Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 42 of 433
Found at i:11180181 original size:20 final size:20
Alignment explanation
Indices: 11180156--11180194 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11180146 TGTAGCAGGA
*
11180156 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
11180176 ATATCGATATCTTAAGAAA
1 ATATCGATACCTTAAGAAA
11180195 ACTATTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:11180552 original size:34 final size:34
Alignment explanation
Indices: 11180507--11180575 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
11180497 ATGGGACAGG
*
11180507 TACACACTTCCTAAGATGATAGACTGGCTTAGTT
1 TACACACTTCCTAAGATGATACACTGGCTTAGTT
*
11180541 TACACATTTCCTAAGATGATACACTGGCTTAGTT
1 TACACACTTCCTAAGATGATACACTGGCTTAGTT
11180575 T
1 T
11180576 TCTTTTTCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (34 bp):
TACACACTTCCTAAGATGATACACTGGCTTAGTT
Found at i:11183534 original size:40 final size:40
Alignment explanation
Indices: 11183381--11183543 Score: 184
Period size: 40 Copynumber: 4.1 Consensus size: 40
11183371 TTAAAGCTTA
** * * * *
11183381 CTAGGCATTAA-CCCTGATAAGTATGCCGACACAAAGCGTA
1 CTAGGCATTAAGCCC-GATAAGTACACCAACACGAAGCCTG
* *
11183421 CTAAGCATTAAGCCCGATAAGTACACCAACACGAAGCATG
1 CTAGGCATTAAGCCCGATAAGTACACCAACACGAAGCCTG
* ** *
11183461 CTAGGCACTAAGCTTGATAAGTAAACCAACACGAAGCCTG
1 CTAGGCATTAAGCCCGATAAGTACACCAACACGAAGCCTG
**
11183501 CTAGGCATTAAGCCCGATAAGTACACCGGCACGAAGCCTG
1 CTAGGCATTAAGCCCGATAAGTACACCAACACGAAGCCTG
11183541 CTA
1 CTA
11183544 AGCAACAAGG
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 100 0.97
41 3 0.03
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (40 bp):
CTAGGCATTAAGCCCGATAAGTACACCAACACGAAGCCTG
Found at i:11184268 original size:28 final size:28
Alignment explanation
Indices: 11184228--11184283 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11184218 AGTTTCACAA
11184228 GTTAGTCCCTAGGTTAGCTAAATTAAGC
1 GTTAGTCCCTAGGTTAGCTAAATTAAGC
11184256 GTTAGTCCCTAGGTTAGCTAAATTAAGC
1 GTTAGTCCCTAGGTTAGCTAAATTAAGC
11184284 TAATACGAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (28 bp):
GTTAGTCCCTAGGTTAGCTAAATTAAGC
Found at i:11206821 original size:20 final size:20
Alignment explanation
Indices: 11206791--11206839 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
11206781 TTTTTATACT
11206791 TTTTTATTATATGT-TTTCTTA
1 TTTTTA-TATATGTATTTC-TA
*
11206812 TTTTTATATATTTATTTCTA
1 TTTTTATATATGTATTTCTA
11206832 TTTTTATA
1 TTTTTATA
11206840 AATTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTTATATATGTATTTCTA
Found at i:11206846 original size:21 final size:21
Alignment explanation
Indices: 11206805--11206844 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11206795 TATTATATGT
*
11206805 TTTCTTATTTTTATATATTTA
1 TTTCTTATTTTTATAAATTTA
11206826 TTTC-TATTTTTATAAATTT
1 TTTCTTATTTTTATAAATTT
11206845 TAAAATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTCTTATTTTTATAAATTTA
Found at i:11207730 original size:24 final size:24
Alignment explanation
Indices: 11207701--11207752 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11207691 TTTCTAGAAG
* *
11207701 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTACTAGCATAATAT
*
11207725 ATTTAGTATTTACTAGCATAATTT
1 ATTTAGTATTTACTAGCATAATAT
11207749 ATTT
1 ATTT
11207753 GACTTACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGTATTTACTAGCATAATAT
Found at i:11216532 original size:42 final size:42
Alignment explanation
Indices: 11216486--11216581 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
11216476 GCAGGGACAT
* *
11216486 GGGCGTGTGTCTCAGCCGTGTGTACCACACGGCCTAGAACAC
1 GGGCGTGTGTCTCAACCGTGTGTACCACACAGCCTAGAACAC
* *
11216528 GGGCGTGTGTCTCAACTGTGTGTACTACACAGCCTAGAACAC
1 GGGCGTGTGTCTCAACCGTGTGTACCACACAGCCTAGAACAC
11216570 GGGCGTGTGTCT
1 GGGCGTGTGTCT
11216582 TGGCCATGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.23
Consensus pattern (42 bp):
GGGCGTGTGTCTCAACCGTGTGTACCACACAGCCTAGAACAC
Found at i:11224510 original size:22 final size:22
Alignment explanation
Indices: 11224482--11224565 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
11224472 AATAGAATAG
* *
11224482 AGAGCACCGATGTGCTAAACAC
1 AGAGCACCAATGTGCTAAACAA
* * * * *
11224504 AGAGCACTAATGAGCTGATCAG
1 AGAGCACCAATGTGCTAAACAA
11224526 AGAGCACTC-ATGTGCTAAACAA
1 AGAGCAC-CAATGTGCTAAACAA
*
11224548 AGAGCACTAATGTGCTAA
1 AGAGCACCAATGTGCTAA
11224566 TAAATTAGAG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (22 bp):
AGAGCACCAATGTGCTAAACAA
Found at i:11235642 original size:53 final size:52
Alignment explanation
Indices: 11235512--11235711 Score: 173
Period size: 52 Copynumber: 3.9 Consensus size: 52
11235502 GGAAAATATG
* * * * * * *
11235512 TGATATGTGCGTCCGTTTAAGACCATAACTAGGCTATGGCATCGATG-CAGTA
1 TGATATGTG-TTCCGTATAAGACCATATCTGGGCTATGGCATCGGTGTGAGCA
*
11235564 TGATATGTGTTCCCGTATAAGACCATATCTGGGCCATGGCATCGGTGTGA-CA
1 TGATATGTGTT-CCGTATAAGACCATATCTGGGCTATGGCATCGGTGTGAGCA
* *
11235616 TGATAATGTGATTCCGTATAAGACCATATTTGGGATATGGCATCGGTGT--G--
1 TGAT-ATGTG-TTCCGTATAAGACCATATCTGGGCTATGGCATCGGTGTGAGCA
* * * * *
11235666 T-A-ATGTGATCCGTGTAAGACCATAGCAGGGCTATGGCTTCGGTGTG
1 TGATATGTGTTCCGTATAAGACCATATCTGGGCTATGGCATCGGTGTG
11235712 TGATATGTGA
Statistics
Matches: 124, Mismatches: 18, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
46 31 0.25
47 5 0.04
49 1 0.01
50 1 0.01
51 1 0.01
52 44 0.35
53 39 0.31
54 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
TGATATGTGTTCCGTATAAGACCATATCTGGGCTATGGCATCGGTGTGAGCA
Found at i:11235687 original size:46 final size:47
Alignment explanation
Indices: 11235619--11235721 Score: 127
Period size: 46 Copynumber: 2.2 Consensus size: 47
11235609 TGTGACATGA
***
11235619 TAATGTGATTCCGTATAAGACCATATTTGGGATATGGCATCGGTGTG
1 TAATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGTGTG
* * *
11235666 TAATGTGA-TCCGTGTAAGACCATAGCAGGGCTATGGCTTCGGTGTG
1 TAATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGTGTG
11235712 TGATATGTGA
1 T-A-ATGTGA
11235722 CAATTTGCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 33 0.69
47 9 0.19
48 6 0.12
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (47 bp):
TAATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGTGTG
Found at i:11236931 original size:29 final size:28
Alignment explanation
Indices: 11236889--11237206 Score: 142
Period size: 29 Copynumber: 10.9 Consensus size: 28
11236879 TTAATCGATG
*
11236889 GTCGAAACCATCCCTTTTCATATTTGATA
1 GTCG-AACTATCCCTTTTCATATTTGATA
* *
11236918 GTCGAAGCTATCCCTTTTCATATTCGATT
1 GTCGAA-CTATCCCTTTTCATATTTGATA
* * * *
11236947 GCCGAAGCTA-CCCTTTTTCCTATTGGATG
1 GTCGAA-CTATCCC-TTTTCATATTTGATA
* * *
11236976 GTCGTCACCATCCCTTTTCATAGTTGAT-
1 GTCG-AACTATCCCTTTTCATATTTGATA
* * * * * **
11237004 GTTTGTCACCATCTCTTTTCATAATCAATA
1 G-TCG-AACTATCCCTTTTCATATTTGATA
* * *
11237034 GCCGAAGCTATCCCTTTTTATATTTGATG
1 GTCGAA-CTATCCCTTTTCATATTTGATA
* * * * *
11237063 GTTGTCACCATCCCTTTTCATAGTTGATG
1 GTCG-AACTATCCCTTTTCATATTTGATA
* * * * *
11237092 GTCGTTACCATCCGTTGTCATAATTGATA
1 GTCG-AACTATCCCTTTTCATATTTGATA
* *
11237121 G-CTGAAACTATCCGTTTTCATATTCGATA
1 GTC-G-AACTATCCCTTTTCATATTTGATA
*
11237150 G-CTGAAACTATCCCTTTTCATATTCGATA
1 GTC-G-AACTATCCCTTTTCATATTTGATA
*
11237179 G-CTGAAGCTATTCCTTTTCATTATTTGA
1 GTC-GAA-CTATCCCTTTTCA-TATTTGA
11237207 AGGTTGTCGA
Statistics
Matches: 229, Mismatches: 49, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
28 10 0.04
29 207 0.90
30 12 0.05
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (28 bp):
GTCGAACTATCCCTTTTCATATTTGATA
Found at i:11237022 original size:87 final size:87
Alignment explanation
Indices: 11236931--11237144 Score: 252
Period size: 87 Copynumber: 2.5 Consensus size: 87
11236921 GAAGCTATCC
* * * *
11236931 CTTTTCATATTCGATTGCCGAAGCTA-CCCTTTTTCCTATTGGATGGTCGTCACCATCCCTTTTC
1 CTTTTCATAATCAATAGCCGAAGCTATCCCTTTTT-ATATTGGATGGTCGTCACCATCCCTTTTC
11236995 ATAGTTGATGTTTGTCACCATCT
65 ATAGTTGATGTTTGTCACCATCT
* *
11237018 CTTTTCATAATCAATAGCCGAAGCTATCCCTTTTTATATTTGATGGTTGTCACCATCCCTTTTCA
1 CTTTTCATAATCAATAGCCGAAGCTATCCCTTTTTATATTGGATGGTCGTCACCATCCCTTTTCA
* * *
11237083 TAGTTGATGGTCGTTACCATC-
66 TAGTTGATGTTTGTCACCATCT
* ** * * * *
11237104 CGTTGTCATAATTGATAGCTGAAACTATCCGTTTTCATATT
1 C-TTTTCATAATCAATAGCCGAAGCTATCCCTTTTTATATT
11237145 CGATAGCTGA
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
86 1 0.01
87 100 0.92
88 8 0.07
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (87 bp):
CTTTTCATAATCAATAGCCGAAGCTATCCCTTTTTATATTGGATGGTCGTCACCATCCCTTTTCA
TAGTTGATGTTTGTCACCATCT
Found at i:11237023 original size:58 final size:57
Alignment explanation
Indices: 11236856--11237119 Score: 160
Period size: 58 Copynumber: 4.5 Consensus size: 57
11236846 GTGTTAAACT
* * * **
11236856 ATGGTCGTAACCATCCCTTTTCTTTAATCGATGGTCGAAACCATCCCTTTTCATATTTG
1 ATGGTCGTAACCATCCCTTTTC-ATAATTGATGGTTGTCACCATCCCTTTTCATA-TTG
* * * ** * * *
11236915 ATAGTCG-AAGCTATCCCTTTTCAT-ATTCGATTGCCG-AAGC-TACCCTTTTTCCTATTGG
1 ATGGTCGTAA-CCATCCCTTTTCATAATT-GATGGTTGTCACCAT-CCC-TTTTCATATT-G
* * * * **
11236973 ATGGTCGTCACCATCCCTTTTCATAGTTGATGTTTGTCACCATCTCTTTTCATAATCA
1 ATGGTCGTAACCATCCCTTTTCATAATTGATGGTTGTCACCATCCCTTTTCAT-ATTG
* * * * *
11237031 ATAGCCG-AAGCTATCCCTTTTTATATTTGATGGTTGTCACCATCCCTTTTCATAGTTG
1 ATGGTCGTAA-CCATCCCTTTTCATAATTGATGGTTGTCACCATCCCTTTTCATA-TTG
* * *
11237089 ATGGTCGTTACCATCCGTTGTCATAATTGAT
1 ATGGTCGTAACCATCCCTTTTCATAATTGAT
11237120 AGCTGAAACT
Statistics
Matches: 152, Mismatches: 40, Indels: 27
0.69 0.18 0.12
Matches are distributed among these distances:
56 1 0.01
57 12 0.08
58 111 0.73
59 27 0.18
60 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (57 bp):
ATGGTCGTAACCATCCCTTTTCATAATTGATGGTTGTCACCATCCCTTTTCATATTG
