGGGAAATTT
1 AACCATATACATGCCATCATAGCAAAATTT
* *
91416104 AACC-TATACATGCCATTATATCAAAAT
1 AACCATATACATGCCATCATAGCAAAAT
91416131 AAGTTTACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (30 bp):
AACCATATACATGCCATCATAGCAAAATTT
Found at i:91417253 original size:22 final size:22
Alignment explanation
Indices: 91417197--91417253 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
91417187 TGCACAATTC
*
91417197 ATACCATATTCATTTCAATCAA
1 ATACCATATTCAATTCAATCAA
* * *
91417219 TTTCCATAATCAATTCAAGTCAA
1 ATACCATATTCAATTCAA-TCAA
91417242 ATACC-TATTCAA
1 ATACCATATTCAA
91417254 AATCTTATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (22 bp):
ATACCATATTCAATTCAATCAA
Found at i:91418037 original size:47 final size:47
Alignment explanation
Indices: 91417930--91418057 Score: 132
Period size: 47 Copynumber: 2.7 Consensus size: 47
91417920 AATCGATAAG
* * * *
91417930 TACCTATACCATGGCCCATAGTCAAGTCAAGGTAACTTATTCAGGAG
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATTCAGGAA
* * * * * *
91417977 TACCAATATCATGGCCCGTAGCCAAATCAAGTTAACTCCTCTC-TGAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCAT-TCAGGAA
* *
91418024 TACCTATACCATGGCCCATAACCAAATCACGGTA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTA
91418058 TTATTCGCAC
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
47 62 0.97
48 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATTCAGGAA
Found at i:91419538 original size:25 final size:25
Alignment explanation
Indices: 91419486--91419555 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 25
91419476 CACTCTGTCA
* * **
91419486 AGCCATATAACGGGATGCTCATGTG
1 AGCCATATAACAGGAAGCTCATCCG
*
91419511 AGCCATATAACAGGAAGCTTATCCG
1 AGCCATATAACAGGAAGCTCATCCG
91419536 AG-C-TA-AATCAGGAAGCTCAT
1 AGCCATATAA-CAGGAAGCTCAT
91419556 AAGAGCTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 2 0.05
23 13 0.34
24 1 0.03
25 22 0.58
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATCCG
Found at i:91419637 original size:26 final size:26
Alignment explanation
Indices: 91419570--91419637 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
91419560 GCTATAAATA
* * * *
91419570 GGAAGTTCACAAAGAAATTTTAATCG
1 GGAAGCTCACAAAGAGACTTTAAACG
*
91419596 GGAAGCTCACAAAGAGCCTTTAAACG
1 GGAAGCTCACAAAGAGACTTTAAACG
91419622 GGAAGCTCACAAAGAG
1 GGAAGCTCACAAAGAG
91419638 TCATATAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGACTTTAAACG
Found at i:91433864 original size:25 final size:25
Alignment explanation
Indices: 91433835--91433893 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
91433825 TCTTATCTCA
* * **
91433835 ATTTTACTCCAATAAAGTTTTGATT
1 ATTTTACCCCAATAAAATTTTGACG
*
91433860 ATTTTTCCCCAATAAAATTTTGACG
1 ATTTTACCCCAATAAAATTTTGACG
91433885 ATTTTACCC
1 ATTTTACCC
91433894 TTGGTAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.44
Consensus pattern (25 bp):
ATTTTACCCCAATAAAATTTTGACG
Found at i:91450127 original size:3 final size:3
Alignment explanation
Indices: 91450119--91450143 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
91450109 AAATCTATTG
91450119 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
91450144 TAGTATGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:91452593 original size:13 final size:12
Alignment explanation
Indices: 91452563--91452595 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
91452553 ATTTTGACAC
91452563 AAATAATAATAG
1 AAATAATAATAG
91452575 -AATAATATATAG
1 AAATAATA-ATAG
91452587 AAATAATAA
1 AAATAATAA
91452596 ACTATTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 7 0.37
12 5 0.26
13 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (12 bp):
AAATAATAATAG
Found at i:91453064 original size:15 final size:15
Alignment explanation
Indices: 91453020--91453090 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
91453010 AAGTTATGAA
*
91453020 TTTAATTTTTATA-T
1 TTTAGTTTTTATATT
** *
91453034 TTTAGTTTGAACATT
1 TTTAGTTTTTATATT
91453049 TTTAGTTTTTATATTT
1 TTTAGTTTTTATA-TT
** * *
91453065 TTTAAATTTTAAAAT
1 TTTAGTTTTTATATT
91453080 TTTAGTTTTTA
1 TTTAGTTTTTA
91453091 ATAAACGATA
Statistics
Matches: 42, Mismatches: 13, Indels: 3
0.72 0.22 0.05
Matches are distributed among these distances:
14 9 0.21
15 21 0.50
16 12 0.29
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTAGTTTTTATATT
Found at i:91453658 original size:17 final size:17
Alignment explanation
Indices: 91453609--91453658 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
91453599 TTATTGGTAA
91453609 AAATTGACATGATTAAT
1 AAATTGACATGATTAAT
* *
91453626 AAAAT-A-AT--TAAAT
1 AAATTGACATGATTAAT
91453639 AAATTGACATGATTAAT
1 AAATTGACATGATTAAT
91453656 AAA
1 AAA
91453659 ATAATTAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
13 8 0.32
14 1 0.04
15 4 0.16
16 1 0.04
17 11 0.44
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (17 bp):
AAATTGACATGATTAAT
Found at i:91453660 original size:18 final size:18
Alignment explanation
Indices: 91453608--91453660 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
91453598 TTTATTGGTA
91453608 AAAATTGACATGATTAAT
1 AAAATTGACATGATTAAT
*
91453626 AAAA-T-A-AT--TAAAT
1 AAAATTGACATGATTAAT
91453639 -AAATTGACATGATTAAT
1 AAAATTGACATGATTAAT
91453656 AAAAT
1 AAAAT
91453661 AATTAGATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 5 0.19
14 1 0.04
15 4 0.15
16 1 0.04
17 5 0.19
18 8 0.30
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (18 bp):
AAAATTGACATGATTAAT
Found at i:91453680 original size:30 final size:30
Alignment explanation
Indices: 91453609--91453665 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
91453599 TTATTGGTAA
91453609 AAATTGACATGATTAATAAAATAATTAAAT
1 AAATTGACATGATTAATAAAATAATTAAAT
91453639 AAATTGACATGATTAATAAAATAATTA
1 AAATTGACATGATTAATAAAATAATTA
91453666 GATAGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (30 bp):
AAATTGACATGATTAATAAAATAATTAAAT
Found at i:91456182 original size:27 final size:27
Alignment explanation
Indices: 91456125--91456268 Score: 103
Period size: 27 Copynumber: 5.3 Consensus size: 27
91456115 TTAGTTTACC
** * **
91456125 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTA
*
91456152 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
