Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 15 of 279
Found at i:4765689 original size:42 final size:42
Alignment explanation
Indices: 4765630--4765751 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
4765620 TAGCGTTTGT
* *
4765630 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATG
1 TGAGATCACATGTAAGACCATATCTGGGATATGACATCGATG
* * * *
4765672 TGAGA-CTTCGTGTAAGACCATAACTGGGCTATTGACATCGATG
1 TGAGATC-ACATGTAAGACCATATCTGGGATA-TGACATCGATG
* *
4765715 TGAGATCACATGTCAGACCATATCTGAGATATGACAT
1 TGAGATCACATGTAAGACCATATCTGGGATATGACAT
4765752 TGGTATGGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 31 0.48
43 33 0.51
44 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
TGAGATCACATGTAAGACCATATCTGGGATATGACATCGATG
Found at i:4794369 original size:28 final size:28
Alignment explanation
Indices: 4794329--4794399 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
4794319 CATAGTAAGT
*
4794329 TCACACACTTAGTGCT-TAATAATCAAAC
1 TCACACACTTAGTGCTAT-ACAATCAAAC
*
4794357 TCACACACTTAGTGCTATACAATTAAAC
1 TCACACACTTAGTGCTATACAATCAAAC
* *
4794385 TCGCACGCTTAGTGC
1 TCACACACTTAGTGC
4794400 CAATCTCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (28 bp):
TCACACACTTAGTGCTATACAATCAAAC
Found at i:4797889 original size:42 final size:41
Alignment explanation
Indices: 4797830--4797947 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 41
4797820 CAGGGTTAGT
4797830 TGAGATTACGTGTAAGACCATATCTGGGATATGACATCAATG
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGACATCAATG
* * * * *
4797872 TGAGACTTCGTGTAAGACCATACCTAGGCTATTGGCATCGATG
1 TGAGA-TTCGTGTAAGACCATATCTGGGATA-TGACATCAATG
* * * *
4797915 TGAGATCCCATATAAGACCATATCTGAGATATG
1 TGAGAT-TCGTGTAAGACCATATCTGGGATATG
4797948 GCACTGGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGACATCAATG
Found at i:4799624 original size:43 final size:42
Alignment explanation
Indices: 4799481--4799652 Score: 170
Period size: 43 Copynumber: 4.1 Consensus size: 42
4799471 GGCTATCGAG
4799481 ATGTGATTACATGTAAGACCATGT-TGGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
* * **
4799522 ATTGTGATTACCTATAAGACCATGTCTGGGACATTGGCATCAT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
*** * *
4799565 CAT-TCGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATTGAT
1 -ATGT-GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T
* * * *
4799609 ATGTGATAACATGTAAGACTATATCTGGGATA-TGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
4799650 ATG
1 ATG
4799653 AGCCTTATGT
Statistics
Matches: 105, Mismatches: 20, Indels: 12
0.77 0.15 0.09
Matches are distributed among these distances:
41 5 0.05
42 30 0.29
43 67 0.64
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
Found at i:4807610 original size:43 final size:43
Alignment explanation
Indices: 4807514--4807679 Score: 144
Period size: 43 Copynumber: 3.9 Consensus size: 43
4807504 ATCGAGATGT
* *
4807514 GATTACATGTAAGACCATGT-TGGGACATTGGCATTGTATTGT
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTATTGC
4807556 GATTACCTGTAAGACCATGTCTGGGACATTGGCATCAT-TATT-C
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCAT--TGTATTGC
*** * * * *
4807599 GATTTTGTGTAAGACCCTGTCTGGGACAGTAGCATTG-ATATGT