Found at i:11237163 original size:87 final size:87
Alignment explanation
Indices: 11236982--11237171 Score: 220
Period size: 87 Copynumber: 2.2 Consensus size: 87
11236972 GATGGTCGTC
* * * *
11236982 ACCATCCCTTTTCATAGTTGATGTTTGTCACCATCTCTTTTCATAATCAATAGCCGAAGCTATCC
1 ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCTCTTGTCATAATCAATAGCCGAAACTATCC
* * * * **
11237047 CTTTTTATATTTGATGGTTGTC
66 CTTTTCATATTCGATAGCTGAA
* ** *
11237069 ACCATCCCTTTTCATAGTTGATGGTCGTTACCATC-CGTTGTCATAATTGATAGCTGAAACTATC
1 ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCTC-TTGTCATAATCAATAGCCGAAACTATC
*
11237133 CGTTTTCATATTCGATAGCTGAA
65 CCTTTTCATATTCGATAGCTGAA
*
11237156 ACTATCCCTTTTCATA
1 ACCATCCCTTTTCATA
11237172 TTCGATAGCT
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
86 1 0.01
87 85 0.99
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (87 bp):
ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCTCTTGTCATAATCAATAGCCGAAACTATCC
CTTTTCATATTCGATAGCTGAA
Found at i:11238522 original size:28 final size:28
Alignment explanation
Indices: 11238451--11238507 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11238441 ATATTTACGG
*
11238451 CTCAGTTTATAGAAACGAGGTCCCGATA
1 CTCAGTTTATAGAAACGAGGTCCAGATA
11238479 CTCAGTTTATAGAAACGAGGTCCAGATA
1 CTCAGTTTATAGAAACGAGGTCCAGATA
11238507 C
1 C
11238508 CTCATTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (28 bp):
CTCAGTTTATAGAAACGAGGTCCAGATA
Found at i:11242413 original size:22 final size:24
Alignment explanation
Indices: 11242357--11242414 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
11242347 AAGAAAAATA
*
11242357 TAATAATAATTATTATTATTATTAT
1 TAATAA-AATTATTAATATTATTAT
*
11242382 TAAATGAAATTATTAATA-T-TTAT
1 T-AATAAAATTATTAATATTATTAT
11242405 TAATAAAATT
1 TAATAAAATT
11242415 TCCCCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 8 0.28
23 5 0.17
24 1 0.03
25 11 0.38
26 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATAAAATTATTAATATTATTAT
Found at i:11253939 original size:7 final size:7
Alignment explanation
Indices: 11253918--11253954 Score: 51
Period size: 6 Copynumber: 5.4 Consensus size: 7
11253908 TCTGCTAAAG
11253918 AAAAT-A
1 AAAATAA
11253924 AAAAT-A
1 AAAATAA
11253930 AAAATAA
1 AAAATAA
11253937 AAAATAAA
1 AAAAT-AA
11253945 AAAATAA
1 AAAATAA
11253952 AAA
1 AAA
11253955 GTAGTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 11 0.38
7 11 0.38
8 7 0.24
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:11262978 original size:18 final size:20
Alignment explanation
Indices: 11262955--11262994 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11262945 AAAAAATATT
11262955 AAAATAA-A-TGTGAAATAA
1 AAAATAACATTGTGAAATAA
*
11262973 AAAATAACATTTTGAAATAA
1 AAAATAACATTGTGAAATAA
11262993 AA
1 AA
11262995 GTAGATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
AAAATAACATTGTGAAATAA
Found at i:11265546 original size:4 final size:4
Alignment explanation
Indices: 11265537--11265578 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
11265527 AGCAAACGTG
11265537 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
11265579 GGAAATTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:11266399 original size:47 final size:47
Alignment explanation
Indices: 11266335--11266445 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
11266325 GACATTGAGT
*
11266335 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
11266382 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
11266429 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
11266446 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:11268655 original size:22 final size:22
Alignment explanation
Indices: 11268630--11268713 Score: 96
Period size: 22 Copynumber: 3.8 Consensus size: 22
11268620 AACAGAATAG
*
11268630 AGAGCACCAATGTGCTAAACAA
1 AGAGCACTAATGTGCTAAACAA
* * * * *
11268652 AGAGTACTGATGTGCTGATCAG
1 AGAGCACTAATGTGCTAAACAA
*
11268674 AGATCACTAATGTGCTAAACAA
1 AGAGCACTAATGTGCTAAACAA
*
11268696 AGAGAACTAATGTGCTAA
1 AGAGCACTAATGTGCTAA
11268714 TAAATCAAAG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (22 bp):
AGAGCACTAATGTGCTAAACAA
Found at i:11268691 original size:44 final size:44
Alignment explanation
Indices: 11268628--11268711 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
11268618 CTAACAGAAT
* *
11268628 AGAGAGCACCAATGTGCTAAACAAAGAGTACTGATGTGCTGATC
1 AGAGAGCACCAATGTGCTAAACAAAGAGAACTAATGTGCTGATC
* *
11268672 AGAGATCACTAATGTGCTAAACAAAGAGAACTAATGTGCT
1 AGAGAGCACCAATGTGCTAAACAAAGAGAACTAATGTGCT
11268712 AATAAATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (44 bp):
AGAGAGCACCAATGTGCTAAACAAAGAGAACTAATGTGCTGATC
Found at i:11272328 original size:24 final size:24
Alignment explanation
Indices: 11272296--11272358 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
11272286 AATCTCAAAT
11272296 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
11272320 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
11272344 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
11272359 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:11280100 original size:24 final size:24
Alignment explanation
Indices: 11280068--11280130 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
11280058 AATCTCAAAT
11280068 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
11280092 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
11280116 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
11280131 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:11284317 original size:30 final size:29
Alignment explanation
Indices: 11284277--11284351 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 29
11284267 ACAGCCATGA
*
11284277 CACACGGGCGTGTGGCCTGTCCGTGTGCCT
1 CACAC-GGCGTGTGGCCTGCCCGTGTGCCT
*
11284307 CACACAGGCGTGTAGCCTGCCCGTGTGCCT
1 CACAC-GGCGTGTGGCCTGCCCGTGTGCCT
11284337 CACACGAGCGTGTGG
1 CACACG-GCGTGTGG
11284352 TTTACTCGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 1 0.03
30 39 0.98
ACGTcount: A:0.12, C:0.33, G:0.35, T:0.20
Consensus pattern (29 bp):
CACACGGCGTGTGGCCTGCCCGTGTGCCT
Found at i:11288494 original size:27 final size:28
Alignment explanation
Indices: 11288453--11288530 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 28
11288443 GAGATATTTT
* *
11288453 GATATTTTCTAATTATTTAATTAGATAA
1 GATATTTTATTATTATTTAATTAGATAA
*
11288481 -ATATTATT-TTATTA-TTATTTTA-ATAA
1 GATATT-TTATTATTATTTA-ATTAGATAA
*
11288507 GATATTTTATTATTATTTTATTAG
1 GATATTTTATTATTATTTAATTAG
11288531 TATATAAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
26 9 0.22
27 27 0.68
28 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (28 bp):
GATATTTTATTATTATTTAATTAGATAA
Found at i:11288496 original size:11 final size:11
Alignment explanation
Indices: 11288482--11288529 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
11288472 ATTAGATAAA
11288482 TATTATTTTAT
1 TATTATTTTAT
11288493 TATTATTTTAAT
1 TATTATTTT-AT
* *
11288505 AAGATATTTTAT
1 TA-TTATTTTAT
11288517 TATTATTTTAT
1 TATTATTTTAT
11288528 TA
1 TA
11288530 GTATATAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 19 0.61
12 6 0.19
13 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:11290421 original size:46 final size:45
Alignment explanation
Indices: 11290369--11290734 Score: 414
Period size: 46 Copynumber: 8.0 Consensus size: 45
11290359 GCTTTTTGAA
* * *
11290369 ATGAAATATGTAAGACCATGGTTGAAAGATAACATAGCAACATGAT
1 ATGAAATA-GTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
11290415 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
11290461 GTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
11290507 ATGAAA-AGACCAAGACCATAGTTGAAAGATACCATGGCAATATGAC
1 ATGAAATAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
11290553 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCATGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
11290599 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
11290645 ATGAAA-AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
11290691 A-GAAAATGTGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATG
11290735 TCAAAGATAA
Statistics
Matches: 280, Mismatches: 30, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
44 2 0.01
45 1 0.00
46 275 0.98
48 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (45 bp):
ATGAAATAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:11290531 original size:92 final size:92
Alignment explanation
Indices: 11290379--11290734 Score: 471
Period size: 92 Copynumber: 3.9 Consensus size: 92
11290369 ATGAAATATG
* * * * * *
11290379 TAAGACCATGGTTGAAAGATAACATAGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCATAGTTGAAAGA
* **
11290444 TACCATGGCAACATGATGTGAAATGTG
66 TACCATGGCAACATGACGTGAAATGAA
* **
11290471 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGACCAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCATAGTTGAAAGA
* *
11290536 TACCATGGCAATATGACGGGAAATGAA
66 TACCATGGCAACATGACGTGAAATGAA
* * * *
11290563 TAAGACCATGGTTGAAAGATACCATGGCAGCATGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCATAGTTGAAAGA
* * *
11290628 TACCATGGAAACATGACATGAAAAGAA
66 TACCATGGCAACATGACGTGAAATGAA
*
11290655 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGTGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-GAGTAAGACCATAGTTGAAAG
* * *
11290719 ACACTATGGCATCATG
65 ATACCATGGCAACATG
11290735 TCAAAGATAA
Statistics
Matches: 229, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
91 4 0.02
92 225 0.98
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCATAGTTGAAAGA
TACCATGGCAACATGACGTGAAATGAA
Found at i:11290617 original size:138 final size:138
Alignment explanation
Indices: 11290380--11290734 Score: 503
Period size: 138 Copynumber: 2.6 Consensus size: 138
