Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 135 of 325
Found at i:42167558 original size:48 final size:48
Alignment explanation
Indices: 42167491--42167724 Score: 264
Period size: 48 Copynumber: 5.0 Consensus size: 48
42167481 CACATGGTAG
* * *
42167491 GATGCCAATGCCATATCCCAGATATGGTTTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
42167539 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCATAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
42167587 GATGCCAATGCCATGTCCAAGGCATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
** * ** * *
42167635 GATGCC---GTTA-G-CCCAG-CTATGGTCTTACACGAAATTATATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* * *
42167678 GATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATCGCATAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
42167725 AACCCTAACA
Statistics
Matches: 153, Mismatches: 26, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
42 1 0.01
43 30 0.20
44 1 0.01
45 2 0.01
46 2 0.01
47 1 0.01
48 115 0.75
49 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:42167704 original size:91 final size:94
Alignment explanation
Indices: 42167491--42167724 Score: 278
Period size: 91 Copynumber: 2.5 Consensus size: 94
42167481 CACATGGTAG
* * * *
42167491 GATGCCAATGCCATATCCCAGATATGGTTTTACATGGGATCACATATCGATGCCAATGCCATGTC
1 GATGCCAATGCCATGTCCAAGACATGGTCTTACATGGGATCACATATCGATGCC-A-GCCATGTC
* **
42167556 CCAGACATGGTCTTACATGGGATCATAGATC
64 CCAGACATGGTCTTACACGAAATCATAGATC
* **
42167587 GATGCCAATGCCATGTCCAAGGCATGGTCTTACATGGGATCACATATCGATGCC-GTTA-G-CCC
1 GATGCCAATGCCATGTCCAAGACATGGTCTTACATGGGATCACATATCGATGCCAGCCATGTCCC
* *
42167649 AG-CTATGGTCTTACACGAAATTATATATC
66 AGAC-ATGGTCTTACACGAAATCATAGATC
* * *
42167678 GATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATCGCATAT
1 GATGCCAATGCCATGTCCAAGACATGGTCTTACATGGGATCACATAT
42167725 AACCCTAACA
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
90 1 0.01
91 68 0.56
92 1 0.01
93 2 0.02
96 49 0.40
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (94 bp):
GATGCCAATGCCATGTCCAAGACATGGTCTTACATGGGATCACATATCGATGCCAGCCATGTCCC
AGACATGGTCTTACACGAAATCATAGATC
Found at i:42169736 original size:22 final size:21
Alignment explanation
Indices: 42169705--42169746 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
42169695 TAAATTATAT
*
42169705 ATGTTAATTTATTTGAATTGA
1 ATGTTAATTTATGTGAATTGA
*
42169726 ATGTTGAATTTGTGTGAATTG
1 ATGTT-AATTTATGTGAATTG
42169747 TATAAGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (21 bp):
ATGTTAATTTATGTGAATTGA
Found at i:42170237 original size:23 final size:24
Alignment explanation
Indices: 42170189--42170241 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
42170179 TCTTTGTGAA
* * *
42170189 CTTCCTATTTATAGCTCTGATGAG
1 CTTCCTAATTATAGCTCAGATAAG
42170213 CTTCCTAATT-TAGCTCAGATAAG
1 CTTCCTAATTATAGCTCAGATAAG
42170236 CTTCCT
1 CTTCCT
42170242 GGTATATGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.40
Consensus pattern (24 bp):
CTTCCTAATTATAGCTCAGATAAG
Found at i:42185625 original size:43 final size:43
Alignment explanation
Indices: 42185567--42185724 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
42185557 GTTACCGAGC
*
42185567 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* * * *
42185610 TGTGCTTACGTGTAAGACCATGTCTGAGACATTGGCATCAT-TA-
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCAT--TGTAT
* * * * * *
42185653 TATGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
*
42185695 ATGTGATAACATGTAAGACCATATCTGGGA
1 -TGTGATTACATGTAAGACCATATCTGGGA
42185725 TATGACATTG
Statistics
Matches: 94, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
43 90 0.96
44 2 0.02
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
Found at i:42188309 original size:27 final size:27
Alignment explanation
Indices: 42188271--42188368 Score: 169
Period size: 27 Copynumber: 3.6 Consensus size: 27
42188261 CGTACTTGAA
* *
42188271 CCCTCATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGATGATTTTG
42188298 CCCTTATGTGATAAAATGATGATTTTG
1 CCCTTATGTGATAAAATGATGATTTTG
*
42188325 CCCTTATGTGATAAAATGATGATTTTT
1 CCCTTATGTGATAAAATGATGATTTTG
42188352 CCCTTATGTGATAAAAT
1 CCCTTATGTGATAAAAT
42188369 AACCGAAATA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGATGATTTTG
Found at i:42188393 original size:27 final size:27
Alignment explanation
Indices: 42188361--42188431 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
42188351 TCCCTTATGT
*
42188361 GATAAAATAACCGAAATACCCTCATAAG
1 GATAAAATAACCGAAATACCCACAT-AG
*
42188389 G-TAAAATGATCC-AAATACCCACATAG
1 GATAAAAT-AACCGAAATACCCACATAG
* *
42188415 GATAGAATGACCGAAAT
1 GATAAAATAACCGAAAT
42188432 GCCCCTGTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
26 5 0.14
27 26 0.74
28 4 0.11
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (27 bp):
GATAAAATAACCGAAATACCCACATAG
Found at i:42188557 original size:23 final size:23
Alignment explanation
Indices: 42188514--42188563 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
42188504 CTGTATTTGA
42188514 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
42188537 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
42188560 GCAT
1 GCAT
42188564 TGCATGGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:42189228 original size:33 final size:33
Alignment explanation
Indices: 42189191--42189280 Score: 146
Period size: 33 Copynumber: 2.7 Consensus size: 33
42189181 ATAATCACTG
*
42189191 ATGCCATAACATAGCTATGGTCTTTTCACTAGA
1 ATGCCATAGCATAGCTATGGTCTTTTCACTAGA
*
42189224 ATGCCATAGCATAGCTATGTTCTTTTCACTAGA
1 ATGCCATAGCATAGCTATGGTCTTTTCACTAGA
42189257 ATGCCATAGC-TCAGCTATGGTCTT
1 ATGCCATAGCAT-AGCTATGGTCTT
42189281 ACCTCTTCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
32 1 0.02
33 52 0.98
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (33 bp):
ATGCCATAGCATAGCTATGGTCTTTTCACTAGA
Found at i:42189404 original size:48 final size:47
Alignment explanation
Indices: 42189350--42189463 Score: 122
Period size: 47 Copynumber: 2.4 Consensus size: 47
42189340 TTTTACTAAA
* **
42189350 ATGCCATAGCCC-CGCTATGGTCTTACATCTTATACACATATCACACCG
1 ATGCCATAGCCCAC-ATATGGTCTTACA-CAAATACACATATCACACCG
* * * *
42189398 ATGCCATATCCCACATATGGTCTTACACAAATGCACATATCACTCTG
1 ATGCCATAGCCCACATATGGTCTTACACAAATACACATATCACACCG
* *
42189445 ATGCCATATCCCAGATATG
1 ATGCCATAGCCCACATATG
42189464 ATTTTACATG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 33 0.58
48 23 0.40
49 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (47 bp):
ATGCCATAGCCCACATATGGTCTTACACAAATACACATATCACACCG
Found at i:42189453 original size:47 final size:48
Alignment explanation
Indices: 42189365--42189472 Score: 137
Period size: 47 Copynumber: 2.3 Consensus size: 48
42189355 ATAGCCCCGC
**
42189365 TATGGTCTTACATCTTATACACATATCACACCGATGCCATATCCCACA
1 TATGGTCTTACATCAAATACACATATCACACCGATGCCATATCCCACA
* * * *
42189413 TATGGTCTTACA-CAAATGCACATATCACTCTGATGCCATATCCCAGA
1 TATGGTCTTACATCAAATACACATATCACACCGATGCCATATCCCACA
* *
42189460 TATGATTTTACAT
1 TATGGTCTTACAT
42189473 GGAAATCACT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 39 0.76
48 12 0.24
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (48 bp):
TATGGTCTTACATCAAATACACATATCACACCGATGCCATATCCCACA
Found at i:42189574 original size:31 final size:31
Alignment explanation
Indices: 42189491--42189670 Score: 234
Period size: 31 Copynumber: 5.8 Consensus size: 31
42189481 CTTGTCACTT
* *
42189491 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGTCGAAGCTACCACTTTTCACTGATCAG
** * * * ** *
42189522 ACAGCCAAAGCAACCGTTTTTCACTGATCAA
1 GTAGTCGAAGCTACCACTTTTCACTGATCAG
*
42189553 GTAGTTGAAGCTACCACTTTTCACTGATCAG
1 GTAGTCGAAGCTACCACTTTTCACTGATCAG
* * *
42189584 GTAGCCGAAGCTACCACTTTTCACTAATTAG
1 GTAGTCGAAGCTACCACTTTTCACTGATCAG
42189615 GTAGTCGAAGCTACCACTTTTCACTGATCAG
1 GTAGTCGAAGCTACCACTTTTCACTGATCAG
42189646 GTAGTCGAAGCTACCACTTTTCACT
1 GTAGTCGAAGCTACCACTTTTCACT
42189671 TGTCATTTGT
Statistics
Matches: 125, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 125 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
GTAGTCGAAGCTACCACTTTTCACTGATCAG
Found at i:42189818 original size:50 final size:50
Alignment explanation
Indices: 42189646--42189819 Score: 222
Period size: 50 Copynumber: 3.5 Consensus size: 50
42189636 CACTGATCAG
* * * *
42189646 GTAGTCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
* * * *
42189697 GTAACCGAAGCTATCACGTATCGCTTTCGCTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
* * * *
42189747 ATAGCCGAAACTATCACTTATCACTTTCACTTGTTCTTGATCAGATAAAT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
*
42189797 GTAGCCGAAGCTATCATTTATCA
1 GTAGCCGAAGCTATCACTTATCA
42189820 TTTGTTGTCA
Statistics
Matches: 104, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 84 0.81
51 20 0.19
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:42196344 original size:21 final size:21
Alignment explanation
Indices: 42196297--42196344 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
42196287 GTCTAGAATG
* * *
42196297 TGAATTGAATTGAATTGAGCA
1 TGAAATGAATTAAATTGAGAA
*
42196318 TGAAATGAATTAAATTGATAA
1 TGAAATGAATTAAATTGAGAA
*
42196339 TTAAAT
1 TGAAAT