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGC
* * * * *
4807642 GATAACATGTAAGACTATATCTGGGATA-TGGCATTGTA
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTA
4807680 CGAGCCTTAT
Statistics
Matches: 99, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
41 3 0.03
42 27 0.27
43 64 0.65
44 4 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTATTGC
Found at i:4807737 original size:310 final size:310
Alignment explanation
Indices: 4807169--4807778 Score: 959
Period size: 310 Copynumber: 2.0 Consensus size: 310
4807159 CTTAGGATAG
* *
4807169 GATACAAATGTCATGACATTAGGTTATCGAGATGTGACTACATGTAAAATCATGTTGGGACATTG
1 GATACAAATGTCATGACATTAGGCTATCGAGATGTGACTACATGTAAAACCATGTTGGGACATTG
* *
4807234 GCATTGTATTGTGAATACGTGCAAGACCATGTATGGGACATTGGCATCGTTATTCGATTTTGTGT
66 GCATTGTATTGTGAATACCTGCAAGACCATGTATGGGACATTGGCATCATTATTCGATTTTGTGT
* *
4807299 AAGACCCTGCCTAAGACAGTGGCATCGATATGTGATAACATGTAATACCATATCTGGGATATGGC
131 AAGACCCTGCCTAAGACAGTAGCATCGATATGTGATAACATGTAAGACCATATCTGGGATATGGC
* ** *
4807364 ATTGTACGAGCTTTATGTGATTCCAAGTATCCTTAACAATTCTGAATGGTTCAAAGGGCAAAGAT
196 ATTGTACGAGCCTTATGTGATTCCAAGTATCCTTAACAATTCCAAATGGTTCAAAGGGCAAAGAC
4807429 AAATTGAGAAAGAATGTGTTAATAACTTAAATAACTCAGGAATAGTATAA
261 AAATTGAGAAAGAATGTGTTAATAACTTAAATAACTCAGGAATAGTATAA
* * *
4807479 GATACGAATGTCATGACATTAGGCTATCGAGATGTGATTACATGTAAGACCATGTTGGGACATTG
1 GATACAAATGTCATGACATTAGGCTATCGAGATGTGACTACATGTAAAACCATGTTGGGACATTG
* * *
4807544 GCATTGTATTGTGATTACCTGTAAGACCATGTCTGGGACATTGGCATCATTATTCGATTTTGTGT
66 GCATTGTATTGTGAATACCTGCAAGACCATGTATGGGACATTGGCATCATTATTCGATTTTGTGT
* ** * *
4807609 AAGACCCTGTCTGGGACAGTAGCATTGATATGTGATAACATGTAAGACTATATCTGGGATATGGC
131 AAGACCCTGCCTAAGACAGTAGCATCGATATGTGATAACATGTAAGACCATATCTGGGATATGGC
** * * *
4807674 ATTGTACGAGCCTTATGTGATTCTGAGTATCCTTCACGATTCCAAATGGTTCAACGGGCAAAGAC
196 ATTGTACGAGCCTTATGTGATTCCAAGTATCCTTAACAATTCCAAATGGTTCAAAGGGCAAAGAC
* * *
4807739 AAGTTGAGAAAGAATGTGTTAATGAGTTAAATAACTCAGG
261 AAATTGAGAAAGAATGTGTTAATAACTTAAATAACTCAGG
4807779 TATGTACGAG
Statistics
Matches: 271, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
310 271 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (310 bp):
GATACAAATGTCATGACATTAGGCTATCGAGATGTGACTACATGTAAAACCATGTTGGGACATTG
GCATTGTATTGTGAATACCTGCAAGACCATGTATGGGACATTGGCATCATTATTCGATTTTGTGT
AAGACCCTGCCTAAGACAGTAGCATCGATATGTGATAACATGTAAGACCATATCTGGGATATGGC
ATTGTACGAGCCTTATGTGATTCCAAGTATCCTTAACAATTCCAAATGGTTCAAAGGGCAAAGAC
AAATTGAGAAAGAATGTGTTAATAACTTAAATAACTCAGGAATAGTATAA
Found at i:4810504 original size:27 final size:27
Alignment explanation
Indices: 4810474--4810528 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
4810464 TAGGTAATCC
4810474 TCGAGCAATGTTATCTTTAAAGGAACT
1 TCGAGCAATGTTATCTTTAAAGGAACT
**
4810501 TCGAGTGATGTTATCTTTAAAGGAACT
1 TCGAGCAATGTTATCTTTAAAGGAACT
4810528 T
1 T
4810529 GTGCATGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (27 bp):
TCGAGCAATGTTATCTTTAAAGGAACT
Found at i:4813786 original size:36 final size:36
Alignment explanation
Indices: 4813739--4813811 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
4813729 TTCATGAAAG
*
4813739 TAAGAAGAATTCTCTTGTAATCAAATGACAATTGGA