11290370 TGAAATATGT
* * * *
11290380 AAGACCATGGTTGAAAGATAACATAGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGTGTAAGACCATGGTTGAAAGAT
** ** * *
11290445 ACCATGGCAACATGATGTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
66 ACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGACATG
*
11290510 AAAAGACC
131 AAAAGAAC
* * * **
11290518 AAGACCATAGTTGAAAGATACCATGGCAATATGACGGGAAATGAATAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGTGTAAGACCATGGTTGAAAGAT
*
11290583 ACCATGGCAGCATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGACATG
66 ACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGACATG
*
11290648 AAAAGAAT
131 AAAAGAAC
* * *
11290656 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGTGTAAGACCATAGTTGAAAGAC
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGTGTAAGACCATGGTTGAAAGAT
* *
11290721 ACTATGGCATCATG
66 ACCATGGCAACATG
11290735 TCAAAGATAA
Statistics
Matches: 189, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
138 189 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (138 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGTGTAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGACATG
AAAAGAAC
Found at i:11291612 original size:15 final size:15
Alignment explanation
Indices: 11291592--11291625 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11291582 TTAGAGGTTG
*
11291592 AAGACAAGAGAGAAA
1 AAGACAAAAGAGAAA
*
11291607 AAGACAAAATAGAAA
1 AAGACAAAAGAGAAA
11291622 AAGA
1 AAGA
11291626 AGGAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.06, G:0.21, T:0.03
Consensus pattern (15 bp):
AAGACAAAAGAGAAA
Found at i:11293545 original size:20 final size:20
Alignment explanation
Indices: 11293520--11293559 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11293510 TCCATTGGGT
11293520 TAGTTTCAGTGTCACTAGGC
1 TAGTTTCAGTGTCACTAGGC
11293540 TAGTTTCAGTGTCACTAGGC
1 TAGTTTCAGTGTCACTAGGC
11293560 AAGCTACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
TAGTTTCAGTGTCACTAGGC
Found at i:11296854 original size:23 final size:23
Alignment explanation
Indices: 11296811--11296854 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
11296801 TTATTAAAAT
*
11296811 ATTAAATAAATAATAATTATCTA
1 ATTAAATAAATAATAAATATCTA
11296834 ATTAAATAAAT-ATAAAATATC
1 ATTAAATAAATAAT-AAATATC
11296855 ACCAACATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (23 bp):
ATTAAATAAATAATAAATATCTA
Found at i:11299882 original size:23 final size:23
Alignment explanation
Indices: 11299839--11299883 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11299829 TGTAAAATCG
*
11299839 AATAATTGTCACATGTTTATTAC
1 AATAATTGTCACATGTATATTAC
*
11299862 AATAGTTG-CACATGTAATATTA
1 AATAATTGTCACATGT-ATATTA
11299884 TTAACTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (23 bp):
AATAATTGTCACATGTATATTAC
Found at i:11308430 original size:9 final size:9
Alignment explanation
Indices: 11308416--11308450 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
11308406 CCCGTTTACG
*
11308416 AGTAATTTC
1 AGTAATTTT
11308425 AGTAATTTT
1 AGTAATTTT
11308434 AGTAATTTT
1 AGTAATTTT
11308443 AGTAATTT
1 AGTAATTT
11308451 ACGAGTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.51
Consensus pattern (9 bp):
AGTAATTTT
Found at i:11321029 original size:28 final size:28
Alignment explanation
Indices: 11320964--11321032 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
11320954 GGTCAGATTC
*
11320964 CAACGGCCATATTGTAACAGTCATATTT
1 CAACGGCCATATTGTAACAATCATATTT
**
11320992 CAGTGGCCATATTGTAACAATCATATTT
1 CAACGGCCATATTGTAACAATCATATTT
*
11321020 CAACGACCATATT
1 CAACGGCCATATT
11321033 TTTACATTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (28 bp):
CAACGGCCATATTGTAACAATCATATTT
Found at i:11322584 original size:29 final size:29
Alignment explanation
Indices: 11322552--11322624 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
11322542 CTTCGAGCTC
*
11322552 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
11322581 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
11322610 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
11322625 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:11330723 original size:29 final size:29
Alignment explanation
Indices: 11330633--11330792 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
11330623 ACTCGATTTC
* * **
11330633 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
11330662 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
11330690 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
11330720 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
11330749 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
11330778 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
11330793 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:11341683 original size:375 final size:374
Alignment explanation
Indices: 11340994--11341737 Score: 1362
Period size: 375 Copynumber: 2.0 Consensus size: 374
11340984 AAATATGTTA
*
11340994 TTCAAATGGTTCATTGGATGTTTGCACTCTGAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
1 TTCAAATGGTTCATTGGATGTTGGCACTCTGAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
*
11341059 CCTGGTATATCTTCACAATCTTATTTACCACAACTCTTTCTCTGAGAAAACATGGAAACCAGTTT
66 CCTGGTATATCTTCACAATCTTATTTACCACAACTCTTTCTCCGAGAAAACATGGAAACCAGTTT
11341124 TTAATGATCTGCATGAGTTTCAAATACTGAAGTGACGAAAAAAGGGCAATTACATGAAATTTTTA
131 TTAATGATCTGCATGAGTTTCAAATACTGAAGTGACGAAAAAAGGGCAATTACATGAAATTTTTA
* * *
11341189 ATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTTATTTTCAGCTTCATATTTACT
196 ATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGATTCATATTTACC
11341254 AATATAGTAGTTTTATGTTGACTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTAC
261 AATATAGTAGTTTTATGTTGACTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTAC
*
11341319 AATTGCGCTATTTACGAGGATACTGCAATTAGTTTCACCATTATTTATT
326 AATTGCGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATTTATT
11341368 TTCAAATGGTTCATTGGATGTTGGCACTCTGAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
1 TTCAAATGGTTCATTGGATGTTGGCACTCTGAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
*
11341433 CCTGGTAATATCTTCACAATCTTATTTACCACGACTCTTTCTCCGAGAAAACATGGAAACCAGTT
66 CCTGGT-ATATCTTCACAATCTTATTTACCACAACTCTTTCTCCGAGAAAACATGGAAACCAGTT
*
11341498 TTTAATGATCTGCATGAGTTTCAAATACTGAAGTGATGAAAAAAGGGCAATTACATGAAATTTTT
130 TTTAATGATCTGCATGAGTTTCAAATACTGAAGTGACGAAAAAAGGGCAATTACATGAAATTTTT
* *
11341563 AATCAGGATAGTGGTTAACTAATCTGAAAGGCATTTCGACGTCTCATTTTCAGATTCATATTTAC
195 AATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGATTCATATTTAC
* *
11341628 CAATATAGTAGTTTTATGTTGATTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCATTTGTTTA
260 CAATATAGTAGTTTTATGTTGACTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTA
*
11341693 CAATTGCGCTATTTATGAGGATACTGCAATTAGTTCCACCATTAT
325 CAATTGCGCTATTTACGAGGATACTGCAATTAGTTCCACCATTAT
11341738 GGTGTCATAG
Statistics
Matches: 356, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
374 70 0.20
375 286 0.80
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (374 bp):
TTCAAATGGTTCATTGGATGTTGGCACTCTGAATTCTTGGATTCTGGTGTTTCTAAGATCTGTTA
CCTGGTATATCTTCACAATCTTATTTACCACAACTCTTTCTCCGAGAAAACATGGAAACCAGTTT
TTAATGATCTGCATGAGTTTCAAATACTGAAGTGACGAAAAAAGGGCAATTACATGAAATTTTTA
ATCAGGATAGTGGTTAACTAATCTCAAAGGCATTTCGACATCTCATTTTCAGATTCATATTTACC
AATATAGTAGTTTTATGTTGACTGTTGTCTTTAAGCTATCCTTCATTGTTGCTGCACTTGTTTAC
AATTGCGCTATTTACGAGGATACTGCAATTAGTTCCACCATTATTTATT
Found at i:11346194 original size:19 final size:19
Alignment explanation
Indices: 11346153--11346193 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
11346143 TCATCATTTG
*
11346153 AAAATAAAAAATAATATTA
1 AAAATAAAAAATAATATAA
11346172 AAAATATAAAAAT--TATAA
1 AAAATA-AAAAATAATATAA
11346190 AAAA
1 AAAA
11346194 AACCTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATAAAAAATAATATAA
Found at i:11346194 original size:20 final size:19
Alignment explanation
Indices: 11346153--11346195 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
11346143 TCATCATTTG
**
11346153 AAAATAAAAAATAATATTA
1 AAAATAAAAAATAATAAAA
*
11346172 AAAATATAAAAATTATAAAA
1 AAAATA-AAAAATAATAAAA
11346192 AAAA
1 AAAA
11346196 CCTTCAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAATAAAAAATAATAAAA
Found at i:11351764 original size:7 final size:7
Alignment explanation
Indices: 11351734--11351780 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
11351724 ATGCTACAAC
11351734 AAAA-AG
1 AAAAGAG
11351740 AAAAGA-
1 AAAAGAG
11351746 AAAAGAAG
1 AAAAG-AG
11351754 AAAAGAG
1 AAAAGAG
11351761 AAAAGAG
1 AAAAGAG
11351768 AAAAGAG
1 AAAAGAG
11351775 AAAAGA
1 AAAAGA
11351781 AAACCTAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 9 0.24
7 24 0.63
8 5 0.13
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:11358820 original size:10 final size:10
Alignment explanation
Indices: 11358800--11358948 Score: 100
Period size: 10 Copynumber: 15.4 Consensus size: 10
11358790 TGATGTGGCA
11358800 AAAAAATTTAT
1 AAAAAA-TTAT
11358811 AAAAAATTAT
1 AAAAAATTAT
11358821 -AAAAATTAT
1 AAAAAATTAT
11358830 --AAAATTAT
1 AAAAAATTAT
*
11358838 --AAAATTTT
1 AAAAAATTAT
11358846 AATAAAA-TAT
1 AA-AAAATTAT
11358856 AAAAAA-TAT
1 AAAAAATTAT
* *
11358865 TAAAAGTTAT
1 AAAAAATTAT
11358875 AAAAAATTAT
1 AAAAAATTAT
**
11358885 AAAAAAGCAT
1 AAAAAATTAT
*
11358895 -AAAAATATAA
1 AAAAAAT-TAT
*
11358905 AAAAAATTGT
1 AAAAAATTAT
**
11358915 AAAATTTTAT
1 AAAAAATTAT
* *
11358925 -AAATATCAT
1 AAAAAATTAT
11358934 AAAAAAATTAT
1 -AAAAAATTAT
11358945 AAAA
1 AAAA
11358949 TGCATCAAAA
Statistics
Matches: 110, Mismatches: 20, Indels: 17
0.75 0.14 0.12
Matches are distributed among these distances:
8 15 0.14