** **
91456179 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** * *
91456206 AAATTATTGAAATA-CCCTCAGCTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
91456233 AAATTACCAAAATACCCCTGATTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
*
91456260 GAATTACCA
1 AAATTACCA
91456269 TTTTACCCTC
Statistics
Matches: 93, Mismatches: 21, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
26 5 0.05
27 83 0.89
28 5 0.05
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:91456275 original size:27 final size:27
Alignment explanation
Indices: 91456248--91456384 Score: 177
Period size: 27 Copynumber: 5.1 Consensus size: 27
91456238 ACCAAAATAC
*
91456248 CCCT-GATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * *
91456274 CCCTCGATTGACAGAATTACTATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* **
91456301 CCCTCGATTTACAAAATTATTATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
91456328 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
**
91456355 CCCTTAATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
91456382 CCC
1 CCC
91456385 CTAGGGTGTT
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 4 0.04
27 95 0.96
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:91456664 original size:27 final size:26
Alignment explanation
Indices: 91456620--91456671 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
91456610 CTCGCTGCAA
*
91456620 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
91456647 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
91456672 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:91456917 original size:6 final size:6
Alignment explanation
Indices: 91456889--91457066 Score: 116
Period size: 6 Copynumber: 28.8 Consensus size: 6
91456879 CATTCACATC
* * *
91456889 CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT CTG-TT ACCTCATT
1 CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT --CTGATT
* *
91456939 CTGATT CTGGTT CTGATT CTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * * *
91456988 CTG-TT ACCTAATT ATGATT CTGATT TTGATT TTGATT CTG-TCAC CTGATT
1 CTGATT --CTGATT CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT
*
91457038 CTGATT TTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGA-TT CTGAT
91457067 AATGTTTCTT
Statistics
Matches: 135, Mismatches: 20, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
5 10 0.07
6 104 0.77
7 14 0.10
8 7 0.05
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:91456917 original size:25 final size:25
Alignment explanation
Indices: 91456889--91456953 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
91456879 CATTCACATC
* *
91456889 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTCATA
*
91456914 CTGATTCTGATTCTGTTACCTCATT
1 CTGATTCTGATTCTGTTACCTCATA
*
91456939 CTGATTCTGGTTCTG
1 CTGATTCTGATTCTG
91456954 ATTCTGATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTCATA
Found at i:91456943 original size:31 final size:30
Alignment explanation
Indices: 91456908--91457018 Score: 109
Period size: 31 Copynumber: 3.6 Consensus size: 30
91456898 ATTCTGTTAC
91456908 CTGATACTGATTCTGATTCTGTTACCTCATT
1 CTGATACTGATTCTGATTCTGTTACCT-ATT
* * *
91456939 CTGATTCTGGTTCTGATTCTGATT--CTGTT
1 CTGATACTGATTCTGATTCTG-TTACCTATT
91456968 ACCTGATACTGATTCTGATTCTGTTACCTAATT
1 --CTGATACTGATTCTGATTCTGTTACCT-ATT
* * *
91457001 ATGATTCTGATTTTGATT
1 CTGATACTGATTCTGATT
91457019 TTGATTCTGT
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
29 2 0.03
30 4 0.06
31 53 0.82
32 4 0.06
33 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (30 bp):
CTGATACTGATTCTGATTCTGTTACCTATT
Found at i:91456956 original size:37 final size:37
Alignment explanation
Indices: 91456908--91456990 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
91456898 ATTCTGTTAC
* *
91456908 CTGATACTGATTCTGATTCTGTTACCTCATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTCATACTGATT
* *
91456945 CTGGTTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTCATACTGATT
91456982 CTGATTCTG
1 CTGATTCTG
91456991 TTACCTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTCATACTGATT
Found at i:91456981 original size:25 final size:26
Alignment explanation
Indices: 91456951--91457012 Score: 101
Period size: 25 Copynumber: 2.5 Consensus size: 26
91456941 GATTCTGGTT
*
91456951 CTGATTCTGATTCTGTTACCTGA-TA
1 CTGATTCTGATTCTGTTACCTAATTA
91456976 CTGATTCTGATTCTGTTACCTAATTA
1 CTGATTCTGATTCTGTTACCTAATTA
91457002 -TGATTCTGATT
1 CTGATTCTGATT
91457013 TTGATTTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 33 0.94
26 2 0.06
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.47
Consensus pattern (26 bp):
CTGATTCTGATTCTGTTACCTAATTA
Found at i:91456986 original size:62 final size:62
Alignment explanation
Indices: 91456889--91457052 Score: 256
Period size: 62 Copynumber: 2.6 Consensus size: 62
91456879 CATTCACATC
* * *
91456889 CTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTCATTCTGATTCTGGTT
1 CTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTATGATTCTGATT
*
91456951 CTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTATGATTCTGATT
1 CTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTATGATTCTGATT
* * * *
91457013 TTGATTTTGATTCTGTCACCTGATTCTGATTTTGATTCTG
1 CTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTG
91457053 ATTCTAGTTC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 93 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (62 bp):
CTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTATGATTCTGATT
Found at i:91457064 original size:37 final size:37
Alignment explanation
Indices: 91456970--91457057 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
91456960 ATTCTGTTAC
* *
91456970 CTGATACTGATTCTGATTCTGTTACCTAATTATGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTATGATT
* * * *
91457007 CTGATTTTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTATGATT
*
91457044 TTGATTCTGATTCT
1 CTGATTCTGATTCT
91457058 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTATGATT
Found at i:91468916 original size:7 final size:7
Alignment explanation