1 TAAGAAGAATTCTCTTGTAATCAAATAACAATTGGA
4813775 TAAGAAGAATTCTCTTGTAATCAAATAACAATTGGA
1 TAAGAAGAATTCTCTTGTAATCAAATAACAATTGGA
4813811 T
1 T
4813812 TGTCCTTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (36 bp):
TAAGAAGAATTCTCTTGTAATCAAATAACAATTGGA
Found at i:4818739 original size:21 final size:20
Alignment explanation
Indices: 4818711--4818750 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4818701 TAGTACACGG
*
4818711 CCTAACCATACGGGCGCGTC
1 CCTAACCAGACGGGCGCGTC
*
4818731 CCTAGACCAGATGGGCGCGT
1 CCTA-ACCAGACGGGCGCGT
4818751 GAGCCCTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (20 bp):
CCTAACCAGACGGGCGCGTC
Found at i:4820441 original size:30 final size:30
Alignment explanation
Indices: 4820365--4820450 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
4820355 TTCAGCTCAC
4820365 GAGCTAAACCTTAGCTCAACTTTAGCTTAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTTAG
*
4820395 GAG-TATAATCC-CAGCTCAACTTTAGCTTAAG
1 GAGCTA-AA-CCTTAGCTCAACTTTAGCTT-AG
* *
4820426 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAACCTTAGCTCAACTTTAGCT
4820451 CAAACCTGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
29 11 0.23
30 29 0.62
31 7 0.15
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (30 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTTAG
Found at i:4822614 original size:15 final size:14
Alignment explanation
Indices: 4822594--4822639 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 14
4822584 AAGAAACGAA
4822594 AAGAAAAAGCAAAAG
1 AAGAAAAAG-AAAAG
4822609 AAGAAAAAGAAAATG
1 AAGAAAAAGAAAA-G
*
4822624 AAATAAAAAGAAAAG
1 -AAGAAAAAGAAAAG
4822639 A
1 A
4822640 GAGGCAAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.18
15 11 0.39
16 12 0.43
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.04
Consensus pattern (14 bp):
AAGAAAAAGAAAAG
Found at i:4822739 original size:24 final size:25
Alignment explanation
Indices: 4822712--4822781 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 25
4822702 AAAGCAAAAA
*
4822712 GAAAAAGAAAAAGAAAATGAGA-TT
1 GAAAAAGAAAAAGAAAATGAAATTT
* *
4822736 GAAAAAGAGAACGAAAA-GAAATTT
1 GAAAAAGAAAAAGAAAATGAAATTT
** *
4822760 GAAAGTGAAAAAGAAGATGAAA
1 GAAAAAGAAAAAGAAAATGAAA
4822782 AAAAATTGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 3 0.08
24 29 0.81
25 4 0.11
ACGTcount: A:0.64, C:0.01, G:0.23, T:0.11
Consensus pattern (25 bp):
GAAAAAGAAAAAGAAAATGAAATTT
Found at i:4822743 original size:30 final size:31
Alignment explanation
Indices: 4822707--4822792 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 31
4822697 CTTTGAAAGC
* *
4822707 AAAAAGAAAAAGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAAAGAAAAAGAAATATGAAAGTG
* * *
4822737 AAAAAGAGAACG-AAAAGAAATTTGAAAGTG
1 AAAAAGAAAAAGAAAAAGAAATATGAAAGTG
* *
4822767 AAAAAGAAGATGAAAAA-AAAT-TGAAA
1 AAAAAGAAAAAGAAAAAGAAATATGAAA
4822793 CATAAGGAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
29 13 0.28
30 29 0.63
31 4 0.09
ACGTcount: A:0.67, C:0.01, G:0.20, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAAAGAAAAAGAAATATGAAAGTG
Found at i:4826131 original size:13 final size:13
Alignment explanation