9 32 0.29
10 40 0.36
11 23 0.21
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:11358829 original size:19 final size:19
Alignment explanation
Indices: 11358801--11358908 Score: 100
Period size: 19 Copynumber: 5.8 Consensus size: 19
11358791 GATGTGGCAA
11358801 AAAAATTTATAAAAAATTAT
1 AAAAA-TTATAAAAAATTAT
11358821 AAAAATTAT--AAAATTAT
1 AAAAATTATAAAAAATTAT
*
11358838 -AAAATTTTAATAAAA-TAT
1 AAAAATTATAA-AAAATTAT
* * *
11358856 AAAAAATATTAAAAGTTAT
1 AAAAATTATAAAAAATTAT
**
11358875 AAAAAATTATAAAAAAGCAT
1 -AAAAATTATAAAAAATTAT
11358895 AAAAA-TATAAAAAA
1 AAAAATTATAAAAAA
11358909 AATTGTAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
16 7 0.10
17 8 0.11
18 15 0.21
19 23 0.32
20 19 0.26
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATTATAAAAAATTAT
Found at i:11358833 original size:8 final size:8
Alignment explanation
Indices: 11358813--11358888 Score: 55
Period size: 8 Copynumber: 8.5 Consensus size: 8
11358803 AAATTTATAA
11358813 AAAATTAT
1 AAAATTAT
11358821 AAAAATTAT
1 -AAAATTAT
11358830 AAAATTAT
1 AAAATTAT
11358838 AAAATTTTAAT
1 AAAA--TT-AT
11358849 AAAA-TAT
1 AAAATTAT
*
11358856 AAAAAATATT
1 -AAAATTA-T
11358866 AAAAGTTAT
1 AAAA-TTAT
11358875 AAAAAATTAT
1 --AAAATTAT
11358885 AAAA
1 AAAA
11358889 AAGCATAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 19
0.74 0.01 0.25
Matches are distributed among these distances:
7 2 0.04
8 21 0.37
9 15 0.26
10 9 0.16
11 10 0.18
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (8 bp):
AAAATTAT
Found at i:11358841 original size:27 final size:26
Alignment explanation
Indices: 11358802--11358888 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 26
11358792 ATGTGGCAAA
11358802 AAAATTTATAAAAAATTATAAAAATTAT
1 AAAA-TTAT-AAAAATTATAAAAATTAT
* *
11358830 AAAATTAT-AAAATTTTAATAAAATAT
1 AAAATTATAAAAATTATAA-AAATTAT
* *
11358856 AAAAAATATTAAAAGTTATAAAAAATTAT
1 -AAAATTA-TAAAAATTAT-AAAAATTAT
11358885 AAAA
1 AAAA
11358889 AAGCATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
25 9 0.19
26 6 0.12
27 10 0.21
28 9 0.19
29 12 0.25
30 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (26 bp):
AAAATTATAAAAATTATAAAAATTAT
Found at i:11358944 original size:20 final size:21
Alignment explanation
Indices: 11358921--11358965 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
11358911 TTGTAAAATT
11358921 TTATAAATAT-CAT-AAAAAAA
1 TTATAAA-ATGCATCAAAAAAA
*
11358941 TTATAAAATGCATCAAAAAAG
1 TTATAAAATGCATCAAAAAAA
11358962 TTAT
1 TTAT
11358966 TTAACTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 10 0.45
21 10 0.45
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (21 bp):
TTATAAAATGCATCAAAAAAA
Found at i:11359182 original size:10 final size:10
Alignment explanation
Indices: 11359172--11359244 Score: 53
Period size: 10 Copynumber: 7.4 Consensus size: 10
11359162 TTTCTTTATT
11359172 TTTTATAAT-
1 TTTTATAATA
*
11359181 TTTCT-TACTA
1 TTT-TATAATA
*
11359191 TTTTATAAAA
1 TTTTATAATA
11359201 TTTTATAATTA
1 TTTTATAA-TA
*
11359212 TTTTCT-ATA
1 TTTTATAATA
11359221 TTTTATAATA
1 TTTTATAATA
* **
11359231 CTTTGCAATA
1 TTTTATAATA
11359241 TTTT
1 TTTT
11359245 TACGATATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
9 14 0.29
10 29 0.59
11 6 0.12
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (10 bp):
TTTTATAATA
Found at i:11359194 original size:19 final size:19
Alignment explanation
Indices: 11359135--11359198 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
11359125 GTACGATAAT
* *
11359135 TTTTATAATTTTTTTACGAA
1 TTTTATAATTTTCTTAC-TA
*
11359155 TTTTAT-A-TTTCTTTA-TT
1 TTTTATAATTTTC-TTACTA
11359172 TTTTATAATTTTCTTACTA
1 TTTTATAATTTTCTTACTA
11359191 TTTTATAA
1 TTTTATAA
11359199 AATTTTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
17 6 0.17
18 7 0.19
19 17 0.47
20 6 0.17
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTCTTACTA
Found at i:11376086 original size:16 final size:16
Alignment explanation
Indices: 11376073--11376105 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11376063 CGGTTATTAC
*
11376073 ATATATTTTATATTTA
1 ATATATGTTATATTTA
11376089 ATATATGTTAT-TTTA
1 ATATATGTTATATTTA
11376104 AT
1 AT
11376106 GGCAAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATATATGTTATATTTA
Found at i:11377043 original size:45 final size:45
Alignment explanation
Indices: 11376966--11377087 Score: 142
Period size: 45 Copynumber: 2.7 Consensus size: 45
11376956 GAAACAAGTG
* *
11376966 AGACCATAGCTG-AAGACATTAT-GACATCACGATTCTATCGAGTA
1 AGACCATAGCTGAAAGATATTATGGA-ATCACGATTCTAACGAGTA
* *
11377010 AGACCATGGCTGAAAGATGTTATGGAATCACGATTCTAACGAGTA
1 AGACCATAGCTGAAAGATATTATGGAATCACGATTCTAACGAGTA
* * *
11377055 AGGCTATAGTTGAAAGATATTATGGCAA-CACGA
1 AGACCATAGCTGAAAGATATTATGG-AATCACGA
11377088 CGAAAAATGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
44 11 0.17
45 51 0.77
46 4 0.06
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (45 bp):
AGACCATAGCTGAAAGATATTATGGAATCACGATTCTAACGAGTA
Found at i:11380973 original size:25 final size:25
Alignment explanation
Indices: 11380945--11380996 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
11380935 CATTTGTACA
11380945 AAACCAAAGCAACATTAAAAATGCC
1 AAACCAAAGCAACATTAAAAATGCC
* *
11380970 AAACCAAAGTAATATTAAAAATGCC
1 AAACCAAAGCAACATTAAAAATGCC
11380995 AA
1 AA
11380997 CAATTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.58, C:0.19, G:0.08, T:0.15
Consensus pattern (25 bp):
AAACCAAAGCAACATTAAAAATGCC
Found at i:11381322 original size:23 final size:23
Alignment explanation
Indices: 11381288--11381368 Score: 101
Period size: 23 Copynumber: 3.5 Consensus size: 23
11381278 AAAGCTGATG
11381288 AACAGTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
* * *
11381311 AACGGTAAGCTCCAATGAGCTGAA
1 AACAGTAAGCTCTATTGAGCTG-A
* *
11381335 AACAATAAGCTCTTTTGAGCTG-
1 AACAGTAAGCTCTATTGAGCTGA
11381357 AACAGTAAGCTC
1 AACAGTAAGCTC
11381369 ATACGAGCTG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 11 0.23
23 19 0.40
24 18 0.38
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:11388876 original size:23 final size:23
Alignment explanation
Indices: 11388811--11388876 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
11388801 CTGATGAACA
*
11388811 GTAAGCT-TTATTGAGTTAAAACG
1 GTAAGCTCTT-TTGAGTTGAAACG
* * *
11388834 ATAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTTTTGAGTTGAAACG
11388857 GTAAGCTCTTTTGAGTTGAA
1 GTAAGCTCTTTTGAGTTGAA
11388877 CAGTAAGGTC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (23 bp):
GTAAGCTCTTTTGAGTTGAAACG
Found at i:11388898 original size:22 final size:22
Alignment explanation
Indices: 11388846--11388965 Score: 73
Period size: 22 Copynumber: 5.3 Consensus size: 22
11388836 AAGCTCTATT
* * **
11388846 GAGCTGAAACGGTAAGCTCTTTT
1 GAGCTG-AACAGTAAGCTCATAC
* *
11388869 GAGTTGAACAGTAAGGTCATAC
1 GAGCTGAACAGTAAGCTCATAC
*
11388891 GAGCTGAA-ATGGTAAGCTCCA-AT
1 GAGCTGAACA--GTAAGCT-CATAC
* * *
11388914 GAGCTAAAAACAGTAAGCTCTTTC
1 GAGCT--GAACAGTAAGCTCATAC
*
11388938 GAGCTGAACAGTAAGCTCAAAC
1 GAGCTGAACAGTAAGCTCATAC
11388960 GAGCTG
1 GAGCTG
11388966 TGGTGAGTCC
Statistics
Matches: 73, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
21 1 0.01
22 37 0.51
23 18 0.25
24 14 0.19
25 2 0.03
26 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (22 bp):
GAGCTGAACAGTAAGCTCATAC
Found at i:11388951 original size:69 final size:68
Alignment explanation
Indices: 11388835--11388965 Score: 181
Period size: 69 Copynumber: 1.9 Consensus size: 68
11388825 GTTAAAACGA
* * * * * * * *
11388835 TAAGCTCTATTGAGCTGAAACGGTAAGCTCTTTTGAGTTGAACAGTAAGGTCATACGAGCTGAAA
1 TAAGCTCCAATGAGCTAAAACAGTAAGCTCTTTCGAGCTGAACAGTAAGCTCAAACGAGCTGAAA
11388900 TGG
66 TGG
11388903 TAAGCTCCAATGAGCTAAAAACAGTAAGCTCTTTCGAGCTGAACAGTAAGCTCAAACGAGCTG
1 TAAGCTCCAATGAGCT-AAAACAGTAAGCTCTTTCGAGCTGAACAGTAAGCTCAAACGAGCTG
11388966 TGGTGAGTCC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
68 14 0.26
69 40 0.74
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (68 bp):
TAAGCTCCAATGAGCTAAAACAGTAAGCTCTTTCGAGCTGAACAGTAAGCTCAAACGAGCTGAAA
TGG
Found at i:11394882 original size:47 final size:47
Alignment explanation
Indices: 11394820--11395033 Score: 249
Period size: 47 Copynumber: 4.6 Consensus size: 47
11394810 TTTGGGCGTT
* * *
11394820 CGAACTCGTTAAGTTGAGTCCGAGCTCGTGAAATGTAACTGGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATC
* * * * *
11394867 CGAACTTGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAATGC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCAT-C
* *
11394912 TCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATC
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATC
*
11394960 CAAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATC
*
11395007 CGAACTTGTTGAGTTGAGTCCGAGTTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC
11395034 ACTTATGGAT
Statistics
Matches: 141, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.03
45 3 0.02
46 29 0.21
47 96 0.68
48 3 0.02
49 4 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATC
Found at i:11394926 original size:46 final size:49
Alignment explanation
Indices: 11394862--11395087 Score: 219
Period size: 47 Copynumber: 4.8 Consensus size: 49
11394852 ATGTAACTGG
*
11394862 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTA
* *
11394910 GC-T-CGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA
* * * * *
11394954 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA
*
11395001 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC--
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTA
* *
11395050 GC-T-CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11395088 GCGGGTTACA
Statistics
Matches: 154, Mismatches: 14, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
