Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 135 of 322
Found at i:44169101 original size:119 final size:112
Alignment explanation
Indices: 44168879--44169092 Score: 266
Period size: 119 Copynumber: 1.8 Consensus size: 112
44168869 AAAATACTTG
* * * * ** *
44168879 ATACATACTTTAACATTTTATGCAAATATAATATAGAAAATGATAAATAACGACATAAATTACAT
1 ATACATACATTAACATTTCATGCAAATACAACATAGAAAACAATAAATAACAACATAAATTACAT
* *
44168944 AATATACATTAACATTTCATGCAGATATAATCGTAAATAACATAAAT
66 AATATACAATAACATTTCATGCAAATATAATCGTAAATAACATAAAT
*
44168991 ATACATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAATATAAATTA
1 ATACATACATTAACATTTCATGC-AAATACAACATAGAAAACAAT-AA-ATAACAACATAAATTA
*
44169056 CATAATATATATACAATAATATTTCATGCAAATATAA
63 C---ATA-ATATACAATAACATTTCATGCAAATATAA
44169093 CTTAAAATAT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
112 21 0.25
113 17 0.20
114 2 0.02
115 15 0.18
118 3 0.04
119 26 0.31
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (112 bp):
ATACATACATTAACATTTCATGCAAATACAACATAGAAAACAATAAATAACAACATAAATTACAT
AATATACAATAACATTTCATGCAAATATAATCGTAAATAACATAAAT
Found at i:44169157 original size:18 final size:18
Alignment explanation
Indices: 44169134--44169168 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44169124 ATGCAAATAT
44169134 ATAAAAACAATAAATAAC
1 ATAAAAACAATAAATAAC
*
44169152 ATAAAAATAATAAATAA
1 ATAAAAACAATAAATAA
44169169 TTTATGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAAACAATAAATAAC
Found at i:44169565 original size:7 final size:7
Alignment explanation
Indices: 44169553--44169693 Score: 76
Period size: 7 Copynumber: 19.1 Consensus size: 7
44169543 AATTATACAT
44169553 AATAATA
1 AATAATA
44169560 AATAATA
1 AATAATA
44169567 AATAATA
1 AATAATA
44169574 TAATATATA
1 -AATA-ATA
*
44169583 ATAAAATA
1 A-ATAATA
44169591 AA-AATA
1 AATAATA
*
44169597 ATATAATG
1 A-ATAATA
44169605 AATAATA
1 AATAATA
44169612 TATATAATAA
1 -A-ATAAT-A
*
44169622 AATGATA
1 AATAATA
44169629 TAATATATA
1 -AATA-ATA
*
44169638 ATAAAATA
1 A-ATAATA
*
44169646 TATAA-A
1 AATAATA
44169652 ATATAATA
1 A-ATAATA
44169660 AATAATA
1 AATAATA
*
44169667 CATAAATA
1 AAT-AATA
44169675 AA-AAT-
1 AATAATA
44169680 AAT-ATA
1 AATAATA
*
44169686 TATAATA
1 AATAATA
44169693 A
1 A
44169694 TTTTTTACAT
Statistics
Matches: 104, Mismatches: 13, Indels: 34
0.69 0.09 0.23
Matches are distributed among these distances:
5 4 0.04
6 11 0.11
7 40 0.38
8 32 0.31
9 16 0.15
10 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (7 bp):
AATAATA
Found at i:44169575 original size:26 final size:25
Alignment explanation
Indices: 44169546--44169694 Score: 133
Period size: 26 Copynumber: 5.5 Consensus size: 25
44169536 TTTTTAAAAT
44169546 TATACATAATAATAAATAATAAATAA
1 TATA-ATAATAATAAATAATAAATAA
44169572 TATAATATATAATAAAATAA-AAATAA
1 TATAATA-ATAAT-AAATAATAAATAA
*
44169598 TATAATGAATAATATATATAATAAAATGA
1 TATAAT-AATAATA-A-ATAAT-AAATAA
44169627 TATAATATATAATAAAATATATAAA-ATA
1 TATAATA-ATAAT-AAATA-ATAAATA-A
44169655 TAATAAATAATACATAAATAA-AAATAA
1 T-AT-AATAATA-ATAAATAATAAATAA
44169682 TATATATAATAAT
1 TATA-ATAATAAT
44169695 TTTTTACATA
Statistics
Matches: 105, Mismatches: 2, Indels: 33
0.75 0.01 0.24
Matches are distributed among these distances:
25 7 0.07
26 35 0.33
27 16 0.15
28 11 0.10
29 29 0.28
30 7 0.07
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (25 bp):
TATAATAATAATAAATAATAAATAA
Found at i:44169599 original size:29 final size:27
Alignment explanation
Indices: 44169546--44169694 Score: 121
Period size: 29 Copynumber: 5.3 Consensus size: 27
44169536 TTTTTAAAAT
*
44169546 TATACATAATAAT-AAAT-AATAAATAA
1 TATA-ATAATAATAAAATAAAAAAATAA
44169572 TATAATATATAATAAAAT--AAAAATAA
1 TATAATA-ATAATAAAATAAAAAAATAA
* * *
44169598 TATAATGAATAATATATATAATAAAATGA
1 TATAAT-AATAATA-AAATAAAAAAATAA
44169627 TATAATATATAATAAAATATATAAAATATAA
1 TATAATA-ATAATAAAATA-A-AAAA-ATAA
44169658 TA-AATAATACAT-AAATAAAAATAATATA
1 TATAATAATA-ATAAAATAAAAA-AATA-A
44169686 TATAATAAT
1 TATAATAAT
44169695 TTTTTACATA
Statistics
Matches: 102, Mismatches: 7, Indels: 25
0.76 0.05 0.19
Matches are distributed among these distances:
25 3 0.03
26 28 0.27
27 14 0.14
28 10 0.10
29 33 0.32
30 9 0.09
31 5 0.05
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (27 bp):
TATAATAATAATAAAATAAAAAAATAA
Found at i:44169610 original size:55 final size:55
Alignment explanation
Indices: 44169551--44169694 Score: 188
Period size: 55 Copynumber: 2.6 Consensus size: 55
44169541 AAAATTATAC
*
44169551 ATAATAATAAATAATAAATAATATAATATATAATAAAATA-AAAATAATATAATGA
1 ATAATAATAAATAATAAATAATATAATATATAATAAAATATAAAA-AATATAATAA
* * *
44169606 ATAAT-ATATATAATAAAATGATATAATATATAATAAAATATATAAAATATAATAA
1 ATAATAATAAATAAT-AAATAATATAATATATAATAAAATATAAAAAATATAATAA
44169661 ATAATACATAAATAA-AAATAATAT-ATATAATAAT
1 ATAATA-ATAAATAATAAATAATATAATAT-ATAAT
44169695 TTTTTACATA
Statistics
Matches: 78, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
54 12 0.15
55 56 0.72
56 3 0.04
57 7 0.09
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (55 bp):
ATAATAATAAATAATAAATAATATAATATATAATAAAATATAAAAAATATAATAA
Found at i:44169719 original size:19 final size:21
Alignment explanation
Indices: 44169681--44169719 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44169671 AATAAAAATA
*
44169681 ATATATATAATAATTTTTTAC
1 ATATATATAATAATTGTTTAC
44169702 ATATATA-AATAA-TGTTTA
1 ATATATATAATAATTGTTTA
44169720 TAGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATATATAATAATTGTTTAC
Found at i:44169759 original size:29 final size:29
Alignment explanation
Indices: 44169726--44169782 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
44169716 TTTATAGTAA
*
44169726 AAATAAATAATATATAAAATATTTAAAAT
1 AAATAAATAATATATAAAAAATTTAAAAT
*
44169755 AAATAAATTATATATAAAAAATTTAAAA
1 AAATAAATAATATATAAAAAATTTAAAA
44169783 AGGATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
AAATAAATAATATATAAAAAATTTAAAAT
Found at i:44172275 original size:26 final size:26
Alignment explanation
Indices: 44172244--44172351 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
44172234 TGAAATGCCC
*
44172244 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
44172270 ACCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
44172296 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
44172322 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
44172348 ATCA
1 ATCA
44172352 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:44173919 original size:45 final size:45
Alignment explanation
Indices: 44173793--44174326 Score: 273
Period size: 45 Copynumber: 11.9 Consensus size: 45
44173783 TAATATCCTT
* * * * *
44173793 GATCTGCTCCCCGTCAAATACAGAGACGCCAAATCTGCTATTTTT
1 GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCTATCTTC
* * * * *
44173838 TATCTGCTT--CGATATAA-ACACGCGAATGTCAGATCTGCTATCTTC
1 GATCTGCTTCCCG-TCTAATACA-GAG-ATGCCAAATCTGCTATCTTC
*
44173883 GA-CTTGCTTCCCGTCTAATACAGAGATGCCAAATCTG-TCATTTTC
1 GATC-TGCTTCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * ** *
44173928 GATCTGCTT--TGATGTAATCACACAAATATCAGATCTGCTATCTTC
1 GATCTGCTTCCCG-TCTAAT-ACAGAGATGCCAAATCTGCTATCTTC
* *
44173973 GATCTGC-TCCTCGTCTAATACAGAGACGCCAAATCTG-TCATTTTC
1 GATCTGCTTCC-CGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * * * ** * *
44174018 GATCTTCTT--TGATGTAAACACACAAATGTTAGATCCGCTATCTTC
1 GATCTGCTTCCCG-TCT-AATACAGAGATGCCAAATCTGCTATCTTC
* * *
44174063 GATCTACTCCCCGTCTAATACAGAGATGCCAAATCTG-TCATCTTT
1 GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * * *
44174108 GATCTGCTT--CGATGTAA-ACACACGAATGTCAGATATGCTATCCTC
1 GATCTGCTTCCCG-TCTAATACAGA-G-ATGCCAAATCTGCTATCTTC
* * * * *
44174153 GATCTTCTCCCCATCTAATACAGAGACGCCAAATCT-ATCATCTTC
1 GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
** * * * *
44174198 GATCTGCTT-CTATGTAA-ACACACGAATGTCAGATCTGCTATCTTC
1 GATCTGCTTCCCGTCTAATACAGA-G-ATGCCAAATCTGCTATCTTC
* *
44174243 GATCTGCTCCCCGTCTAATACAGAAATGCCAAATCTGCT-TCTTC
1 GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCTATCTTC
*
44174287 GATTTG-TTCCCCGTC-AATACAGAGATGCCAAATCTGCTAT
1 GATCTGCTT-CCCGTCTAATACAGAGATGCCAAATCTGCTAT
44174327 TGGTGATCTA
Statistics
Matches: 354, Mismatches: 97, Indels: 77
0.67 0.18 0.15
Matches are distributed among these distances:
43 40 0.11
44 47 0.13
45 222 0.63
46 29 0.08
47 16 0.05
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCTATCTTC
Found at i:44173960 original size:90 final size:90
Alignment explanation
Indices: 44173793--44174279 Score: 667
Period size: 90 Copynumber: 5.4 Consensus size: 90
44173783 TAATATCCTT
* ** * *
44173793 GATCTGCTCCCCGTCAAATACAGAGACGCCAAATCTG-CTATTTTTTATCTGCTTCGATATAAAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC-ATTTTCGATCTGCTTTGATGTAAAC
*
44173857 ACGCGAATGTCAGATCTGCTATCTTC
65 ACACGAATGTCAGATCTGCTATCTTC
* * *
44173883 GA-CTTGCTTCCCGTCTAATACAGAGATGCCAAATCTGTCATTTTCGATCTGCTTTGATGTAATC
1 GATC-TGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTGCTTTGATGTAAAC
* *
44173947 ACACAAATATCAGATCTGCTATCTTC
65 ACACGAATGTCAGATCTGCTATCTTC
* *
44173973 GATCTGCTCCTCGTCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTTCTTTGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTGCTTTGATGTAAACA
* * *
44174038 CACAAATGTTAGATCCGCTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
* * *
44174063 GATCTACTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTT-GATCTGCTTCGATGTAAAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCAT-TTTCGATCTGCTTTGATGTAAAC
* *
44174127 ACACGAATGTCAGATATGCTATCCTC
65 ACACGAATGTCAGATCTGCTATCTTC
* * * *
44174153 GATCTTCTCCCCATCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCT-ATGTAAAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTGCTT-TGATGTAAAC
44174217 ACACGAATGTCAGATCTGCTATCTTC
65 ACACGAATGTCAGATCTGCTATCTTC
* *
44174243 GATCTGCTCCCCGTCTAATACAGAAATGCCAAATCTG
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
44174280 CTTCTTCGAT
Statistics
Matches: 349, Mismatches: 42, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
89 3 0.01
90 341 0.98
91 5 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (90 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTGCTTTGATGTAAACA
CACGAATGTCAGATCTGCTATCTTC
Found at i:44181418 original size:25 final size:25
Alignment explanation
Indices: 44181390--44181464 Score: 123
Period size: 25 Copynumber: 3.0 Consensus size: 25
44181380 ACATGGTAGT
44181390 TTCTTTCTCTAAGAGCGGTGGTTGA
1 TTCTTTCTCTAAGAGCGGTGGTTGA
* *
44181415 TTCTTTCTCCAAGAGCAGTGGTTGA
1 TTCTTTCTCTAAGAGCGGTGGTTGA
*
44181440 TTCTTTCTCTAAGAGCGATGGTTGA
1 TTCTTTCTCTAAGAGCGGTGGTTGA
44181465 ACTTGCATGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (25 bp):
TTCTTTCTCTAAGAGCGGTGGTTGA
Found at i:44186057 original size:119 final size:112
Alignment explanation
Indices: 44185835--44186048 Score: 275
Period size: 119 Copynumber: 1.8 Consensus size: 112
44185825 AAAATACATG
* * * ** *
44185835 ATACATACTTTAACATTTCATGCAAATATAATATAGAAAATGATAAATAACGACATAAATTACAT
1 ATACATACATTAACATTTCATGCAAATACAACATAGAAAACAATAAATAACAACATAAATTACAT
* *
44185900 AATATACATTAACATTTCATGCAGATATAAGCATAAATAACATAAAT
66 AATATACAATAACATTTCATGCAAATATAAGCATAAATAACATAAAT
*
44185947 ATACATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAATATAAATTA
1 ATACATACATTAACATTTCATGC-AAATACAACATAGAAAACAAT-AA-ATAACAACATAAATTA
*
44186012 CATAATATATATACAATAATATTTCATGCAAATATAA
63 C---ATA-ATATACAATAACATTTCATGCAAATATAA
44186049 CTTAAAATAT
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
112 22 0.26
113 17 0.20
114 2 0.02
115 15 0.18
118 3 0.04
119 26 0.31
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (112 bp):
ATACATACATTAACATTTCATGCAAATACAACATAGAAAACAATAAATAACAACATAAATTACAT
AATATACAATAACATTTCATGCAAATATAAGCATAAATAACATAAAT
Found at i:44186113 original size:18 final size:18
Alignment explanation
Indices: 44186090--44186124 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44186080 ATGCAAATAT
44186090 ATAAAAACAATAAATAAC
1 ATAAAAACAATAAATAAC
*
44186108 ATAAAAATAATAAATAA
1 ATAAAAACAATAAATAA
44186125 TTTATGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAAACAATAAATAAC
Found at i:44186537 original size:5 final size:5
Alignment explanation
Indices: 44186507--44186656 Score: 88
Period size: 5 Copynumber: 30.2 Consensus size: 5
44186497 AAAATTATAC
*
44186507 ATAAT AATAA- ATAAT AT-AT AATAAT ATAAT ATAAT AT-AT AATAAA
1 ATAAT -ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT -ATAAT
* *
44186552 ATAAAA ATAAT ATAAT GAATAAT AT-AT ATAAT A-AA- ATGAT ATAATAT
1 AT-AAT ATAAT ATAAT --ATAAT ATAAT ATAAT ATAAT ATAAT AT-A-AT
* *
44186599 ATAAT AAAAT ATAA- ATAAT ATAAT A-AAT AATACAT A-AAT A-AAA ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATA-AT ATAAT ATAAT ATAAT
44186647 AT-AT ATAAT A
1 ATAAT ATAAT A
44186657 ATTTTTTACA
Statistics
Matches: 117, Mismatches: 8, Indels: 39
0.71 0.05 0.24
Matches are distributed among these distances:
3 1 0.01
4 32 0.27
5 58 0.50
6 15 0.13
7 11 0.09
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (5 bp):
ATAAT
Found at i:44186583 original size:72 final size:74
Alignment explanation