42196345 TCATTTATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.35
Consensus pattern (21 bp):
TGAAATGAATTAAATTGAGAA
Found at i:42196497 original size:22 final size:21
Alignment explanation
Indices: 42196466--42196507 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
42196456 TAGATTATAT
*
42196466 ATGTTAATTTGTTTGAATTGA
1 ATGTTAATTTGTGTGAATTGA
42196487 ATGTTGAATTTGTGTGAATTG
1 ATGTT-AATTTGTGTGAATTG
42196508 CACAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (21 bp):
ATGTTAATTTGTGTGAATTGA
Found at i:42201835 original size:44 final size:43
Alignment explanation
Indices: 42201772--42201930 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
42201762 TATGTGTTAT
* *
42201772 CGTGTAAGACCACATCTGGGACGTTGGCATCA-ACTTATGATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCATA-TT-TGATTTA
* * *
42201816 CGTGTAAGACTATGTCTGGGACGTTGGCATCATATTTGATTT-
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCATATTTGATTTA
* **
42201858 CGTGTTAGACCTTGTCTAGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCACGTCTAGGAC-GTTGGCATC-ATATTTGATTTA
*
42201901 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
42201931 TGTACGAGAT
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
42 28 0.28
43 39 0.39
44 31 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCATATTTGATTTA
Found at i:42208649 original size:16 final size:19
Alignment explanation
Indices: 42208628--42208668 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
42208618 TAATAGGACC
42208628 ATTTTGT-AAA-AA-GGAA
1 ATTTTGTAAAATAATGGAA
42208644 ATTTTGTAAAATAATGGAA
1 ATTTTGTAAAATAATGGAA
42208663 ATTTTG
1 ATTTTG
42208669 GGTTGCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 3 0.14
18 2 0.09
19 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (19 bp):
ATTTTGTAAAATAATGGAA
Found at i:42209347 original size:49 final size:49
Alignment explanation
Indices: 42209294--42209402 Score: 118
Period size: 49 Copynumber: 2.2 Consensus size: 49
42209284 TGTCTCAGAC
*
42209294 ATGGCATCGACACT-GATA-GATGAGAGCCAGTGTAAGACCTA-CTTGGGAA
1 ATGGCATCGAC-CTCGATATG-TGAAAGCCAGTGTAAGACCTATC-TGGGAA
** *
42209343 ATGGCATC-AGCCTCGATATGTGAAAGTTAGTGTAAGACCTATCTGGGAC
1 ATGGCATCGA-CCTCGATATGTGAAAGCCAGTGTAAGACCTATCTGGGAA
42209392 ATGGCATCGAC
1 ATGGCATCGAC
42209403 TTTGATGTGC
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
48 3 0.06
49 45 0.88
50 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
ATGGCATCGACCTCGATATGTGAAAGCCAGTGTAAGACCTATCTGGGAA
Found at i:42212529 original size:42 final size:42
Alignment explanation
Indices: 42212425--42212589 Score: 172
Period size: 43 Copynumber: 3.9 Consensus size: 42
42212415 ATATGTGTTA
* *
42212425 TCGTGTAAGACCACATCTGGGACATTGGCATCG-ACTTATAATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGATT
*
42212468 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
* * *
42212511 TCGTGTAAGACC-CTGTCTGGGATAGTGGGATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATT
* * * * *
42212554 ACATGTAAGACCACGTCTAGGACGTTGGCATTGTAT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGTAT
42212590 GAGACCACCA
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
42 30 0.29
43 38 0.37
44 33 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
Found at i:42212563 original size:43 final size:42
Alignment explanation
Indices: 42212426--42212589 Score: 152
Period size: 42 Copynumber: 3.8 Consensus size: 42
42212416 TATGTGTTAT
** * *
42212426 CGTGTAAGACCACATCTGGGACATTGGCATCG-ACTTATAATTTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGTA-TT-TGA-TTA
* *
42212470 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGTATTTGATTA
* * *
42212512 CGTGTAAGACCCTGTCTGGGATAGTGGGATCGATATTTGATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCG-TATTTGATTA
* * * *
42212555 CATGTAAGACCACGTCTAGGAC-GTTGGCATTGTAT
1 CGTGTAAGACCATGTCTGGGACAG-TGGCATCGTAT
42212590 GAGACCACCA
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
42 34 0.34
43 34 0.34
44 32 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGTATTTGATTA
Found at i:42212809 original size:21 final size:17
Alignment explanation
Indices: 42212766--42212798 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
42212756 AAATAAAATA
42212766 CAAATAAACTTATCATT
1 CAAATAAACTTATCATT
42212783 CAAATAAACTTATCAT
1 CAAATAAACTTATCAT
42212799 GTAATCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
CAAATAAACTTATCATT
Found at i:42214388 original size:46 final size:46
Alignment explanation
Indices: 42214321--42214440 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 46
42214311 TTTGTGTGCT
* * * *
42214321 AGTGTAAGACATGTCTGGGACATACATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGA-GATGTA-AACC
*
42214367 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGTAAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATGTAAACC
42214413 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
42214441 AGCTACAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 65 0.97
47 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATGTAAACC
Found at i:42221979 original size:42 final size:42
Alignment explanation
Indices: 42221918--42222011 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
42221908 TCTAGCTATG
* *
42221918 GTCTTACACGAAATTTCATA-TCGATGCCATGTCCCAAACATA
1 GTCTTACACGAAATATCATACT-GATGCCATATCCCAAACATA
* * * *
42221960 GTCTTACAC-ATAATATCATACTGATGTCATATCCCAGATATG
1 GTCTTACACGA-AATATCATACTGATGCCATATCCCAAACATA
42222002 GTCTTACACG
1 GTCTTACACG
42222012 TATTCTCATC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.02
42 41 0.95
43 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (42 bp):
GTCTTACACGAAATATCATACTGATGCCATATCCCAAACATA
Found at i:42223556 original size:8 final size:8
Alignment explanation
Indices: 42223529--42223576 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
42223519 GTAACTTGAC
42223529 AAAAAATT
1 AAAAAATT
* **
42223537 TAAATTTT
1 AAAAAATT
42223545 AAAAAATT
1 AAAAAATT
42223553 AAAAAATT
1 AAAAAATT
42223561 -AAAAATT
1 AAAAAATT
42223568 AAAATAATT
1 AAAA-AATT
42223577 TTTTTATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
7 7 0.22
8 21 0.66
9 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAAAATT
Found at i:42223564 original size:15 final size:16
Alignment explanation
Indices: 42223546--42223576 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
42223536 TTAAATTTTA
42223546 AAAAATTAAAA-AATT
1 AAAAATTAAAATAATT
42223561 AAAAATTAAAATAATT
1 AAAAATTAAAATAATT
42223577 TTTTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTAAAATAATT
Found at i:42225269 original size:19 final size:19
Alignment explanation
Indices: 42225245--42225283 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
42225235 GATTAACGTT
42225245 AGTTAATTATA-ATTAATTA
1 AGTTAATTA-AGATTAATTA
42225264 AGTTAATTAAGATTAATTA
1 AGTTAATTAAGATTAATTA
42225283 A
1 A
42225284 TTATTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (19 bp):
AGTTAATTAAGATTAATTA
Found at i:42227569 original size:13 final size:13
Alignment explanation
Indices: 42227530--42227593 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
42227520 AGTTCTTCAT
42227530 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
42227543 TGC-TGTGTAAAAG
1 TGCTTTTG-AAAAG
*
42227556 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
42227569 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
42227582 TG-TTTTGGAAAA
1 TGCTTTT-GAAAA
42227594 ATTTAAGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
12 7 0.17
13 32 0.76
14 3 0.07
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:42240194 original size:19 final size:18
Alignment explanation
Indices: 42240154--42240196 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
42240144 CACATCTTTG
* *
42240154 AGCTCACCCAAAGATGCA
1 AGCTCACCAAAAAATGCA
*
42240172 AGCTCACCAAAAAAATGCC
1 AGCTCACC-AAAAAATGCA
42240191 AGCTCA
1 AGCTCA
42240197 TTAGATGTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.42, C:0.33, G:0.14, T:0.12
Consensus pattern (18 bp):
AGCTCACCAAAAAATGCA
Found at i:42240279 original size:17 final size:17
Alignment explanation
Indices: 42240240--42240290 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
42240230 ACAAAAAATA
42240240 TGAGCTCAACAAA-TCTG
1 TGAGCTCAACAAAGT-TG
* *
42240257 TAAGCTCATCAAAGTTG
1 TGAGCTCAACAAAGTTG
*
42240274 TGAGCTCACCAAAGTTG
1 TGAGCTCAACAAAGTTG
42240291 CAAAGTCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 28 0.97
18 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (17 bp):
TGAGCTCAACAAAGTTG
Found at i:42244719 original size:49 final size:49
Alignment explanation
Indices: 42244666--42244759 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
42244656 GTTCTGAATA
** *
42244666 GTTGGAAATGGTTGGGTTTGATACCTGAGAAATGGTGTTTGAAATAATG
1 GTTGGAAATGAATGGGCTTGATACCTGAGAAATGGTGTTTGAAATAATG
** *
42244715 GTTGGATTTGAATGTGCTTGATACCTGAGAAATGGTGTTTGAAAT
1 GTTGGAAATGAATGGGCTTGATACCTGAGAAATGGTGTTTGAAAT
42244760 TGTCTAATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.28, C:0.05, G:0.31, T:0.36
Consensus pattern (49 bp):
GTTGGAAATGAATGGGCTTGATACCTGAGAAATGGTGTTTGAAATAATG
Found at i:42251051 original size:43 final size:43