Indices: 91468885--91468938 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
91468875 TCATTTAGTC
91468885 AAAATT-
1 AAAATTA
*
91468891 AAAATCTC
1 AAAAT-TA
91468899 AAAATTA
1 AAAATTA
91468906 AAAATATA
1 AAAAT-TA
*
91468914 AAAAATA
1 AAAATTA
91468921 TAAAATTA
1 -AAAATTA
91468929 AAAATTA
1 AAAATTA
91468936 AAA
1 AAA
91468939 CCATAACTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
6 5 0.12
7 19 0.46
8 17 0.41
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:91477722 original size:3 final size:3
Alignment explanation
Indices: 91477714--91477746 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
91477704 ACTTTCACAT
91477714 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
91477747 CTACTACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:91488524 original size:44 final size:44
Alignment explanation
Indices: 91488413--91488933 Score: 217
Period size: 44 Copynumber: 11.3 Consensus size: 44
91488403 CTTGTCTTTA
* * * *
91488413 TGAATTTGCAGTGGAGCAAATTAAAGCCATAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATCTCCC
* * * * *
91488457 TAAAGTTTCAGTTGAGGAGATTGAAGCTACAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATCTCCC
* * *
91488501 TGAAGTTGCAATGGAGCAAATTGAAAAATAGCTACAAATCTTATTTCTC
1 TGAAGTTGCAGTGGAGCAAATTG----A-AGCTACAAATCTTATCTCCC
* * *
91488550 TGAAGTTACAGTGGAACAAATTAAAGCTATACGTTACAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAAATT---G--A-A-GCTACAAATCTTATCTCCC
* ** * * *
91488601 T-AGATTTGTGGTGGAGTAGATTGAAGCTACAAATCTTATTTCCC
1 TGA-AGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATCTCCC
** ** *
91488645 TGAAGTTGCAGTGAAATAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
1 TGAAGTTGCAGTG-----GAGCAAA--TTGAAGCTACAAATCTTATCTCCC
* * * * * * *
91488696 TAAAGTTGTAGTGGAGCAGATTAAAGCTATAAGTCTAATCTCCC
1 TGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATCTCCC
* * * * *
91488740 AGAAGTTCCAGTGGAGCAAATTAAAG-TGACAAATCCTATAC-CTC
1 TGAAGTTGCAGTGGAGCAAATTGAAGCT-ACAAATCTTAT-CTCCC
* * * * *
91488784 TGAAGTTACAGTGG-GTCGGATTAAATCAAG-TCACAAATCTTGTTTCCC
1 TGAAGTTGCAGTGGAG-C--A--AATTGAAGCT-ACAAATCTTATCTCCC
** * ** * * *
91488832 TGAAGTTGCAGTGGAATAGATTGAAGCTGTAAGTCTTATATCTC
1 TGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATCTCCC
* **** * *
91488876 TGAAGTTGCAATGGAATGGATTGAAGCAACAAATCTTATAC-CTC
1 TGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTAT-CTCCC
91488920 TGAAGTTGCAGTGG
1 TGAAGTTGCAGTGG
91488934 GTTAGAATAA
Statistics
Matches: 355, Mismatches: 93, Indels: 58
0.70 0.18 0.11
Matches are distributed among these distances:
43 2 0.01
44 202 0.57
45 4 0.01
46 7 0.02
48 33 0.09
49 42 0.12
50 4 0.01
51 60 0.17
52 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATCTCCC
Found at i:91488628 original size:51 final size:51
Alignment explanation
Indices: 91488569--91488726 Score: 152
Period size: 51 Copynumber: 3.2 Consensus size: 51
91488559 AGTGGAACAA
* *
91488569 ATTAAAGCTATACGTTACAAATCTTATCTCCCTAGATTTGTGGTGGAGTAG
1 ATTAAAGCTATACGTTACAAATCTTATCTCCCTAGAGTTGTAGTGGAGTAG
* * * * *
91488620 ATT---G--A-A-GCTACAAATCTTATTTCCCT-GAAGTTGCAGTGAAATAG
1 ATTAAAGCTATACGTTACAAATCTTATCTCCCTAG-AGTTGTAGTGGAGTAG
* * * *
91488664 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAG
1 ATTAAAGCTATACGTTACAAATCTTATCTCCCTAGAGTTGTAGTGGAGTAG
91488715 ATTAAAGCTATA
1 ATTAAAGCTATA
91488727 AGTCTAATCT
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
43 1 0.01
44 32 0.39
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 44 0.53
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (51 bp):
ATTAAAGCTATACGTTACAAATCTTATCTCCCTAGAGTTGTAGTGGAGTAG
Found at i:91488657 original size:95 final size:95
Alignment explanation
Indices: 91488484--91488765 Score: 312
Period size: 95 Copynumber: 2.9 Consensus size: 95
91488474 AGATTGAAGC
* * * * *
91488484 TACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAAATTGAAAAATAGCTACAAATCTTATTTCT
1 TACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATT----AA-AGCTACAAATCTTATTTCC
* *
91488549 CTGAAGTTACAGTGGAACAAATTAAAGCTATACGT
61 CTGAAGTTACAGTGGAACAAATTAAAGCTACAAGT
* * * * *
91488584 TACAAATCTTATCTCCCTAGATTTGTGGTGGAGTAGATTGAAGCTACAAATCTTATTTCCCTGAA
1 TACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCTACAAATCTTATTTCCCTGAA
* * * *
91488649 GTTGCAGTGAAATAGATTAAAGCTACAAGT
66 GTTACAGTGGAACAAATTAAAGCTACAAGT
* * * * *
91488679 TACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCTATAAGTCTAATCTCCCAGAA
1 TACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCTACAAATCTTATTTCCCTGAA
* *
91488744 GTTCCAGTGGAGCAAATTAAAG
66 GTTACAGTGGAACAAATTAAAG
91488766 TGACAAATCC
Statistics
Matches: 151, Mismatches: 31, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
95 119 0.79
96 1 0.01
100 31 0.21
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (95 bp):
TACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCTACAAATCTTATTTCCCTGAA
GTTACAGTGGAACAAATTAAAGCTACAAGT
Found at i:91488859 original size:136 final size:136
Alignment explanation
Indices: 91488674--91488935 Score: 308
Period size: 136 Copynumber: 1.9 Consensus size: 136
91488664 ATTAAAGCTA
* * * *
91488674 CAAGTTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCTATAAGTCTAATCTCC
1 CAAGTCACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTATAAGTCTAATATCC
* * **
91488739 CAGAAGTTCCAGTGGAGCAAATTAAAGTGACAAATCCTATACCTCTGAAGTTACAGTGGGTCGGA
66 CAGAAGTTCCAATGGAACAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTGGGTCGGA
91488804 TTAAAT
131 TTAAAT
* * * * * * * *
91488810 CAAGTCACAAATCTTGTTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTGTAAGTCTTATATCT
1 CAAGTCACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTATAAGTCTAATATCC
* * *** * * *
91488875 CTGAAGTTGCAATGGAATGGATTGAAGCAACAAATCTTATACCTCTGAAGTTGCAGTGGGT
66 CAGAAGTTCCAATGGAACAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTGGGT
91488936 TAGAATAAAG
Statistics
Matches: 102, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
136 102 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (136 bp):
CAAGTCACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTATAAGTCTAATATCC
CAGAAGTTCCAATGGAACAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTGGGTCGGA
TTAAAT
Found at i:91490664 original size:18 final size:19
Alignment explanation
Indices: 91490641--91490688 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
91490631 CCTGTATAGA
91490641 TTTTATATA-TATATTATT
1 TTTTATATATTATATTATT
*
91490659 TTTTATATATTATTTTATT
1 TTTTATATATTATATTATT
91490678 TATTTAT-TATT
1 T-TTTATATATT
91490689 TCCTTTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 9 0.33
19 13 0.48
20 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTATATATTATATTATT
Found at i:91490665 original size:16 final size:15
Alignment explanation
Indices: 91490648--91490689 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
91490638 AGATTTTATA
91490648 TATATATTA-TTTTT
1 TATATATTATTTTTT
91490662 TATATATTATTTTATT
1 TATATATTATTTT-TT
*
91490678 TATTTATTATTT
1 TATATATTATTT
91490690 CCTTTACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 9 0.36
15 3 0.12
16 13 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATATATTATTTTTT
Found at i:91490667 original size:14 final size:15
Alignment explanation
Indices: 91490642--91490689 Score: 62
Period size: 14 Copynumber: 3.2 Consensus size: 15
91490632 CTGTATAGAT
*
91490642 TTTATATATATATTA
1 TTTATTTATATATTA
91490657 TTT-TTTATATATTA
1 TTTATTTATATATTA
*
91490671 TTTTATTTATTTATTA
1 -TTTATTTATATATTA
91490687 TTT
1 TTT
91490690 CCTTTACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 10 0.34
15 9 0.31
16 10 0.34
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTATATATTA
Found at i:91492169 original size:19 final size:20
Alignment explanation
Indices: 91492147--91492185 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
91492137 AAAGTAATAT
91492147 AAATATAGAAAATAT-TAAA
1 AAATATAGAAAATATGTAAA
**
91492166 AAATATTTAAAATATGTAAA
1 AAATATAGAAAATATGTAAA
91492186 TTGATATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
AAATATAGAAAATATGTAAA
Found at i:91492215 original size:9 final size:9
Alignment explanation
Indices: 91492201--91492346 Score: 111
Period size: 9 Copynumber: 15.7 Consensus size: 9
91492191 ATGATCTTTA
91492201 AAAAATTAT
1 AAAAATTAT
91492210 AAAAATTAT
1 AAAAATTAT
91492219 AAAAATATAT
1 AAAAAT-TAT
*
91492229 AAAAAATTCT
1 -AAAAATTAT
91492239 AATAAAATTA-
1 -A-AAAATTAT
91492249 ATAAAA-TA-
1 A-AAAATTAT
*
91492257 AAAAATATTT
1 AAAAAT-TAT
*
91492267 AAAATTTTAT
1 AAAA-ATTAT
*
91492277 AAAAACTAT
1 AAAAATTAT
91492286 AAAAATTAT
1 AAAAATTAT
91492295 AAAAA-TAT
1 AAAAATTAT
* *
91492303 TAAAAGTAT
1 AAAAATTAT
*
91492312 TAAAATTGAT
1 AAAAATT-AT
*
91492322 ATAAACTTAT
1 A-AAAATTAT
91492332 AAAAATTAT
1 AAAAATTAT
91492341 AAAAAT
1 AAAAAT
91492347 AAAATAAAAA
Statistics
Matches: 114, Mismatches: 13, Indels: 20
0.78 0.09 0.14
Matches are distributed among these distances:
7 4 0.04
8 10 0.09
9 60 0.53
10 22 0.19
11 18 0.16
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:91493395 original size:14 final size:15
Alignment explanation
Indices: 91493371--91493399 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
91493361 AAATTTATTC
91493371 ATTTAAAAATTTAAA
1 ATTTAAAAATTTAAA
91493386 ATTT-AAAATTTAAA
1 ATTTAAAAATTTAAA
91493400 TATAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTAAAAATTTAAA
Found at i:91493705 original size:90 final size:90
Alignment explanation
Indices: 91493513--91493729 Score: 246
Period size: 90 Copynumber: 2.4 Consensus size: 90
91493503 AAGGGTGCCT
** * *
91493513 TCAATTTTTTTCAATAAAAACAATTAAGCCCCTACTTTTTTTTTTGCACTCAGTTGAGTACTTGA
1 TCAATTTTTTTCAA-AAAAACAATTAAGCCCCTACTCATTTTTTTGCACTCAATTGAGTACTTCA
*
91493578 ACTTTCAAAATGCATCAAAAAAGTCC
65 ACTTTCAAAATGCATCAAAAAAGCCC
** *
91493604 TCGAA-CCTTTTCAAAAAAAGCAATTAAGCCCCTAC-CATTTTTTTGCACTCAATT-AGATATTT
1 TC-AATTTTTTTCAAAAAAA-CAATTAAGCCCCTACTCATTTTTTTGCACTCAATTGAG-TACTT
*
91493666 CAACTTTCAAAATGTAT-AAAAAAGACCC
63 CAACTTTCAAAATGCATCAAAAAAG-CCC
*
91493694 TCAATTTTTTTCAAAAAGGAA-AATTAATCCCCTACT
1 TCAATTTTTTTCAAAAA--AACAATTAAGCCCCTACT
91493730 TTTATTAAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
89 11 0.10
90 67 0.63
91 24 0.23
92 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.35
Consensus pattern (90 bp):
TCAATTTTTTTCAAAAAAACAATTAAGCCCCTACTCATTTTTTTGCACTCAATTGAGTACTTCAA
CTTTCAAAATGCATCAAAAAAGCCC
Found at i:91493776 original size:17 final size:18
Alignment explanation
Indices: 91493747--91493783 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
91493737 AAAATTAGAA
91493747 AAAAAATATAAAAATCGT
1 AAAAAATATAAAAATCGT
*
91493765 AAAAAATA-AAAAATTGT
1 AAAAAATATAAAAATCGT
91493782 AA
1 AA
91493784 CATTTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAAAATATAAAAATCGT
Found at i:91493794 original size:27 final size:26
Alignment explanation
Indices: 91493764--91493868 Score: 93
Period size: 27 Copynumber: 3.8 Consensus size: 26
91493754 ATAAAAATCG
*
91493764 TAAAAAATAAAAAATTGTAACATTTTA
1 TAAAAAATAAAAAATTATAA-ATTTTA
* * *
91493791 TAAAAATCATAAAATATTATAAAATATA
1 TAAAAA--ATAAAAAATTATAAATTTTA
*
91493819 TAGAAATATAAAAAATTATAAATTTTA
1 TA-AAAAATAAAAAATTATAAATTTTA
**
91493846 TAAATTCATAAGAAAATTATAAA
1 TAAA-AAATAA-AAAATTATAAA
91493869 AAATGTAAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
26 2 0.03
27 29 0.46
28 17 0.27
29 15 0.24
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (26 bp):
TAAAAAATAAAAAATTATAAATTTTA
Found at i:91493814 original size:10 final size:10
Alignment explanation
Indices: 91493788--91493849 Score: 55
Period size: 10 Copynumber: 6.7 Consensus size: 10
91493778 TTGTAACATT
91493788 TTATAAAA-A
1 TTATAAAATA
*
91493797 TCATAAAATA
1 TTATAAAATA
91493807 TTATAAAATA
1 TTATAAAATA
91493817 -TATAGAAATA
1 TTATA-AAATA
91493827 -TA-AAAA-A
1 TTATAAAATA
*
91493834 TTAT-AAATT
1 TTATAAAATA
91493843 TTATAAA
1 TTATAAA
91493850 TTCATAAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
7 1 0.02
8 8 0.18
9 16 0.36
10 19 0.43
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
TTATAAAATA
Found at i:91493814 original size:55 final size:53
Alignment explanation
Indices: 91493748--91493883 Score: 148
Period size: 55 Copynumber: 2.5 Consensus size: 53
91493738 AAATTAGAAA
* *
91493748 AAAAATATAAAAATCGTAAAAAATAAAAAATTGTAACATTTTATAAAAATCATAA-