Indices: 44186502--44186658 Score: 193
Period size: 72 Copynumber: 2.2 Consensus size: 74
44186492 TTTTTAAAAT
* *
44186502 TATACATAATAATAAATAATAT-ATA-ATAATATAATAT-AAT-ATATAATAAAATAA-AAATAA
1 TATATATAATAATAAATAATATAATATATAATAAAATATAAATAATATAAT-AAATAATAAATAA
*
44186562 TATAATGAATAA
65 -ATAA-AAATAA
* *
44186574 TATATATAAT-A-AAATGATATAATATATAATAAAATATAAATAATATAATAAATAATACATAAA
1 TATATATAATAATAAATAATATAATATATAATAAAATATAAATAATATAATAAATAATAAATAAA
44186637 TAAAAATAA
66 TAAAAATAA
44186646 TATATATAATAAT
1 TATATATAATAAT
44186659 TTTTTACATA
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
70 8 0.11
71 4 0.05
72 35 0.48
73 14 0.19
74 12 0.16
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (74 bp):
TATATATAATAATAAATAATATAATATATAATAAAATATAAATAATATAATAAATAATAAATAAA
TAAAAATAA
Found at i:44186585 original size:55 final size:53
Alignment explanation
Indices: 44186510--44186740 Score: 104
Period size: 52 Copynumber: 4.5 Consensus size: 53
44186500 ATTATACATA
* * * *
44186510 ATAATAAATAATAT-ATA-ATAATATAAT-ATAAT-ATATAATAA-AATAAAA
1 ATAATAAATAATATAATATATAATAAAATAAAAATAATATAATAATAATATAT
* * *
44186558 ATAATATAATGAATA-ATATATATAATAAAAT-GATATAATAT-ATAATAAAATAT
1 ATAATA-AAT-AATATA-ATATATAATAAAATAAAAATAATATAATAATAATATAT
*
44186611 A-AATAATATAATA-AATA-ATACAT-AAATAAAAATAATATATATAATAAT-TTT
1 ATAATAA-ATAATATAATATATA-ATAAAATAAAAATAATATA-ATAATAATATAT
* * * * * *
44186662 TTACATATATAA-ATAATGTTTATAGTAAAA-ATAAATAATAT-ATAA-AATATTT
1 ATA-ATAAATAATATAA--TATATAATAAAATAAAAATAATATAATAATAATATAT
* *
44186714 AAAATAAATAA-ATTATATATAA-AAAAT
1 ATAATAAATAATATAATATATAATAAAAT
44186741 TTAAAAAGGA
Statistics
Matches: 140, Mismatches: 22, Indels: 41
0.69 0.11 0.20
Matches are distributed among these distances:
48 10 0.07
49 15 0.11
50 17 0.12
51 25 0.18
52 43 0.31
53 12 0.09
54 12 0.09
55 6 0.04
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (53 bp):
ATAATAAATAATATAATATATAATAAAATAAAAATAATATAATAATAATATAT
Found at i:44186617 original size:50 final size:45
Alignment explanation
Indices: 44186535--44186641 Score: 80
Period size: 46 Copynumber: 2.4 Consensus size: 45
44186525 TAATAATATA
* * *
44186535 ATATAAT-ATATAATAAAATA-AAAATAATATAATGAAT-AAT-AT
1 ATATAATAATATAATAAAATATATAATAAAATAA-AAATAAATAAT
* * * *
44186577 ATATAATAAAATGATATAATATATAATAAAATATAAATAATATAAT
1 ATATAATAATATAATAAAATATATAATAAAATAAAAATAA-ATAAT
*
44186623 AAATAATACATA-AATAAAA
1 ATATAATA-ATATAATAAAA
44186642 ATAATATATA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
42 7 0.15
43 13 0.27
44 10 0.21
45 2 0.04
46 14 0.29
47 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (45 bp):
ATATAATAATATAATAAAATATATAATAAAATAAAAATAAATAAT
Found at i:44186646 original size:50 final size:51
Alignment explanation
Indices: 44186510--44186651 Score: 187
Period size: 55 Copynumber: 2.7 Consensus size: 51
44186500 ATTATACATA
*
44186510 ATAATAAATAATATATAATAATATAATATAATATATAATAAAATAAAAATAAT
1 ATAATAAATAATATAT-ATAATA-AAAATAATATATAATAAAATAAAAATAAT
* *
44186563 ATAATGAATAATATATATAATAAAATGATATAATATATAATAAAATATAAATAAT
1 ATAATAAATAATATATATAAT-AAA--A-ATAATATATAATAAAATAAAAATAAT
*
44186618 ATAATAAATAATACATA-AATAAAAATAATATATA
1 ATAATAAATAATATATATAATAAAAATAATATATA
44186652 TAATAATTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 11
0.83 0.05 0.11
Matches are distributed among these distances:
50 10 0.12
51 1 0.01
52 7 0.09
53 19 0.24
54 3 0.04
55 40 0.50
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (51 bp):
ATAATAAATAATATATATAATAAAAATAATATATAATAAAATAAAAATAAT
Found at i:44186723 original size:29 final size:29
Alignment explanation
Indices: 44186690--44186746 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
44186680 TTTATAGTAA
*
44186690 AAATAAATAATATATAAAATATTTAAAAT
1 AAATAAATAATATATAAAAAATTTAAAAT
*
44186719 AAATAAATTATATATAAAAAATTTAAAA
1 AAATAAATAATATATAAAAAATTTAAAA
44186747 AGGATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
AAATAAATAATATATAAAAAATTTAAAAT
Found at i:44186939 original size:30 final size:30
Alignment explanation
Indices: 44186905--44186962 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
44186895 ATAATGGCCT
*
44186905 TTAGGACTAAATTGA-AACAAAAATAAAAGG
1 TTAGGACCAAATT-ATAACAAAAATAAAAGG
* *
44186935 TTAGGGCCAAATTATAATAAAAATAAAA
1 TTAGGACCAAATTATAACAAAAATAAAA
44186963 TGAAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.22
Consensus pattern (30 bp):
TTAGGACCAAATTATAACAAAAATAAAAGG
Found at i:44187679 original size:19 final size:17
Alignment explanation
Indices: 44187637--44187669 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44187627 TGTTATATGG
44187637 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
*
44187654 AATCTTATATATGATA
1 AATCTTAGATATGATA
44187670 TACGATCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (17 bp):
AATCTTAGATATGATAC
Found at i:44196070 original size:6 final size:6
Alignment explanation
Indices: 44196067--44196107 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
44196057 GAAAAAAAAT
44196067 AAAAGA AAAAGA GAAAA-A AAAAGA AAAAGAA AAAAGA AAAA
1 AAAAGA AAAAGA -AAAAGA AAAAGA AAAAG-A AAAAGA AAAA
44196108 ATGGAGAGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.12
6 18 0.56
7 10 0.31
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:44196083 original size:18 final size:18
Alignment explanation
Indices: 44196059--44196107 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 18
44196049 AAAAAAAGGA
44196059 AAAAAAATAAAAGAAAAAG
1 AAAAAAA-AAAAGAAAAAG
*
44196078 AGAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAGAAAAAG
44196096 AAAAAAGAAAAA
1 AAAAAA-AAAAA
44196108 ATGGAGAGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAAGAAAAAG
Found at i:44196084 original size:31 final size:31
Alignment explanation
Indices: 44196047--44196107 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
44196037 ACTTCTATTT
44196047 AAAAAAAAAGGAAAAAAAATAAAAGAAAAAGAG
1 AAAAAAAAA-GAAAAAAAA-AAAAGAAAAAGAG
*
44196080 AAAAAAAAAGAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAGAAAAAAAAAAAAGAAAAA
44196108 ATGGAGAGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 10 0.37
32 8 0.30
33 9 0.33
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (31 bp):
AAAAAAAAAGAAAAAAAAAAAAGAAAAAGAG
Found at i:44196085 original size:24 final size:23
Alignment explanation
Indices: 44196050--44196108 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
44196040 TCTATTTAAA
* *
44196050 AAAAAAGGAAAAAAAA-TAAAAG
1 AAAAAAGAAAAAAAAAGAAAAAG
44196072 AAAAAGAGAAAAAAAAAGAAAAAG
1 AAAAA-AGAAAAAAAAAGAAAAAG
44196096 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
44196109 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 5 0.15
23 18 0.55
24 10 0.30
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.02
Consensus pattern (23 bp):
AAAAAAGAAAAAAAAAGAAAAAG
Found at i:44196182 original size:6 final size:6
Alignment explanation
Indices: 44196179--44196219 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
44196169 GAAAAAAAAT
44196179 AAAAGA AAAAGA GAAAA-A AAAAGA AAAAGAA AAAAGA AAAA
1 AAAAGA AAAAGA -AAAAGA AAAAGA AAAAG-A AAAAGA AAAA
44196220 ATGGAGAGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.12
6 18 0.56
7 10 0.31
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:44196195 original size:18 final size:18
Alignment explanation
Indices: 44196171--44196219 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 18
44196161 AAAAAAAGGA
44196171 AAAAAAATAAAAGAAAAAG
1 AAAAAAA-AAAAGAAAAAG
*
44196190 AGAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAGAAAAAG
44196208 AAAAAAGAAAAA
1 AAAAAA-AAAAA
44196220 ATGGAGAGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAAGAAAAAG
Found at i:44196196 original size:31 final size:31
Alignment explanation
Indices: 44196159--44196219 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
44196149 ACTTCTATTT
44196159 AAAAAAAAAGGAAAAAAAATAAAAGAAAAAGAG
1 AAAAAAAAA-GAAAAAAAA-AAAAGAAAAAGAG
*
44196192 AAAAAAAAAGAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAGAAAAAAAAAAAAGAAAAA
44196220 ATGGAGAGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 10 0.37
32 8 0.30
33 9 0.33
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (31 bp):
AAAAAAAAAGAAAAAAAAAAAAGAAAAAGAG
Found at i:44196197 original size:24 final size:23
Alignment explanation
Indices: 44196162--44196220 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
44196152 TCTATTTAAA
* *
44196162 AAAAAAGGAAAAAAAA-TAAAAG
1 AAAAAAGAAAAAAAAAGAAAAAG
44196184 AAAAAGAGAAAAAAAAAGAAAAAG
1 AAAAA-AGAAAAAAAAAGAAAAAG
44196208 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
44196221 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 5 0.15
23 18 0.55
24 10 0.30
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.02
Consensus pattern (23 bp):
AAAAAAGAAAAAAAAAGAAAAAG
Found at i:44196201 original size:112 final size:112
Alignment explanation
Indices: 44196004--44196364 Score: 722
Period size: 112 Copynumber: 3.2 Consensus size: 112
44195994 GAGAAGGGAA
44196004 GCCAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTAAAAAAAAAGGAAAAAAAATAA
1 GCCAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTAAAAAAAAAGGAAAAAAAATAA
44196069 AAGAAAAAGAGAAAAAAAAAGAAAAAGAAAAAAGAAAAAATGGAGAG
66 AAGAAAAAGAGAAAAAAAAAGAAAAAGAAAAAAGAAAAAATGGAGAG
44196116 GCCAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTAAAAAAAAAGGAAAAAAAATAA
1 GCCAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTAAAAAAAAAGGAAAAAAAATAA
44196181 AAGAAAAAGAGAAAAAAAAAGAAAAAGAAAAAAGAAAAAATGGAGAG
66 AAGAAAAAGAGAAAAAAAAAGAAAAAGAAAAAAGAAAAAATGGAGAG
44196228 GCCAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTAAAAAAAAAGGAAAAAAAATAA
1 GCCAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTAAAAAAAAAGGAAAAAAAATAA
44196293 AAGAAAAAGAGAAAAAAAAAGAAAAAGAAAAAAGAAAAAATGGAGAG
66 AAGAAAAAGAGAAAAAAAAAGAAAAAGAAAAAAGAAAAAATGGAGAG
44196340 GCCAAGGTGAAAACCCGCAAAGGGC
1 GCCAAGGTGAAAACCCGCAAAGGGC
44196365 GCCTTGAGAC
Statistics
Matches: 249, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 249 1.00
ACGTcount: A:0.58, C:0.10, G:0.21, T:0.10
Consensus pattern (112 bp):
GCCAAGGTGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTAAAAAAAAAGGAAAAAAAATAA
AAGAAAAAGAGAAAAAAAAAGAAAAAGAAAAAAGAAAAAATGGAGAG
Found at i:44196294 original size:6 final size:6
Alignment explanation
Indices: 44196291--44196331 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
44196281 GAAAAAAAAT
44196291 AAAAGA AAAAGA GAAAA-A AAAAGA AAAAGAA AAAAGA AAAA
1 AAAAGA AAAAGA -AAAAGA AAAAGA AAAAG-A AAAAGA AAAA
44196332 ATGGAGAGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.12
6 18 0.56
7 10 0.31
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:44196307 original size:18 final size:18
Alignment explanation
Indices: 44196283--44196331 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 18
44196273 AAAAAAAGGA
44196283 AAAAAAATAAAAGAAAAAG
1 AAAAAAA-AAAAGAAAAAG
*
44196302 AGAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAGAAAAAG
44196320 AAAAAAGAAAAA
1 AAAAAA-AAAAA
44196332 ATGGAGAGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAAGAAAAAG
Found at i:44196308 original size:31 final size:31
Alignment explanation
Indices: 44196271--44196331 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
44196261 ACTTCTATTT
44196271 AAAAAAAAAGGAAAAAAAATAAAAGAAAAAGAG
1 AAAAAAAAA-GAAAAAAAA-AAAAGAAAAAGAG
*
44196304 AAAAAAAAAGAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAGAAAAAAAAAAAAGAAAAA
44196332 ATGGAGAGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 10 0.37
32 8 0.30
33 9 0.33
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (31 bp):
AAAAAAAAAGAAAAAAAAAAAAGAAAAAGAG
Found at i:44196309 original size:24 final size:23
Alignment explanation
Indices: 44196274--44196332 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
44196264 TCTATTTAAA
* *
44196274 AAAAAAGGAAAAAAAA-TAAAAG
1 AAAAAAGAAAAAAAAAGAAAAAG
44196296 AAAAAGAGAAAAAAAAAGAAAAAG
1 AAAAA-AGAAAAAAAAAGAAAAAG
44196320 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
44196333 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 5 0.15
23 18 0.55
24 10 0.30
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.02
Consensus pattern (23 bp):
AAAAAAGAAAAAAAAAGAAAAAG
Found at i:44197338 original size:43 final size:42
Alignment explanation
Indices: 44197290--44197429 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 42
44197280 CGCCTTAATC
44197290 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAA-TTGCAGATCTTATCT
* * ** * * * *
44197333 CCCTAAGCAGTAGTGG-AACAGATCAAA--GACTCACCGTAACC
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTG-CAGATCTTATCT
* *
44197374 CCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGG-TTAAATTGCAGATCTTATCT
44197417 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
44197430 TGGAACAAAT
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
40 3 0.04
41 24 0.32
42 4 0.05
43 41 0.55
44 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCT
Found at i:44197430 original size:84 final size:84
Alignment explanation
Indices: 44197282--44197571 Score: 359
Period size: 84 Copynumber: 3.4 Consensus size: 84
44197272 AAATTCAGCG
* *
44197282 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
44197347 GGAACAGATCAAAGACTCA
66 GGAACAGATCAAAGACTCA
* * *
44197366 CCGTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
* * *
44197431 GGAACAAATCAACGGCCACTCG
66 GGAACAGATCAA-AG--ACTCA
* * * ** *
44197453 CCTTAATCCCCTAAGCAGTAAGGTAACAGGTCAAAATTGTGGATCTTATCTCCCTAAGCAGTAGC
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
44197518 GGAGCAGATCGAAGA-TGCGA
66 GGAACAGATCAAAGACT-C-A
* *
44197538 -CTTAACCCCTTAAGCCGTAGGGTAACAGGTTAAA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
44197572 GCATAGCAGA
Statistics
Matches: 174, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
83 1 0.01
84 102 0.59
85 1 0.01
86 1 0.01
87 69 0.40
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (84 bp):
CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
GGAACAGATCAAAGACTCA
Found at i:44197820 original size:207 final size:207
Alignment explanation
Indices: 44197573--44198190 Score: 1089
Period size: 207 Copynumber: 3.0 Consensus size: 207
44197563 CAGGTTAAAG
44197573 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * *
44197638 GCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACATGCTTATGATGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
*
44197703 TAAGATGATTTGGCATCTCTGTATTTTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
44197768 GGAGGGCAGACA
196 GGAGGGCAGACA
44197780 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * *
44197845 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
44197910 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
44197975 GGAGGGCAGACA
196 GGAGGGCAGACA
*
44197987 CATAGCAGATCTGGCCTTCAGA---TTATACTGAAGCAAGATCCAAGATAGTTTGGCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * *
44198049 TCTTACAAGGAACAAATCGAAGACATAGCTAATTTGGCTTTCACGTGCTTACAATGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
* *
44198114 TAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCAAAGTTTGGCGTCTCCATATTCGAC
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
*
44198179 GGAGAGCAGACA
196 GGAGGGCAGACA
44198191 NNNNNNNNNN
Statistics
Matches: 394, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
204 172 0.44
207 222 0.56
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (207 bp):
CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
GGAGGGCAGACA
Found at i:44201693 original size:43 final size:42
Alignment explanation
Indices: 44201645--44201784 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 42
44201635 CGCCTTAATC
44201645 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAA-TTGCAGATCTTATCT
* * ** * * * *
44201688 CCCTAAGCAGTAGTGG-AACAGATCAAA--GACTCACCGTAACC
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTG-CAGATCTTATCT
* *
44201729 CCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGG-TTAAATTGCAGATCTTATCT
44201772 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
44201785 TGGAACAAAT
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
40 3 0.04
41 24 0.32
42 4 0.05
43 41 0.55
44 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCT
Found at i:44201785 original size:84 final size:84
Alignment explanation
Indices: 44201637--44201926 Score: 359
Period size: 84 Copynumber: 3.4 Consensus size: 84
44201627 AAATTCAGCG
* *
44201637 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
44201702 GGAACAGATCAAAGACTCA
66 GGAACAGATCAAAGACTCA
* * *
44201721 CCGTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
* * *
44201786 GGAACAAATCAACGGCCACTCG
66 GGAACAGATCAA-AG--ACTCA
* * * ** *
44201808 CCTTAATCCCCTAAGCAGTAAGGTAACAGGTCAAAATTGTGGATCTTATCTCCCTAAGCAGTAGC
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
44201873 GGAGCAGATCGAAGA-TGCGA
66 GGAACAGATCAAAGACT-C-A
* *
44201893 -CTTAACCCCTTAAGCCGTAGGGTAACAGGTTAAA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
44201927 GCATAGCAGA
Statistics
Matches: 174, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
83 1 0.01
84 102 0.59
85 1 0.01
86 1 0.01
87 69 0.40
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (84 bp):
CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
GGAACAGATCAAAGACTCA
Found at i:44202175 original size:207 final size:207
Alignment explanation
Indices: 44201928--44202329 Score: 741
Period size: 207 Copynumber: 1.9 Consensus size: 207
44201918 CAGGTTAAAG
44201928 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
*
44201993 GCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACATGCTTATGATGAAGCAAATC
66 GCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATC
*
44202058 TAAGATGATTTGGCATCTCTGTATTTTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
44202123 GGAGGGCAGACA
196 GGAGGGCAGACA
44202135 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * * * *
44202200 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTC
66 GCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATC
44202265 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
44202330 AACAAATTGA
Statistics
Matches: 188, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
207 188 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (207 bp):
CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
GCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATC
TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
GGAGGGCAGACA
Found at i:44202804 original size:35 final size:35
Alignment explanation
Indices: 44202739--44202856 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
44202729 CAATGATATG
* *
44202739 CAATCTTAGATGTGATATGGAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
44202775 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
44202810 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
44202847 CAATCTTAGA
1 CAATCTTAGA
44202857 AGATATGATT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 50 0.64
36 15 0.19
37 13 0.17
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:44209915 original size:16 final size:16
Alignment explanation
Indices: 44209894--44209926 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44209884 TAAGTAAGGT
44209894 TATTATTGTGGGGGGC
1 TATTATTGTGGGGGGC
44209910 TATTATTGTGGGGGGC
1 TATTATTGTGGGGGGC
44209926 T
1 T
44209927 TTTCCCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.42, T:0.39
Consensus pattern (16 bp):
TATTATTGTGGGGGGC
Found at i:44211882 original size:81 final size:81
Alignment explanation
Indices: 44211747--44211900 Score: 299
Period size: 81 Copynumber: 1.9 Consensus size: 81
44211737 AATTTGATTC
44211747 GTAGTAAAGGGTGGTCAGATTAGTCAAACAGTGAAACAGGGGAAAACTTTAAGAAAAATATGGTA
1 GTAGTAAAGGGTGGTCAGATTAGTCAAACAGTGAAACAGGGGAAAACTTTAAGAAAAATATGGTA
44211812 TTGTTTGGCCAAACTT
66 TTGTTTGGCCAAACTT
*
44211828 GTAGTGAAGGGTGGTCAGATTAGTCAAACAGTGAAACAGGGGAAAACTTTAAGAAAAATATGGTA
1 GTAGTAAAGGGTGGTCAGATTAGTCAAACAGTGAAACAGGGGAAAACTTTAAGAAAAATATGGTA
44211893 TTGTTTGG
66 TTGTTTGG
44211901 ATAAAAGATA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (81 bp):
GTAGTAAAGGGTGGTCAGATTAGTCAAACAGTGAAACAGGGGAAAACTTTAAGAAAAATATGGTA
TTGTTTGGCCAAACTT
Found at i:44212546 original size:39 final size:39
Alignment explanation
Indices: 44212494--44212726 Score: 396
Period size: 39 Copynumber: 6.0 Consensus size: 39
44212484 GTTTATCTAG
*
44212494 ACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCC-A
1 ACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGA
44212532 GACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGA
1 -ACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGA
44212572 ACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGA
1 ACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGA
44212611 ACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGA
1 ACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGA
*
44212650 ACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGG
1 ACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGA
* * * *
44212689 ACTTAAGGTCCACAGGCTACGTGCTGGAAATATGTCCG
1 ACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCG
44212727 GGCTAAAGTC
Statistics
Matches: 187, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 186 0.99
40 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
ACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGA
Found at i:44212754 original size:117 final size:117
Alignment explanation
Indices: 44212501--44212761 Score: 357
Period size: 117 Copynumber: 2.2 Consensus size: 117
44212491 TAGACTTAGG
**
44212501 GTCCGCAGGCTATGTGCTGGAATTATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTAT
1 GTCCGCAGGCTATAAGCTGGAATTATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTAT
* * * *
44212566 ATCCGAACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGAACTTAAG
66 ATCCGAACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGAACTTAAA
**
44212618 GTCCGCAGGCTATGTGCTGGAATTATATCC-GAACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 GTCCGCAGGCTATAAGCTGGAATTATATCCAG-ACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * **
44212682 TATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATATGTCCGGGC-TAAA
65 TATCCGAACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGAACTTAAA
*
44212734 GTCCTGCAGGCT-TCAAGCTGGTATTATA
1 GTCC-GCAGGCTAT-AAGCTGGAATTATA
44212762 CTGGATGATT
Statistics
Matches: 130, Mismatches: 11, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
116 9 0.07
117 121 0.93
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (117 bp):
GTCCGCAGGCTATAAGCTGGAATTATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTAT
ATCCGAACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGAACTTAAA
Found at i:44216630 original size:31 final size:31
Alignment explanation
Indices: 44216593--44216653 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
44216583 AGACCTTGCG
44216593 AAAAACGAAGTCTCCCACAAAATACTCTATA
1 AAAAACGAAGTCTCCCACAAAATACTCTATA
44216624 AAAAACGAAGTCTCCCACAAAATACTCTAT
1 AAAAACGAAGTCTCCCACAAAATACTCTAT
44216654 CTCTCAACGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.26, G:0.07, T:0.20
Consensus pattern (31 bp):
AAAAACGAAGTCTCCCACAAAATACTCTATA
Found at i:44231136 original size:185 final size:185
Alignment explanation
Indices: 44230824--44231189 Score: 714
Period size: 185 Copynumber: 2.0 Consensus size: 185
44230814 ACCTTTGTCT
*
44230824 AACCATTCCTTTATCCCTCTCTGCAATTCCTTGTGTCTTGAATATGATATTATACATCTTGAATG
1 AACCATTCCTTTATCCCTCTCTACAATTCCTTGTGTCTTGAATATGATATTATACATCTTGAATG
*
44230889 TGCATGAAAGTGGTTATATATATAAATATATAAAAGAAATAACTTAGAGAGACATAACAAATCAA
66 TGCATGAAACTGGTTATATATATAAATATATAAAAGAAATAACTTAGAGAGACATAACAAATCAA
44230954 TTTTTATATTATTCAACTCATTCATGTGTTTCACTTTATCTAAGTTATAATATCG
131 TTTTTATATTATTCAACTCATTCATGTGTTTCACTTTATCTAAGTTATAATATCG
44231009 AACCATTCCTTTATCCCTCTCTACAATTCCTTGTGTCTTGAATATGATATTATACATCTTGAATG
1 AACCATTCCTTTATCCCTCTCTACAATTCCTTGTGTCTTGAATATGATATTATACATCTTGAATG
44231074 TGCATGAAACTGGTTATATATATAAATATATAAAAGAAATAACTTAGAGAGACATAACAAATCAA
66 TGCATGAAACTGGTTATATATATAAATATATAAAAGAAATAACTTAGAGAGACATAACAAATCAA
44231139 TTTTTATATTATTCAACTCATTCATGTGTTTCACTTTATCTAAGTTATAAT
131 TTTTTATATTATTCAACTCATTCATGTGTTTCACTTTATCTAAGTTATAAT
44231190 GCCATTTGAT
Statistics
Matches: 179, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 179 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (185 bp):
AACCATTCCTTTATCCCTCTCTACAATTCCTTGTGTCTTGAATATGATATTATACATCTTGAATG
TGCATGAAACTGGTTATATATATAAATATATAAAAGAAATAACTTAGAGAGACATAACAAATCAA
TTTTTATATTATTCAACTCATTCATGTGTTTCACTTTATCTAAGTTATAATATCG
Found at i:44233177 original size:36 final size:36
Alignment explanation
Indices: 44233122--44233227 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 36
44233112 CGGATCTTTT
* *
44233122 CAAGCTCCTGAACAAGATATC-ATGTCTTCTCAATCC
1 CAAGCTCCTAAACGAGATATCTA-GTCTTCTCAATCC
*
44233158 CAAGCTCCTAAACGCGATATCTAGTCTT-T--A---
1 CAAGCTCCTAAACGAGATATCTAGTCTTCTCAATCC
*
44233188 CAAGCTCCTAAACGAGATATCTAGACTTCTCAATCC
1 CAAGCTCCTAAACGAGATATCTAGTCTTCTCAATCC
44233224 CAAG
1 CAAG
44233228 ATCTTGAATG
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
30 26 0.45
31 1 0.02
33 2 0.03
35 1 0.02
36 27 0.47
37 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.26
Consensus pattern (36 bp):
CAAGCTCCTAAACGAGATATCTAGTCTTCTCAATCC
Found at i:44233250 original size:66 final size:67
Alignment explanation
Indices: 44233116--44233286 Score: 170
Period size: 66 Copynumber: 2.6 Consensus size: 67
44233106 AAAGATCGGA
* * * * *
44233116 TCTTTTCAAGCTCCTGAACAAGATATC-ATGTCTTCTCAATCCCAAGCTCCTAAACGCGATATCT
1 TCTTTACAAGCTCCTAAACAAGATATCTAGGTCTTCTCAATCCCAAGATCCTAAACGAGATATCT
44233180 AG
66 AG
* * * * * *
44233182 TCTTTACAAGCTCCTAAACGAGATATCTA-GACTTCTCAATCCCAAGATCTTGAATGATATAT-T
1 TCTTTACAAGCTCCTAAACAAGATATCTAGGTCTTCTCAATCCCAAGATCCTAAACGAGATATCT
44233245 GAG
66 -AG
* * * *
44233248 TCTTTCCAAACTCTTAAACTAGATAT-TAGGTCTTCTCAA
1 TCTTTACAAGCTCCTAAACAAGATATCTAGGTCTTCTCAA
44233287 GTTCCTGAAC