45 4 0.03
46 60 0.39
47 71 0.46
48 6 0.04
50 3 0.02
51 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (49 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA
Found at i:11395074 original size:140 final size:140
Alignment explanation
Indices: 11394822--11395079 Score: 471
Period size: 140 Copynumber: 1.8 Consensus size: 140
11394812 TGGGCGTTCG
*
11394822 AACTCGTTAAGTTGAGTCCGAGCTCGTGAAATGTAACTGGGCATCCGAACTTGTTGAGTTGAGTC
1 AACTCGTTAAGTTGAGTCCGAGCTCGTGAAATGTAACTAGGCATCCGAACTTGTTGAGTTGAGTC
*
11394887 CGAGTTCACTTATGGATGCGAATGCTCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAC
66 CGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAC
11394952 TAGGCATCCA
131 TAGGCATCCA
* *
11394962 AACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTTGTTGAGTTGAGTC
1 AACTCGTTAAGTTGAGTCCGAGCTCGTGAAATGTAACTAGGCATCCGAACTTGTTGAGTTGAGTC
*
11395027 CGAGTTCACTTATGGATGCGAACGCTCGAGCTCGTTGAGTTGAGTCCGAGTTC
66 CGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGTTGAGTCCGAGTTC
11395080 GCTTATGGGC
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 113 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (140 bp):
AACTCGTTAAGTTGAGTCCGAGCTCGTGAAATGTAACTAGGCATCCGAACTTGTTGAGTTGAGTC
CGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAC
TAGGCATCCA
Found at i:11398717 original size:24 final size:24
Alignment explanation
Indices: 11398689--11398740 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
11398679 TTTCTAAAAG
* *
11398689 ATTTAGTATTTATTAGTAGAATAT
1 ATTTAGTATTTATTAGCACAATAT
11398713 ATTTAGTATTTATTAGCACAATAT
1 ATTTAGTATTTATTAGCACAATAT
11398737 ATTT
1 ATTT
11398741 GACATTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCACAATAT
Found at i:11404015 original size:2 final size:2
Alignment explanation
Indices: 11404008--11404038 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11403998 GTTTTAATGA
11404008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11404039 AATTTCGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11404138 original size:23 final size:23
Alignment explanation
Indices: 11404108--11404169 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
11404098 AAAATTAAAA
11404108 AGTTTAATTAATTAATTAATACT
1 AGTTTAATTAATTAATTAATACT
11404131 AGTTTAATTAATTAATTAATACT
1 AGTTTAATTAATTAATTAATACT
*
11404154 AATTTAATTTAATTAA
1 AGTTTAA-TTAATTAA
11404170 CCGTTTTAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 29 0.78
24 8 0.22
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (23 bp):
AGTTTAATTAATTAATTAATACT
Found at i:11408517 original size:26 final size:25
Alignment explanation
Indices: 11408454--11408518 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
11408444 AAAATTAAAT
*
11408454 AAAAATATTAAAAATATCAACTCCC
1 AAAAATAATAAAAATATCAACTCCC
* *
11408479 AAAAACAATTAAAATATTCAACATCCTC
1 AAAAATAATAAAAATA-TCAAC-TCC-C
11408507 -AAAATAATAAAA
1 AAAAATAATAAAA
11408519 GTAAATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 13 0.41
26 5 0.16
27 13 0.41
28 1 0.03
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (25 bp):
AAAAATAATAAAAATATCAACTCCC
Found at i:11408985 original size:29 final size:28
Alignment explanation
Indices: 11408948--11409028 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 28
11408938 ATTTAATCAT
11408948 ATTT-TAACATAATTATTATTAAAT-AC
1 ATTTATAACATAATTATTATTAAATAAC
* *
11408974 AATTTAATAACATAATATATAATTTAATAAC
1 -ATTT-ATAACATAAT-TATTATTAAATAAC
* * *
11409005 ATTTTTAATATAATTATTAATAAA
1 ATTTATAACATAATTATTATTAAA
11409029 ATATTAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
27 4 0.09
28 7 0.16
29 17 0.40
30 13 0.30
31 2 0.05
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (28 bp):
ATTTATAACATAATTATTATTAAATAAC
Found at i:11409041 original size:12 final size:12
Alignment explanation
Indices: 11409009--11409067 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
11408999 AATAACATTT
* *
11409009 TTAATATAATTA
1 TTAATAAAAATA
11409021 TTAAT-AAAATA
1 TTAATAAAAATA
11409032 TTAATAAAAATCA
1 TTAATAAAAAT-A
*
11409045 -TAATATATAATA
1 TTAATA-AAAATA
11409057 TT-ATAAAAATA
1 TTAATAAAAATA
11409068 ATATATAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 14 0.36
12 19 0.49
13 6 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
TTAATAAAAATA
Found at i:11414930 original size:34 final size:34
Alignment explanation
Indices: 11414825--11414967 Score: 135
Period size: 34 Copynumber: 4.2 Consensus size: 34
11414815 ATGTTTGTCG
* * *
11414825 GATAAACCGACAAATGTGTTCCTAGCACTAGTTA
1 GATAAACCGACAAATGTGTACCTAACACTAGTCA
* * * * *
11414859 GATAAACTGACGGAA-GTTGCACCTAACGCTAGCCA
1 GATAAACCGAC-AAATG-TGTACCTAACACTAGTCA
* * *
11414894 GATAAACCGACAAATATATACCTAGCACTAGTCA
1 GATAAACCGACAAATGTGTACCTAACACTAGTCA
* * *
11414928 GATAAACCGGCAAATGTGTGCCCAACACTAGTCA
1 GATAAACCGACAAATGTGTACCTAACACTAGTCA
11414962 GATAAA
1 GATAAA
11414968 TTGACAGAAG
Statistics
Matches: 84, Mismatches: 22, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
34 60 0.71
35 24 0.29
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (34 bp):
GATAAACCGACAAATGTGTACCTAACACTAGTCA
Found at i:11416935 original size:2 final size:2
Alignment explanation
Indices: 11416928--11416957 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11416918 TCTATTATTA
11416928 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11416958 CCTTTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11419912 original size:18 final size:18
Alignment explanation
Indices: 11419867--11419914 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
11419857 TAGATTTAAT
*
11419867 TATAAATAAATATATAAAA
1 TATAAATAAA-ATAGAAAA
*
11419886 T-TAAAATAAAATAGAAGA
1 TAT-AAATAAAATAGAAAA
11419904 TATAAATAAAA
1 TATAAATAAAA
11419915 AATTAGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (18 bp):
TATAAATAAAATAGAAAA
Found at i:11420812 original size:7 final size:7
Alignment explanation
Indices: 11420800--11420829 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11420790 TTAATTAAAT
11420800 AAAAAAG
1 AAAAAAG
11420807 AAAAAAG
1 AAAAAAG
11420814 AAAAAAG
1 AAAAAAG
*
11420821 AAAGAAG
1 AAAAAAG
11420828 AA
1 AA
11420830 GAAGACAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:11425028 original size:5 final size:5
Alignment explanation
Indices: 11425018--11425044 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11425008 CTGTGTGTTC
11425018 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
11425045 ACAAAGTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:11431732 original size:19 final size:19
Alignment explanation
Indices: 11431695--11431733 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11431685 TATATCAAAC
*
11431695 TAATTTTCAAAATTCAAAT
1 TAATTTTCAAAATTAAAAT
* *
11431714 TAATTTTTAAATTTAAAAT
1 TAATTTTCAAAATTAAAAT
11431733 T
1 T
11431734 TTTATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATTTTCAAAATTAAAAT
Found at i:11433019 original size:27 final size:27
Alignment explanation
Indices: 11432971--11433183 Score: 224
Period size: 27 Copynumber: 7.9 Consensus size: 27
11432961 GCTAGGCTGC
* *
11432971 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
11432998 CAAATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
11433024 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
11433051 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
11433078 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
11433105 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
11433132 CAGATATATGTGGCAAAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
11433159 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
11433184 GACGCTTCCT
Statistics
Matches: 159, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
26 11 0.07
27 141 0.89
28 7 0.04
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:11433049 original size:54 final size:54
Alignment explanation
Indices: 11432989--11433183 Score: 320
Period size: 54 Copynumber: 3.6 Consensus size: 54
11432979 GTGACGAAGT
* * *
11432989 CACCAGATACAAAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
11433043 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
11433097 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAAAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
11433151 CACTAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAGCCACCAG
11433184 GACGCTTCCT
Statistics
Matches: 134, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
53 4 0.03
54 130 0.97
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:11433090 original size:81 final size:81
Alignment explanation
Indices: 11432971--11433183 Score: 256
Period size: 81 Copynumber: 2.6 Consensus size: 81
11432961 GCTAGGCTGC
* * * *
11432971 CAGATAT-TGTGACGAAGTCACCAGATACAAATAT-TGTGGCAGAGCCACCAGAACAGATATAT-
1 CAGATATATGTGGCAAAGCCACCAGA-ACAGATATATGTGGCAGAGCCACCAGAACAGATA-ATC
*
11433033 GTGGCAGAGCCACCAGAT
64 GTGGCAGAGCCACCAGAA
* *
11433051 CAGATA-ATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCG
1 CAGATATAT-GTGGCAAAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATAATCG
*
11433115 TGGCATAGCCACCAGAA
65 TGGCAGAGCCACCAGAA
* * *
11433132 CAGATATATGTGGCAAAGCCACTAGATCAGATA-ATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAAAGCCACCAGAACAGATATA-TGTGGCAGAGCCACCAG
11433184 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
80 17 0.15
81 96 0.83
82 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (81 bp):
CAGATATATGTGGCAAAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATAATCGT
GGCAGAGCCACCAGAA
Found at i:11434842 original size:26 final size:26
Alignment explanation
Indices: 11434803--11434910 Score: 146
Period size: 26 Copynumber: 4.2 Consensus size: 26
11434793 TGAAATGCCC