1 AAAATTATAAAAAT-GTAAAAAATAAAAAATTATAA-ATTTTAT-AAAATCATAAG
* * * *
91493803 AATATTATAAAATATATAGAAATATAAAAAATTATAAATTTTATAAATTCATAAG
1 AAAATTATAAAA-ATGTA-AAAAATAAAAAATTATAAATTTTATAAAATCATAAG
91493858 AAAATTATAAAAAATGTAAAGAAATA
1 AAAATTAT-AAAAATGTAAA-AAATA
91493884 TAAATTTCAT
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
54 11 0.16
55 34 0.51
56 22 0.33
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (53 bp):
AAAATTATAAAAATGTAAAAAATAAAAAATTATAAATTTTATAAAATCATAAG
Found at i:91493860 original size:36 final size:39
Alignment explanation
Indices: 91493788--91493872 Score: 99
Period size: 36 Copynumber: 2.3 Consensus size: 39
91493778 TTGTAACATT
91493788 TTAT-AAAAATCATAAAATATTATAAAATATATAG-AAA
1 TTATAAAAAATCATAAAATATTATAAAATATATAGAAAA
* * *
91493825 -TATAAAAAATTAT-AAATTTTATAAATTCATA-AGAAAA
1 TTATAAAAAATCATAAAATATTATAAAAT-ATATAGAAAA
91493862 TTATAAAAAAT
1 TTATAAAAAAT
91493873 GTAAAGAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
36 17 0.41
37 14 0.34
38 10 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (39 bp):
TTATAAAAAATCATAAAATATTATAAAATATATAGAAAA
Found at i:91493881 original size:57 final size:56
Alignment explanation
Indices: 91493770--91493887 Score: 150
Period size: 57 Copynumber: 2.1 Consensus size: 56
91493760 ATCGTAAAAA
* * *
91493770 ATAAAAAATTGTAACATTTTATAAAAATCATAAAATATTATAAAATATATAGAAAT
1 ATAAAAAATTATAACATTTTATAAAAATCATAAAAAATTATAAAATATAAAGAAAT
* *
91493826 ATAAAAAATTATAA-ATTTTAT-AAATTCATAAGAAAATTATAAAAAATGTAAAGAAAT
1 ATAAAAAATTATAACATTTTATAAAAATCATAA-AAAATTAT--AAAATATAAAGAAAT
91493883 ATAAA
1 ATAAA
91493888 TTTCATAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 9 0.17
55 14 0.26
56 13 0.24
57 18 0.33
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (56 bp):
ATAAAAAATTATAACATTTTATAAAAATCATAAAAAATTATAAAATATAAAGAAAT
Found at i:91494305 original size:88 final size:88
Alignment explanation
Indices: 91494211--91494384 Score: 237
Period size: 89 Copynumber: 2.0 Consensus size: 88
91494201 TAATTAGAGC
* *
91494211 AGGGGCTTAAATG-TTTTTTTGAAA-AATTTTGAGAGG-CTTTTTAATGTATTTTGAAAGTTCAA
1 AGGGGCTTAAATGCTTTTTTT-AAAGAAGTTTGAG-GGTCTTTTTAATGCATTTTGAAAGTTCAA
91494273 GTACCCAATTGAGAGGAAAAAAAAGT
64 GTACCCAATTGAG-GGAAAAAAAAGT
* *
91494299 AGGGGCTTAATTGCTTTTTTTAAAGAAGTTTGAGGGTCTTTTTTATGCATTTTGAAAGTTCAAGT
1 AGGGGCTTAAATGCTTTTTTTAAAGAAGTTTGAGGGTCTTTTTAATGCATTTTGAAAGTTCAAGT
* * *
91494364 GCTCAATTGAGTGAAAAAAAA
66 ACCCAATTGAGGGAAAAAAAA
91494385 TGAAGAGCTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
88 26 0.34
89 50 0.66
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (88 bp):
AGGGGCTTAAATGCTTTTTTTAAAGAAGTTTGAGGGTCTTTTTAATGCATTTTGAAAGTTCAAGT
ACCCAATTGAGGGAAAAAAAAGT
Found at i:91494406 original size:89 final size:88
Alignment explanation
Indices: 91494215--91494413 Score: 226
Period size: 89 Copynumber: 2.2 Consensus size: 88
91494205 TAGAGCAGGG
* * * *
91494215 GCTTAAATGTTTTTTTGAAAAATTTTGAGAGGCTTTTTAATGTATTTTGAAAGTTCAAGTACCCA
1 GCTTAATTATTTTTTTGAAAAAGTTTGAGAGGCTTTTTAATGCATTTTGAAAGTTCAAGTACCCA
* *
91494280 ATTGAGAGGAAAAAAAAGTAGGG
66 ATTGAGAGGAAAAAAAAGTAAGA
* * *
91494303 GCTTAATTGCTTTTTTT-AAAGAAGTTTGAG-GGTCTTTTTTATGCATTTTGAAAGTTCAAGTGC
1 GCTTAATT-ATTTTTTTGAAA-AAGTTTGAGAGG-CTTTTTAATGCATTTTGAAAGTTCAAGTAC
* *
91494366 TCAATTGAG-TGAAAAAAAA-TGAAGA
63 CCAATTGAGAGGAAAAAAAAGT-AAGA
91494391 GCTTAATTAATTTTTTTGAAAAA
1 GCTTAATT-ATTTTTTTGAAAAA
91494414 AATTAAGGAC
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
87 1 0.01
88 40 0.43
89 53 0.56
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (88 bp):
GCTTAATTATTTTTTTGAAAAAGTTTGAGAGGCTTTTTAATGCATTTTGAAAGTTCAAGTACCCA
ATTGAGAGGAAAAAAAAGTAAGA
Found at i:91495599 original size:40 final size:41
Alignment explanation
Indices: 91495555--91495657 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 41
91495545 CGTTTGAACC
* *
91495555 AAAACGCCACTATAAGTC-GAGAAATAGCGGCGTTTTTATA
1 AAAACGCCACCAAAAGTCTGAGAAATAGCGGCGTTTTTATA
* * * ***
91495595 AAAACGCCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGGG
1 AAAACGCCACCAAAAGTCTGAGAAATAGCGGCGTTTTTATA
* *
91495636 AAAATGCCGCCAAAAGTCTGAG
1 AAAACGCCACCAAAAGTCTGAG
91495658 TATTAGCTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 15 0.28
41 38 0.72
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (41 bp):
AAAACGCCACCAAAAGTCTGAGAAATAGCGGCGTTTTTATA
Found at i:91495632 original size:41 final size:41
Alignment explanation
Indices: 91495579--91495760 Score: 242
Period size: 41 Copynumber: 4.5 Consensus size: 41
91495569 AGTCGAGAAA
***
91495579 TAGCGGCGTTTTTATAAAAACGCCGCCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTAT
*
91495620 TAGCGGCGTTTTTGGGAAAATGCCGCCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTAT
** *
91495661 TAGCTACG-TTTTGGG-AAACACCGCCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTAT
* * * *
91495700 TAGTGGCGTTTTTGGGAAAACGCCGCAAAAAGTTTGAGCAT
1 TAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTAT
91495741 TAGCGGCGTTTTTGGAGAAA
1 TAGCGGCGTTTTTGG-GAAA
91495761 CGCTGCTAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
39 27 0.22
40 14 0.11
41 77 0.63
42 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (41 bp):
TAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTAT
Found at i:91495751 original size:80 final size:82
Alignment explanation
Indices: 91495596--91495761 Score: 246
Period size: 80 Copynumber: 2.0 Consensus size: 82
91495586 GTTTTTATAA
* * * *
91495596 AAACGCCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGGGAAAATGCCGCCAAAAGTCTGAGTAT
1 AAACACCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGGGAAAACGCCGCAAAAAGTCTGAGCAT
*
91495661 TAGCTACG-TTTTGG-G
66 TAGCGACGTTTTTGGAG
* *
91495676 AAACACCGCCAAAAGTCTGAGTATTAGTGGCGTTTTTGGGAAAACGCCGCAAAAAGTTTGAGCAT
1 AAACACCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGGGAAAACGCCGCAAAAAGTCTGAGCAT
*
91495741 TAGCGGCGTTTTTGGAG
66 TAGCGACGTTTTTGGAG
91495758 AAAC
1 AAAC
91495762 GCTGCTAAAC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
80 65 0.86
81 6 0.08
82 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (82 bp):
AAACACCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGGGAAAACGCCGCAAAAAGTCTGAGCAT