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
65 3 0.03
66 83 0.95
67 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (67 bp):
TCTTTACAAGCTCCTAAACAAGATATCTAGGTCTTCTCAATCCCAAGATCCTAAACGAGATATCT
AG
Found at i:44235660 original size:21 final size:20
Alignment explanation
Indices: 44235602--44235660 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
44235592 CAATTAAAGA
*
44235602 ATTTTATTTTAAT-AAAGAT
1 ATTTTATTTTAATAAAATAT
* *
44235621 A-TTAATGTTAATAATAATAT
1 ATTTTATTTTAATAA-AATAT
44235641 ATTTTATTTTAATTAAAATA
1 ATTTTATTTTAA-TAAAATA
44235661 GATTGAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 9 0.29
19 2 0.06
20 5 0.16
21 12 0.39
22 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTTTATTTTAATAAAATAT
Found at i:44236339 original size:17 final size:17
Alignment explanation
Indices: 44236317--44236350 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
44236307 GATATGATAC
44236317 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
44236334 TAAAATATATAAAAAAT
1 TAAAATATATAAAAAAT
44236351 CTGGGAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:44241525 original size:17 final size:18
Alignment explanation
Indices: 44241503--44241537 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44241493 GATATGATAC
*
44241503 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
44241520 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
44241538 CCAGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:44241852 original size:19 final size:19
Alignment explanation
Indices: 44241828--44241880 Score: 83
Period size: 17 Copynumber: 2.9 Consensus size: 19
44241818 ATTATATCTT
44241828 CTAAGATTGCATATCATAA
1 CTAAGATTGCATATCATAA
*
44241847 CTAAGATTG--TATCATAT
1 CTAAGATTGCATATCATAA
44241864 CTAAGATTGCATATCAT
1 CTAAGATTGCATATCAT
44241881 TGAAGATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 16 0.52
19 15 0.48
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
CTAAGATTGCATATCATAA
Found at i:44271136 original size:88 final size:88
Alignment explanation
Indices: 44271031--44271214 Score: 352
Period size: 88 Copynumber: 2.1 Consensus size: 88
44271021 CCAAAGTGCA
44271031 TCACCGAATAAATCGAAATAGTGTAAACTAGCACGTATGTGAATACTGGCGCACGAAGCACATCC
1 TCACCGAATAAATCGAAATAGTGTAAACTAGCACGTATGTGAATACTGGCGCACGAAGCACATCC
44271096 TAGTACACAAAGCTCATATCTGG
66 TAGTACACAAAGCTCATATCTGG
44271119 TCACCGAATAAATCGAAATAGTGTAAACTAGCACGTATGTGAATACTGGCGCACGAAGCACATCC
1 TCACCGAATAAATCGAAATAGTGTAAACTAGCACGTATGTGAATACTGGCGCACGAAGCACATCC
44271184 TAGTACACAAAGCTCATATCTGG
66 TAGTACACAAAGCTCATATCTGG
44271207 -CACACGAA
1 TCAC-CGAA
44271215 ATACATCCTG
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
87 3 0.03
88 92 0.97
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (88 bp):
TCACCGAATAAATCGAAATAGTGTAAACTAGCACGTATGTGAATACTGGCGCACGAAGCACATCC
TAGTACACAAAGCTCATATCTGG
Found at i:44272246 original size:10 final size:10
Alignment explanation
Indices: 44272227--44272302 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
44272217 GATACTTAGT
*
44272227 TTAATTTTAA
1 TTAATCTTAA
44272237 TTAATCTTAA
1 TTAATCTTAA
*
44272247 TTAAT-TTAC
1 TTAATCTTAA
* *
44272256 TTAATCATGA
1 TTAATCTTAA
*
44272266 TTAAT-TAAA
1 TTAATCTTAA
44272275 CCTTAATCCTTAA
1 --TTAAT-CTTAA
44272288 TTAA-CTTAA
1 TTAATCTTAA
44272297 GTTAAT
1 -TTAAT
44272303 GACATTTAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
9 14 0.28
10 24 0.48
11 9 0.18
13 3 0.06
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (10 bp):
TTAATCTTAA
Found at i:44273882 original size:19 final size:18
Alignment explanation
Indices: 44273860--44273934 Score: 71
Period size: 18 Copynumber: 4.0 Consensus size: 18
44273850 AAATTTAAAT
44273860 TTTTTTAAAAAATAAAGAA
1 TTTTTTAAAAAATAAA-AA
* *
44273879 -TTTTGAAATAATAAAAA
1 TTTTTTAAAAAATAAAAA
*
44273896 TTGTTTAGAATAAATAAAAA
1 TTTTTTA-AA-AAATAAAAA
*
44273916 TGTTTTAAAAATATAAAAA
1 TTTTTTAAAAA-ATAAAAA
44273935 AATTTGCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
17 2 0.04
18 19 0.42
19 11 0.24
20 13 0.29
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (18 bp):
TTTTTTAAAAAATAAAAA
Found at i:44274877 original size:17 final size:19
Alignment explanation
Indices: 44274836--44274882 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
44274826 AATTTTAATG
44274836 AGTTTTTATTATTTTTCAT
1 AGTTTTTATTATTTTTCAT
44274855 AGGTTTTTATTATTTTT-AT
1 A-GTTTTTATTATTTTTCAT
44274874 -GTTTTTATT
1 AGTTTTTATT
44274883 TAAAAACTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.33
19 3 0.11
20 15 0.56
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (19 bp):
AGTTTTTATTATTTTTCAT
Found at i:44275215 original size:19 final size:19
Alignment explanation
Indices: 44275191--44275270 Score: 110
Period size: 19 Copynumber: 4.3 Consensus size: 19
44275181 AATCTTTAAG
44275191 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* * *
44275210 GATATGTACTCTTAGATGT
1 GATATGCAATCTTAGATAT
44275229 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
44275248 GATA--CAATTTTAGATAT
1 GATATGCAATCTTAGATAT
44275265 GATATG
1 GATATG
44275271 ATATAATATG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
17 16 0.31
19 36 0.69
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:44282616 original size:41 final size:42
Alignment explanation
Indices: 44282571--44282842 Score: 125
Period size: 41 Copynumber: 6.2 Consensus size: 42
44282561 CTTATCTCCT
44282571 TAAGCAGTAGTGGAGCAGATTGAAGACTC-GCCTTAATCCCC
1 TAAGCAGTAGTGGAGCAGATTGAAGACTCAGCCTTAATCCCC
* * * * *
44282612 TAAGCAGTAG-GGTAACGGGTT-AA-ATTTGCAGATCTT-ATCTCCC
1 TAAGCAGTAGTGG-AGCAGATTGAAGA-CT-CAG-CCTTAATC-CCC
* *
44282655 TAAGCAATAGTGGAGCAGATCGAAGAC-CAGCCTTAATCCCC
1 TAAGCAGTAGTGGAGCAGATTGAAGACTCAGCCTTAATCCCC
* * * * *
44282696 TAAGCAGTAG-GGTAACAGGTT-AA-ATTTACAGATCTT-ATCTCCT
1 TAAGCAGTAGTGG-AGCAGATTGAAGA-CT-CAG-CCTTAATC-CCC
* * *
44282739 TAAGCAGTAGTGGAGCAGATCGAAGAGTAACAGGTTCGCAGATCTTATCTCCC
1 TAAGCAGTAGTGGAGCAGATTGAAGACT--CA-G--C-C---T-TAATC-CCC
* *
44282792 TAAGCAGTAGTGGAGCAGATCGAAGA-TCCGCCTTAATCCCC
1 TAAGCAGTAGTGGAGCAGATTGAAGACTCAGCCTTAATCCCC
44282833 TAAGCAGTAG
1 TAAGCAGTAG
44282843 GGTAACGCGT
Statistics
Matches: 175, Mismatches: 28, Indels: 56
0.68 0.11 0.22
Matches are distributed among these distances:
39 2 0.01
40 9 0.05
41 49 0.28
42 20 0.11
43 40 0.23
44 9 0.05
45 5 0.03
46 2 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 1 0.01
52 2 0.01
53 32 0.18
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (42 bp):
TAAGCAGTAGTGGAGCAGATTGAAGACTCAGCCTTAATCCCC
Found at i:44282653 original size:84 final size:84
Alignment explanation
Indices: 44282555--44282764 Score: 359
Period size: 84 Copynumber: 2.5 Consensus size: 84
44282545 TAACAGGTTC
*
44282555 GCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATTGAAGACTC-GCCTTAATCCCCTAAGCAG
1 GCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGAC-CAGCCTTAATCCCCTAAGCAG
*
44282619 TAGGGTAACGGGTTAAATTT
65 TAGGGTAACAGGTTAAATTT
* *
44282639 GCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACCAGCCTTAATCCCCTAAGCAGT
1 GCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACCAGCCTTAATCCCCTAAGCAGT
44282704 AGGGTAACAGGTTAAATTT
66 AGGGTAACAGGTTAAATTT
*
44282723 ACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGA
1 GCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGA
44282765 GTAACAGGTT
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
83 1 0.01
84 117 0.99
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (84 bp):
GCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACCAGCCTTAATCCCCTAAGCAGT
AGGGTAACAGGTTAAATTT
Found at i:44282780 original size:137 final size:137
Alignment explanation
Indices: 44282639--44282901 Score: 458
Period size: 137 Copynumber: 1.9 Consensus size: 137
44282629 GGTTAAATTT
44282639 GCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGA-CCAGCCTTAATCCCCTAAGCAG
1 GCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATCC-GCCTTAATCCCCTAAGCAG
* *
44282703 TAGGGTAACAG-GTTAAATTTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGAGT
65 TAGGGTAAC-GCGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGAGT
44282767 AACAGGTTC
129 AACAGGTTC
*
44282776 GCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATCCGCCTTAATCCCCTAAGCAGT
1 GCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATCCGCCTTAATCCCCTAAGCAGT
*
44282841 AGGGTAACGCGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGA
66 AGGGTAACGCGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGA
44282902 CCTGCCTTAA
Statistics
Matches: 120, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
136 1 0.01
137 117 0.98
138 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (137 bp):
GCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATCCGCCTTAATCCCCTAAGCAGT
AGGGTAACGCGTTAAATTTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGAGTAA
CAGGTTC
Found at i:44282846 original size:221 final size:221
Alignment explanation
Indices: 44282463--44282982 Score: 907
Period size: 221 Copynumber: 2.4 Consensus size: 221
44282453 AAAATTTAGC
44282463 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
* *
44282528 TGGAGCAGATCGAAGAGTAACAGGTTCGCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATTG
66 TGGAGCAGATCGAAGAGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
* *
44282593 AAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACGGGTTAAATTTGCAGATCTTATCTCCCTAA
131 AAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACGCGTTAAATTTACAGATCTTATCTCCCTAA
44282658 GCAATAGTGGAGCAGATCGAAGACCA
196 GCAATAGTGGAGCAGATCGAAGACCA
* *
44282684 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCTTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
44282749 TGGAGCAGATCGAAGAGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 TGGAGCAGATCGAAGAGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
44282814 AAGA-TCCGCCTTAATCCCCTAAGCAGTAGGGTAACGCGTTAAATTTACAGATCTTATCTCCCTA
131 AAGACT-CGCCTTAATCCCCTAAGCAGTAGGGTAACGCGTTAAATTTACAGATCTTATCTCCCTA
* *
44282878 AGCAATAGTGGAGTAGATCGAAGACCT
195 AGCAATAGTGGAGCAGATCGAAGACCA
* * * *
44282905 GCCTTAATCCCCTAGGCAGTAGGGTGACAGGTTAAATTCGCAGATCTTATCTCCCTAAGTAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
*
44282970 CGGAGCAGATCGA
66 TGGAGCAGATCGA
44282983 TGATGACTTG
Statistics
Matches: 283, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
220 1 0.00
221 282 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (221 bp):
GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGAGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACGCGTTAAATTTACAGATCTTATCTCCCTAA
GCAATAGTGGAGCAGATCGAAGACCA
Found at i:44282874 original size:84 final size:83
Alignment explanation
Indices: 44282776--44283056 Score: 384
Period size: 84 Copynumber: 3.3 Consensus size: 83
44282766 TAACAGGTTC
44282776 GCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATCCGCCTTAATCCCCTAAGCAGT
1 GCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATCCGCCTTAATCCCCTAAGCAGT
44282841 AGGGTAACGCGTTAAATTT
66 AGGGTAACG-GTTAAATTT
* * * *
44282860 ACAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGA-CCTGCCTTAATCCCCTAGGCAG
1 GCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATCC-GCCTTAATCCCCTAAGCAG
* *
44282924 TAGGGTGACAGGTTAAATTC
65 TAGGGTAAC-GGTTAAATTT
* * * *
44282944 GCAGATCTTATCTCCCTAAGTAGTAGCGGAGCAGATCGATGATGACTTGCCTTAATCCCCTAAGC
1 GCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT--C-CGCCTTAATCCCCTAAGC
* *
44283009 AGTAGGGAAACAAGTTAAATTT
63 AGTAGGGTAAC-GGTTAAATTT
44283031 GCAGATCTTATCTCCCTAAGCAGTAG
1 GCAGATCTTATCTCCCTAAGCAGTAG
44283057 GGTAACAGGT
Statistics
Matches: 172, Mismatches: 19, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
83 2 0.01
84 109 0.63
85 1 0.01
87 60 0.35
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (83 bp):
GCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATCCGCCTTAATCCCCTAAGCAGT
AGGGTAACGGTTAAATTT
Found at i:44283929 original size:19 final size:19
Alignment explanation
Indices: 44283905--44283984 Score: 119
Period size: 19 Copynumber: 4.3 Consensus size: 19
44283895 AATCTTTAAG
44283905 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
44283924 GATATGCACTCTTAGATGT
1 GATATGCAATCTTAGATAT
44283943 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
44283962 GATA--CAATTTTAGATAT
1 GATATGCAATCTTAGATAT
44283979 GATATG
1 GATATG
44283985 ATATGATATG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
17 16 0.30
19 38 0.70
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:44286467 original size:36 final size:36
Alignment explanation
Indices: 44286427--44286504 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
44286417 CTCCTAAACA
* * * *
44286427 AGATATC-ATGTCTTTTCAGTCCTAAGCTCCTGAATG
1 AGATATCTA-GTCTTCTCAATCCCAAGATCCTGAATG
*
44286463 AGATATCTAGTCTTCTCAATCCCAAGATCTTGAATG
1 AGATATCTAGTCTTCTCAATCCCAAGATCCTGAATG
44286499 AGATAT
1 AGATAT
44286505 TCAGTTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (36 bp):
AGATATCTAGTCTTCTCAATCCCAAGATCCTGAATG