*
11434803 ATCATGAAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
11434829 ATTATGGAATATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
11434855 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
11434881 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
11434907 ATCA
1 ATCA
11434911 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
25 3 0.04
26 67 0.93
27 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:11434881 original size:52 final size:52
Alignment explanation
Indices: 11434803--11434910 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 52
11434793 TGAAATGCCC
* * *
11434803 ATCATGAAACATTTACCTAAACCATTATTATGGAATATTTACCTAACTCATT
1 ATCATGAAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
11434855 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
11434907 ATCA
1 ATCA
11434911 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (52 bp):
ATCATGAAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:11436239 original size:5 final size:5
Alignment explanation
Indices: 11436225--11436275 Score: 81
Period size: 5 Copynumber: 10.8 Consensus size: 5
11436215 ATTTGTGCGT
11436225 ATTT- ATTTG ATTTG ATTTG ATTTG ATTT- ATTTG ATTTG ATTT- ATTTG
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG
11436272 ATTT
1 ATTT
11436276 TAAACTTAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
4 12 0.27
5 32 0.73
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.65
Consensus pattern (5 bp):
ATTTG
Found at i:11436242 original size:14 final size:14
Alignment explanation
Indices: 11436224--11436275 Score: 88
Period size: 14 Copynumber: 3.7 Consensus size: 14
11436214 CATTTGTGCG
11436224 TATTT-ATTTGATT
1 TATTTGATTTGATT
11436237 TGATTTGATTTGATT
1 T-ATTTGATTTGATT
11436252 TATTTGATTTGATT
1 TATTTGATTTGATT
11436266 TATTTGATTT
1 TATTTGATTT
11436276 TAAACTTAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
13 1 0.03
14 27 0.73
15 9 0.24
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.65
Consensus pattern (14 bp):
TATTTGATTTGATT
Found at i:11436247 original size:19 final size:19
Alignment explanation
Indices: 11436225--11436275 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
11436215 ATTTGTGCGT
11436225 ATTTATTTGATTTGATTTG
1 ATTTATTTGATTTGATTTG
11436244 ATTTGATTT-ATTTGATTTG
1 ATTT-ATTTGATTTGATTTG
11436263 ATTTATTTGATTT
1 ATTTATTTGATTT
11436276 TAAACTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.13
19 22 0.73
20 4 0.13
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.65
Consensus pattern (19 bp):
ATTTATTTGATTTGATTTG
Found at i:11436277 original size:24 final size:24
Alignment explanation
Indices: 11436225--11436275 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
11436215 ATTTGTGCGT
11436225 ATTTATTTGATTTGATTTGATTTG
1 ATTTATTTGATTTGATTTGATTTG
11436249 ATTTATTTGATTTGATTT-ATTTG
1 ATTTATTTGATTTGATTTGATTTG
11436272 ATTT
1 ATTT
11436276 TAAACTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.65
Consensus pattern (24 bp):
ATTTATTTGATTTGATTTGATTTG
Found at i:11440482 original size:16 final size:15
Alignment explanation
Indices: 11440456--11440485 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11440446 AAATATTAAA
11440456 TAAATAATAATTATC
1 TAAATAATAATTATC
11440471 TAAATAAATAATTAT
1 TAAAT-AATAATTAT
11440486 AAAATATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATAATAATTATC
Found at i:11442916 original size:30 final size:30
Alignment explanation
Indices: 11442861--11443020 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
11442851 ATAGTGAATC
11442861 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
11442890 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
11442920 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
11442949 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
11442977 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
11443007 CGCACACTTAGTGC
1 CGCACACTTAGTGC
11443021 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:11442953 original size:59 final size:57
Alignment explanation
Indices: 11442861--11443020 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
11442851 ATAGTGAATC
*
11442861 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
11442920 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
11442977 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
11443021 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:11446639 original size:33 final size:33
Alignment explanation
Indices: 11446569--11446645 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
11446559 TATATTTATG
* * * *
11446569 TGTAAGACTATAGCTGGGCTATGGCATCCCGAT
1 TGTAAGACCATAACTGGGCTATGGCATCACGAA
*
11446602 TGTAAGACCATAACTGGGTTATGGCA-CTACGAA
1 TGTAAGACCATAACTGGGCTATGGCATC-ACGAA
11446635 TGTAAGACCAT
1 TGTAAGACCAT
11446646 GGCACGGTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.03
33 37 0.97
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (33 bp):
TGTAAGACCATAACTGGGCTATGGCATCACGAA
Found at i:11448384 original size:18 final size:17
Alignment explanation
Indices: 11448331--11448384 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
11448321 TTTTTTAACC
11448331 TTTTTATT-TGTTATTA
1 TTTTTATTATGTTATTA
*
11448347 TTTTTATCTTATTTTA-TA
1 TTTTTA--TTATGTTATTA
11448365 TTTTTATTACTGTTATTA
1 TTTTTATTA-TGTTATTA
11448383 TT
1 TT
11448385 ATCTCACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 9 0.29
17 4 0.13
18 14 0.45
19 4 0.13
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTTTATTATGTTATTA
Found at i:11458580 original size:19 final size:19
Alignment explanation
Indices: 11458556--11458602 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11458546 ATCGACGCAT
*
11458556 TTTGCATT-CATTTCATTCA
1 TTTGCATTACATTACA-TCA
11458575 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
11458594 TATGCATTA
1 TTTGCATTA
11458603 AAGTCGACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:11466105 original size:3 final size:3
Alignment explanation
Indices: 11466097--11466147 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
11466087 CCTGGTACAA
11466097 AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11466143 AAT AA
1 AAT AA
11466148 ATCTAACTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11473478 original size:35 final size:35
Alignment explanation
Indices: 11473439--11473529 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 35
11473429 CTGTATCTTG
*
11473439 TTTACATGGTGTTGCCCTGAATGACTTATATACCA
1 TTTACATGGTGTTGCCCTGAAAGACTTATATACCA
* * ** *
11473474 TTTACACGATGTCACCCTGAAAGACTTATATATCA
1 TTTACATGGTGTTGCCCTGAAAGACTTATATACCA
*
11473509 TTTACATGGTGTTGCCTTGAA
1 TTTACATGGTGTTGCCCTGAA
11473530 GGACCAGTAG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (35 bp):
TTTACATGGTGTTGCCCTGAAAGACTTATATACCA
Found at i:11475052 original size:6 final size:6
Alignment explanation
Indices: 11474981--11475167 Score: 125
Period size: 6 Copynumber: 30.3 Consensus size: 6
11474971 AAGAAACATT
* * * * *
11474981 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATCAAA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
11475030 ATCAAA ATCAAA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
11475079 ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA ATTAGGTA A-CAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
11475129 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
11475168 GTGAATGCAA
Statistics
Matches: 144, Mismatches: 20, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
5 10 0.07
6 113 0.78
7 14 0.10
8 7 0.05
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:11475083 original size:37 final size:37
Alignment explanation
Indices: 11474990--11475083 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
11474980 TATCAGAACT
* * *
11474990 AGAATCAAAATGAGAATCAAAATCAAAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAAAATCAGGTAAC
* * *
11475027 AGAATCAAAATCAAAATCAGAATCAGAATTAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAAAATCAGGTAAC
* *
11475064 AGAATCAGAATCAGTATCAG
1 AGAATCAAAATCAGAATCAG
11475084 GTAACAGAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.18
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAAAATCAGGTAAC
Found at i:11475104 original size:37 final size:37
Alignment explanation
Indices: 11475063--11475158 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
11475053 AATTAGGTAA
*
11475063 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
* *
11475100 CAGAACCAGAATCAGAATTAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
*
11475137 CAGTATCAGGTAA-CAGAATCAG
1 CAGAATCA-G-AATCAGAATCAG
11475159 AATCAGAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
37 40 0.78
38 9 0.18
39 2 0.04
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.18
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
Found at i:11475134 original size:25 final size:25
Alignment explanation
Indices: 11475002--11475167 Score: 123
Period size: 25 Copynumber: 6.7 Consensus size: 25
11474992 AATCAAAATG
* * *
11475002 AGAATCAAAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
11475027 AGAATCAAAATCAAAATCA-G-AATC
1 AGAATCAGAATCAGAATCAGGTAA-C
*
11475051 AGAATTAGGTAA-CAGAATCA-G-AATC
1 AGAATCA-G-AATCAGAATCAGGTAA-C
*
11475076 AGTATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCA-G-AATCAGAATCAGGTAA-C
* *
11475101 AGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
11475126 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
11475151 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
11475168 GTGAATGCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
23 3 0.02
24 16 0.13
25 99 0.81
26 4 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:11475158 original size:19 final size:19