Indices: 4826115--4826146 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4826105 AAAAAGTATT
*
4826115 AAAAAATTTTGAA
1 AAAAAATTTCGAA
4826128 AAAAAATTTCGAA
1 AAAAAATTTCGAA
4826141 AAAAAA
1 AAAAAA
4826147 GGTGTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (13 bp):
AAAAAATTTCGAA
Found at i:4829928 original size:14 final size:13
Alignment explanation
Indices: 4829911--4829943 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4829901 AAAAAAGTAT
*
4829911 AAAAAACTTTCGA
1 AAAAAAATTTCGA
4829924 AAAAAAATTTCGA
1 AAAAAAATTTCGA
4829937 AAAAAAA
1 AAAAAAA
4829944 GGTGTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.67, C:0.09, G:0.06, T:0.18
Consensus pattern (13 bp):
AAAAAAATTTCGA
Found at i:4832195 original size:30 final size:30
Alignment explanation
Indices: 4832119--4832204 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
4832109 TTCAGCTCAC
*
4832119 GAGCTAAACCTTAGCTCAACTTTAGCTTAG
1 GAGCTAAAGCTTAGCTCAACTTTAGCTTAG
* *
4832149 GAG-TATAGTCTCAGCTCAACTTTAGCTTAAG
1 GAGCTAAAG-CTTAGCTCAACTTTAGCTT-AG
*
4832180 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAAGCTTAGCTCAACTTTAGCT
4832205 CAAACCCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 11 0.23
30 29 0.62
31 7 0.15
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (30 bp):
GAGCTAAAGCTTAGCTCAACTTTAGCTTAG
Found at i:4832457 original size:30 final size:30
Alignment explanation
Indices: 4832381--4832466 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
4832371 TTCAGCTCAC
* *
4832381 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAAGCTTAGCTCAACTTTAGCTTAG
* *
4832411 GAG-TATAGTCTCAGCTCAACTTTAGCTTAAG
1 GAGCTAAAG-CTTAGCTCAACTTTAGCTT-AG
*
4832442 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAAGCTTAGCTCAACTTTAGCT
4832467 CAAACCCAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
29 11 0.24
30 28 0.61
31 7 0.15
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (30 bp):
GAGCTAAAGCTTAGCTCAACTTTAGCTTAG
Found at i:4832571 original size:262 final size:262
Alignment explanation
Indices: 4832106--4832628 Score: 1037
Period size: 262 Copynumber: 2.0 Consensus size: 262
4832096 GTCCTAGCTT
*
4832106 ATATTCAGCTCACGAGCTAAACCTTAGCTCAACTTTAGCTTAGGAGTATAGTCTCAGCTCAACTT
1 ATATTCAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTATAGTCTCAGCTCAACTT
4832171 TAGCTTAAGGGCTAAAGCTTAGCTCATTTTAGCTCAAACCCAGTTTTAGACTTTAATGTATTAAA
66 TAGCTTAAGGGCTAAAGCTTAGCTCATTTTAGCTCAAACCCAGTTTTAGACTTTAATGTATTAAA
4832236 TAAAAGCTAAAAATAATTATTTAAGCATCAAATTTGACTTATATTAATATTTGTTTTAATATGTC
131 TAAAAGCTAAAAATAATTATTTAAGCATCAAATTTGACTTATATTAATATTTGTTTTAATATGTC
4832301 ATAGTTATTACATATTTTAATTATGTTCACATTTTAGCCGATTTAATGCATGACATTAATGTGTT
196 ATAGTTATTACATATTTTAATTATGTTCACATTTTAGCCGATTTAATGCATGACATTAATGTGTT
4832366 CC
261 CC
4832368 ATATTCAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTATAGTCTCAGCTCAACTT
1 ATATTCAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTATAGTCTCAGCTCAACTT
4832433 TAGCTTAAGGGCTAAAGCTTAGCTCATTTTAGCTCAAACCCAGTTTTAGACTTTAATGTATTAAA
66 TAGCTTAAGGGCTAAAGCTTAGCTCATTTTAGCTCAAACCCAGTTTTAGACTTTAATGTATTAAA
4832498 TAAAAGCTAAAAATAATTATTTAAGCATCAAATTTGACTTATATTAATATTTGTTTTAATATGTC
131 TAAAAGCTAAAAATAATTATTTAAGCATCAAATTTGACTTATATTAATATTTGTTTTAATATGTC