TAGCGACGTTTTTGGAG
Found at i:91495942 original size:7 final size:7
Alignment explanation
Indices: 91495930--91495954 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
91495920 GGGTTTGAGA
91495930 TTTAGTG
1 TTTAGTG
91495937 TTTAGTG
1 TTTAGTG
91495944 TTTAGTG
1 TTTAGTG
91495951 TTTA
1 TTTA
91495955 TGATCTTAAT
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:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (7 bp):
TTTAGTG
Found at i:91496735 original size:14 final size:14
Alignment explanation
Indices: 91496693--91496736 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
91496683 GCGGTATTAA
91496693 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
*
91496707 TGG-TTAGGGGTTAG
1 -GGTTTAAGGGTTAG
*
91496721 GGTTTAAGGGATAG
1 GGTTTAAGGGTTAG
91496735 GG
1 GG
91496737 GATAAGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.48, T:0.32
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:91497155 original size:21 final size:22
Alignment explanation
Indices: 91497117--91497162 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
91497107 GTTTATAATG
* *
91497117 TTAAAGGTTTATGGTTTAGAGT
1 TTAAAGGTTTAAGATTTAGAGT
*
91497139 TTAAA-GTTTAAGATTTAGGGT
1 TTAAAGGTTTAAGATTTAGAGT
91497160 TTA
1 TTA
91497163 GGGTCTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (22 bp):
TTAAAGGTTTAAGATTTAGAGT
Found at i:91501567 original size:43 final size:42
Alignment explanation
Indices: 91501505--91501939 Score: 165
Period size: 43 Copynumber: 10.1 Consensus size: 42
91501495 TGTAAATTTA
*
91501505 GCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGACTCTACTTTTG
1 GCGGCGTTTGT-GGTAAAGCGCCGCTAAAGGACTCTACTTTTG
* * * *
91501548 GCGGCATTTGTGGATAAAGCGCTGCTAAAAGGTCTGTACTTTTG
1 GCGGCGTTTGTGG-TAAAGCGCCGCT-AAAGGACTCTACTTTTG
* * * * * ** *
91501592 GCGGCGTTTTTGGTGTAAGCGCCGCTATAGGTCTGTAAATTTA
1 GCGGCGTTTGTGGT-AAAGCGCCGCTAAAGGACTCTACTTTTG
* * * * * *
91501635 GCGG-TTTTTTGGGCTAAAGCTCCGCTAAAGGTCTGTACTTTTA
1 GCGGCGTTTGT-GG-TAAAGCGCCGCTAAAGGACTCTACTTTTG
*** * * * *
91501678 GCGGCGCTTTG-CAAACAAACGCCGCTAAAGGTC-CGCACTTTTA
1 GCGGCG-TTTGTGGTA-AAGCGCCGCTAAAGGACTC-TACTTTTG
* ** * * *
91501721 ACGGCGCTTTCCCCGG-AAA-CGCCGCTAAAGGTCTAC-ACCTTTA
1 GCGGCG-TTT--GTGGTAAAGCGCCGCTAAAGGACT-CTACTTTTG
* * * * *
91501764 GTGGCGTTTGTGGATAAAACGCCGCTAAAGGTCTGC-ACCTTTA
1 GCGGCGTTTGTGG-TAAAGCGCCGCTAAAGGACT-CTACTTTTG
* * *
91501807 GCGGCGTTTTTTGGGT-AAGCGCCGCTAAAGGTA-TGTGA-TTTTA
1 GCGGCG-TTTGT-GGTAAAGCGCCGCTAAAGG-ACTCT-ACTTTTG
* * * * *
91501850 GCGGCGTTTGTTTGCT-AAGCGCCGCTAAAGGTCTATACTATTA
1 GCGGCGTTTG--TGGTAAAGCGCCGCTAAAGGACTCTACTTTTG
* *
91501893 GCGGCGTTTATGGTAAAGCGCCGCTAAAGGTA-TCTACTTTTA
1 GCGGCGTTTGTGGTAAAGCGCCGCTAAAGG-ACTCTACTTTTG
91501935 GCGGC
1 GCGGC
91501940 ATTTTCCGTT
Statistics
Matches: 310, Mismatches: 54, Indels: 57
0.74 0.13 0.14
Matches are distributed among these distances:
40 2 0.01
41 3 0.01
42 46 0.15
43 207 0.67
44 45 0.15
45 7 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (42 bp):
GCGGCGTTTGTGGTAAAGCGCCGCTAAAGGACTCTACTTTTG
Found at i:91501860 original size:86 final size:87
Alignment explanation
Indices: 91501501--91501939 Score: 330
Period size: 86 Copynumber: 5.1 Consensus size: 87
91501491 AATCTGTAAA
** * * * * * *
91501501 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGACT-CTACTTTTGGCGGC-ATTTGTGGATA
1 TTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAGGTCTGC-ACCTTTAGCGGCGTTTTTTGGGTA
*
91501564 AAGCGCTGCTAAAAGGTCTGTACT
65 AAGCGCCGCT-AAAGGTCTGTACT
* * * * * **
91501588 TTTGGCGGCGTTTTTGG-TGTAAGCGCCGCTATAGGTCTGTAAATTTAGC-G-GTTTTTTGGGCT
1 TTTAGCGGCGTTTGTGGAT-AAAGCGCCGCTAAAGGTCTGCACCTTTAGCGGCGTTTTTTGGG-T
*
91501650 AAAGCTCCGCTAAAGGTCTGTACT
64 AAAGCGCCGCTAAAGGTCTGTACT
* * * * * * * ****
91501674 TTTAGCGGCGCTT-TGCAAACAAACGCCGCTAAAGGTCCGCACTTTTAACGGCGCTTTCCCCGG-
1 TTTAGCGGCGTTTGTGGATA-AAGCGCCGCTAAAGGTCTGCACCTTTAGCGGCG-TTTTTTGGGT
** *
91501737 AAA-CGCCGCTAAAGGTCTACACC
64 AAAGCGCCGCTAAAGGTCTGTACT
* *
91501760 TTTAGTGGCGTTTGTGGATAAAACGCCGCTAAAGGTCTGCACCTTTAGCGGCGTTTTTTGGGT-A
1 TTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAGGTCTGCACCTTTAGCGGCGTTTTTTGGGTAA
*
91501824 AGCGCCGCTAAAGGTATGTGA-T
66 AGCGCCGCTAAAGGTCTGT-ACT
* * ** *
91501846 TTTAGCGGCGTTTGTTTGCT-AAGCGCCGCTAAAGGTCTATA-CTATTAGCGGCG-TTTAT-GGT
1 TTTAGCGGCGTTTG-TGGATAAAGCGCCGCTAAAGGTCTGCACCT-TTAGCGGCGTTTTTTGGGT
* *
91501907 AAAGCGCCGCTAAAGGTATCTACT
64 AAAGCGCCGCTAAAGGTCTGTACT
91501931 TTTAGCGGC
1 TTTAGCGGC
91501940 ATTTTCCGTT
Statistics
Matches: 277, Mismatches: 58, Indels: 36
0.75 0.16 0.10
Matches are distributed among these distances:
84 4 0.01
85 44 0.16
86 164 0.59
87 59 0.21
88 1 0.00
89 5 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (87 bp):
TTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAGGTCTGCACCTTTAGCGGCGTTTTTTGGGTAA
AGCGCCGCTAAAGGTCTGTACT
Found at i:91501958 original size:85 final size:86
Alignment explanation
Indices: 91501780--91501963 Score: 216
Period size: 85 Copynumber: 2.2 Consensus size: 86
91501770 TTTGTGGATA
* * *
91501780 AAACGCCGCTAAAGGTCTGCACCTTTAGCGGCGTTTTTTGGGTAAGCGCCGCTAAAGGTATGTGA
1 AAACGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTTATGGGTAAGCGCCGCTAAAGGTATCTGA
* **
91501845 TTTTAGCGGCGTTTGTTTGCT
66 TTTTAGCGGCATTTGTCCGCT
* *
91501866 AAGCGCCGCTAAAGGTCTATA-CTATTAGCGGCG-TTTAT-GGTAAAGCGCCGCTAAAGGTATCT
1 AAACGCCGCTAAAGGTCTACACCT-TTAGCGGCGTTTTATGGGT-AAGCGCCGCTAAAGGTATCT
*
91501928 -ACTTTTAGCGGCATTT-TCCGTT
64 GA-TTTTAGCGGCATTTGTCCGCT
91501950 CAAACGCCGCTAAA
1 -AAACGCCGCTAAA
91501964 AGTGATGACT
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
84 7 0.08
85 50 0.60
86 27 0.32
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (86 bp):
AAACGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTTATGGGTAAGCGCCGCTAAAGGTATCTGA
TTTTAGCGGCATTTGTCCGCT
Found at i:91502132 original size:8 final size:8
Alignment explanation
Indices: 91502119--91502147 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
91502109 CCATAATTAG
91502119 AGTTATCA
1 AGTTATCA
91502127 AGTTATCA
1 AGTTATCA
91502135 AGTTATCA
1 AGTTATCA
91502143 AGTTA
1 AGTTA
91502148 GAGTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (8 bp):