Alignment explanation
Indices: 11475010--11475139 Score: 106
Period size: 19 Copynumber: 6.6 Consensus size: 19
11475000 TGAGAATCAA
* *
11475010 AATCAAAATCAGGTGACAG
1 AATCAGAATCAGGTAACAG
* *
11475029 AATCAAAATCA--AAATCAG
1 AATCAGAATCAGGTAA-CAG
*
11475047 AATCAGAATTAGGTAACAG
1 AATCAGAATCAGGTAACAG
11475066 AATCAGAATCAGTATCAGGTAACAG
1 AATCAG----A--ATCAGGTAACAG
11475091 AATCAGAATCA-G-AACCAG
1 AATCAGAATCAGGTAA-CAG
*
11475109 AATCAGAATTAGGTAACAG
1 AATCAGAATCAGGTAACAG
11475128 AATCAGAATCAG
1 AATCAGAATCAG
11475140 TATCAGGTAA
Statistics
Matches: 91, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
17 3 0.03
18 26 0.29
19 39 0.43
20 4 0.04
21 1 0.01
23 1 0.01
25 17 0.19
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (19 bp):
AATCAGAATCAGGTAACAG
Found at i:11475164 original size:62 final size:62
Alignment explanation
Indices: 11475002--11475166 Score: 267
Period size: 62 Copynumber: 2.7 Consensus size: 62
11474992 AATCAAAATG
* ** * * * *
11475002 AGAATCAAAATCAAAATCAGGTGACAGAATCAAAATCAAAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAC
11475064 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAC
11475126 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
11475167 TGTGAATGCA
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 96 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAC
Found at i:11475714 original size:27 final size:27
Alignment explanation
Indices: 11475684--11476041 Score: 412
Period size: 27 Copynumber: 13.3 Consensus size: 27
11475674 GGGGTAAAAT
* * * *
11475684 GGTAATTTTACCCCACAAGGATATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
11475711 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11475738 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11475765 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11475792 GGTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11475819 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
11475846 GGTATTTCTACGCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11475873 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
11475900 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
11475927 AGTAATTCTAACCTA-TAGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* * * *
11475954 GATATTTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11475981 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
11476008 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
11476035 GATAATT
1 GGTAATT
11476042 TTGTAAATTG
Statistics
Matches: 284, Mismatches: 45, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 3 0.01
27 278 0.98
28 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:11475814 original size:81 final size:81
Alignment explanation
Indices: 11475688--11476041 Score: 469
Period size: 81 Copynumber: 4.4 Consensus size: 81
11475678 TAAAATGGTA
* * * * *
11475688 ATTT-TACCCCACAAGGATATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
11475752 ACAGGGGTATTTCAGT
66 ACAGGGGTATTTCAGT
* * *
11475768 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
*
11475833 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCAGT
* * *
11475849 ATTTCTACGCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
*
11475914 ACAGGGGTATTTTAGT
66 ACAGGGGTATTTCAGT
* * * * * * * *
11475930 AATTCTAACCTA-TAGGGATATTTCGATATTTCTACCTTACAGGGGTATTTCGGTATTTCTACCC
1 ATTTCTACCCTACAAGGG-TATTTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
* **
11475994 TACAAGGGTATTTTGGT
65 TACAGGGGTATTTCAGT
11476011 ATTTCTACCCTACAAGGGTATTTCGATAATT
1 ATTTCTACCCTACAAGGGTATTTCGATAATT
11476042 TTGTAAATTG
Statistics
Matches: 241, Mismatches: 30, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
80 7 0.03
81 230 0.95
82 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCAGT
Found at i:11476110 original size:27 final size:27
Alignment explanation
Indices: 11476078--11476313 Score: 242
Period size: 27 Copynumber: 8.7 Consensus size: 27
11476068 TCTATAAATT
* * *
11476078 AGGGGTACTTTGGTAATTTTATAAGCC
1 AGGGGTATTTTGGTAATTTTACAAACC
*** ** *
11476105 -GAGGGTATTTCAATAATTTTACAGGTCG
1 AG-GGGTATTTTGGTAATTTTACA-AACC
* * *
11476133 AG-GGTATTTTAGTAATTTCACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
11476159 AGGGATATTTTGGTAATTTTATAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
*
11476186 AGGGGTATTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
11476213 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* **
11476240 AGGGGTATTTTGGTAATTTTATAAATA
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
11476267 AAGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
11476294 AGGGGTACTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
11476314 GTAAACTAAA
Statistics
Matches: 168, Mismatches: 37, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
26 3 0.02
27 163 0.97
28 1 0.01
29 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:11476313 original size:81 final size:80
Alignment explanation
Indices: 11476078--11476313 Score: 278
Period size: 81 Copynumber: 2.9 Consensus size: 80
11476068 TCTATAAATT
* *** * * ***
11476078 AGGGGTACTTTGGTAATTTTATAAGCCGAGGGTATTTCAATAATTTTACAGGTC-GAGGGTATTT
1 AGGGGTATTTTGGTAATTTTATAA-ATAAGGGTATTTTAGTAATTTTACAAACCAG-GGGTATTT
* * *
11476142 TAGTAATTTCACAAATC
64 TGGTAATTTTACAAACC
* *
11476159 AGGGATATTTTGGTAATTTTATAAACTAGGGGTATTTT-GATAATTTTACAAACCAGGGGTATTT
1 AGGGGTATTTTGGTAATTTTATAAA-TAAGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTT
11476223 TGGTAATTTTACAAACC
64 TGGTAATTTTACAAACC
*
11476240 AGGGGTATTTTGGTAATTTTATAAATAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTACTTT
1 AGGGGTATTTTGGTAATTTTATAAAT-AAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
11476305 GGTAATTTT
65 GGTAATTTT
11476314 GTAAACTAAA
Statistics
Matches: 133, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.01
81 130 0.98
82 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTATAAATAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTG
GTAATTTTACAAACC
Found at i:11476319 original size:27 final size:27
Alignment explanation
Indices: 11476134--11476313 Score: 243
Period size: 27 Copynumber: 6.7 Consensus size: 27
11476124 TACAGGTCGA
* * *
11476134 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
11476161 GGATATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
11476188 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
11476215 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
11476242 GGGTATTTTGGTAATTTTATAAATAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
11476269 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
11476296 GGGTACTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
11476314 GTAAACTAAA
Statistics
Matches: 131, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:11478096 original size:56 final size:58
Alignment explanation
Indices: 11478033--11478154 Score: 185
Period size: 56 Copynumber: 2.1 Consensus size: 58
11478023 ATTTTCAGGT
11478033 CATTTTCAATTTCAATTTGGAGAAAACCACATTCATTTCCAAA-ATTT-TCATTTCTC
1 CATTTTCAATTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
* * * * *
11478089 TATTTTCATTTTCATTTTGGAGAAAACCACATTTATTTCCAAATATTTCTTATTTCTC
1 CATTTTCAATTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
11478147 CATTTTCA
1 CATTTTCA
11478155 CCATTTTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 39 0.67
57 4 0.07
58 15 0.26
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.46
Consensus pattern (58 bp):
CATTTTCAATTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
Found at i:11483248 original size:25 final size:24
Alignment explanation
Indices: 11483147--11483259 Score: 95
Period size: 25 Copynumber: 4.6 Consensus size: 24
11483137 CGCTTAAACT
*
11483147 TTCC-GTTATTGGCTCACATGAGC
1 TTCCTGTTAATGGCTCACATGAGC
* **
11483170 TTCTTGATT-ATGGCTCTTATGAGC
1 TTCCTG-TTAATGGCTCACATGAGC
* * * *
11483194 TTCCTGTTAGAAGGCCCAAATAAGC
1 TTCCTGTTA-ATGGCTCACATGAGC
*
11483219 CTCCTGTTACATGGCTCACATGAGC
1 TTCCTGTTA-ATGGCTCACATGAGC
11483244 TTCCTGTTATATGGCT
1 TTCCTGTTA-ATGGCT
11483260 TGTACGAGTG
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
23 5 0.07
24 18 0.26
25 45 0.66
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (24 bp):
TTCCTGTTAATGGCTCACATGAGC
Found at i:11483430 original size:2 final size:2
Alignment explanation
Indices: 11483423--11483462 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
11483413 TCCAAACTGA
11483423 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11483463 GAAATACATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11493995 original size:25 final size:25
Alignment explanation
Indices: 11493935--11494005 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
11493925 TATTGATCTT
* * *
11493935 ATGAGCTTCCCGTTACAAGGCCCAG
1 ATGAGCTTCCTGTTACATGGCCCAC
* * **
11493960 ATAAGCCTCCTGTTACATGGTTCAC
1 ATGAGCTTCCTGTTACATGGCCCAC
*
11493985 ATGAGCTTCCTGTTATATGGC
1 ATGAGCTTCCTGTTACATGGC
11494006 TTGAAAGAGT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCTGTTACATGGCCCAC
Found at i:11494186 original size:2 final size:2
Alignment explanation
Indices: 11494179--11494203 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11494169 AATTGTTATC
11494179 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11494204 GAAATACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11501304 original size:17 final size:17
Alignment explanation
Indices: 11501266--11501298 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
11501256 TAAAACATCT
11501266 CAAAAGCATAAAGAAAA
1 CAAAAGCATAAAGAAAA
11501283 CAAAA-CAT-AAGAAAA
1 CAAAAGCATAAAGAAAA
11501298 C
1 C
11501299 CCAAAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (17 bp):