4832563 ATAGTTATTACATATTTTAATTATGTTCACATTTTAGCCGATTTAATGCATGACATTAATGTGTT
196 ATAGTTATTACATATTTTAATTATGTTCACATTTTAGCCGATTTAATGCATGACATTAATGTGTT
4832628 C
261 C
4832629 ACATGATGTC
Statistics
Matches: 260, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
262 260 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (262 bp):
ATATTCAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTATAGTCTCAGCTCAACTT
TAGCTTAAGGGCTAAAGCTTAGCTCATTTTAGCTCAAACCCAGTTTTAGACTTTAATGTATTAAA
TAAAAGCTAAAAATAATTATTTAAGCATCAAATTTGACTTATATTAATATTTGTTTTAATATGTC
ATAGTTATTACATATTTTAATTATGTTCACATTTTAGCCGATTTAATGCATGACATTAATGTGTT
CC
Found at i:4834483 original size:14 final size:14
Alignment explanation
Indices: 4834466--4834497 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4834456 TGGCTCCTGT
*
4834466 TGAATTGAAATAGC
1 TGAATTGAAAGAGC
4834480 TGAATTGAAAGAGC
1 TGAATTGAAAGAGC
4834494 TGAA
1 TGAA
4834498 GGTACAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (14 bp):
TGAATTGAAAGAGC
Found at i:4854371 original size:29 final size:29
Alignment explanation
Indices: 4854329--4854391 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
4854319 CAAGTTTGTG
*
4854329 ATGTGAATTGATGAATATGAATAGAGATA
1 ATGTGAATTGATGAATATGAACAGAGATA
* *
4854358 ATGTGACTTGATGAATATGAACAGAGATG
1 ATGTGAATTGATGAATATGAACAGAGATA
4854387 ATGTG
1 ATGTG
4854392 CATTAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (29 bp):
ATGTGAATTGATGAATATGAACAGAGATA
Found at i:4861326 original size:29 final size:29
Alignment explanation
Indices: 4861284--4861342 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4861274 AGCACACGAG
4861284 TAGAGACACGGGAGTGTGTCTCAGTCGTA
1 TAGAGACACGGGAGTGTGTCTCAGTCGTA
4861313 TAGAGACACGGGAGTGTGTCTCAGTCGTA
1 TAGAGACACGGGAGTGTGTCTCAGTCGTA
4861342 T
1 T
4861343 GGATGGCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TAGAGACACGGGAGTGTGTCTCAGTCGTA
Found at i:4862391 original size:18 final size:19
Alignment explanation
Indices: 4862364--4862402 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
4862354 TGTAAGTTTC
4862364 AAAAATTGGAAATAGAAAT
1 AAAAATTGGAAATAGAAAT
*
4862383 AAAAA-TGGAAATGGAAAT
1 AAAAATTGGAAATAGAAAT
4862401 AA
1 AA
4862403 TAAAGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (19 bp):
AAAAATTGGAAATAGAAAT
Found at i:4862613 original size:26 final size:26
Alignment explanation
Indices: 4862565--4862626 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
4862555 ACATATTTTC
** * **
4862565 TCAAAATTTTATTAGGGGCAAAATTG
1 TCAAAATTTTACCAAGGGCAAAATCA
*
4862591 TCAAAATTTTACCAAGGGTAAAATCA
1 TCAAAATTTTACCAAGGGCAAAATCA
4862617 TCAAAATTTT
1 TCAAAATTTT
4862627 GTTGAGGGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGCAAAATCA
Found at i:4870626 original size:40 final size:40
Alignment explanation
Indices: 4870581--4870668 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
4870571 CGTCTTCATG
* * * *
4870581 ACCCGTGTTCCCCATACGGCCAGGACACGCTCGTGTCTCA
1 ACCCGTGTTCCCCACACGACCAGGACACGCCCATGTCTCA
4870621 ACCCGTGTTCCCCACACGACCAGGACACGCCCATGTCTCA
1 ACCCGTGTTCCCCACACGACCAGGACACGCCCATGTCTCA
4870661 ACCCGTGT
1 ACCCGTGT