Found at i:44296342 original size:53 final size:53
Alignment explanation
Indices: 44296274--44296386 Score: 190
Period size: 53 Copynumber: 2.1 Consensus size: 53
44296264 ACCAATCCTT
*
44296274 ACACGCCCGTGTCATACACCTGTGTCAAGCGCGCACTGCCTGATTCGTAGATC
1 ACACACCCGTGTCATACACCTGTGTCAAGCGCGCACTGCCTGATTCGTAGATC
* * *
44296327 ACACACCCGTGTCATACACCTGTGTCACGCGCGCACTGCCTGGTTCGTCGATC
1 ACACACCCGTGTCATACACCTGTGTCAAGCGCGCACTGCCTGATTCGTAGATC
44296380 ACACACC
1 ACACACC
44296387 TGTATACTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.20, C:0.37, G:0.21, T:0.21
Consensus pattern (53 bp):
ACACACCCGTGTCATACACCTGTGTCAAGCGCGCACTGCCTGATTCGTAGATC
Found at i:44318994 original size:28 final size:27
Alignment explanation
Indices: 44318937--44319088 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
44318927 TAAATTGTGC
*
44318937 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
44318964 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
44318992 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
44319019 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
44319047 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
44319074 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44319089 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:44319002 original size:55 final size:55
Alignment explanation
Indices: 44318937--44319088 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
44318927 TAAATTGTGC
*
44318937 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
44318992 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
44319047 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
44319089 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:44341891 original size:9 final size:8
Alignment explanation
Indices: 44341829--44341899 Score: 54
Period size: 9 Copynumber: 8.2 Consensus size: 8
44341819 CTTCTATTTC
44341829 AAAA-AAA
1 AAAAGAAA
*
44341836 AAAAGGAA
1 AAAAGAAA
44341844 AAAAGAAAA
1 AAAAG-AAA
44341853 AAAAGGAAA
1 AAAA-GAAA
*
44341862 TAATAAAAATA
1 -AA-AAGAA-A
*
44341873 AAAATAAA
1 AAAAGAAA
44341881 AAAAGAGAA
1 AAAAGA-AA
44341890 AAAAGAAA
1 AAAAGAAA
44341898 AA
1 AA
44341900 TGGAAAGGCC
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
7 4 0.08
8 17 0.33
9 21 0.40
10 7 0.13
11 3 0.06
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (8 bp):
AAAAGAAA
Found at i:44342924 original size:44 final size:45
Alignment explanation
Indices: 44342783--44342975 Score: 130
Period size: 44 Copynumber: 4.4 Consensus size: 45
44342773 CAAAGAAATA
** *
44342783 AGATTTGGCATCCCTGTATTTATAGGAAAC-AGATCGAAGATAAC
1 AGATTTGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAAC
* * * * * **
44342827 AGATCTGACATTCCTGTGCTTACAGCGAA-ACAGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGCTTATAGGGAACA-AGATCGAAGATAAC
* *
44342872 AGCA--TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAAC
* * * * * *
44342915 AGATTTGGCATCTCTGT-ATTGTCAGAGAGC-AGATCGAAGATACC
1 AGATTTGGCATCCCTGTGCTTAT-AGGGAACAAGATCGAAGATAAC
* *
44342959 AGATTTGACATCTCTGT
1 AGATTTGGCATCCCTGT
44342976 ATTGGCGGAG
Statistics
Matches: 116, Mismatches: 25, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
42 1 0.01
43 15 0.13
44 84 0.72
45 15 0.13
46 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (45 bp):
AGATTTGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAAC
Found at i:44342976 original size:44 final size:44
Alignment explanation
Indices: 44342906--44342998 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
44342896 GGAACAAGTT
* * * *
44342906 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATACCAGATTTGACATCTCTGTATTGGCAGAGAGCAAATC
*
44342950 GAAGATACCAGATTTGACATCTCTGTATTGGCGGAGAGCAAATC
1 GAAGATACCAGATTTGACATCTCTGTATTGGCAGAGAGCAAATC
44342994 GAAGA
1 GAAGA
44342999 CATAGCTGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (44 bp):
GAAGATACCAGATTTGACATCTCTGTATTGGCAGAGAGCAAATC
Found at i:44343349 original size:205 final size:205
Alignment explanation
Indices: 44342985--44343895 Score: 1472
Period size: 205 Copynumber: 4.5 Consensus size: 205
44342975 TATTGGCGGA
* * * *
44342985 GAGCAAATCGAAGACATAGCTGATTTGACTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATTGAAGACATAGCTGATTTGCCTTTCACGTGATTACGCTGAAGCAAATCTAAGATGAT
* * * * *
44343050 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGGACCTCCATTTCGACGGAGAGCAGA
* * * * * *
44343115 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGTAGATCTAAGATGGTTTGGCATCCTTG
131 TACATAGCAGATCTAACCTTTAGATGTTTATACTAAAGTAGATCCAAGATGGTTTGGCATCCTTG
44343180 TGCTTACAAG
196 TGCTTACAAG
* *
44343190 GAGCAAATTGCAGACATTGCTGATTTGCCTTTCACGTGATTACGCTGAAGCAAATCTAAGATGAT
1 GAGCAAATTGAAGACATAGCTGATTTGCCTTTCACGTGATTACGCTGAAGCAAATCTAAGATGAT
44343255 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGGACCTCCATTTCGACGGAGAGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGGACCTCCATTTCGACGGAGAGCAGA
44343320 TACATAGCAGATCTAACCTTTAGATGTTTATACTAAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 TACATAGCAGATCTAACCTTTAGATGTTTATACTAAAGTAGATCCAAGATGGTTTGGCATCCTTG
44343385 TGCTTACAAG
196 TGCTTACAAG
* *
44343395 GAGCAAATTGCAGACATTGCTGATTTGCCTTTCACGTGATTACGCTGAAGCAAATCTAAGATGAT
1 GAGCAAATTGAAGACATAGCTGATTTGCCTTTCACGTGATTACGCTGAAGCAAATCTAAGATGAT
44343460 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGGACCTCCATTTCGACGGAGAGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGGACCTCCATTTCGACGGAGAGCAGA
44343525 TACATAGCAGATCTAACCTTTAGATGTTTATACTAAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 TACATAGCAGATCTAACCTTTAGATGTTTATACTAAAGTAGATCCAAGATGGTTTGGCATCCTTG
44343590 TGCTTACAAG
196 TGCTTACAAG
* * * * * *
44343600 GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAATCAAATCTAAGATGAT
1 GAGCAAATTGAAGACATAGCTGATTTGCCTTTCACGTGATTACGCTGAAGCAAATCTAAGATGAT
44343665 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGGACCTCCATTTCGACGGAGAGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGGACCTCCATTTCGACGGAGAGCAGA
* *
44343730 TACATAGCAGATCTAACCTTTAGATG-----ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTG
131 TACATAGCAGATCTAACCTTTAGATGTTTATACTAAAGTAGATCCAAGATGGTTTGGCATCCTTG
44343790 TGCTTACAAG
196 TGCTTACAAG
* ** * * * *
44343800 GAACAAATTGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACACCGAAGCAAATCTAAGATGAT
1 GAGCAAATTGAAGACATAGCTGATTTGCCTTTCACGTGATTACGCTGAAGCAAATCTAAGATGAT
*
44343865 TTGGCATCTCTGTATTGTTAGAGAACAAATC
66 TTGGCATCTCTGTATTGTCAGAGAACAAATC
44343896 GAAGAAATAG
Statistics
Matches: 671, Mismatches: 35, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
200 130 0.19
205 541 0.81
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (205 bp):
GAGCAAATTGAAGACATAGCTGATTTGCCTTTCACGTGATTACGCTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGGACCTCCATTTCGACGGAGAGCAGA
TACATAGCAGATCTAACCTTTAGATGTTTATACTAAAGTAGATCCAAGATGGTTTGGCATCCTTG
TGCTTACAAG
Found at i:44355394 original size:78 final size:78
Alignment explanation
Indices: 44355283--44355437 Score: 249
Period size: 78 Copynumber: 2.0 Consensus size: 78
44355273 ACATATTAAG
**
44355283 CATCTCGAAACAAAGTCAGAGATGTCTCATTTCATACCATGCCACCAAAACTTACGTTTC-AGAT
1 CATCTCGAAACAAAGTCAGAGATGTCTCATTTCATACCATGCCACCAAAACCGACGTTTCAAG-T
44355347 CATTGTACATTTTA
65 CATTGTACATTTTA
* *
44355361 CATCTCGAAACAAAGTCGGAGATGTCTCGTTTCATACCATGCCACCAAAACCGACGTTTCAAGTC
1 CATCTCGAAACAAAGTCAGAGATGTCTCATTTCATACCATGCCACCAAAACCGACGTTTCAAGTC
*
44355426 GTTGTACATTTT
66 ATTGTACATTTT
44355438 CGTGCTCCCC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 69 0.97
79 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (78 bp):
CATCTCGAAACAAAGTCAGAGATGTCTCATTTCATACCATGCCACCAAAACCGACGTTTCAAGTC
ATTGTACATTTTA
Found at i:44358947 original size:80 final size:80
Alignment explanation
Indices: 44358814--44358973 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
44358804 AGCCGCTACG
44358814 CTCTCAACGTCATCCGCTAAGGTTCTTTCTTCACCGGGGTCCATTTACTAATCAAAACAAAAACA
1 CTCTCAACGTCATCCGCTAAGGTTCTTTCTTCACCGGGGTCCATTTACTAATCAAAACAAAAACA
44358879 TTTCAACCGTCAGAA
66 TTTCAACCGTCAGAA
*
44358894 CTCTCAACGTCATCCGCTAGGGTTCTTTCTTCACCGGGGTCCATTTACTAATCAAAACAAAAACA
1 CTCTCAACGTCATCCGCTAAGGTTCTTTCTTCACCGGGGTCCATTTACTAATCAAAACAAAAACA
44358959 TTTCAACCGTCAGAA
66 TTTCAACCGTCAGAA
44358974 GTCATCACAC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (80 bp):
CTCTCAACGTCATCCGCTAAGGTTCTTTCTTCACCGGGGTCCATTTACTAATCAAAACAAAAACA
TTTCAACCGTCAGAA
Found at i:44359786 original size:28 final size:27
Alignment explanation
Indices: 44359751--44359877 Score: 139
Period size: 28 Copynumber: 4.5 Consensus size: 27
44359741 ATAATAAGCC
*
44359751 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATC-AACT
*
44359779 CGCGCACTTAGTGCTATATAATCATACT
1 CGCACACTTAGTGCTATATAATCA-ACT
44359807 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
* * * *
44359835 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAACT
44359864 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44359878 CAATCTCATG
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.01
28 66 0.76
29 19 0.22
30 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:44359835 original size:56 final size:57
Alignment explanation
Indices: 44359749--44359877 Score: 163
Period size: 56 Copynumber: 2.3 Consensus size: 57
44359739 GTATAATAAG
* * * * *
44359749 CCCGCACACTTAGTGCTTAATAGTCGAACTCGCGCACTTAGTGCTATATAA-TCATA
1 CCCGCACACTTAGTGCTTAATAATCAAACTCGCACACTTAGTGCTATACAATTCAAA
* * *
44359805 CTCGCACACTTAGTGC-TATATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAA
1 CCCGCACACTTAGTGCTTA-ATAATCAAACTCGCACACTTAGTGCTATACAATTCAAA
44359862 CCCGCACACTTAGTGC
1 CCCGCACACTTAGTGC
44359878 CAATCTCATG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
55 2 0.03
56 42 0.68
57 18 0.29
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (57 bp):
CCCGCACACTTAGTGCTTAATAATCAAACTCGCACACTTAGTGCTATACAATTCAAA
Found at i:44368102 original size:14 final size:13
Alignment explanation
Indices: 44368073--44368118 Score: 60
Period size: 12 Copynumber: 3.6 Consensus size: 13
44368063 ATCTATAAAT
44368073 TATATTTTA-TTA
1 TATATTTTATTTA
44368085 TATATTTTATTGTA
1 TATATTTTATT-TA
*
44368099 TATA-TTTCTTTA
1 TATATTTTATTTA
44368111 TATATTTT
1 TATATTTT
44368119 TATAAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 15 0.50
13 9 0.30
14 6 0.20
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (13 bp):
TATATTTTATTTA
Found at i:44368270 original size:13 final size:13
Alignment explanation
Indices: 44368252--44368301 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
44368242 GCATCTTCTC
44368252 TTTTATTATATAT
1 TTTTATTATATAT
*
44368265 TTTTATTATGTAT
1 TTTTATTATATAT
* * *
44368278 GTATATTATTTA-
1 TTTTATTATATAT
44368290 TTTTATTATATA
1 TTTTATTATATA
44368302 AAAATTACTC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 9 0.30
13 21 0.70
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (13 bp):
TTTTATTATATAT
Found at i:44368401 original size:20 final size:17
Alignment explanation
Indices: 44368375--44368423 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 17
44368365 ATGTTTAAAA
44368375 ATTTTATTATATGATATAT
1 ATTTTATTATAT--TATAT
*
44368394 ATTTTTATTATATTATTT
1 A-TTTTATTATATTATAT
44368412 ATTTTATTATAT
1 ATTTTATTATAT
44368424 ATAAAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 11 0.39
18 5 0.18
19 1 0.04
20 11 0.39
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTTTATTATATTATAT
Found at i:44373569 original size:24 final size:24
Alignment explanation
Indices: 44373515--44373562 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
44373505 AGTAGTTGAA
44373515 AGCTCTTAGCACATATATTTTTTT
1 AGCTCTTAGCACATATATTTTTTT
44373539 AGCTCTTAGCACATATATTTTTTT
1 AGCTCTTAGCACATATATTTTTTT
44373563 TCTTCTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (24 bp):
AGCTCTTAGCACATATATTTTTTT
Found at i:44374652 original size:40 final size:40
Alignment explanation
Indices: 44374589--44374941 Score: 327
Period size: 40 Copynumber: 8.8 Consensus size: 40
44374579 CATTTGAATG
* * *
44374589 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTG-CT
* * * * *
44374629 TTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGCT
* * * *
44374669 ATACCCAGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTG-CT
* * * * *
44374709 TTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGCT
* * *
44374749 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTG-CT
* * * * *
44374789 TTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGCT
* * *
44374829 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTG-CT
* * * * *
44374869 TTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGCT
* *
44374909 ATACCCGGGATAAGACCCGAAGGCAATTGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCT
44374942 GGGCTAAGAC
Statistics
Matches: 241, Mismatches: 65, Indels: 14
0.75 0.20 0.04
Matches are distributed among these distances:
39 6 0.02
40 227 0.94
41 8 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGCT
Found at i:44374726 original size:80 final size:80
Alignment explanation