Alignment explanation
Indices: 42250990--42251076 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
42250980 AAATTACATG
*
42250990 TGTCACATACATCATGAACTCAGACCAACTTAATGAGCTCAGA
1 TGTCACATACATCATGAACTCAGACCAACTCAATGAGCTCAGA
* *
42251033 TGTCACATATATCATGAACTCAGACCAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCAACTCAATGAGCTCAGA
42251076 T
1 T
42251077 CATATAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (43 bp):
TGTCACATACATCATGAACTCAGACCAACTCAATGAGCTCAGA
Found at i:42261338 original size:25 final size:26
Alignment explanation
Indices: 42261285--42261370 Score: 99
Period size: 25 Copynumber: 3.4 Consensus size: 26
42261275 TATGGCTCTT
*
42261285 ATGAGCTTCCCATTACA-CAGCTCGA-
1 ATGAGCTTCCCATTACATGA-CTCGAC
42261310 ATGAGCTTCCCATTACATGACTC-AC
1 ATGAGCTTCCCATTACATGACTCGAC
* * *
42261335 ATGAGCTTCCTATTATATGGCTCGAC
1 ATGAGCTTCCCATTACATGACTCGAC
42261361 A-GAGCTTCCC
1 ATGAGCTTCCC
42261371 GTTAGTGTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
24 1 0.02
25 48 0.91
26 4 0.08
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (26 bp):
ATGAGCTTCCCATTACATGACTCGAC
Found at i:42263760 original size:17 final size:17
Alignment explanation
Indices: 42263726--42263785 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
42263716 ATGTGCGAGG
*
42263726 TCACCAAAGATACTAGC
1 TCACCAAAGATACAAGC
**
42263743 TCACCAAATCTACAAGC
1 TCACCAAAGATACAAGC
* * *
42263760 TCATCAAACG-TGCGAGC
1 TCACCAAA-GATACAAGC
42263777 TCACCAAAG
1 TCACCAAAG
42263786 TTGTGAGTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
16 1 0.03
17 33 0.97
ACGTcount: A:0.38, C:0.32, G:0.13, T:0.17
Consensus pattern (17 bp):
TCACCAAAGATACAAGC
Found at i:42265336 original size:22 final size:22
Alignment explanation
Indices: 42265305--42265347 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
42265295 ATATTGAGTA
42265305 AAAAAAATATAACGTGATTTAC
1 AAAAAAATATAACGTGATTTAC
*
42265327 AAAAATATATAACGTGATTTA
1 AAAAAAATATAACGTGATTTA
42265348 TAGTAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.30
Consensus pattern (22 bp):
AAAAAAATATAACGTGATTTAC
Found at i:42265579 original size:15 final size:15
Alignment explanation
Indices: 42265544--42265573 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42265534 AAATAAAAAT
42265544 AAATAAAACATGACA
1 AAATAAAACATGACA
42265559 AAATAAAA-ATGACA
1 AAATAAAACATGACA
42265573 A
1 A
42265574 TGATAACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.70, C:0.10, G:0.07, T:0.13
Consensus pattern (15 bp):
AAATAAAACATGACA
Found at i:42265804 original size:24 final size:24
Alignment explanation
Indices: 42265777--42265854 Score: 63
Period size: 27 Copynumber: 3.2 Consensus size: 24
42265767 AATAACTAAT
42265777 AATAATGATATATAAATATATACA
1 AATAATGATATATAAATATATACA
*
42265801 AAT-ATG-TAT-TAAAATATATACGT
1 AATAATGATATAT-AAATATATAC-A
* *
42265824 AATAATAGAAATAAAAAATATATACA
1 AATAAT-GATAT-ATAAATATATACA
42265850 TAATA
1 -AATA
42265855 TATACATACT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
21 1 0.02
22 13 0.31
23 6 0.14
24 5 0.12
25 1 0.02
26 2 0.05
27 14 0.33
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (24 bp):
AATAATGATATATAAATATATACA
Found at i:42265804 original size:27 final size:24
Alignment explanation
Indices: 42265752--42265804 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
42265742 TTGAAAACAG
*
42265752 TAATAATATATAAAAAATAACTAA
1 TAATAATATATAAAAAATAACAAA
*
42265776 TAATAATGATATATAAATATATACAAA
1 TAATAAT-ATATA-AAAAATA-ACAAA
42265803 TA
1 TA
42265805 TGTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 5 0.21
26 6 0.25
27 6 0.25
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (24 bp):
TAATAATATATAAAAAATAACAAA
Found at i:42266192 original size:25 final size:23
Alignment explanation
Indices: 42266147--42266294 Score: 114
Period size: 25 Copynumber: 6.4 Consensus size: 23
42266137 ACATGGGATA
* *
42266147 ATATAAAAAATATATGAATAATGT
1 ATATTAAAAATATAT-AATAATAT
42266171 GATATTAAAAATATATACATAA-A-
1 -ATATTAAAAATATATA-ATAATAT
*
42266194 A-A-TAATAATA-ATAATAATAT
1 ATATTAAAAATATATAATAATAT
42266214 ATA-TATAAAATATATACATAATAT
1 ATATTA-AAAATATATA-ATAATAT
*
42266238 AGTATTAAAAATATATAATACATAC
1 A-TATTAAAAATATATAATA-ATAT
* *
42266263 ACATTAGAAATA-ATAATAATA-
1 ATATTAAAAATATATAATAATAT
42266284 ATATTACAAAA
1 ATATTA-AAAA
42266295 CAATTTTTAA
Statistics
Matches: 103, Mismatches: 9, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
18 4 0.04
19 4 0.04
20 8 0.08
21 9 0.09
22 12 0.12
23 9 0.09
24 21 0.20
25 34 0.33
26 2 0.02
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.32
Consensus pattern (23 bp):
ATATTAAAAATATATAATAATAT
Found at i:42266361 original size:23 final size:23
Alignment explanation
Indices: 42266172--42266250 Score: 58
Period size: 23 Copynumber: 3.5 Consensus size: 23
42266162 GAATAATGTG
* * *
42266172 ATATTAAAAATATATACATAAAA
1 ATATTAAAAATAAATACATATAT
* *
42266195 ATAATAATAAT-AATA-ATATAT
1 ATATTAAAAATAAATACATATAT
*
42266216 ATA-T-AAAATATATACATAATAT
1 ATATTAAAAATAAATACAT-ATAT
42266238 AGTATTAAAAATA
1 A-TATTAAAAATA
42266251 TATAATACAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
19 4 0.09
20 4 0.09
21 9 0.21
22 8 0.19
23 11 0.26
24 1 0.02
25 6 0.14
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (23 bp):
ATATTAAAAATAAATACATATAT
Found at i:42270313 original size:25 final size:25
Alignment explanation
Indices: 42270285--42270363 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
42270275 GTAATGACCG
42270285 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
42270310 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
42270332 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
42270357 ATGTGAT
1 ATGTGAT
42270364 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:42270335 original size:47 final size:47
Alignment explanation
Indices: 42270276--42270556 Score: 436
Period size: 47 Copynumber: 5.9 Consensus size: 47
42270266 TAGTATGGCG
*
42270276 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
42270323 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
42270370 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
42270419 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
42270466 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * * *
42270513 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGGTAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
42270557 TCCCGAAAGG
Statistics
Matches: 216, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 171 0.79
49 45 0.21
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:42270440 original size:96 final size:94
Alignment explanation
Indices: 42270276--42270556 Score: 445
Period size: 96 Copynumber: 3.0 Consensus size: 94
42270266 TAGTATGGCG
* *
42270276 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGA
42270341 ATGTGAAAGTGTATATATGTGATAAGGCC
66 ATGTGAAAGTGTATATATGTGATAAGGCC
*
42270370 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAGGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCTAATGGCCGATGTGAT
42270435 GAATGTGAAAGTGTATATATGTGATAAGGCC
64 GAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
42270466 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGA
* *
42270531 ATGTGAAAGTGTATAAATGTGGTAAG
66 ATGTGAAAGTGTATATATGTGATAAG
42270557 TCCCGAAAGG
Statistics
Matches: 173, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
94 81 0.47
96 92 0.53
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (94 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:42270535 original size:143 final size:143
Alignment explanation
Indices: 42270276--42270545 Score: 468
Period size: 143 Copynumber: 1.9 Consensus size: 143
42270266 TAGTATGGCG
42270276 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * *
42270341 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 ATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATAT
42270406 ATGTAATAGGGCC
131 ATGTAATAGGGCC
*
42270419 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
42270484 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
66 ATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
42270546 AATGTGGTAA
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
143 119 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATAT
ATGTAATAGGGCC
Found at i:42270718 original size:37 final size:37
Alignment explanation
Indices: 42270675--42270753 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
42270665 CCGAGCTCTA
* * * *
42270675 AAGACCCGATGACTACGTGTGGGGATTTTTTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
* *
42270712 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
42270749 AAGAC
1 AAGAC
42270754 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:42272440 original size:16 final size:15
Alignment explanation
Indices: 42272415--42272444 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
42272405 ATTATGTATA
42272415 TATTTTATATTTTTT
1 TATTTTATATTTTTT
42272430 TATTATTATATTTTT
1 TATT-TTATATTTTT
42272445 ATGTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTTATATTTTTT
Found at i:42272445 original size:14 final size:14
Alignment explanation