AGTTATCA
Found at i:91503678 original size:14 final size:14
Alignment explanation
Indices: 91503661--91503712 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
91503651 TTAAACATAC
91503661 ATATTTAATTATTA
1 ATATTTAATTATTA
*
91503675 ATATTTAATCATATA
1 ATATTTAATTAT-TA
**
91503690 ATAAATAATTTATTA
1 ATATTTAA-TTATTA
91503705 A-ATTTAAT
1 ATATTTAAT
91503713 ATTTCAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 1 0.03
14 15 0.50
15 11 0.37
16 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTTAATTATTA
Found at i:91503740 original size:13 final size:14
Alignment explanation
Indices: 91503724--91503765 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
91503714 TTTCAATTTC
91503724 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
91503737 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
91503752 ATTTTAAATAATAT
1 ATTTT-AATAATAT
91503766 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:91503750 original size:16 final size:16
Alignment explanation
Indices: 91503728--91503764 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
91503718 AATTTCATTT
91503728 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
91503745 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
91503760 TAATA
1 TAATA
91503765 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:91503817 original size:15 final size:15
Alignment explanation
Indices: 91503797--91503853 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
91503787 ATGCAATATT
91503797 AATATTTTAATAATA
1 AATATTTTAATAATA
*
91503812 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
91503831 AATATATTAATAATA
1 AATATTTTAATAATA
91503846 AATATTTT
1 AATATTTT
91503854 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:91503964 original size:30 final size:29
Alignment explanation
Indices: 91503901--91503964 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
91503891 CTCTTCACAA
* *
91503901 ATTT-AGAATTTAGTCCCTGTATTTTTAT
1 ATTTAAGAATTTAGTCCCTCTATTTTTAG
*
91503929 TTTTAAGAATTTAGTCCCTCTACTTTTTAG
1 ATTTAAGAATTTAGTCCCTCTA-TTTTTAG
91503959 ATTTAA
1 ATTTAA
91503965 AAATCAAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.10
29 16 0.53
30 11 0.37
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (29 bp):
ATTTAAGAATTTAGTCCCTCTATTTTTAG
Found at i:91510084 original size:18 final size:17
Alignment explanation
Indices: 91510057--91510090 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
91510047 TGTCCAAATT
*
91510057 TATTATCTTCATCTAAC
1 TATTATCTTCAACTAAC
91510074 TATTAATCTTCAACTAA
1 TATT-ATCTTCAACTAA
91510091 TATATATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (17 bp):
TATTATCTTCAACTAAC
Found at i:91513233 original size:23 final size:23
Alignment explanation
Indices: 91513205--91513249 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
91513195 CGGTAGGAAA
91513205 AAAATA-AATAAAATATAATAAAT
1 AAAATATAAT-AAATATAATAAAT
*
91513228 AAAATATAATAAGTATAATAAA
1 AAAATATAATAAATATAATAAA
91513250 CTATATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATATAATAAATATAATAAAT
Found at i:91513247 original size:14 final size:14
Alignment explanation
Indices: 91513207--91513239 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
91513197 GTAGGAAAAA
91513207 AATAAATAAAATAT
1 AATAAATAAAATAT
91513221 AATAAATAAAATAT
1 AATAAATAAAATAT
91513235 AATAA
1 AATAA
91513240 GTATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATAT
Found at i:91514518 original size:28 final size:29
Alignment explanation
Indices: 91514468--91514523 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
91514458 ATCTCGGAAT
*
91514468 TGAGAGGCGTGGCGGAGTGGGAC-GCTGG
1 TGAGAGGCGTGGCGGAGCGGGACTGCTGG
*
91514496 TGAGAGGCGT-GCGGCGCGAGGACTGCTG
1 TGAGAGGCGTGGCGGAGCG-GGACTGCTG
91514524 TTGTTTGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.25
28 14 0.58
29 4 0.17
ACGTcount: A:0.14, C:0.18, G:0.54, T:0.14
Consensus pattern (29 bp):
TGAGAGGCGTGGCGGAGCGGGACTGCTGG
Found at i:91515039 original size:45 final size:45
Alignment explanation
Indices: 91514984--91515325 Score: 190
Period size: 45 Copynumber: 7.6 Consensus size: 45
91514974 AAAATTTGAT
*
91514984 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGC
* * ** **
91515029 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGGT-GGCTGAAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATG-TTTAGC
* * * ** **
91515073 CTGCTCCATTGCC-GATACA-TGGAGATAAGA-CTTGCCAAAATTT-GAC
1 CTGCTCCACT-CCTGCT-CAGTGAAGATAAGATC-TG-GTATGTTTAG-C
*
91515119 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGC
* * **
91515164 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCT-G-ATGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATG-TT-TAGC
* * * ** *** * *
91515208 CTGCTCCA-TCGCCGGT-ACGTGGAGATAAGAT-TCATCAAAATTCGAT
1 CTGCTCCACTC-CTGCTCA-GTGAAGATAAGATCTGGT-ATGTTTAG-C
* * *
91515254 CTGCTTCACTCCTACTCAGTGAAGATAAGATATGGT-T-TTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGC
91515297 CTGCTCCACTCCTGCTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
91515326 GCTGATGATA
Statistics
Matches: 218, Mismatches: 55, Indels: 50
0.67 0.17 0.15
Matches are distributed among these distances:
42 3 0.01
43 34 0.16
44 56 0.26
45 71 0.33
46 47 0.22
47 7 0.03
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (45 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGC
Found at i:91515063 original size:135 final size:135
Alignment explanation
Indices: 91514842--91515329 Score: 763
Period size: 135 Copynumber: 3.6 Consensus size: 135
91514832 GGTCTGCTGT
* * *
91514842 AATTTGATCTGC-TCTACTCCTAATCAGCGAAGATAAGATCT-GTATGTTTAGCCTGCTTCACTC
1 AATTTGATCTGCTTC-ACTCCTACTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTC
*
91514905 CTGCTCAGTGAAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGACT
65 CTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACT
91514970 TGCCAA
130 TGCCAA
*
91514976 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
91515041 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT
91515106 GCCAA
131 GCCAA
* *
91515111 AATTTGACCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* ** * * * *