Indices: 44374599--44374941 Score: 668
Period size: 80 Copynumber: 4.3 Consensus size: 80
44374589 ATATCCAGGC
*
44374599 TAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAG
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAG
*
44374664 TTGCTATACCCAGGA
66 TTGCTATACCCGGGA
44374679 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAG
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAG
44374744 TTGCTATACCCGGGA
66 TTGCTATACCCGGGA
44374759 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAG
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAG
44374824 TTGCTATACCCGGGA
66 TTGCTATACCCGGGA
44374839 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAG
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAG
44374904 TTGCTATACCCGGGA
66 TTGCTATACCCGGGA
44374919 TAAGACCCGAAGGCAATTGTGCT
1 TAAGACCCGAAGGCAATTGTGCT
44374942 GGGCTAAGAC
Statistics
Matches: 261, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 261 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCAAAGGCATTTGTGCGAG
TTGCTATACCCGGGA
Found at i:44374990 original size:67 final size:67
Alignment explanation
Indices: 44374875--44375008 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 67
44374865 GATTTTATCC
* *
44374875 GGGCCAAGACCCAAAGGCATTTGTGCGAGTTGCTATACCCGGGATAAGACCCGAAGGCAATTGTG
1 GGGCCAAGACCCAAAGGCATTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGAAATTGTG
44374940 CT
66 CT
* * * * *
44374942 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAGGGAAATTGTG
1 GGGCCAAGACCCAAAGGCATTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGAAATTGTG
44375007 CT
66 CT
44375009 TGTGGTTATA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (67 bp):
GGGCCAAGACCCAAAGGCATTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGAAATTGTG
CT
Found at i:44375019 original size:40 final size:40
Alignment explanation
Indices: 44374942--44375027 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
44374932 CAATTGTGCT
* * *
44374942 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCC
1 GGGCTAAGACCCGAAGGAAATTGTGCGAGTGGATATATCC
* ** *
44374982 GGGCTAAGACCCGAGGGAAATTGTGCTTGTGGTTATATCC
1 GGGCTAAGACCCGAAGGAAATTGTGCGAGTGGATATATCC
44375022 -GGCTAA
1 GGGCTAA
44375028 ATTCCGAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 6 0.15
40 33 0.85
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (40 bp):
GGGCTAAGACCCGAAGGAAATTGTGCGAGTGGATATATCC
Found at i:44377580 original size:25 final size:25
Alignment explanation
Indices: 44377552--44377602 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
44377542 CTATTTCAAA
44377552 AAAAAAG-AAAAGAAAAGAAAAATGG
1 AAAAAAGAAAAAGAAAA-AAAAATGG
* *
44377577 AAAATAGAAAAAGAGAAAAAAATGG
1 AAAAAAGAAAAAGAAAAAAAAATGG
44377602 A
1 A
44377603 GAGGCCAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.06
Consensus pattern (25 bp):
AAAAAAGAAAAAGAAAAAAAAATGG
Found at i:44382420 original size:89 final size:89
Alignment explanation
Indices: 44382180--44383070 Score: 1303
Period size: 89 Copynumber: 10.0 Consensus size: 89
44382170 CGGGAACACC
* * * * * * *
44382180 AATCTGTTATTTTCG-ATCTGCTCTCTGCCAATACAGAGATGCCAAATCTACTGA-CTTCGATCT
1 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCT-ATCTTTGATCT
* * * **
44382243 GC-CCTCTGACAATATAGAGGTGCCA
65 GCTCTTC-GCCAATACAGAGACGCCA
* * * * * * *
44382268 AATCTGCTTTCTTCG-ATCTGCTCTTC-GCCAACAAAGAGACGCCAAATCTGCTATCTTCGATCT
1 AATCTGCTATCTTCGAAACTGCT-TTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCT
* *
44382331 GCTCTCCCCCAATACAGAGACGCCA
65 GCTCTTCGCCAATACAGAGACGCCA
44382356 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
1 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
44382421 CTCTTCGCCAATACAGAGACGCCA
66 CTCTTCGCCAATACAGAGACGCCA
44382445 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
1 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
44382510 CTCTTCGCCAATACAGAGACGCCA
66 CTCTTCGCCAATACAGAGACGCCA
44382534 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
1 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
44382599 CTCTTCGCCAATACAGAGACGCCA
66 CTCTTCGCCAATACAGAGACGCCA
44382623 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
1 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
44382688 CTCTTCGCCAATACAGAGACGCCA
66 CTCTTCGCCAATACAGAGACGCCA
44382712 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
1 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
44382777 CTCTTCGCCAATACAGAGACGCCA
66 CTCTTCGCCAATACAGAGACGCCA
44382801 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
1 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
44382866 CTCTTCGCCAATACAGAGACGCCA
66 CTCTTCGCCAATACAGAGACGCCA
* * * * * * *
44382890 AATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGACGCCAAATTTGCTGTCTTCGATCTA
1 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
* * * *
44382955 TTCTCCGCCAATACAGAAATGCCA
66 CTCTTCGCCAATACAGAGACGCCA
* * * * * *
44382979 AATCTGCTATCTTCG-ATCTGCTCTCCGCCAATACAGAGACT-CCAAATCTACTATCTTCGAATC
1 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGA-TGCCAAATCTGCTATCTTTG-ATC
* * *
44383042 TGCTC-TCTGACAATATAGAGATGCCA
64 TGCTCTTC-GCCAATACAGAGACGCCA
44383068 AAT
1 AAT
44383071 TTGCAGGATT
Statistics
Matches: 748, Mismatches: 47, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
87 1 0.00
88 120 0.16
89 627 0.84
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (89 bp):
AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
CTCTTCGCCAATACAGAGACGCCA
Found at i:44382536 original size:178 final size:178
Alignment explanation
Indices: 44382180--44383495 Score: 1583
Period size: 178 Copynumber: 7.3 Consensus size: 178
44382170 CGGGAACACC
* * * * *
44382180 AATCTGTTATTTTCG-ATCTGCTCTCTGCCAATACAGAGATGCCAAATCTACTGA-CTTCGATCT
1 AATCTGCTATCTTCGAAACTGCTCTCTGACAATACAGAGATGCCAAATCTGCT-ATCTTCGATCT
* * * ** * * * * *
44382243 GC-CCTCTGACAATATAGAGGTGCCAAATCTGCTTTCTTCG-ATCTGCTCTTC-GCCAACAAAGA
65 GCTCTTC-GCCAATACAGAGACGCCAAATCTGCTATCTTCGAAACTGCT-TTCTGACAATACAGA
* * * *
44382305 GACGCCAAATCTGCTATCTTCGATCTGCTCTCCCCCAATACAGAGACGCCA
128 GATGCCAAATCTGCTATCTTTGATCTGCTCTTCGCCAATACAGAGACGCCA
* *
44382356 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
1 AATCTGCTATCTTCGAAACTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTG
44382421 CTCTTCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGAT
66 CTCTTCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGAT
44382486 GCCAAATCTGCTATCTTTGATCTGCTCTTCGCCAATACAGAGACGCCA
131 GCCAAATCTGCTATCTTTGATCTGCTCTTCGCCAATACAGAGACGCCA
* *
44382534 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
1 AATCTGCTATCTTCGAAACTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTG
44382599 CTCTTCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGAT
66 CTCTTCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGAT
44382664 GCCAAATCTGCTATCTTTGATCTGCTCTTCGCCAATACAGAGACGCCA
131 GCCAAATCTGCTATCTTTGATCTGCTCTTCGCCAATACAGAGACGCCA
* *
44382712 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
1 AATCTGCTATCTTCGAAACTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTG
44382777 CTCTTCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGAT
66 CTCTTCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGAT
44382842 GCCAAATCTGCTATCTTTGATCTGCTCTTCGCCAATACAGAGACGCCA
131 GCCAAATCTGCTATCTTTGATCTGCTCTTCGCCAATACAGAGACGCCA
* * * * *
44382890 AATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGACGCCAAATTTGCTGTCTTCGATCTA
1 AATCTGCTATCTTCGAAACTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTG
* * * * * * * *
44382955 TTCTCCGCCAATACAGAAATGCCAAATCTGCTATCTTCG-ATCTGCTCTCCGCCAATACAGAGAC
66 CTCTTCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGA-
* * * * *
44383019 T-CCAAATCTACTATCTTCGAATCTGCTC-TCTGACAATATAGAGATGCCA
130 TGCCAAATCTGCTATCTTTG-ATCTGCTCTTC-GCCAATACAGAGACGCCA
* * * * ** * * * *
44383068 AATTTGCAGGATTTTCCAATGTCGCTACACTGTCTTCTAAAGACATGAGACAAT-ACAGAGATAC
1 AATCTGC--TATCTTCGAAACT-GCT-CTCTG---AC--AATACA-GAG---ATGCCA-A-AT--
** * * * *
44383132 CAAATCTGCTTTCTTCGATCTGCTCTCCACCAACACAGAGACGCCAAATCTGCTATCTTCGAAAC
49 C--TGCT---ATCTTCGATCTGCTCTTCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAAAC
44383197 TGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTTCGCCAATACAGAGA
109 TGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTTCGCCAATACAGAGA
44383262 CGCCA
174 CGCCA
* * * * *
44383267 AATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGACGCCAAATTTGCTGTCTTCGATCTA
1 AATCTGCTATCTTCGAAACTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTG
* * * * * * * *
44383332 TTCTCCGCCAATACAGAAATGCCAAATCTGCTATCTTCG-ATCTGCTCTCCGCCAATACAGAGAT
66 CTCTTCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGAT
* *
44383396 GCCAAATCTGCTATCTTTGATCTACTC-TCTGCCAATATAGAGACGCCA
131 GCCAAATCTGCTATCTTTGATCTGCTCTTC-GCCAATACAGAGACGCCA
* * * * *
44383444 AATTTGCTATCTTCGAATCTACTCTCTGACAATTCAGAGATGCAAAATCTGC
1 AATCTGCTATCTTCGAAACTGCTCTCTGACAATACAGAGATGCCAAATCTGC
44383496 AGGATTTGCC
Statistics
Matches: 1003, Mismatches: 102, Indels: 69
0.85 0.09 0.06
Matches are distributed among these distances:
176 16 0.02
177 222 0.22
178 587 0.59
180 9 0.01
181 5 0.00
182 4 0.00
185 3 0.00
186 2 0.00
187 7 0.01
188 3 0.00
189 3 0.00
190 7 0.01
191 2 0.00
192 3 0.00
195 4 0.00
196 5 0.00
197 9 0.01
199 74 0.07
200 38 0.04
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (178 bp):
AATCTGCTATCTTCGAAACTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTG
CTCTTCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGAT
GCCAAATCTGCTATCTTTGATCTGCTCTTCGCCAATACAGAGACGCCA
Found at i:44383172 original size:44 final size:44
Alignment explanation
Indices: 44383118--44383495 Score: 441
Period size: 44 Copynumber: 8.5 Consensus size: 44
44383108 AGACATGAGA
** * *
44383118 CAATACAGAGATACCAAATCTGCTTTCTTCGATCTGCTCTCCAC
1 CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGC
* * * * *
44383162 CAACACAGAGACGCCAAATCTGCTATCTTCGAAACTGCTTTCTGA
1 CAATACAGAGACGCCAAATCTGCTATCTTCG-ATCTGCTCTCCGC
* * *
44383207 CAATACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTTCGC
1 CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGC
* *
44383251 CAATACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGA
1 CAATACAGAGACGCCAAATCTGCTATCTTCG-ATCTGCTCTCCGC
* * **
44383296 CAATACAGAGACGCCAAATTTGCTGTCTTCGATCTATTCTCCGC
1 CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGC
* *
44383340 CAATACAGAAATGCCAAATCTGCTATCTTCGATCTGCTCTCCGC
1 CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGC
* * * *
44383384 CAATACAGAGATGCCAAATCTGCTATCTTTGATCTACTCTCTGC
1 CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGC
* * * * *
44383428 CAATATAGAGACGCCAAATTTGCTATCTTCGAATCTACTCTCTGA
1 CAATACAGAGACGCCAAATCTGCTATCTTCG-ATCTGCTCTCCGC
* * *
44383473 CAATTCAGAGATGCAAAATCTGC
1 CAATACAGAGACGCCAAATCTGC
44383496 AGGATTTGCC
Statistics
Matches: 283, Mismatches: 48, Indels: 5
0.84 0.14 0.01
Matches are distributed among these distances:
44 178 0.63
45 105 0.37
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (44 bp):
CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGC
Found at i:44383267 original size:89 final size:89
Alignment explanation
Indices: 44383116--44383495 Score: 528
Period size: 89 Copynumber: 4.3 Consensus size: 89
44383106 AAAGACATGA
* * * * *
44383116 GACAATACAGAGATACCAAATCTGCTTTCTTCGATCTGCTCTCCACCAACACAGAGACGCCAAAT
1 GACAATACAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGACGCCAAAT
* *
44383181 CTGCTATCTTCGAAACTGCTTTCT
66 CTGCTATCTTCGAATCTGCTCTCT
* * *
44383205 GACAATACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTTCGCCAATACAGAGACGCCAAAT
1 GACAATACAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGACGCCAAAT
44383270 CTGCTATCTTCGAATCTGCTCTCT
66 CTGCTATCTTCGAATCTGCTCTCT
* * * * * *
44383294 GACAATACAGAGACGCCAAATTTGCTGTCTTCGATCTATTCTCCGCCAATACAGAAATGCCAAAT
1 GACAATACAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGACGCCAAAT
*
44383359 CTGCTATCTTCG-ATCTGCTCTCC
66 CTGCTATCTTCGAATCTGCTCTCT
* * * *
44383382 GCCAATACAGAGATGCCAAATCTGCTATCTTTGATCTACTCTCTGCCAATATAGAGACGCCAAAT
1 GACAATACAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGACGCCAAAT
* *
44383447 TTGCTATCTTCGAATCTACTCTCT
66 CTGCTATCTTCGAATCTGCTCTCT
* *
44383471 GACAATTCAGAGATGCAAAATCTGC
1 GACAATACAGAGATGCCAAATCTGC
44383496 AGGATTTGCC
Statistics
Matches: 256, Mismatches: 34, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
88 76 0.30
89 180 0.70
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (89 bp):
GACAATACAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGACGCCAAAT
CTGCTATCTTCGAATCTGCTCTCT
Found at i:44383314 original size:244 final size:244
Alignment explanation
Indices: 44382874--44383318 Score: 680
Period size: 244 Copynumber: 1.8 Consensus size: 244
44382864 TGCTCTTCGC
* * * *
44382874 CAATACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGACGCCAAATT
1 CAATACAGAGACACCAAATCTGCTATCTTCGAATCTGCTCTCTCACAACACAGAGACGCCAAATC
* * *
44382939 TGCTGTCTTCGATCTATTCTCCGCCAATACAGAAATGCCAAATCTGCTATCTTCGATCTGCTCTC