Indices: 42272406--42272459 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
42272396 TAATACTATA
42272406 TTATGTATATA-TT
1 TTATGTATATATTT
42272419 TTA--TAT-T-TTT
1 TTATGTATATATTT
42272429 TTAT-TATTATATTT
1 TTATGTA-TATATTT
42272443 TTATGTATATATTT
1 TTATGTATATATTT
42272457 TTA
1 TTA
42272460 ATATCACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
10 6 0.17
11 5 0.14
12 1 0.03
13 4 0.11
14 17 0.49
15 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (14 bp):
TTATGTATATATTT
Found at i:42272582 original size:60 final size:59
Alignment explanation
Indices: 42272507--42272620 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 59
42272497 GTAAATACTT
*
42272507 TCAATACTACATTATGCATATATT-TTTGTCTATAT-TATATATATATATACTTTTAATAC
1 TCAATACTACATTATGAATATATTGTTTG--TATATGTATATATATATATACTTTTAATAC
* * * *
42272566 TCAATACTATTATTATGAATATGTTGTTTGTATATGTATGTATATATATATTTTT
1 TCAATACTA-CATTATGAATATATTGTTTGTATATGTATATATATATATACTTTT
42272621 CTTTATTCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 14 0.30
60 29 0.62
61 4 0.09
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.52
Consensus pattern (59 bp):
TCAATACTACATTATGAATATATTGTTTGTATATGTATATATATATATACTTTTAATAC
Found at i:42272885 original size:18 final size:19
Alignment explanation
Indices: 42272854--42272891 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
42272844 TTATATATCG
42272854 TTATTATTAGTTATT-TTT
1 TTATTATTAGTTATTGTTT
42272872 TTATATATTA-TTATTGTTT
1 TTAT-TATTAGTTATTGTTT
42272891 T
1 T
42272892 CAATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
TTATTATTAGTTATTGTTT
Found at i:42273034 original size:26 final size:25
Alignment explanation
Indices: 42272956--42273034 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 25
42272946 TTCCCTACTA
*
42272956 TATCATATT-TACATTATTACTATTAT
1 TATCATTTTATACATTATTA-T-TTAT
42272982 TATCATGTTTAATACCA-TATGTA-TTAT
1 TATCAT-TTT-ATA-CATTAT-TATTTAT
42273009 TATCATTTTATACTATTATTATTTAT
1 TATCATTTTATAC-ATTATTATTTAT
42273035 ATTACTATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
24 1 0.02
25 6 0.14
26 16 0.36
27 12 0.27
29 5 0.11
30 4 0.09
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (25 bp):
TATCATTTTATACATTATTATTTAT
Found at i:42275217 original size:110 final size:110
Alignment explanation
Indices: 42275035--42275359 Score: 368
Period size: 110 Copynumber: 3.0 Consensus size: 110
42275025 TTGAGCCTGT
* * * *
42275035 GATTATTTAGTAGG-A-TATGTACTT-ATGATACAGATTGTAACGATGGCTTGATATCTTGTATA
1 GATTAATTAGTAGGTACTATGTA-TTGATGATACAGACTGTAACGATGGCTTGAGATCTTGCATA
* * * ***
42275097 TGTTGCGGATTCTCTGCATCTTCTGTGAGCAACATCGTGAGCTGGG
65 TGTTGCGGATTCTCTACAGCTTGTGTGAGCAACATCGTGAGCCAAG
* * * *
42275143 GATTAATTAGTAGGTACTATGTATTGGTGATACAGACTATAACGATGGCTTAAGATCCTGCATAT
1 GATTAATTAGTAGGTACTATGTATTGATGATACAGACTGTAACGATGGCTTGAGATCTTGCATAT
* * * *
42275208 GTTGTGGATTCTTTATAGCTTGTGTAAGCAACATCGTGAGCCAAG
66 GTTGCGGATTCTCTACAGCTTGTGTGAGCAACATCGTGAGCCAAG
** * * * * *
42275253 GATTAATTAGTAGGTACTATGTACCGAAGATACAGACCGTAACGATGACTTGAGATTTTGCATGT
1 GATTAATTAGTAGGTACTATGTATTGATGATACAGACTGTAACGATGGCTTGAGATCTTGCATAT
* * *
42275318 GTTGCGAATTCTCTACAGCTTGTGTGAGTAGCATCGTGAGCC
66 GTTGCGGATTCTCTACAGCTTGTGTGAGCAACATCGTGAGCC
42275360 GGTCAAAGTT
Statistics
Matches: 178, Mismatches: 36, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
108 13 0.07
109 3 0.02
110 162 0.91
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (110 bp):
GATTAATTAGTAGGTACTATGTATTGATGATACAGACTGTAACGATGGCTTGAGATCTTGCATAT
GTTGCGGATTCTCTACAGCTTGTGTGAGCAACATCGTGAGCCAAG
Found at i:42276712 original size:39 final size:39
Alignment explanation
Indices: 42276669--42276875 Score: 315
Period size: 39 Copynumber: 5.3 Consensus size: 39
42276659 GGTCTTTAAC
** *
42276669 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
42276708 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * * * *
42276747 CCGGATATATTTCTAGCCTATAGCCTGTGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
42276786 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
42276825 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
42276864 CCGGATATTTTT
1 CCGGATATTTTT
42276876 AATCTCATAT
Statistics
Matches: 155, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 155 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:42285828 original size:19 final size:19
Alignment explanation
Indices: 42285792--42285834 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
42285782 TAAAATTTAT
*
42285792 TAAAAATTAAAAAAAATTA
1 TAAAAATCAAAAAAAATTA
* * *
42285811 TAAAAATCATAAAGAATTG
1 TAAAAATCAAAAAAAATTA
42285830 TAAAA
1 TAAAA
42285835 TTTTATAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAAAATCAAAAAAAATTA
Found at i:42285828 original size:29 final size:28
Alignment explanation
Indices: 42285773--42285851 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 28
42285763 AAATTTTAAT
* *
42285773 AAAAAAATT-TAAAATTTATTAAAAATTA
1 AAAAAAATTATAAAAATCA-TAAAAATTA
*
42285801 AAAAAAATTATAAAAATCATAAAGAATTG
1 AAAAAAATTATAAAAATCATAAA-AATTA
* **
42285830 TAAAATTTTATAAAAATCATAA
1 AAAAAAATTATAAAAATCATAA
42285852 TTTTTTTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 13 0.30
29 30 0.70
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAAAAATTATAAAAATCATAAAAATTA
Found at i:42286185 original size:29 final size:29
Alignment explanation
Indices: 42286153--42286280 Score: 104
Period size: 29 Copynumber: 4.5 Consensus size: 29
42286143 TTTTTGATGT
*
42286153 ATTTTATAATTTTTTATGATTTTTATAAA
1 ATTTAATAATTTTTTATGATTTTTATAAA
* * * * *
42286182 ATTTAAAAATATTTTATAATTTTTTTAAG
1 ATTTAATAATTTTTTATGATTTTTATAAA
* *
42286211 ATTTCAT-ATTTTTTCT-ATTTTTA-ATAA
1 ATTTAATAATTTTTTATGATTTTTATA-AA
* *
42286238 ATTTTA-AATATTTT-TGTATTTTTATTAAA
1 ATTTAATAATTTTTTATG-ATTTTTA-TAAA
42286267 ATTTAATAATTTTT
1 ATTTAATAATTTTT
42286281 ATAACTTTTA
Statistics
Matches: 76, Mismatches: 16, Indels: 13
0.72 0.15 0.12
Matches are distributed among these distances:
26 2 0.03
27 18 0.24
28 14 0.18
29 35 0.46
30 7 0.09
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTAATAATTTTTTATGATTTTTATAAA
Found at i:42286205 original size:9 final size:9
Alignment explanation
Indices: 42286154--42286291 Score: 55
Period size: 9 Copynumber: 14.7 Consensus size: 9
42286144 TTTTGATGTA
42286154 TTTTATAATT
1 TTTTATAA-T
*
42286164 TTTTATGAT
1 TTTTATAAT
*
42286173 TTTTATAAAA
1 TTTTAT-AAT
* *
42286183 TTTAAAAAT
1 TTTTATAAT
42286192 ATTTTATAAT
1 -TTTTATAAT
* *
42286202 TTTTTTAAGA
1 TTTTATAA-T
* *
42286212 TTTCATATT
1 TTTTATAAT
*
42286221 TTTTCT-AT
1 TTTTATAAT
*
42286229 TTTTAATAAA
1 TTTT-ATAAT
*
42286239 TTTTAAATAT
1 TTTTATA-AT
*
42286249 TTTTGT-AT
1 TTTTATAAT
*
42286257 TTTTATTAAAA
1 TTTTA-T-AAT
*
42286268 TTTAATAAT
1 TTTTATAAT
*
42286277 TTTTATAAC
1 TTTTATAAT
42286286 TTTTAT
1 TTTTAT
42286292 TGATTTTTTT
Statistics
Matches: 90, Mismatches: 29, Indels: 19
0.65 0.21 0.14
Matches are distributed among these distances:
8 11 0.12
9 39 0.43
10 35 0.39
11 5 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:42286231 original size:56 final size:57
Alignment explanation
Indices: 42286161--42286282 Score: 142
Period size: 56 Copynumber: 2.2 Consensus size: 57
42286151 GTATTTTATA
* *
42286161 ATTTTTTATGATTTTT-ATAAAATTTAAAAATATTTTATAATTTTT-TTAAGATTTCAT
1 ATTTTTTATGATTTTTAATAAAATTTAAAAAT-TTTTAT-ATTTTTATTAAAATTTAAT
* * * *
42286218 ATTTTTTCT-ATTTTTAATAAATTTTAAATATTTTTGTATTTTTATTAAAATTTAAT
1 ATTTTTTATGATTTTTAATAAAATTTAAAAATTTTTATATTTTTATTAAAATTTAAT
*
42286274 AATTTTTAT
1 ATTTTTTAT
42286283 AACTTTTATT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
55 6 0.11
56 28 0.51
57 21 0.38
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (57 bp):
ATTTTTTATGATTTTTAATAAAATTTAAAAATTTTTATATTTTTATTAAAATTTAAT
Found at i:42286289 original size:29 final size:28
Alignment explanation
Indices: 42286153--42286292 Score: 115
Period size: 28 Copynumber: 4.9 Consensus size: 28
42286143 TTTTTGATGT
*
42286153 ATTTTATAATTTTTTATGATTTTTA-TAAA
1 ATTTAATAA-TTTTTAT-ATTTTTATTAAA
* *
42286182 ATTTAAAAATATTTTATAATTTTT-TTAAG
1 ATTTAATAAT-TTTTAT-ATTTTTATTAAA
* * * *
42286211 ATTTCATATTTTTTCTATTTTTAATAAA
1 ATTTAATAATTTTTATATTTTTATTAAA
* *
42286239 TTTTAA-ATATTTTTGTATTTTTATTAAA
1 ATTTAATA-ATTTTTATATTTTTATTAAA
*
42286267 ATTTAATAATTTTTATAACTTTTATT
1 ATTTAATAATTTTTAT-ATTTTTATT
42286293 GATTTTTTTA
Statistics
Matches: 87, Mismatches: 18, Indels: 12
0.74 0.15 0.10
Matches are distributed among these distances:
27 7 0.08
28 42 0.48
29 38 0.44
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
ATTTAATAATTTTTATATTTTTATTAAA
Found at i:42286527 original size:87 final size:86
Alignment explanation
Indices: 42286423--42286633 Score: 221
Period size: 92 Copynumber: 2.4 Consensus size: 86
42286413 GTATTTTTAC
* *
42286423 AGTTCAAATACCTAATTGAGTGCAAAAAAAAAATCAGGGGCTTAATTG-T-TTTTTAT-AAGTTT
1 AGTTCAAGTACCCAATTGAGTGCAAAAAAAAAA--A--GGCTTAATTGTTCTTTTTATAAAGTTT
**
42286485 GAAGGCCTTTTTAATGCATTTTGAA
62 GAAGGCCTTTTTAATGCATTTAAAA
*
42286510 AGTTCAAGTACCCAATTGAGTGCAAAAAACAAAAAGGCTTAATTGTCTTCTTCTTTTTTTAAAGT
1 AGTTCAAGTACCCAATTGAGTGCAAAAAA-AAAAAGGCTTAATTG-----TTCTTTTTATAAAGT
* *
42286575 TTGAGGGCCTTTTTGATGCATTTAAAA