CAAAAGCATAAAGAAAA
Found at i:11508022 original size:7 final size:7
Alignment explanation
Indices: 11508010--11508041 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11508000 ATCATTTTAT
11508010 TATCATA
1 TATCATA
11508017 TATCATA
1 TATCATA
*
11508024 TATAATA
1 TATCATA
11508031 TATCATA
1 TATCATA
11508038 TATC
1 TATC
11508042 CTTTGAACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
TATCATA
Found at i:11513434 original size:22 final size:23
Alignment explanation
Indices: 11513397--11513473 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
11513387 TCTAAAAATG
11513397 GTAAGCTCTATTGAGCTGAA-CA
1 GTAAGCTCTATTGAGCTGAATCA
*
11513419 GTGAGCTCT-TTCGAGCTGAATCA
1 GTAAGCTCTATT-GAGCTGAATCA
* * * *
11513442 GTAAGCTCCAATGGGCTGAAACA
1 GTAAGCTCTATTGAGCTGAATCA
11513465 GTAAGCTCT
1 GTAAGCTCT
11513474 TACGAATCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.04
22 16 0.36
23 26 0.58
24 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAATCA
Found at i:11517297 original size:27 final size:26
Alignment explanation
Indices: 11517267--11517406 Score: 149
Period size: 27 Copynumber: 5.2 Consensus size: 26
11517257 ATGCCATGAT
*
11517267 TATCTGATCTGGTTGCTCTGCCACATA
1 TATCTGATCTGGTGGCTCTGCCACA-A
* *
11517294 TATCTG-TCCTGGTGGCTATGCCATAA
1 TATCTGAT-CTGGTGGCTCTGCCACAA
*
11517320 TTATCTGATCTGGTTGCTCTGCCACATA
1 -TATCTGATCTGGTGGCTCTGCCACA-A
*
11517348 TATCTGTTCTGGTGGCTCTGCCACAA
1 TATCTGATCTGGTGGCTCTGCCACAA
* *
11517374 TATCTGTATCTGGTGACT-TCGTCACAA
1 TATCTG-ATCTGGTGGCTCT-GCCACAA
11517401 TATCTG
1 TATCTG
11517407 GCAGCCTCAC
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
26 10 0.10
27 84 0.88
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
TATCTGATCTGGTGGCTCTGCCACAA
Found at i:11517323 original size:54 final size:54
Alignment explanation
Indices: 11517256--11517387 Score: 212
Period size: 54 Copynumber: 2.4 Consensus size: 54
11517246 CTGTATGATG
*
11517256 TATGCCATGATTATCTGATCTGGTTGCTCTGCCACATATATCTGTCCTGGTGGC
1 TATGCCATAATTATCTGATCTGGTTGCTCTGCCACATATATCTGTCCTGGTGGC
*
11517310 TATGCCATAATTATCTGATCTGGTTGCTCTGCCACATATATCTGTTCTGGTGGC
1 TATGCCATAATTATCTGATCTGGTTGCTCTGCCACATATATCTGTCCTGGTGGC
* *
11517364 TCTGCCACAA-TATCTGTATCTGGT
1 TATGCCATAATTATCTG-ATCTGGT
11517388 GACTTCGTCA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 6 0.08
54 67 0.92
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.38
Consensus pattern (54 bp):
TATGCCATAATTATCTGATCTGGTTGCTCTGCCACATATATCTGTCCTGGTGGC
Found at i:11517384 original size:32 final size:27
Alignment explanation
Indices: 11517267--11517388 Score: 151
Period size: 27 Copynumber: 4.5 Consensus size: 27
11517257 ATGCCATGAT
*
11517267 TATCTGATCTGGTTGCTCTGCCACATA
1 TATCTGATCTGGTGGCTCTGCCACATA
* *
11517294 TATCTG-TCCTGGTGGCTATGCCATA-A
1 TATCTGAT-CTGGTGGCTCTGCCACATA
*
11517320 TTATCTGATCTGGTTGCTCTGCCACATA
1 -TATCTGATCTGGTGGCTCTGCCACATA
*
11517348 TATCTGTTCTGGTGGCTCTGCCACA-A
1 TATCTGATCTGGTGGCTCTGCCACATA
11517374 TATCTGTATCTGGTG
1 TATCTG-ATCTGGTG
11517389 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
26 9 0.11
27 70 0.86
28 2 0.02
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (27 bp):
TATCTGATCTGGTGGCTCTGCCACATA
Found at i:11530776 original size:47 final size:46
Alignment explanation
Indices: 11530656--11530878 Score: 181
Period size: 47 Copynumber: 4.8 Consensus size: 46
11530646 TCACTTGTGT
*
11530656 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCAC-ATTATG-
1 GTGCTAGTGTAAGACCATGTCTGGGACATGCATCGG-CACGA-GATGA
* * *
11530701 GAGCTAGTGTAAGACCATGTCTTGGACATGGCATTGGCACTGAGATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCAC-GAGATGA
**
11530749 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCGTTTACGAGATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGCATCG-GCACGAGATGA
* * **
11530795 -TAG-TCAGTGTAAGACCGTGTCTGGGACATGGCATCGACTTGAGAT-A
1 GT-GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGAGATGA
* * * *
11530841 TGAGCCAGTGTAAGACCGTGTTTGGGACATGTCATCGG
1 -GTGCTAGTGTAAGACCATGTCTGGGACATG-CATCGG
11530879 TACCTTACCC
Statistics
Matches: 146, Mismatches: 18, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
45 15 0.10
46 40 0.27
47 71 0.49
48 20 0.14
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (46 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCACGAGATGA
Found at i:11530838 original size:93 final size:93
Alignment explanation
Indices: 11530655--11530878 Score: 242
Period size: 93 Copynumber: 2.4 Consensus size: 93
11530645 GTCACTTGTG
*
11530655 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGGAGCTAGTGTAAGACCATG
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAGCTAGTGTAAGACCATG
* *
11530720 TCTTGGACATGGCATTGGCACTGAGATGA
66 TCTGGGACATGGCATTCGCACTGAGAT-A
*** *
11530749 -GTGCTAGTGTAAGACATGTCTGGGACATGCATCGTTTACGA-GATGATAG-TCAGTGTAAGACC
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATG-GAGCT-AGTGTAAGACC
*
11530811 GTGTCTGGGACATGGCA-TCG-ACTTGAGATA
63 ATGTCTGGGACATGGCATTCGCAC-TGAGATA
* * * *
11530841 TGAGCCAGTGTAAGACCGTGTTTGGGACATGTCATCGG
1 TGTGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGG
11530879 TACCTTACCC
Statistics
Matches: 110, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
92 3 0.03
93 60 0.55
94 42 0.38
95 5 0.05
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (93 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAGCTAGTGTAAGACCATG
TCTGGGACATGGCATTCGCACTGAGATA
Found at i:11530871 original size:94 final size:95
Alignment explanation
Indices: 11530706--11530877 Score: 226
Period size: 94 Copynumber: 1.8 Consensus size: 95
11530696 TTATGGAGCT
* * * *
11530706 AGTGTAAGACCATGTCTTGGACATGGCATTGGCACTGAGATGAGTGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATTCGCACTGAGATGAGAGCCAGTGTAAGACATGTCTG
11530771 GGACATG-CATCGTTTACGAGATGATAGTC
66 GGACATGTCATCGTTTACGAGATGATAGTC
* *
11530800 AGTGTAAGACCGTGTCTGGGACATGGCA-TCG-ACTTGAGAT-ATGAGCCAGTGTAAGACCGTGT
1 AGTGTAAGACCATGTCTGGGACATGGCATTCGCAC-TGAGATGA-GAGCCAGTGTAAGA-CATGT
*
11530862 TTGGGACATGTCATCG
63 CTGGGACATGTCATCG
11530878 GTACCTTACC
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
92 3 0.04
93 20 0.30
94 39 0.58
95 5 0.07
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.27
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTCGCACTGAGATGAGAGCCAGTGTAAGACATGTCTG
GGACATGTCATCGTTTACGAGATGATAGTC
Found at i:11533576 original size:39 final size:39
Alignment explanation
Indices: 11533531--11533670 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 39
11533521 GCTTTGATGA
11533531 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
11533570 GCTTCAGTTAGCCTTCGAGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
11533609 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATTT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* ** *
11533648 ACTTCAACTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
11533671 AAATCACGAT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 91 1.00
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:11539850 original size:15 final size:15
Alignment explanation
Indices: 11539830--11539871 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
11539820 GCTGTAAATG
11539830 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
11539845 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
11539860 GGATTTCCTTAT
1 GGATTTCCTTAT
11539872 TCTGGGCCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:11542562 original size:21 final size:21
Alignment explanation
Indices: 11542537--11542601 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
11542527 TAGCCTTTAG
*
11542537 GCTTCCGTTTAGCAATTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
11542558 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
*
11542576 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
11542597 GCTTC
1 GCTTC
11542602 AGCTAAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 6 0.17
19 8 0.23
20 10 0.29
21 11 0.31
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:11542562 original size:39 final size:39
Alignment explanation
Indices: 11542519--11542603 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
11542509 CCTCTGATGA
* *
11542519 GCTTCAGTTAGCCTTTAGGCTTCCGTTTAGCAATTGTGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCAATTATGT
* *
11542558 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCAATTATGT
11542597 GCTTCAG
1 GCTTCAG
11542604 CTAAACTTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCAATTATGT
Found at i:11542613 original size:39 final size:39
Alignment explanation
Indices: 11542536--11542619 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
11542526 TTAGCCTTTA
* * **
11542536 GGCTTCCGTTTAGCAATTGTGTGCTTCAGTTAGCCTTCG
1 GGCTTCCGTTTAGCAATTATGTGCTTCAGCTAAACTTCG
*
11542575 GGCTTCCGTTTAGCACTTATGTGCTTCAGCTAAACTTCG
1 GGCTTCCGTTTAGCAATTATGTGCTTCAGCTAAACTTCG
11542614 GGCTTC
1 GGCTTC
11542620 AGATCACGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (39 bp):
GGCTTCCGTTTAGCAATTATGTGCTTCAGCTAAACTTCG
Found at i:11546642 original size:24 final size:23
Alignment explanation
Indices: 11546613--11546712 Score: 96
Period size: 23 Copynumber: 4.3 Consensus size: 23
11546603 TGATATACAA
11546613 TAAGCTCTATTGAGCTAAAAACGG
1 TAAGCTCTATTGAGCT-AAAACGG
* *
11546637 TAAGCTCTATTGAGCT-GAACAG
1 TAAGCTCTATTGAGCTAAAACGG
* *
11546659 TAAGCTCT-TTCGAGCTGAATCGG
1 TAAGCTCTATT-GAGCTAAAACGG
* * **
11546682 TAAGCTCCAATGAGCTAAAATAG
1 TAAGCTCTATTGAGCTAAAACGG
11546705 TAAGCTCT
1 TAAGCTCT
11546713 TACGAATCAG
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.03
22 17 0.28
23 25 0.41
24 17 0.28
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (23 bp):
TAAGCTCTATTGAGCTAAAACGG
Done.