66 TGCTATCTTCGAACTATTCTCCGACAATACAGAAATGCCAAATCTGCTATCTTCGATCTGCTCTC
* * *
44383004 CGCCAATACAGAGACTCCAAATCTACTATCTTCGAATCTGCTCTCTGACAATATAGAGATGCCAA
131 CGCCAATACAGAGACGCCAAATCTACTATCTTCGAATCTGCTCTCTGACAATACAGAGACGCCAA
44383069 ATTTGCAGGATTTTCCAATGTCGCTACACTGTCTTCTAAAGACATGAGA
196 ATTTGCAGGATTTTCCAATGTCGCTACACTGTCTTCTAAAGACATGAGA
* *
44383118 CAATACAGAGATACCAAATCTGCTTTCTTCG-ATCTGCTCTC-CACCAACACAGAGACGCCAAAT
1 CAATACAGAGACACCAAATCTGCTATCTTCGAATCTGCTCTCTCA-CAACACAGAGACGCCAAAT
* * * *
44383181 CTGCTATCTTCGAAACTGCTT-TCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTGCT
65 CTGCTATCTTCG-AACT-ATTCTCCGACAATACAGAAATGCCAAATCTGCTATCTTCGATCTGCT
* *
44383245 CTTCGCCAATACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGACGC
128 CTCCGCCAATACAGAGACGCCAAATCTACTATCTTCGAATCTGCTCTCTGACAATACAGAGACGC
44383310 CAAATTTGC
193 CAAATTTGC
44383319 TGTCTTCGAT
Statistics
Matches: 180, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
242 1 0.01
243 38 0.21
244 139 0.77
245 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (244 bp):
CAATACAGAGACACCAAATCTGCTATCTTCGAATCTGCTCTCTCACAACACAGAGACGCCAAATC
TGCTATCTTCGAACTATTCTCCGACAATACAGAAATGCCAAATCTGCTATCTTCGATCTGCTCTC
CGCCAATACAGAGACGCCAAATCTACTATCTTCGAATCTGCTCTCTGACAATACAGAGACGCCAA
ATTTGCAGGATTTTCCAATGTCGCTACACTGTCTTCTAAAGACATGAGA
Found at i:44395587 original size:131 final size:133
Alignment explanation
Indices: 44395447--44395686 Score: 367
Period size: 131 Copynumber: 1.8 Consensus size: 133
44395437 ATCATGAAGG
* * *
44395447 GATACTCGATTATTTTGAGCAAACGCAAAATTGTAACCCAACACGTTAGGGCTCGATTCCGTGAA
1 GATACTCGATTATTTTGAGCAAAAGCAAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAA
* * * *
44395512 TTACTAAATATCGAATGTCG-TCTTCGTTTGGGAGAA-TTTTAACAAACATGAATGAAATTTCAA
66 TTACCAAACATCGAATCTCGTTCTTCGTTTGGAAGAACTTTTAACAAACATGAATGAAATTTCAA
44395575 AGC
131 AGC
* *
44395578 GATATTCGATTATTTTGAGCAAAAGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAA
1 GATACTCGATTATTTTGAGCAAAAGCAAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAA
* *
44395643 TTACCAAACATCGAATCTCGTTTTTCGTTTTGAAGAACTTTTAA
66 TTACCAAACATCGAATCTCGTTCTTCGTTTGGAAGAACTTTTAA
44395687 AAGAATACTT
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
131 77 0.80
132 13 0.14
133 6 0.06
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (133 bp):
GATACTCGATTATTTTGAGCAAAAGCAAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAA
TTACCAAACATCGAATCTCGTTCTTCGTTTGGAAGAACTTTTAACAAACATGAATGAAATTTCAA
AGC
Found at i:44396617 original size:131 final size:132
Alignment explanation
Indices: 44396472--44396731 Score: 486
Period size: 132 Copynumber: 2.0 Consensus size: 132
44396462 CTAAATTAAT
* * *
44396472 TTTATTATAAACTACATAATAGTTTTACGAACGTGCTCATATATATATATATA-AAAACTACGGG
1 TTTATTATAAACTACATAATAGTTTTACAAACGTGCTCATATATATATATAAAGAAAACTACGAG
44396536 TATAAATACATAGATTTAGTAACATATATATATAAATAGATTAAGCATAGGTGTTAATAAAAAAC
66 TATAAATACATAGATTTAGTAACATATATATATAAATAGATTAAGCATAGGTGTTAATAAAAAAC
44396601 AC
131 AC
44396603 TTTATTATAAACTACATAATAGTTTTACAAACGTGCTCATATATATATATAAAGAAAACTACGAG
1 TTTATTATAAACTACATAATAGTTTTACAAACGTGCTCATATATATATATAAAGAAAACTACGAG
44396668 TATAAATACATAGATTTAGTAACATATATATATAAATAGATTAAGCATAGGTGTTAATAAAAAA
66 TATAAATACATAGATTTAGTAACATATATATATAAATAGATTAAGCATAGGTGTTAATAAAAAA
44396732 AACACATATA
Statistics
Matches: 125, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
131 51 0.41
132 74 0.59
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.33
Consensus pattern (132 bp):
TTTATTATAAACTACATAATAGTTTTACAAACGTGCTCATATATATATATAAAGAAAACTACGAG
TATAAATACATAGATTTAGTAACATATATATATAAATAGATTAAGCATAGGTGTTAATAAAAAAC
AC
Found at i:44398935 original size:45 final size:45
Alignment explanation
Indices: 44398826--44398936 Score: 111
Period size: 45 Copynumber: 2.5 Consensus size: 45
44398816 CCCTGTGCTT
44398826 ATAGGGAACA-AGTTGAAGATAGAAGATCTTATCTCTCTGAAATAG
1 ATAGGGAACAGA-TTGAAGATAGAAGATCTTATCTCTCTGAAATAG
* * ** * * *
44398871 A-CGGAGAGCAGATCCAAGAT-GATAGATCTTATCTCTCTGTATTCG
1 ATAGG-GAACAGATTGAAGATAGA-AGATCTTATCTCTCTGAAATAG
44398916 ATAGGGAACAGATTGAAGATA
1 ATAGGGAACAGATTGAAGATA
44398937 TAATAGATCT
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
44 4 0.08
45 43 0.86
46 3 0.06
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (45 bp):
ATAGGGAACAGATTGAAGATAGAAGATCTTATCTCTCTGAAATAG
Found at i:44399153 original size:45 final size:45
Alignment explanation
Indices: 44399089--44399401 Score: 241
Period size: 45 Copynumber: 7.1 Consensus size: 45
44399079 GAACAAGTTG
* * *
44399089 AAGATAGA-AGATCTTATCTCTCTGAAATAGACGGAGAGCAGATCC
1 AAGAT-GACAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCC
* * * ** * **
44399134 AAGATGATAGATCTTATCTCTCTGTATTCGATAGGGAACAGATTG
1 AAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCC
* ** * * *
44399179 AAGAT-ATA-AT-AGATCTGAC-CT-TCAT---CGGGGGGCAGATCT
1 AAGATGACAGATCTTATCT--CTCTGTAATGGACGGGGAGCAGATCC
* * *
44399218 AAGATGACAGATCTTATCTCTCTGTAATGGATGGGGAGTAGATAC
1 AAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCC
* *
44399263 AAGATGACAGATCGTATCTCTCCT-TAATGGACGGGGAGTAGATCC
1 AAGATGACAGATCTTATCTCT-CTGTAATGGACGGGGAGCAGATCC
* * * *
44399308 AAGATGAGAGATCTTATCTCTCTATAATGGATGGGGAGTAGATCC
1 AAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCC
** * * *
44399353 AAGATGACAGATCTTATCTCTCTGTGTTCGATGGGGAGCAGATCG
1 AAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCC
44399398 AAGA
1 AAGA
44399402 CGTAGCAGAT
Statistics
Matches: 214, Mismatches: 41, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
39 13 0.06
40 3 0.01
41 4 0.02
42 13 0.06
43 4 0.02
44 8 0.04
45 167 0.78
46 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (45 bp):
AAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCC
Found at i:44399160 original size:248 final size:248
Alignment explanation
Indices: 44398722--44399218 Score: 994
Period size: 248 Copynumber: 2.0 Consensus size: 248
44398712 CTCATTTCAA
44398722 ACATAGCATCCTAATCATTAGGCATAGGCACATACACATTCTACAGTTTATGTCCTCTAGGGGAC
1 ACATAGCATCCTAATCATTAGGCATAGGCACATACACATTCTACAGTTTATGTCCTCTAGGGGAC
44398787 AAAGAAGATTGAATATTTCAACATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGAAGA
66 AAAGAAGATTGAATATTTCAACATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGAAGA
44398852 TCTTATCTCTCTGAAATAGACGGAGAGCAGATCCAAGATGATAGATCTTATCTCTCTGTATTCGA
131 TCTTATCTCTCTGAAATAGACGGAGAGCAGATCCAAGATGATAGATCTTATCTCTCTGTATTCGA
44398917 TAGGGAACAGATTGAAGATATAATAGATCTGACCTTCATCGGGGGGCAGATCT
196 TAGGGAACAGATTGAAGATATAATAGATCTGACCTTCATCGGGGGGCAGATCT
44398970 ACATAGCATCCTAATCATTAGGCATAGGCACATACACATTCTACAGTTTATGTCCTCTAGGGGAC
1 ACATAGCATCCTAATCATTAGGCATAGGCACATACACATTCTACAGTTTATGTCCTCTAGGGGAC
44399035 AAAGAAGATTGAATATTTCAACATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGAAGA
66 AAAGAAGATTGAATATTTCAACATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGAAGA
44399100 TCTTATCTCTCTGAAATAGACGGAGAGCAGATCCAAGATGATAGATCTTATCTCTCTGTATTCGA
131 TCTTATCTCTCTGAAATAGACGGAGAGCAGATCCAAGATGATAGATCTTATCTCTCTGTATTCGA
44399165 TAGGGAACAGATTGAAGATATAATAGATCTGACCTTCATCGGGGGGCAGATCT
196 TAGGGAACAGATTGAAGATATAATAGATCTGACCTTCATCGGGGGGCAGATCT
44399218 A
1 A
44399219 AGATGACAGA
Statistics
Matches: 249, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
248 249 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (248 bp):
ACATAGCATCCTAATCATTAGGCATAGGCACATACACATTCTACAGTTTATGTCCTCTAGGGGAC
AAAGAAGATTGAATATTTCAACATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGAAGA
TCTTATCTCTCTGAAATAGACGGAGAGCAGATCCAAGATGATAGATCTTATCTCTCTGTATTCGA
TAGGGAACAGATTGAAGATATAATAGATCTGACCTTCATCGGGGGGCAGATCT
Found at i:44399389 original size:90 final size:90
Alignment explanation
Indices: 44399118--44399401 Score: 276
Period size: 90 Copynumber: 3.2 Consensus size: 90
44399108 CTCTGAAATA
* * * * * * ** **
44399118 GACGGAGAGCAGATCCAAGATGATAGATCTTATCTCTCTGTATTCGATAGGGAACAGATTGAAGA
1 GACGGGGAGCAGATCCAAGATGACAGATCTTATCTCTCTATAATGGATGGGGAGTAGATACAAGA
* * ** *
44399183 T-ATA-ATAG-ATCTGACCTTCATC
66 TGACAGATCGTATCTCTCCTTAATC
* *
44399205 G--GGGG-GCAGATCTAAGATGACAGATCTTATCTCTCTGTAATGGATGGGGAGTAGATACAAGA
1 GACGGGGAGCAGATCCAAGATGACAGATCTTATCTCTCTATAATGGATGGGGAGTAGATACAAGA
*
44399267 TGACAGATCGTATCTCTCCTTAATG
66 TGACAGATCGTATCTCTCCTTAATC
* * *
44399292 GACGGGGAGTAGATCCAAGATGAGAGATCTTATCTCTCTATAATGGATGGGGAGTAGATCCAAGA
1 GACGGGGAGCAGATCCAAGATGACAGATCTTATCTCTCTATAATGGATGGGGAGTAGATACAAGA
* **
44399357 TGACAGATCTTATCTCT-CTGTGTTC
66 TGACAGATCGTATCTCTCCT-TAATC
* *
44399382 GATGGGGAGCAGATCGAAGA
1 GACGGGGAGCAGATCCAAGA
44399402 CGTAGCAGAT
Statistics
Matches: 162, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
84 49 0.30
85 5 0.03
86 3 0.02
87 12 0.07
89 6 0.04
90 87 0.54
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (90 bp):
GACGGGGAGCAGATCCAAGATGACAGATCTTATCTCTCTATAATGGATGGGGAGTAGATACAAGA
TGACAGATCGTATCTCTCCTTAATC
Found at i:44399458 original size:78 final size:82
Alignment explanation
Indices: 44399371--44399743 Score: 421
Period size: 88 Copynumber: 4.4 Consensus size: 82
44399361 AGATCTTATC
* * * * * *
44399371 TCTCTGTGTTCGATGGGGAGCAGATCGAAGACGTAGCAGATTTGA-C-C-TT-CATTGAGGCAGA
1 TCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGATCACGTTACATTGAAGCAAA
* *
44399432 TCCAAGACGATTTGGCA
66 TCTAAGATGATTTGGCA
*
44399449 TCTCTGTGTTCGACGGAGAGCGGATCGAAGACATAGCTGATTTGACTTTCACGTGTTTACATTGA
1 TCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGA---TCAC--G-TTACATTGA
44399514 AGCAAATCTAAGATGATTTGGCA
60 AGCAAATCTAAGATGATTTGGCA
*
44399537 TCTCTGTGTTCGACGGAGAGCGGATCGAAGACATAGCTGATTTGACTTTCACGTGTTTACATTGA
1 TCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGA---TCAC--G-TTACATTGA
44399602 AGCAAATCTAAGATGATTTGGCA
60 AGCAAATCTAAGATGATTTGGCA
* *
44399625 TCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 TCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGCTGATTT-G--ATCAC--G-TTACATTGA
*
44399690 AGCAAATCTAAGATGATTTGGTA
60 AGCAAATCTAAGATGATTTGGCA
* *
44399713 TCTCTGTGTTCGATGGAGAGCCGATCGAAGA
1 TCTCTGTGTTCGACGGAGAGCAGATCGAAGA
44399744 TATCGACATG
Statistics
Matches: 267, Mismatches: 15, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
78 40 0.15
82 1 0.00
83 1 0.00
87 2 0.01
88 222 0.83
89 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (82 bp):
TCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGATCACGTTACATTGAAGCAAA
TCTAAGATGATTTGGCA
Found at i:44399546 original size:41 final size:41
Alignment explanation
Indices: 44399501--44399722 Score: 96
Period size: 41 Copynumber: 5.1 Consensus size: 41
44399491 TGACTTTCAC
44399501 GTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCT
1 GTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCT
** ** * * * *
44399542 GTG-TT-CGACGGAGAGCGGATCGAAGACATAGCTGATTTGAC-TTTCAC
1 GTGTTTAC-ATTGA-AGCAAATCTAAG----A--TGATTTGGCATCTC-T
44399589 GTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCT
1 GTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCT
** * * * *
44399630 GTG-TT-CGACGGAGAGCAGATCGAAGACATAGCTGATTTGGC-TTTCAC
1 GTGTTTAC-ATTGA-AGCAAATCTAAG----A--TGATTTGGCATCTC-T
* *
44399677 GTGTTTACGTTGAAGCAAATCTAAGATGATTTGGTATCTCT
1 GTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCT
44399718 GTGTT
1 GTGTT
44399723 CGATGGAGAG
Statistics
Matches: 127, Mismatches: 30, Indels: 48
0.62 0.15 0.23
Matches are distributed among these distances:
39 2 0.02
40 10 0.08
41 46 0.36
42 6 0.05
43 2 0.02
45 2 0.02
46 6 0.05
47 42 0.33
48 9 0.07
49 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
GTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCT
Found at i:44399569 original size:88 final size:88
Alignment explanation
Indices: 44399420--44399743 Score: 558
Period size: 88 Copynumber: 3.7 Consensus size: 88
44399410 ATTTGACCTT
* * * *
44399420 CATTGAGGCAGATCCAAGACGATTTGGCATCTCTGTGTTCGACGGAGAGCGGATCGAAGACATAG
1 CATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCGGATCGAAGACATAG
44399485 CTGATTTGACTTTCACGTGTTTA
66 CTGATTTGACTTTCACGTGTTTA
44399508 CATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCGGATCGAAGACATAG
1 CATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCGGATCGAAGACATAG
44399573 CTGATTTGACTTTCACGTGTTTA
66 CTGATTTGACTTTCACGTGTTTA
*
44399596 CATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAG
1 CATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCGGATCGAAGACATAG
*
44399661 CTGATTTGGCTTTCACGTGTTTA
66 CTGATTTGACTTTCACGTGTTTA
* * * *
44399684 CGTTGAAGCAAATCTAAGATGATTTGGTATCTCTGTGTTCGATGGAGAGCCGATCGAAGA
1 CATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCGGATCGAAGA
44399744 TATCGACATG
Statistics
Matches: 226, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 226 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (88 bp):
CATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCGGATCGAAGACATAG
CTGATTTGACTTTCACGTGTTTA
Found at i:44401331 original size:17 final size:17
Alignment explanation
Indices: 44401253--44401384 Score: 101
Period size: 17 Copynumber: 7.8 Consensus size: 17
44401243 ATAATAGTTA