60 TTGAAGGCCTTTTTAATGCATTTAAAA
* * *
42286602 AATTCAAGTACCCAATTAACTGCAAAAAAAAA
1 AGTTCAAGTACCCAATTGAGTGCAAAAAAAAA
42286634 GGATGGGACT
Statistics
Matches: 105, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
84 10 0.10
86 1 0.01
87 27 0.26
88 4 0.04
90 1 0.01
91 9 0.09
92 53 0.50
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (86 bp):
AGTTCAAGTACCCAATTGAGTGCAAAAAAAAAAAGGCTTAATTGTTCTTTTTATAAAGTTTGAAG
GCCTTTTTAATGCATTTAAAA
Found at i:42288653 original size:27 final size:26
Alignment explanation
Indices: 42288594--42288654 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
42288584 TCTCATCCCT
*
42288594 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAATAAAATTTTGACG
* * *
42288620 ATCTTACCCCTAATAAATTTTTTGATG
1 ATTTTACCCCTAATAAA-ATTTTGACG
42288647 ATTTTACC
1 ATTTTACC
42288655 GTGGTAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.43
Consensus pattern (26 bp):
ATTTTACCCCTAATAAAATTTTGACG
Found at i:42290563 original size:25 final size:25
Alignment explanation
Indices: 42290535--42290583 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
42290525 AATTTGACAG
* *
42290535 TTTTTTCTT-AATTTGGTATCTAAA
1 TTTTTTATTCAATTTGGTACCTAAA
42290559 TTTTTTATTCAATTTGGTACCTAAA
1 TTTTTTATTCAATTTGGTACCTAAA
42290584 CTTGTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (25 bp):
TTTTTTATTCAATTTGGTACCTAAA
Found at i:42291199 original size:29 final size:30
Alignment explanation
Indices: 42291114--42291200 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 30
42291104 AAACTTGGAC
*
42291114 AAAAAAAATCTTAAATATCAAATTAATAAA
1 AAAAAAAAGCTTAAATATCAAATTAATAAA
* * *
42291144 AAAAATATCAAGTTTAAATACCAAATTAA-ATA
1 AAAAA-A--AAGCTTAAATATCAAATTAATAAA
*
42291176 AAGAAAAAGCTTAAATATCAAATTA
1 AAAAAAAAGCTTAAATATCAAATTA
42291201 GAAAAAACAT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
29 17 0.36
30 5 0.11
31 2 0.04
32 6 0.13
33 17 0.36
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.26
Consensus pattern (30 bp):
AAAAAAAAGCTTAAATATCAAATTAATAAA
Found at i:42296439 original size:20 final size:19
Alignment explanation
Indices: 42296407--42296455 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
42296397 TTGTAATGGT
*
42296407 TATATTTTAATATTTAAAA
1 TATAATTTAATATTTAAAA
*
42296426 TATAATTTATATATTTAAAT
1 TATAATTTA-ATATTTAAAA
*
42296446 TAAAATTTAA
1 TATAATTTAA
42296456 AAAAATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATAATTTAATATTTAAAA
Found at i:42302165 original size:51 final size:51
Alignment explanation
Indices: 42302089--42302203 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 51
42302079 TAGATCACAT
*
42302089 TTATCACTTGTCACTTGTAACTGATCAGATAAGTGTAGCTAAAGCTACAAC
1 TTATCACTTGTCACTTGTAACTGATCAGATAAATGTAGCTAAAGCTACAAC
* * * * *
42302140 TTATCACTTGTCACTTGTTATTGATCAGATAAATGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTGTAACTGATCAGATAAATGTAGCTAAAGCTACAAC
42302191 TTATCACTTGTCA
1 TTATCACTTGTCA
42302204 TTGATCAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTAACTGATCAGATAAATGTAGCTAAAGCTACAAC
Found at i:42305661 original size:50 final size:52
Alignment explanation
Indices: 42305602--42305712 Score: 181
Period size: 50 Copynumber: 2.2 Consensus size: 52
42305592 TTAATAAAGT
42305602 CATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAATTATGA
* * *
42305652 CATGTATTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAATTAAGT
1 CATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAATTATGA
42305704 CATGCATTA
1 CATGCATTA
42305713 AGTTATCATT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 27 0.49
51 12 0.22
52 16 0.29
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (52 bp):
CATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAATTATGA
Found at i:42308783 original size:16 final size:16
Alignment explanation
Indices: 42308762--42308794 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
42308752 TCGTGCATTC
*
42308762 TCTTTTTTTTCTTCTT
1 TCTTTTCTTTCTTCTT
42308778 TCTTTTCTTTCTTCTT
1 TCTTTTCTTTCTTCTT
42308794 T
1 T
42308795 TTACTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TCTTTTCTTTCTTCTT
Found at i:42308927 original size:21 final size:21
Alignment explanation
Indices: 42308897--42308940 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
42308887 CTGTCCACTA
*
42308897 TATATGTATAGGTATAATTAC
1 TATATATATAGGTATAATTAC
42308918 TATATATATAGGTATAATTAC
1 TATATATATAGGTATAATTAC
42308939 TA
1 TA
42308941 CATTGGCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (21 bp):
TATATATATAGGTATAATTAC
Found at i:42314873 original size:21 final size:21
Alignment explanation
Indices: 42314835--42314874 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
42314825 AATCTCACTG
* *
42314835 CTACAGTATCCAATCTCACCA
1 CTACAGTAACCAAGCTCACCA
*
42314856 CTACAGTAACTAAGCTCAC
1 CTACAGTAACCAAGCTCAC
42314875 TACCACCGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.35, G:0.07, T:0.23
Consensus pattern (21 bp):
CTACAGTAACCAAGCTCACCA
Found at i:42318464 original size:40 final size:39
Alignment explanation
Indices: 42318427--42318555 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 39
42318417 TGAGGAATGT
42318427 TATCCGGGCTTAAAGAACCGCAGGCTTAGTGCTGGAATTG
1 TATCCGGGCTTAAAGAACCGCAGGCTTA-TGCTGGAATTG
* *
42318467 TATTCGGGCTTAAAG-ACCTGCAGGCTATATGTTGGAA-TG
1 TATCCGGGCTTAAAGAACC-GCAGGCT-TATGCTGGAATTG
* *
42318506 TTATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGAAATTG
1 -TATCCGGGCTTAAAGAACCGCAGGCTT-ATGCTGGAATTG
42318547 TATCCGGGC
1 TATCCGGGC
42318556 ATTGAATATC
Statistics
Matches: 77, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
39 6 0.08
40 65 0.84
41 6 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TATCCGGGCTTAAAGAACCGCAGGCTTATGCTGGAATTG
Found at i:42325945 original size:40 final size:40
Alignment explanation
Indices: 42325908--42326053 Score: 197
Period size: 40 Copynumber: 3.6 Consensus size: 40
42325898 TGAGGAATGT
* *
42325908 TATCCGGGCTTAAAGACCCGCTGGCTTCCTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTG
*
42325948 TATCCGGGCTTAAAGACCCACAGGCTAT-ATGCTGGAA-TG
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCATGCTGGAATTG
* * **
42325987 TTATCTGGGCTTAAAGACCCGCAGGCTTCGTGCTAAAATTG
1 -TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTG
42326028 TATCCGGGCTTAAAGACCCGCAGGCT
1 TATCCGGGCTTAAAGACCCGCAGGCT
42326054 ACGAGCTGGT
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 87 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTG
Found at i:42326034 original size:80 final size:80
Alignment explanation
Indices: 42325901--42326054 Score: 254
Period size: 80 Copynumber: 1.9 Consensus size: 80
42325891 TGATACTTGA
* **
42325901 GGAATGTTATCCGGGCTTAAAGACCCGCTGGCTTCCTGCTGGAATTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCCTGCTAAAATTGTATCCGGGCTTAAAGACC
42325966 CACAGGCTATATGCT
66 CACAGGCTATATGCT
* *
42325981 GGAATGTTATCTGGGCTTAAAGACCCGCAGGCTTCGTGCTAAAATTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCCTGCTAAAATTGTATCCGGGCTTAAAGACC
*
42326046 CGCAGGCTA
66 CACAGGCTA
42326055 CGAGCTGGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCCTGCTAAAATTGTATCCGGGCTTAAAGACC
CACAGGCTATATGCT
Found at i:42336282 original size:15 final size:14
Alignment explanation
Indices: 42336245--42336286 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
42336235 GAAATGGTAC
42336245 ATTGATAATTTTTA
1 ATTGATAATTTTTA
42336259 ATTGATAATTTTTA
1 ATTGATAATTTTTA
*
42336273 ATTGTTTAATTTTT
1 ATTG-ATAATTTTT
42336287 CGTAACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (14 bp):
ATTGATAATTTTTA
Found at i:42339173 original size:20 final size:18
Alignment explanation
Indices: 42339137--42339187 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
42339127 AAAGGCTATT
*
42339137 TTGTAAAGTTGTAAAATAA
1 TTGTAAA-TTGTGAAATAA
42339156 GTTGTAAATATGTGAAATAA
1 -TTGTAAAT-TGTGAAATAA
42339176 TTG-AAATTGTGA
1 TTGTAAATTGTGA
42339188 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (18 bp):
TTGTAAATTGTGAAATAA
Found at i:42339986 original size:94 final size:95
Alignment explanation
Indices: 42339883--42340054 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 95
42339873 ATTGAGAGCC
* * * *
42339883 AGTGTAAGACATATCTGGGACATGCATCAGCCTCGAGATATTCCAGCCAGTATAAGACATGTTTG
1 AGTGTAAGACATATCTGGGACATGCATCAACCTCGAGATATACAAGCCAGTATAAGACATGTCTG
*
42339948 GGACAT-GCATCAACATTGAGATGAGAACT
66 AGACATGGCATCAACATTGAGATGAGAACT
* * * * * *
42339977 AGTGTAAGACATGTCTGGGACATTCATCAACCTCGAGGTATACAAGCTAGTGTAAGACCTGTCTG
1 AGTGTAAGACATATCTGGGACATGCATCAACCTCGAGATATACAAGCCAGTATAAGACATGTCTG
42340042 AGACATGGCATCA
66 AGACATGGCATCA
42340055 GCTTGTTGTG
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 60 0.91
95 6 0.09
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (95 bp):
AGTGTAAGACATATCTGGGACATGCATCAACCTCGAGATATACAAGCCAGTATAAGACATGTCTG
AGACATGGCATCAACATTGAGATGAGAACT
Found at i:42340040 original size:48 final size:48
Alignment explanation
Indices: 42339883--42340054 Score: 179
Period size: 48 Copynumber: 3.6 Consensus size: 48
42339873 ATTGAGAGCC
* * * * * *
42339883 AGTGTAAGACATATCTGGGACATGCATCAGCCTCGAGATATTCCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGGTATACAAGCT
* * * * *