4870669 GCAAAAACCT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.19, C:0.42, G:0.20, T:0.18
Consensus pattern (40 bp):
ACCCGTGTTCCCCACACGACCAGGACACGCCCATGTCTCA
Found at i:4876028 original size:137 final size:137
Alignment explanation
Indices: 4875757--4876020 Score: 528
Period size: 137 Copynumber: 1.9 Consensus size: 137
4875747 GATAATGTAT
4875757 TATTGAGCTGATGGTATTGAATAAATATACTATGGGTATGTATATGCACGAATGAAAAGGGCAGC
1 TATTGAGCTGATGGTATTGAATAAATATACTATGGGTATGTATATGCACGAATGAAAAGGGCAGC
4875822 ATGGTGTGTGTGAATGAATATATGCACTATGTGTGCGACATTATTAACCGAGCACTATGTGTAAG
66 ATGGTGTGTGTGAATGAATATATGCACTATGTGTGCGACATTATTAACCGAGCACTATGTGTAAG
4875887 AGATCAG
131 AGATCAG
4875894 TATTGAGCTGATGGTATTGAATAAATATACTATGGGTATGTATATGCACGAATGAAAAGGGCAGC
1 TATTGAGCTGATGGTATTGAATAAATATACTATGGGTATGTATATGCACGAATGAAAAGGGCAGC
4875959 ATGGTGTGTGTGAATGAATATATGCACTATGTGTGCGACATTATTAACCGAGCACTATGTGT
66 ATGGTGTGTGTGAATGAATATATGCACTATGTGTGCGACATTATTAACCGAGCACTATGTGT
4876021 GCGAGATCGG
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 127 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (137 bp):
TATTGAGCTGATGGTATTGAATAAATATACTATGGGTATGTATATGCACGAATGAAAAGGGCAGC
ATGGTGTGTGTGAATGAATATATGCACTATGTGTGCGACATTATTAACCGAGCACTATGTGTAAG
AGATCAG
Found at i:4876192 original size:39 final size:39
Alignment explanation
Indices: 4876138--4876301 Score: 274
Period size: 39 Copynumber: 4.2 Consensus size: 39
4876128 GAAATGTGTA
4876138 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
4876177 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
4876216 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
4876255 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
4876294 TGGTAATA
1 TGGAAATA
4876302 AAATTTCGGG
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:4881797 original size:21 final size:21
Alignment explanation
Indices: 4881773--4881815 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4881763 CTGGAACAGG
*
4881773 ATACGAGGTGTTACCGGACTT
1 ATACGAGGTGTTACCGAACTT
4881794 ATACGAGGTGTTACCGAACTT
1 ATACGAGGTGTTACCGAACTT
4881815 A
1 A
4881816 AGCACATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (21 bp):
ATACGAGGTGTTACCGAACTT
Found at i:4883394 original size:96 final size:96
Alignment explanation
Indices: 4883230--4883403 Score: 235
Period size: 96 Copynumber: 1.8 Consensus size: 96
4883220 GTGAATTGTC
* * * *
4883230 GATGCCATGTACCAAACATGGTCTTACACTAGCACACATATCGACGCCGATGCCGTGTCCTAGAC
1 GATGCCATGTACCAAACATGGTCTTACACTAGCACACATATCGACGCCAACGCCATGTCCCAGAC
*
4883295 ATGGTCTTACACTGACTCTCACAACATTGCT
66 ATGGTCTAACACTGACTCTCACAACATTGCT
* * * *
4883326 GATGCCATGTTCCAAACATGGTCTTACACT-GGATCTCATATTGTA-GCCAACGCCATGTCCCAG
1 GATGCCATGTACCAAACATGGTCTTACACTAGCA-CACATATCG-ACGCCAACGCCATGTCCCAG
4883389 ACATGGTCTAACACT
64 ACATGGTCTAACACT
4883404 AGCGCACATA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
95 2 0.03
96 64 0.96
97 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (96 bp):
GATGCCATGTACCAAACATGGTCTTACACTAGCACACATATCGACGCCAACGCCATGTCCCAGAC
ATGGTCTAACACTGACTCTCACAACATTGCT
Found at i:4885018 original size:37 final size:37
Alignment explanation
Indices: 4884968--4885078 Score: 204
Period size: 37 Copynumber: 3.0 Consensus size: 37