44401253 TATATATTAT-TTTTAT
1 TATATATTATATTTTAT
** * *
44401269 TATCCATTACATTTTTT
1 TATATATTATATTTTAT
*
44401286 TAT-TA-TATATCTTAT
1 TATATATTATATTTTAT
*
44401301 CTATAAATTATATTTTAT
1 -TATATATTATATTTTAT
*
44401319 TATATATTTTATTTTAT
1 TATATATTATATTTTAT
* *
44401336 ATATTTCTTTATATTTT-T
1 -TATAT-ATTATATTTTAT
* *
44401354 TATAAATTATATATTAT
1 TATATATTATATTTTAT
*
44401371 TATATATTAAATTT
1 TATATATTATATTT
44401385 ATAAATGGTA
Statistics
Matches: 87, Mismatches: 22, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
15 7 0.08
16 19 0.22
17 39 0.45
18 14 0.16
19 8 0.09
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATATTATATTTTAT
Found at i:44401337 original size:14 final size:12
Alignment explanation
Indices: 44401309--44401378 Score: 61
Period size: 12 Copynumber: 5.5 Consensus size: 12
44401299 ATCTATAAAT
44401309 TATATTTTATTA
1 TATATTTTATTA
44401321 TATATTTTATTTTA
1 TATATTTTA--TTA
44401335 TATATTTCT-TTA
1 TATATTT-TATTA
* *
44401347 TATTTTTTATAAA
1 TATATTTTAT-TA
*
44401360 TTATATATTATTA
1 -TATATTTTATTA
44401373 TATATT
1 TATATT
44401379 AAATTTATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
11 1 0.02
12 24 0.52
13 2 0.04
14 18 0.39
15 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:44401340 original size:26 final size:27
Alignment explanation
Indices: 44401283--44401378 Score: 76
Period size: 26 Copynumber: 3.5 Consensus size: 27
44401273 CATTACATTT
*
44401283 TTTTATTATATATCTTATCTATAAAT-TATA
1 TTTTATTATATA--TT-T-TATAATTATATA
*
44401313 TTTTATTATATATTTTAT-TTTATATA
1 TTTTATTATATATTTTATAATTATATA
*
44401339 TTTCT-TTATATTTTTTATAAATTATATA
1 TTT-TATTATATATTTTAT-AATTATATA
44401367 --TTATTATATATT
1 TTTTATTATATATT
44401379 AAATTTATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
25 2 0.04
26 31 0.55
27 2 0.04
28 9 0.16
30 12 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTTATTATATATTTTATAATTATATA
Found at i:44401505 original size:13 final size:13
Alignment explanation
Indices: 44401487--44401536 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
44401477 ACATCTTCTC
44401487 TTTTATTATATAT
1 TTTTATTATATAT
*
44401500 TTTTATTATGTAT
1 TTTTATTATATAT
* * *
44401513 GTATATTATTTA-
1 TTTTATTATATAT
44401525 TTTTATTATATA
1 TTTTATTATATA
44401537 AAAATTACTC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 9 0.30
13 21 0.70
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (13 bp):
TTTTATTATATAT
Found at i:44401636 original size:20 final size:17
Alignment explanation
Indices: 44401610--44401658 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 17
44401600 ATGTTTAAAA
44401610 ATTTTATTATATGATATAT
1 ATTTTATTATAT--TATAT
*
44401629 ATTTTTATTATATTATTT
1 A-TTTTATTATATTATAT
44401647 ATTTTATTATAT
1 ATTTTATTATAT
44401659 ATTAAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 11 0.39
18 5 0.18
19 1 0.04
20 11 0.39
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTTTATTATATTATAT
Found at i:44401649 original size:12 final size:12
Alignment explanation
Indices: 44401626--44401680 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
44401616 TTATATGATA
44401626 TATATT-TTTAT
1 TATATTATTTAT
44401637 TATATTATTTAT
1 TATATTATTTAT
* *
44401649 TTTATTATATAT
1 TATATTATTTAT
* *
44401661 TA-AATATTTGT
1 TATATTATTTAT
*
44401672 TACATTATT
1 TATATTATT
44401681 ATCATTATAC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
11 14 0.40
12 21 0.60
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:44401816 original size:17 final size:16
Alignment explanation
Indices: 44401791--44401829 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
44401781 ATATATATTA
44401791 TTATATATTTTATTTAT
1 TTATATATTTTATTT-T
* *
44401808 TTATCTATTTTGTTTT
1 TTATATATTTTATTTT
44401824 TTATAT
1 TTATAT
44401830 GTTATATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (16 bp):
TTATATATTTTATTTT
Found at i:44402281 original size:21 final size:20
Alignment explanation
Indices: 44402239--44402289 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
44402229 CTTACTTATT
44402239 CATTTTTAATGTATGTCGTA
1 CATTTTTAATGTATGTCGTA
* **
44402259 CATTTTTGTATGTATGTTTTA
1 CATTTTT-AATGTATGTCGTA
44402280 CATGTTTTAA
1 CAT-TTTTAA
44402290 GTTTGCCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.55
Consensus pattern (20 bp):
CATTTTTAATGTATGTCGTA
Found at i:44405215 original size:318 final size:318
Alignment explanation
Indices: 44404615--44405219 Score: 816
Period size: 318 Copynumber: 1.9 Consensus size: 318
44404605 TTATGAATGG
* * * *
44404615 TAAAATAATTTTTCCAAAATTGTGATTCCTAGAAAATAAAATGTTATTTATTATTTTCTCGTGCA
1 TAAAATAATTTTGCCAAAATTATGATTCCTAGAAAATAAAACGTAATTTATTATTTTCTCGTGCA
* *
44404680 TGTATATTTTAGATCATGGACTATCATCTCTTCGTAGGGTTTTAATTTTATTATTTGAGAATAAA
66 TGTAAATTTTAGATCATGGACTATCATCTCCTCGTAGGGTTTTAATTTTATTATTTGAGAATAAA
* * * * * *
44404745 ATGAGCCAAAAATAGACATAAGAATTTTGTGATATTATTTTTCGACGAAACTCAAAGAACTGAGA
131 ATGAGCCAAAAACAGACATAAGAATTTTGTAATATTATTTTTCAACGAAACCCAAAGAACCGAAA
* ** ** * * * *
44404810 CGTATCCAAACAGATCGAGATGACGCAAACCCAGTCCTACCAAACTGACAAGTGACCGAGAGTGG
196 CGCATCCAAACAGATCGAGACCACGCAAACCCAACCCTACCAAACTAACAAGTGACCAACAATGG
*
44404875 TCAGGCAGTAAGAGGCTGGCGGTGGTCCGACTGTGGCTAGTAGCGACAACACATATAT
261 TCAGACAGTAAGAGGCTGGCGGTGGTCCGACTGTGGCTAGTAGCGACAACACATATAT
** * *
44404933 TAAAATAATTTTGCCAAAATTATGATTTTTAGAAAATTAAACGTAATTTATTATTTTTTCAG-GC
1 TAAAATAATTTTGCCAAAATTATGATTCCTAGAAAATAAAACGTAATTTATTATTTTCTC-GTGC
*
44404997 ATGTAAATTTTAGATCGTGGACTATCATCTCCTCGTAGGGTTTTAATTTTATTATTTGAGAATAA
65 ATGTAAATTTTAGATCATGGACTATCATCTCCTCGTAGGGTTTTAATTTTATTATTTGAGAATAA
** * * *
44405062 AATGAGTTAGAAACAGACATAAGAATTTTGTAATATTATTTTTTAACGAAACCCAAATAACCGAA
130 AATGAGCCAAAAACAGACATAAGAATTTTGTAATATTATTTTTCAACGAAACCCAAAGAACCGAA
* * * * * *
44405127 ATGCATCCAAACATATCGAGACCATGCAAACGCAACCCTGCCAAGCTAACAAGTGACCAACAATG
195 ACGCATCCAAACAGATCGAGACCACGCAAACCCAACCCTACCAAACTAACAAGTGACCAACAATG
* * * *
44405192 GTCTGACAGTAGGTGGTTGGCGGTGGTC
260 GTCAGACAGTAAGAGGCTGGCGGTGGTC
44405220 TGACGGTAGG
Statistics
Matches: 244, Mismatches: 42, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
318 243 1.00
319 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (318 bp):
TAAAATAATTTTGCCAAAATTATGATTCCTAGAAAATAAAACGTAATTTATTATTTTCTCGTGCA
TGTAAATTTTAGATCATGGACTATCATCTCCTCGTAGGGTTTTAATTTTATTATTTGAGAATAAA
ATGAGCCAAAAACAGACATAAGAATTTTGTAATATTATTTTTCAACGAAACCCAAAGAACCGAAA
CGCATCCAAACAGATCGAGACCACGCAAACCCAACCCTACCAAACTAACAAGTGACCAACAATGG
TCAGACAGTAAGAGGCTGGCGGTGGTCCGACTGTGGCTAGTAGCGACAACACATATAT
Found at i:44405237 original size:25 final size:25
Alignment explanation
Indices: 44405190--44405238 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
44405180 TGACCAACAA
* **
44405190 TGGTCTGACAGTAGGTGGTTGGCGG
1 TGGTCTGACAGTAGGAGACTGGCGG
*
44405215 TGGTCTGACGGTAGGAGACTGGCG
1 TGGTCTGACAGTAGGAGACTGGCG
44405239 ATAGAAAGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.47, T:0.24
Consensus pattern (25 bp):
TGGTCTGACAGTAGGAGACTGGCGG
Found at i:44405290 original size:24 final size:24
Alignment explanation
Indices: 44405258--44405303 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
44405248 TGACGACGAC
44405258 GGAAACGTGAACCAAAGTATGCAT
1 GGAAACGTGAACCAAAGTATGCAT
44405282 GGAAACGTGAACCAAAGTATGC
1 GGAAACGTGAACCAAAGTATGC
44405304 GTTAGGGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.15
Consensus pattern (24 bp):
GGAAACGTGAACCAAAGTATGCAT
Found at i:44405811 original size:41 final size:41
Alignment explanation
Indices: 44405728--44405812 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
44405718 TATAGTGGCG
* *
44405728 TTTATGAGAAAAATGCTACAAAAGGTCAAGCAGTAGCGGCA
1 TTTATGAGAAAAACGCTACAAAAGGTCAAGCAGTAGAGGCA
* * * *
44405769 TTTATGAGAAAAACGCTGCAAAAGGTCTAGCATTAGATGCA
1 TTTATGAGAAAAACGCTACAAAAGGTCAAGCAGTAGAGGCA
44405810 TTT
1 TTT
44405813 TTCTCGTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (41 bp):
TTTATGAGAAAAACGCTACAAAAGGTCAAGCAGTAGAGGCA
Found at i:44406813 original size:7 final size:7
Alignment explanation
Indices: 44406801--44406831 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
44406791 GTGTTTTGAT
44406801 TTTATGG
1 TTTATGG
44406808 TTTATGG
1 TTTATGG
44406815 TTTATGG
1 TTTATGG
44406822 TTTAT-G
1 TTTATGG
44406828 TTTA
1 TTTA
44406832 GGGGTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (7 bp):
TTTATGG
Found at i:44406817 original size:21 final size:21
Alignment explanation
Indices: 44406793--44406842 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
44406783 GGGGTCTAGT
*
44406793 GTTTTGATTTTATGGTTTA-TG
1 GTTTTGATTTTAT-GTTTAGGG
*
44406814 GTTTATG-GTTTATGTTTAGGG
1 GTTT-TGATTTTATGTTTAGGG
44406835 GTTTTGAT
1 GTTTTGAT
44406843 AAAAACACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
20 7 0.30
21 14 0.61
22 2 0.09
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.58
Consensus pattern (21 bp):
GTTTTGATTTTATGTTTAGGG
Found at i:44410802 original size:25 final size:25
Alignment explanation
Indices: 44410780--44410872 Score: 168
Period size: 25 Copynumber: 3.7 Consensus size: 25
44410770 TATTATTTAG
*
44410780 ATTTGTTGTTTTTGGTTGGATTTAT
1 ATTTGTTGTTTTTGGTTGGATTTGT
44410805 ATTTGTTGTTTTTGGTTGGATTTGT
1 ATTTGTTGTTTTTGGTTGGATTTGT
*
44410830 ATTTGCTGTTTTTGGTTGGATTTGT
1 ATTTGTTGTTTTTGGTTGGATTTGT
44410855 ATTTGTTGTTTTTGGTTG
1 ATTTGTTGTTTTTGGTTG
44410873 TTACAAGAAG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.09, C:0.01, G:0.27, T:0.63
Consensus pattern (25 bp):
ATTTGTTGTTTTTGGTTGGATTTGT
Found at i:44411124 original size:42 final size:43
Alignment explanation
Indices: 44411050--44411234 Score: 209
Period size: 43 Copynumber: 4.4 Consensus size: 43
44411040 AAAGCTCACA
* * *
44411050 TTCTATAGC-GCATTTGTGGG-AAAGCGCCACTAAAAGTCACG
1 TTCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGTCATG
* *
44411091 -TCTATAGTGGCGTTCGTGGGAAAAGCGCCACTAAAGGTCATG
1 TTCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGTCATG
** * *
44411133 TTCTATAGCAACTTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
1 TTCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGTCATG
* **
44411176 TTCTATAGCGGCGTTTGTGTGG-AAAGTGCTGCTGAAA-GTCATG
1 TTCTATAGCGGCGTTTGTG-GGAAAAGCGCCACT-AAAGGTCATG
44411219 TTCTATAGCGGCGTTT
1 TTCTATAGCGGCGTTT
44411235 TTTCAAATAA
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
40 7 0.06
41 9 0.07
42 19 0.15
43 83 0.67
44 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (43 bp):
TTCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGTCATG
Found at i:44411125 original size:83 final size:87
Alignment explanation
Indices: 44411028--44411200 Score: 210
Period size: 83 Copynumber: 2.0 Consensus size: 87
44411018 CATTTTCAGT
* * *
44411028 AAAAGTGCTACTAAAGCTCACATTCTATAGC-GCATTTGTGGG-AAAGCGCCACTAAAAGTCACG
1 AAAAGCGCCACTAAAGCTCACATTCTATAGCAACATTTGTGGGAAAAGCGCCACTAAAAGTCACG
*
44411091 -TCTATAGTGGCGTTCGTG-GG
66 TTCTATAGCGGCGTTCGTGTGG
* ** * * * *
44411111 AAAAGCGCCACTAAAGGTCATGTTCTATAGCAACTTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
1 AAAAGCGCCACTAAAGCTCACATTCTATAGCAACATTTGTGGGAAAAGCGCCACTAAAAGTCACG
*
44411176 TTCTATAGCGGCGTTTGTGTGG
66 TTCTATAGCGGCGTTCGTGTGG
44411198 AAA
1 AAA
44411201 GTGCTGCTGA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
83 26 0.35
84 9 0.12
85 18 0.24
86 16 0.22
87 5 0.07
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
AAAAGCGCCACTAAAGCTCACATTCTATAGCAACATTTGTGGGAAAAGCGCCACTAAAAGTCACG
TTCTATAGCGGCGTTCGTGTGG
Found at i:44416185 original size:12 final size:12
Alignment explanation
Indices: 44416168--44416202 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
44416158 GTCTGAATCC
44416168 GCATCTATATCT
1 GCATCTATATCT
*
44416180 GCATCTGTATCT
1 GCATCTATATCT
*
44416192 GAATCTATATC
1 GCATCTATATC
44416203 AGTTACTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (12 bp):
GCATCTATATCT
Found at i:44426308 original size:25 final size:25
Alignment explanation
Indices: 44426279--44426467 Score: 245
Period size: 25 Copynumber: 7.6 Consensus size: 25
44426269 AGATACACCA
* *
44426279 CAGCTCGCATGAGCTTCTCGTTATT
1 CAGCTCGTATGAGCTTCCCGTTATT
* *
44426304 CAGCTCGCT-TGAGCTTCTCGCTATT
1 CAGCTCG-TATGAGCTTCCCGTTATT
* *
44426329 CAGCTCATATGAGCTTCCCATTATT
1 CAGCTCGTATGAGCTTCCCGTTATT
* * *
44426354 CAGCTTGCATGAACTTCCCGTTATT
1 CAGCTCGTATGAGCTTCCCGTTATT
*
44426379 CAGCTCGTATTAGCTTCCCGTTATT
1 CAGCTCGTATGAGCTTCCCGTTATT
*
44426404 CAGCTCGTATGAGCTTCTCGTTATT
1 CAGCTCGTATGAGCTTCCCGTTATT
*
44426429 CAGCTCGGATGAGCTTCCCGTTATT
1 CAGCTCGTATGAGCTTCCCGTTATT
*
44426454 TAGCTCGTATGAGC
1 CAGCTCGTATGAGC
44426468 ATACATGTAT
Statistics
Matches: 141, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
24 1 0.01
25 140 0.99
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTCCCGTTATT
Found at i:44431077 original size:13 final size:13
Alignment explanation
Indices: 44431061--44431086 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44431051 TAGTTTTCAT
44431061 CAACAAAAGTCAC
1 CAACAAAAGTCAC
44431074 CAACAAAAGTCAC
1 CAACAAAAGTCAC
44431087 AAAGTAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (13 bp):
CAACAAAAGTCAC
Done.