42339931 AGTATAAGACATGTTTGGGACATGCATCAACATTGA-G-ATGAGAA-CT
1 AGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGGTAT-ACAAGCT
*
42339977 AGTGTAAGACATGTCTGGGACATTCATCAACCTCGAGGTATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGGTATACAAGCT
* *
42340025 AGTGTAAGACCTGTCTGAGACATGGCATCA
1 AGTGTAAGACATGTCTGGGACAT-GCATCA
42340055 GCTTGTTGTG
Statistics
Matches: 99, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
46 34 0.34
47 5 0.05
48 55 0.56
49 5 0.05
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGGTATACAAGCT
Found at i:42340196 original size:49 final size:49
Alignment explanation
Indices: 42340071--42340198 Score: 150
Period size: 49 Copynumber: 2.6 Consensus size: 49
42340061 TGTGTGTTAG
* * * * *
42340071 TGTAAGACCTGTCTGGGACATGACATAGACACCGATAGGTGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGACATCGGCACCGATAGATGAAAGCCAA
* * *
42340120 TGTAAGACCTGTCTGGGACACGACATCGGC-CTCGATATATGAAAGTCAA
1 TGTAAGACCTGTCTGGGACATGACATCGGCAC-CGATAGATGAAAGCCAA
* *
42340169 TGTAAGGCCTGTCTGGGACATGTCATCGGC
1 TGTAAGACCTGTCTGGGACATGACATCGGC
42340199 TTAATGTGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 66 0.99
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGACATCGGCACCGATAGATGAAAGCCAA
Found at i:42346107 original size:27 final size:27
Alignment explanation
Indices: 42346069--42346242 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
42346059 TTAAGACCCC
*
42346069 GATTTGTAAAATTACCGAAATAACCTT
1 GATTTGTAAAATTACCGAAATACCCTT
* * **
42346096 GATTTTTGAAATTACTAAAATACCCTT
1 GATTTGTAAAATTACCGAAATACCCTT
** *
42346123 GGGTTGTAAAATTA-CGAAAATACCCCT
1 GATTTGTAAAATTACCG-AAATACCCTT
* *
42346150 GATTTGTAAAATTACTGAAATACCCCT
1 GATTTGTAAAATTACCGAAATACCCTT
* * **
42346177 AATTTGTAAAATTACCAAAATAATCTT
1 GATTTGTAAAATTACCGAAATACCCTT
* *
42346204 GATTTGTAAAATTACCGAAATTCCCCT
1 GATTTGTAAAATTACCGAAATACCCTT
42346231 GATTTGTAAAAT
1 GATTTGTAAAAT
42346243 GATAGTAATA
Statistics
Matches: 118, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
27 117 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (27 bp):
GATTTGTAAAATTACCGAAATACCCTT
Found at i:42346211 original size:81 final size:81
Alignment explanation
Indices: 42346064--42346242 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
42346054 GGTTGTTAAG
* * * * * * *
42346064 ACCCC-GATTTGTAAAATTACCGAAATAACCTTGATTTTTGAAATTACTAAAATACCCTTGGGTT
1 ACCCCTGATTTGTAAAATTACCGAAATAACCCTAATTTGTAAAATTACCAAAATAACCTTGAGTT
42346128 GTAAAATTA-CGAAAAT
66 GTAAAATTACCG-AAAT
* * * *
42346144 ACCCCTGATTTGTAAAATTACTGAAATACCCCTAATTTGTAAAATTACCAAAATAATCTTGATTT
1 ACCCCTGATTTGTAAAATTACCGAAATAACCCTAATTTGTAAAATTACCAAAATAACCTTGAGTT
42346209 GTAAAATTACCGAAAT
66 GTAAAATTACCGAAAT
*
42346225 TCCCCTGATTTGTAAAAT
1 ACCCCTGATTTGTAAAAT
42346243 GATAGTAATA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 5 0.06
81 78 0.92
82 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.34
Consensus pattern (81 bp):
ACCCCTGATTTGTAAAATTACCGAAATAACCCTAATTTGTAAAATTACCAAAATAACCTTGAGTT
GTAAAATTACCGAAAT
Found at i:42346266 original size:27 final size:27
Alignment explanation
Indices: 42346236--42346352 Score: 155
Period size: 27 Copynumber: 4.3 Consensus size: 27
42346226 CCCCTGATTT
42346236 GTAAAATGA-TAGTAATACCCCTGTAGG
1 GTAAAATGACT-GTAATACCCCTGTAGG
*
42346263 GTAAAATAACTGTAATACCCCTGTAGG
1 GTAAAATGACTGTAATACCCCTGTAGG
* * *
42346290 GTAAAATGACCGTAATGCCCCTTTAGG
1 GTAAAATGACTGTAATACCCCTGTAGG
* * *
42346317 GTAAAATGACTGTAATGCACCTGTATG
1 GTAAAATGACTGTAATACCCCTGTAGG
42346344 GTAAAATGA
1 GTAAAATGA
42346353 AGATTATGCC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 79 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAAAATGACTGTAATACCCCTGTAGG
Found at i:42346267 original size:54 final size:54
Alignment explanation
Indices: 42346209--42346352 Score: 128
Period size: 54 Copynumber: 2.7 Consensus size: 54
42346199 ATCTTGATTT
* * ** *
42346209 GTAAAATTACCGAAATTCCCCTG-ATTTGTAAAATGATAGTAATACCCCTGTAGG
1 GTAAAATAACCGAAATACCCCTGTA-GGGTAAAATGACAGTAATACCCCTGTAGG
* * * * *
42346263 GTAAAATAACTGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTTTAGG
1 GTAAAATAACCGAAATACCCCTGTAGGGTAAAATGACAGTAATACCCCTGTAGG
* * * * * *
42346317 GTAAAATGACTGTAATGCACCTGTATGGTAAAATGA
1 GTAAAATAACCGAAATACCCCTGTAGGGTAAAATGA
42346353 AGATTATGCC
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
54 74 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (54 bp):
GTAAAATAACCGAAATACCCCTGTAGGGTAAAATGACAGTAATACCCCTGTAGG
Found at i:42347328 original size:24 final size:25
Alignment explanation
Indices: 42347271--42347336 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
42347261 AAAAAAACTT
*
42347271 TATTTA-TATATTATTATTTACCTA
1 TATTTATTATATTATTATTTACATA
42347295 TATCTATATTATATT-TTA-TTACATAA
1 TAT-T-TATTATATTATTATTTACAT-A
*
42347321 TATTTATTATACTATT
1 TATTTATTATATTATT
42347337 TTATATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 11 0.31
25 9 0.26
26 9 0.26
27 6 0.17
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTTATTATATTATTATTTACATA
Found at i:42349898 original size:64 final size:62
Alignment explanation
Indices: 42349731--42349911 Score: 181
Period size: 64 Copynumber: 2.8 Consensus size: 62
42349721 ATATAGTTCG
* * * * *
42349731 GCTCTCTTGTAC-ACATGGTGAACACTCAATACCACCCATGTGACCTAGCCA-ATTTATCCCGTA
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTA-CACCCATGCGACCTAGCTACATATATCCCGTA
* * *
42349794 GCTCTCTTGTCTACATGGTGTCCTTCACCT-GGA-ACACATGCGACCTAGCTACATATATCCCGT
1 GCTCTCTTGTCTACATGGTG---TACA-CTAGTACACCCATGCGACCTAGCTACATATATCCCGT
42349857 A
62 A
42349858 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACAC-TAGTA-CACCCATGCGACCTAGCTACAT
42349912 CATAATGTCT
Statistics
Matches: 97, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
60 1 0.01
61 4 0.04
62 3 0.03
63 33 0.34
64 51 0.53
65 1 0.01
66 2 0.02
67 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (62 bp):
GCTCTCTTGTCTACATGGTGTACACTAGTACACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:42352403 original size:27 final size:27
Alignment explanation
Indices: 42352359--42352442 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
42352349 ATGGAGGAAG
* * *
42352359 TACTG-TATTGGTGACTATGTCAC-AT
1 TACTGATACTGGTGGCTATGCCACAAT
*
42352384 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTGATACTGGTGGCTATGCCACAAT
* *
42352412 TACTGATACTGGTGGCT-TACCACATT
1 TACTGATACTGGTGGCTATGCCACAAT
42352438 TACTG
1 TACTG
42352443 TTTCTGGCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.02
26 16 0.32
27 30 0.60
28 3 0.06
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
TACTGATACTGGTGGCTATGCCACAAT
Found at i:42352702 original size:32 final size:33
Alignment explanation
Indices: 42352633--42352730 Score: 99
Period size: 32 Copynumber: 3.0 Consensus size: 33
42352623 CCCACACTAT
* * ** *
42352633 TACTGTATAGGGCTAAACCCCAGAATGTTTTGT
1 TACTGTATAGGGCTAAAGCCCAGACTGTACTGA
*
42352666 TACTGTATAGAGCT-AAGCCCAGACTGTACTGA
1 TACTGTATAGGGCTAAAGCCCAGACTGTACTGA
* * *
42352698 TACTGGATAGGGCTCAGGCCCAGACTGTTACTG
1 TACTGTATAGGGCTAAAGCCCAGACTG-TACTG
42352731 CATGCATTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
32 25 0.46
33 24 0.44
34 5 0.09
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (33 bp):
TACTGTATAGGGCTAAAGCCCAGACTGTACTGA
Found at i:42363436 original size:57 final size:58
Alignment explanation
Indices: 42363379--42363492 Score: 133
Period size: 57 Copynumber: 2.0 Consensus size: 58
42363369 TTTAGGTCAT
* * * *
42363379 TTTCA-TAGTGGAGGAAACCACATTCATTTCCCAATG-GTTCAATTTCTTCATTTTCA
1 TTTCATTAGTGGAGAAAACCACAATCATTTCCAAATGTGTTCAATTTCTCCATTTTCA
** * * *
42363435 TTTCATTTTTGGAGAAAACCATAATCATTTCCAAATGTTTTCTATTTCTCCATTTTCA
1 TTTCATTAGTGGAGAAAACCACAATCATTTCCAAATGTGTTCAATTTCTCCATTTTCA
42363493 CCATTTCTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
56 5 0.11
57 25 0.53
58 17 0.36
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (58 bp):
TTTCATTAGTGGAGAAAACCACAATCATTTCCAAATGTGTTCAATTTCTCCATTTTCA
Found at i:42367871 original size:30 final size:30
Alignment explanation
Indices: 42367836--42367900 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
42367826 ACACCAGGGG
42367836 ACACACGACCGTGTCACCTGACCCTGTGTC
1 ACACACGACCGTGTCACCTGACCCTGTGTC
* *
42367866 ACACACGGCCGTGTCACCTGACCGTGTGTC
1 ACACACGACCGTGTCACCTGACCCTGTGTC
42367896 ACACA
1 ACACA
42367901 TGGCTGAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.38, G:0.22, T:0.18
Consensus pattern (30 bp):
ACACACGACCGTGTCACCTGACCCTGTGTC
Found at i:42371123 original size:39 final size:39
Alignment explanation
Indices: 42371080--42371160 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
42371070 ATTACTTCAC
42371080 TTTCCAATACTCGCATGAATCTTACATGTACTTGAGTCA
1 TTTCCAATACTCGCATGAATCTTACATGTACTTGAGTCA
42371119 TTTCCAATACTCGCATGAATCTTACATGTACTTGAGTCA
1 TTTCCAATACTCGCATGAATCTTACATGTACTTGAGTCA
42371158 TTT
1 TTT
42371161 AAATCATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (39 bp):
TTTCCAATACTCGCATGAATCTTACATGTACTTGAGTCA
Found at i:42375082 original size:28 final size:29
Alignment explanation
Indices: 42375018--42375082 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
42375008 TTTTCATTTA