4884958 TTTGAAAGTA
4884968 GAAATTAAATTAATTAGTCATCGCATTTTTATTGAGC
1 GAAATTAAATTAATTAGTCATCGCATTTTTATTGAGC
* *
4885005 GAAATTAAATTAATTACTCATCTCATTTTTATTGAGC
1 GAAATTAAATTAATTAGTCATCGCATTTTTATTGAGC
4885042 GAAATTAAATTAATTAGTCATCGCATTTTTATTGAGC
1 GAAATTAAATTAATTAGTCATCGCATTTTTATTGAGC
4885079 AAGACAATTG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (37 bp):
GAAATTAAATTAATTAGTCATCGCATTTTTATTGAGC
Found at i:4886358 original size:22 final size:23
Alignment explanation
Indices: 4886331--4886374 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4886321 TAATTGAGTG
* *
4886331 AATTAATTAAAT-TTATTTTAAT
1 AATTAAATAAATAATATTTTAAT
4886353 AATTAAATAAATAATATTTTAA
1 AATTAAATAAATAATATTTTAA
4886375 GAAATAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AATTAAATAAATAATATTTTAAT
Found at i:4891420 original size:17 final size:17
Alignment explanation
Indices: 4891400--4891442 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
4891390 AAATTAATTT
*
4891400 TTTTAAATATAAAAATA
1 TTTTAAATATAAAAAAA
4891417 TTTTAAAATATAAAAAAA
1 TTTT-AAATATAAAAAAA
*
4891435 TTCTAAAT
1 TTTTAAAT
4891443 TTCAATGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTTAAATATAAAAAAA
Found at i:4893173 original size:16 final size:17
Alignment explanation
Indices: 4893149--4893183 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4893139 TATTATAATT
4893149 TTATAATATAATAATAG
1 TTATAATATAATAATAG
*
4893166 TTAT-ATATATTAATAG
1 TTATAATATAATAATAG
4893182 TT
1 TT
4893184 TGTCATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
TTATAATATAATAATAG
Found at i:4909584 original size:41 final size:42
Alignment explanation
Indices: 4909483--4909600 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
4909473 GTACCAATGG
* *
4909483 CATATCCCAGATATGGTCTTACATGTAATCTCCTATAGATGC
1 CATATCCCAGATATGGTCTTACACGTAATCTCATATAGATGC
* * * *
4909525 CAATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCG-TGT
1 C-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATAGATGC
*
4909567 CATATCCCAGATATGGTCTTACATGTAAATCTCA
1 CATATCCCAGATATGGTCTTACACGT-AATCTCA
4909601 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 21 0.33
42 11 0.17
43 31 0.49
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGTAATCTCATATAGATGC
Found at i:4911241 original size:19 final size:19
Alignment explanation
Indices: 4911219--4911280 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
4911209 AGGGGTACTA
4911219 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
* ** *
4911238 AAGTGCGATTAGGGGTATCG-
1 AAGTAC-AACAGGGGCA-CGT
*
4911258 AAGTACAACAGGGGCATGT
1 AAGTACAACAGGGGCACGT
4911277 AAGT
1 AAGT
4911281 GTGATCAGGG
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
18 1 0.03
19 16 0.52
20 12 0.39
21 2 0.06
ACGTcount: A:0.34, C:0.15, G:0.34, T:0.18
Consensus pattern (19 bp):
AAGTACAACAGGGGCACGT
Found at i:4911253 original size:39 final size:39
Alignment explanation
Indices: 4911199--4911371 Score: 229
Period size: 39 Copynumber: 4.4 Consensus size: 39
4911189 CACAACAAAA
* ** * *
4911199 AAGTGCAATCAGGGGTACTAAAGTACAACAGGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCATGT
* * *