91515176 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGA-TT
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT
91515240 -CATCAA
131 GC--CAA
* *
91515246 AATTCGATCTGCTTCACTCCTACTCAGTGAAGATAAGATATGGT-T-TTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
91515309 TGCTCAGTGAAGATAAGGCTG
66 TGCTCAGTGAAGATAAGGCTG
91515330 ATGATATCTT
Statistics
Matches: 333, Mismatches: 17, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
133 40 0.12
134 38 0.11
135 255 0.77
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (135 bp):
AATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT
GCCAA
Found at i:91526976 original size:23 final size:23
Alignment explanation
Indices: 91526948--91526992 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
91526938 CGGTAGGGAA
91526948 AAAATA-AATAAAATATAATAAAT
1 AAAATATAAT-AAATATAATAAAT
*
91526971 AAAATATAATAAGTATAATAAA
1 AAAATATAATAAATATAATAAA
91526993 CTATATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATATAATAAATATAATAAAT
Found at i:91526990 original size:14 final size:14
Alignment explanation
Indices: 91526950--91526982 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
91526940 GTAGGGAAAA
91526950 AATAAATAAAATAT
1 AATAAATAAAATAT
91526964 AATAAATAAAATAT
1 AATAAATAAAATAT
91526978 AATAA
1 AATAA
91526983 GTATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATAT
Found at i:91528265 original size:28 final size:29
Alignment explanation
Indices: 91528215--91528270 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
91528205 ATCTCGAAAT
*
91528215 TGAGAGGCGTGGCGGAGTGGGAC-GCTGG
1 TGAGAGGCGTGGCGGAGCGGGACTGCTGG
*
91528243 TGAGAGGCGT-GCGGCGCGAGGACTGCTG
1 TGAGAGGCGTGGCGGAGCG-GGACTGCTG
91528271 TTGTTTGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.25
28 14 0.58
29 4 0.17
ACGTcount: A:0.14, C:0.18, G:0.54, T:0.14
Consensus pattern (29 bp):
TGAGAGGCGTGGCGGAGCGGGACTGCTGG
Found at i:91528501 original size:16 final size:16
Alignment explanation
Indices: 91528482--91528512 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91528472 ATTAAAAGTT
91528482 AATTAAACTAATAAAA
1 AATTAAACTAATAAAA
*
91528498 AATTATACTAATAAA
1 AATTAAACTAATAAA
91528513 TATTAAGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTAAACTAATAAAA
Found at i:91528946 original size:82 final size:82
Alignment explanation
Indices: 91528800--91528959 Score: 243
Period size: 82 Copynumber: 2.0 Consensus size: 82
91528790 AAAAACAAAA
*
91528800 TGTTCTATACAAAATTTAGATGGTGGTGAAACTTATAGCTGGCCATTTTGATTCTCGATATCTAA
1 TGTTCTATACAAAATTTAGATGGTGGTGAAACTTAGAGCTGGCCATTTTGATTCTCGATATCTAA
91528865 AAATATAAAATTTATTT
66 AAATATAAAATTTATTT
* * * *
91528882 TGTTC-ATACAAAATTTAGATGGTGGTGAAA-TTGAGAGTTGATCGATTTTGATTCTCGGTATCT
1 TGTTCTATACAAAATTTAGATGGTGGTGAAACTT-AGAGCTG-GCCATTTTGATTCTCGATATCT
91528945 AAAAATATAAAATTT
64 AAAAATATAAAATTT
91528960 TGTTTAAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
80 2 0.03
81 30 0.42
82 39 0.55
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (82 bp):
TGTTCTATACAAAATTTAGATGGTGGTGAAACTTAGAGCTGGCCATTTTGATTCTCGATATCTAA
AAATATAAAATTTATTT
Found at i:91530115 original size:20 final size:21
Alignment explanation
Indices: 91530057--91530112 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 21
91530047 AAGAAATAAT
91530057 AATATATAAATTTTAAAAATAT
1 AATA-ATAAATTTTAAAAATAT
91530079 -ATAATACATATTTTAAAAATAT
1 AATAATA-A-ATTTTAAAAATAT
91530101 AATAATAAATTT
1 AATAATAAATTT
91530113 AAATAACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 3 0.10
21 8 0.26
22 14 0.45
23 6 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATAAATTTTAAAAATAT
Found at i:91530154 original size:25 final size:26
Alignment explanation
Indices: 91530104--91530165 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
91530094 AAAATATAAT
*
91530104 AATAAATTTAAATAACATTAATATTA
1 AATAAATATAAATAACATTAATATTA
*
91530130 AATAAATATAAAT-ATATTAATATTA
1 AATAAATATAAATAACATTAATATTA
*
91530155 GATAAA-ATAAA
1 AATAAATATAAA
91530166 AATCCCCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 5 0.15
25 16 0.48
26 12 0.36
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (26 bp):
AATAAATATAAATAACATTAATATTA
Found at i:91530344 original size:25 final size:25
Alignment explanation
Indices: 91530297--91530345 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
91530287 AATTTATTAT
*
91530297 TATATTTTTTGAAAATATTTATTTA
1 TATATTTTTTGAAAATATATATTTA
*
91530322 TATATATTTTT-AAATTATATATTT
1 TATAT-TTTTTGAAAATATATATTT
91530346 GAAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TATATTTTTTGAAAATATATATTTA
Found at i:91531212 original size:136 final size:136
Alignment explanation
Indices: 91531067--91531311 Score: 328
Period size: 136 Copynumber: 1.8 Consensus size: 136
91531057 ATATTTGTGT
* * *
91531067 ATCTATACTATTATTTAAGCCCCAGACTAAGTTAGTATCATGAGCCAACCGAGTACCAACTCGAT
1 ATCTATACTATTATTTAAGCCCCAGACCAAGTTAGTATCATGAACCAACCGAGAACCAACTCGAT
91531132 TAGGAAAATTACGAAAATATATTCCCATAATTAAAATAAGTTATATTATTCGAGAGTGTTTTAGT
66 TAGGAAAATTACGAAAATATATTCCCATAATTAAAATAAGTTATATTATTCGAGAGTGTTTTAGT
91531197 TTTTTC
131 TTTTTC
*** * * * * * * *
91531203 ATCTATACTATTATTTAAGCCTTTGACCAAGTTGGTGTCATGAATCAATCGGGAATCAACTCGGT
1 ATCTATACTATTATTTAAGCCCCAGACCAAGTTAGTATCATGAACCAACCGAGAACCAACTCGAT
* * * * *
91531268 TATGAAAATTATGAAAATGTCTTTCCATAATTAAAATAAGTTAT
66 TAGGAAAATTACGAAAATATATTCCCATAATTAAAATAAGTTAT
91531312 TCGAGAGTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
136 91 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (136 bp):
ATCTATACTATTATTTAAGCCCCAGACCAAGTTAGTATCATGAACCAACCGAGAACCAACTCGAT
TAGGAAAATTACGAAAATATATTCCCATAATTAAAATAAGTTATATTATTCGAGAGTGTTTTAGT
TTTTTC
Found at i:91533115 original size:24 final size:24
Alignment explanation
Indices: 91533088--91533156 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
91533078 CCATAATCTG
*
91533088 GAAGTTCACAAAGAACCTTATCAA
1 GAAGTTCACAAAGAACCATATCAA
* *
91533112 GAAGTTCACGAAGAACCATATCAG
1 GAAGTTCACAAAGAACCATATCAA
* *
91533136 GAAGTTCATAATGAACCATAT
1 GAAGTTCACAAAGAACCATAT
91533157 TGGAAAGCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (24 bp):
GAAGTTCACAAAGAACCATATCAA
Done.