* *
42375018 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATTGACACT
* *
42375047 TTTCTCAATTTAATCCCT-AATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACACT
*
42375075 TTTGTCAA
1 TTTCTCAA
42375083 AAATCACTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.43
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACACT
Found at i:42388339 original size:28 final size:27
Alignment explanation
Indices: 42388307--42388368 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
42388297 ATTGTGATTA
*
42388307 TACTGTTTTGGGCATAGGCCCACACTG
1 TACTGTTTAGGGCATAGGCCCACACTG
** * *
42388334 TTACTGCATAGGGCCTAGGCCCAGACTG
1 -TACTGTTTAGGGCATAGGCCCACACTG
42388362 TACTGTT
1 TACTGTT
42388369 AATGAATAGG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (27 bp):
TACTGTTTAGGGCATAGGCCCACACTG
Found at i:42388389 original size:33 final size:34
Alignment explanation
Indices: 42388330--42388401 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
42388320 ATAGGCCCAC
* * * *
42388330 ACTGTTACTGCATAGGGCCTAGGCCCAGACTG-T
1 ACTGTTAATGAATAGGGCCTAAGCCCAGACCGTT
42388363 ACTGTTAATGAATAGGG-CTCAAGCCCAGACCGTT
1 ACTGTTAATGAATAGGGCCT-AAGCCCAGACCGTT
42388397 ACTGT
1 ACTGT
42388402 ATGCACTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 2 0.06
33 25 0.76
34 6 0.18
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (34 bp):
ACTGTTAATGAATAGGGCCTAAGCCCAGACCGTT
Found at i:42389226 original size:19 final size:20
Alignment explanation
Indices: 42389192--42389229 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
42389182 TACTATAGCC
42389192 ATTTAAGTTGTCCTTAGCTT
1 ATTTAAGTTGTCCTTAGCTT
*
42389212 ATTTAATTTGT-CTTAGCT
1 ATTTAAGTTGTCCTTAGCT
42389230 CTTACAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (20 bp):
ATTTAAGTTGTCCTTAGCTT
Found at i:42391884 original size:2 final size:2
Alignment explanation
Indices: 42391877--42391908 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
42391867 CACTTACGTG
*
42391877 CA CA CA CA GA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
42391909 TATATCAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:42397880 original size:17 final size:17
Alignment explanation
Indices: 42397858--42397893 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
42397848 CCACATCTAT
42397858 AACATGCTCCATTTCTC
1 AACATGCTCCATTTCTC
42397875 AACATGCTCCATTTCTC
1 AACATGCTCCATTTCTC
42397892 AA
1 AA
42397894 ACGGCATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.33, G:0.06, T:0.33
Consensus pattern (17 bp):
AACATGCTCCATTTCTC
Found at i:42405776 original size:207 final size:207
Alignment explanation
Indices: 42405421--42405834 Score: 702
Period size: 207 Copynumber: 2.0 Consensus size: 207
42405411 TCTCACCAGG
* * **
42405421 ATGCATAGCATAAGGACTACTATGCGCCTTTCGCAGTATAGACTGCCTCAAATCAGTATCCTTTG
1 ATGCATAGCATAAGGACGACTATGCGCCTTTCGCAGTATAGACTGCCTCAAATCAGTATCATTCA
42405486 GTACACATATTCTCCCACAAAAATAGAGCACCCCTTCGCTATTCAGTCCAAAATCCACAATATCC
66 GTACACATATTCTCCCACAAAAATAGAGCACCCCTTCGCTATTCAGTCCAAAATCCACAATATCC
* * *
42405551 CCACTCTTAACCTGACGGAAACGAAGACCCAGTGACTCGTCCTCTAATAGTTTACTCCTAATCTG
131 CCACTCTCAACCTGACGGAAACGAAGACCCAATGACTCGTCCTCCAATAGTTTACTCCTAATCTG
42405616 CTCAATCCACAT
196 CTCAATCCACAT
*
42405628 ATGCATAGCATAAGGACGACTATGCGCCTTTCGTAGTATAGACTGCCTCAAATCAGTATCATTCA
1 ATGCATAGCATAAGGACGACTATGCGCCTTTCGCAGTATAGACTGCCTCAAATCAGTATCATTCA
* * * *
42405693 GTACGCATATTCTTCCACAAAAATAGAGCACCCCTTCGCTATTCAGTCTAAAATCCACAGTATCC
66 GTACACATATTCTCCCACAAAAATAGAGCACCCCTTCGCTATTCAGTCCAAAATCCACAATATCC
* *
42405758 CCACTCTCAACCTGACGGAAACGAAGACCCAATGACTCGTCCTCCAATTGTTTACTCTTAATCTG
131 CCACTCTCAACCTGACGGAAACGAAGACCCAATGACTCGTCCTCCAATAGTTTACTCCTAATCTG
42405823 CTCAATCCACAT
196 CTCAATCCACAT
42405835 TGGTTTAACC
Statistics
Matches: 193, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
207 193 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (207 bp):
ATGCATAGCATAAGGACGACTATGCGCCTTTCGCAGTATAGACTGCCTCAAATCAGTATCATTCA
GTACACATATTCTCCCACAAAAATAGAGCACCCCTTCGCTATTCAGTCCAAAATCCACAATATCC
CCACTCTCAACCTGACGGAAACGAAGACCCAATGACTCGTCCTCCAATAGTTTACTCCTAATCTG
CTCAATCCACAT
Found at i:42410193 original size:47 final size:48
Alignment explanation
Indices: 42410130--42410450 Score: 540
Period size: 49 Copynumber: 6.7 Consensus size: 48
42410120 ATGATAGTAT
42410130 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
42410177 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
42410224 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
*
42410271 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
42410320 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
* *
42410369 GGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
42410418 GGCCAAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
42410451 CCCGAAGGGC
Statistics
Matches: 269, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
47 127 0.47
49 138 0.51
50 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (48 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
Found at i:42410624 original size:37 final size:37
Alignment explanation
Indices: 42410568--42410646 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
42410558 CCGAGCTCTA
* * * *
42410568 AAGACTCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
42410605 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
42410642 AAGAC
1 AAGAC
42410647 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:42426981 original size:21 final size:21
Alignment explanation
Indices: 42426952--42426993 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
42426942 GTATGTATAT
*
42426952 ATGTATTAT-ATAATAAGAAA
1 ATGTATTATAATAAAAAGAAA
42426972 ATGTAATTATAATAAAAAGAAA
1 ATGT-ATTATAATAAAAAGAAA
42426994 GTGGTTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 5 0.26
22 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (21 bp):
ATGTATTATAATAAAAAGAAA
Found at i:42432700 original size:21 final size:21
Alignment explanation
Indices: 42432672--42432723 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
42432662 TTTTGCCTAA
*
42432672 GATG-TAAATTGGATTGAATT
1 GATGTTAAATTGGATTAAATT
*
42432692 GA-GTTTAAATTGTATTAAATT
1 GATG-TTAAATTGGATTAAATT
42432713 GATGTTAAATT
1 GATGTTAAATT
42432724 TACTCATACC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 2 0.07
21 23 0.85
22 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (21 bp):
GATGTTAAATTGGATTAAATT
Found at i:42432947 original size:17 final size:17
Alignment explanation
Indices: 42432925--42432957 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42432915 AACCAAAAAA
*
42432925 GCCCGATCAATGATAAT
1 GCCCGATAAATGATAAT
42432942 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
42432958 ATGATAAAAA
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:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:42441429 original size:16 final size:16
Alignment explanation
Indices: 42441408--42441438 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
42441398 TTCACTATTA
42441408 TGTCTTTTATATTTTC
1 TGTCTTTTATATTTTC
42441424 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
42441439 GCATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:42443077 original size:37 final size:36
Alignment explanation
Indices: 42443024--42443099 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
42443014 ATTCCAAAAA
*
42443024 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATATTAATAGTATT-ATATT-AATTTAATAT
*
42443060 TAATATTTATATTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATATTAATAGTATTATATTAATTTAATAT
42443097 TAA
1 TAA
42443100 AGTGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATATTAATAGTATTATATTAATTTAATAT
Found at i:42444386 original size:47 final size:47
Alignment explanation
Indices: 42444332--42444424 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
42444322 GTTTTCTATT
42444332 TGTATGGAAATACACATGAAGTCTTGGTTAAATGTTTTCTTATTCAG
1 TGTATGGAAATACACATGAAGTCTTGGTTAAATGTTTTCTTATTCAG
*
42444379 TGTATGGAAGTACACATGAAGTCTTGGTTAAATGTTTTCTTATTCA
1 TGTATGGAAATACACATGAAGTCTTGGTTAAATGTTTTCTTATTCA
42444425 ATCTTTCTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (47 bp):
TGTATGGAAATACACATGAAGTCTTGGTTAAATGTTTTCTTATTCAG
Found at i:42445668 original size:51 final size:51
Alignment explanation
Indices: 42445592--42445695 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
42445582 TGAGATAAAA
42445592 AAATTGGGAGATGAATAGAATGTCTCAATGGAGACTCATAGGAGGTCCAAG
1 AAATTGGGAGATGAATAGAATGTCTCAATGGAGACTCATAGGAGGTCCAAG
42445643 AAATTGGGAGATGAATAGAATGTCTCAATGGAGACTCATAGGAGGTCCAAG
1 AAATTGGGAGATGAATAGAATGTCTCAATGGAGACTCATAGGAGGTCCAAG
42445694 AA
1 AA
42445696 GACCGAGTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (51 bp):
AAATTGGGAGATGAATAGAATGTCTCAATGGAGACTCATAGGAGGTCCAAG
Found at i:42453068 original size:27 final size:27
Alignment explanation
Indices: 42453010--42453068 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
42453000 GCATCTGATA
* * *
42453010 CTGATTCTGTATTGGGCTTAGGCCCAT
1 CTGATTCTGTAATGGGCTAAGGCCCAC
*
42453037 TTGATTCTGTTAATGGGCTAAGG-CCAC
1 CTGATTCTG-TAATGGGCTAAGGCCCAC
42453064 CTGAT
1 CTGAT
42453069 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (27 bp):
CTGATTCTGTAATGGGCTAAGGCCCAC
Found at i:42459575 original size:27 final size:28
Alignment explanation
Indices: 42459522--42459586 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
42459512 GCATCTGATA
* *
42459522 CTGATTCT-TTATTGGGCTTAGGCCCAC
1 CTGATTCTGTTAATGGGCTAAGGCCCAC
42459549 CTGATTCTGTTAATGGGCTAAGG-CCAC
1 CTGATTCTGTTAATGGGCTAAGGCCCAC
*
42459576 CTGATACTGTT
1 CTGATTCTGTT
42459587 TTTGTGATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 22 0.65
28 12 0.35
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (28 bp):
CTGATTCTGTTAATGGGCTAAGGCCCAC
Found at i:42469650 original size:27 final size:26
Alignment explanation
Indices: 42469608--42469748 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 26
42469598 AGGAAGCGTC
* *
42469608 CTGGTGGCTATCCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
42469635 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
42469662 TTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
42469689 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
42469716 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
42469743 CTGGTG
1 CTGGTG
42469749 ACTTCGTCAT
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 10 0.10
27 85 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:42469691 original size:54 final size:53
Alignment explanation
Indices: 42469608--42469748 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 53
42469598 AGGAAGCGTC
* *
42469608 CTGGTGGCTATCCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
*
42469662 TTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* *
42469716 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
42469749 ACTTCGTCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 7 0.09
54 72 0.91
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:42476567 original size:13 final size:13
Alignment explanation
Indices: 42476549--42476574 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42476539 GATATTCCAG
42476549 CAGCTTGATCTTC
1 CAGCTTGATCTTC
42476562 CAGCTTGATCTTC
1 CAGCTTGATCTTC
42476575 AACACTTCAT
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:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
CAGCTTGATCTTC
Found at i:42479474 original size:13 final size:13
Alignment explanation
Indices: 42479456--42479481 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42479446 GATATTCCAA
42479456 CAGCTTGATCTTC
1 CAGCTTGATCTTC
42479469 CAGCTTGATCTTC
1 CAGCTTGATCTTC
42479482 TGCTTCTTAT
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:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
CAGCTTGATCTTC
Found at i:42485958 original size:36 final size:37
Alignment explanation
Indices: 42485911--42485984 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 37
42485901 AAACTATTTT
42485911 GAATTAATTTCATCAGTTTAAG-TTCTTTTTTCCGAA
1 GAATTAATTTCATCAGTTTAAGCTTCTTTTTTCCGAA
*
42485947 GAATTAATTTCATCAGTTTAAGCCTTTTTTTTTCCGAA
1 GAATTAATTTCATCAGTTTAAG-CTTCTTTTTTCCGAA
42485985 CTTAGCTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 22 0.63
38 13 0.37
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (37 bp):
GAATTAATTTCATCAGTTTAAGCTTCTTTTTTCCGAA
Found at i:42487597 original size:16 final size:15
Alignment explanation
Indices: 42487578--42487620 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
42487568 GTCAAGACTC
42487578 TTTATAACAATCATGT
1 TTTATAACAA-CATGT
*
42487594 TTTATAACAACATTT
1 TTTATAACAACATGT
42487609 TATTATAACAAC
1 T-TTATAACAAC
42487621 TAAATTCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (15 bp):
TTTATAACAACATGT
Found at i:42489170 original size:20 final size:20
Alignment explanation
Indices: 42489145--42489194 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
42489135 GGGTACACAC
*
42489145 CCGTGTGGCCTGGGATATGG
1 CCGTGTGGCCTGGGACATGG
42489165 CCGTGTGGCCTGGGACATGG
1 CCGTGTGGCCTGGGACATGG
*
42489185 CCGTGAGGCC
1 CCGTGTGGCC
42489195 AGGCCATGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.10, C:0.26, G:0.44, T:0.20
Consensus pattern (20 bp):
CCGTGTGGCCTGGGACATGG
Found at i:42490318 original size:93 final size:94
Alignment explanation
Indices: 42490221--42490412 Score: 377
Period size: 93 Copynumber: 2.1 Consensus size: 94
42490211 ATAGAAACTA
42490221 CCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTAT
1 CCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTAT
42490286 TCATGTTT-AATAAAATATGCAAACTTCG
66 TCATGTTTAAATAAAATATGCAAACTTCG
42490314 CCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTAT
1 CCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTAT
42490379 TCATGTTTAAATAAAATATGCAAACTTCG
66 TCATGTTTAAATAAAATATGCAAACTTCG
42490408 CCATA
1 CCATA
42490413 TTCAAATATC
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 73 0.74
94 25 0.26
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (94 bp):
CCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTAT
TCATGTTTAAATAAAATATGCAAACTTCG
Found at i:42493900 original size:41 final size:41
Alignment explanation
Indices: 42493841--42493922 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
42493831 ATGGAAAGTG
* * *
42493841 TATGTTTAAGCCTGGTATTATGTTAATCTATTTCTAATTAT
1 TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
42493882 TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
1 TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
42493923 CTCCATGTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (41 bp):
TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
Found at i:42494602 original size:11 final size:12
Alignment explanation
Indices: 42494576--42494609 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
42494566 AGCCCGTCCG
42494576 TATTAATTTTTA
1 TATTAATTTTTA
42494588 TATTAATTTTT-
1 TATTAATTTTTA
42494599 TATT-ATTTTTA
1 TATTAATTTTTA
42494610 ATATATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 4 0.19
12 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:42494763 original size:30 final size:30
Alignment explanation
Indices: 42494727--42494789 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
42494717 ACTTAAAAAG
42494727 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
42494757 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
42494787 CAA
1 CAA
42494790 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:42496964 original size:32 final size:32
Alignment explanation
Indices: 42496924--42497004 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 32
42496914 TGAAATTAGT
*
42496924 TTGTTGGATTTTGAAATTATTATGTTTTAAAG-
1 TTGTTGGATATTGAAATTATTATGTTTT-AAGC
*
42496956 TTGTTGGATATTGAATTTATTATGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTTTTAAGC
42496988 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
42497005 GATTGACAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 3 0.07
32 42 0.93
ACGTcount: A:0.27, C:0.01, G:0.20, T:0.52
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTTTTAAGC
Found at i:42498123 original size:24 final size:23
Alignment explanation
Indices: 42498095--42498171 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
42498085 TTTGTAATAT
*
42498095 TAGTTATGCACTTGGACGATATTG
1 TAGTTATGCACTTGGA-AATATTG
*
42498119 TAGTTAT-CA-TGTGGTATAATA--C
1 TAGTTATGCACT-TGG-A-AATATTG
42498141 TAGTTATGCACTTGGAAAATATTG
1 TAGTTATGCACTTGG-AAATATTG
42498165 TAGTTAT
1 TAGTTAT
42498172 CATGTAGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
22 12 0.29
23 11 0.26
24 19 0.45
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (23 bp):
TAGTTATGCACTTGGAAATATTG
Found at i:42498156 original size:46 final size:46
Alignment explanation
Indices: 42498089--42498176 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
42498079 TACTAATTTG
* **
42498089 TAATATTAGTTATGCACTTGGACGATATTGTAGTTATCATGTGGTA
1 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGGTA
42498135 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGT
1 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGT
42498177 AGTGTACTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (46 bp):
TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGGTA
Found at i:42498188 original size:46 final size:46
Alignment explanation
Indices: 42498089--42498188 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 46
42498079 TACTAATTTG
* ** *
42498089 TAATATTAGTTATGCACTTGGACGATATTGTAGTTATCATGTGGTA
1 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAGTA
*
42498135 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAGTG
1 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAGTA
*
42498181 TACTACTA
1 TAATACTA
42498189 ATTTGTAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (46 bp):
TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAGTA
Found at i:42505259 original size:18 final size:18
Alignment explanation
Indices: 42505238--42505280 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
42505228 ATAATTTAAA
42505238 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
42505256 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
42505274 ATGTAAA
1 ATATAAA
42505281 AACAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Done.