4911238 AAGTGCGATTAGGGGTATCGAAGTACAACAGGGGCATGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCATGT
* *
4911277 AAGTGTGATCAGGGGTACCGAAGTACAATAAGGGCATGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCATGT
* * *
4911316 AAGTGCGATTAGGGGTACCGAATTACAACAAAGGCATGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCATGT
4911355 AAGTGCGATCAGGGGTA
1 AAGTGCGATCAGGGGTA
4911372 TAATTATATA
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.19
Consensus pattern (39 bp):
AAGTGCGATCAGGGGTACCGAAGTACAACAAGGGCATGT
Found at i:4915553 original size:14 final size:13
Alignment explanation
Indices: 4915534--4915648 Score: 59
Period size: 14 Copynumber: 8.2 Consensus size: 13
4915524 CAAGAACAAG
4915534 TCTGTAAGTATGAA
1 TCTGTAA-TATGAA
*
4915548 TCTGTATCTATGAA
1 TCTGTA-ATATGAA
*
4915562 TCTGGATATATGAA
1 TCTGTA-ATATGAA
*
4915576 TCTGTACTTATGAA
1 TCTGTA-ATATGAA
* * *
4915590 TCCGCATATATGAT
1 TCTGTA-ATATGAA
** *
4915604 TCTACATCTATGAA
1 TCTGTA-ATATGAA
*
4915618 TCTGCATATATGAA
1 TCTGTA-ATATGAA
*
4915632 TCTGTACTTATGAA
1 TCTGTA-ATATGAA
4915646 TCT
1 TCT
4915649 TCATATGTGA
Statistics
Matches: 80, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
14 80 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (13 bp):
TCTGTAATATGAA
Found at i:4915573 original size:28 final size:28
Alignment explanation
Indices: 4915542--4915654 Score: 142
Period size: 28 Copynumber: 4.0 Consensus size: 28
4915532 AGTCTGTAAG
*
4915542 TATGAATCTGTA-TCTATGAATCTGGATA
1 TATGAATCTGTACT-TATGAATCTGCATA
*
4915570 TATGAATCTGTACTTATGAATCCGCATA
1 TATGAATCTGTACTTATGAATCTGCATA
*
4915598 TATG-AT-TCTACATCTATGAATCTGCATA
1 TATGAATCTGTAC-T-TATGAATCTGCATA
*
4915626 TATGAATCTGTACTTATGAATCTTCATA
1 TATGAATCTGTACTTATGAATCTGCATA
4915654 T
1 T
4915655 GTGATTCATA
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.05
27 3 0.04
28 59 0.80
29 4 0.05
30 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (28 bp):
TATGAATCTGTACTTATGAATCTGCATA
Found at i:4915602 original size:42 final size:42
Alignment explanation
Indices: 4915542--4915621 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
4915532 AGTCTGTAAG
* * * **
4915542 TATGAATCTGTATCTATGAATCTGGATATATGAATCTGTACT
1 TATGAATCCGCATATATGAATCTACATATATGAATCTGTACT
* *
4915584 TATGAATCCGCATATATGATTCTACATCTATGAATCTG
1 TATGAATCCGCATATATGAATCTACATATATGAATCTG
4915622 CATATATGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (42 bp):
TATGAATCCGCATATATGAATCTACATATATGAATCTGTACT
Found at i:4915628 original size:56 final size:56
Alignment explanation
Indices: 4915553--4915661 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
4915543 ATGAATCTGT
*
4915553 ATCTATGAATCTGGATATATGAATCTGTACTTATGAATCCGCATATATGATTCTAC
1 ATCTATGAATCTGCATATATGAATCTGTACTTATGAATCCGCATATATGATTCTAC
** *
4915609 ATCTATGAATCTGCATATATGAATCTGTACTTATGAATCTTCATATGTGATTC
1 ATCTATGAATCTGCATATATGAATCTGTACTTATGAATCCGCATATATGATTC
4915662 ATATGTGATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (56 bp):
ATCTATGAATCTGCATATATGAATCTGTACTTATGAATCCGCATATATGATTCTAC
Found at i:4915782 original size:30 final size:30
Alignment explanation
Indices: 4915748--4915807 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
4915738 TATTCAATGA
* *
4915748 GTATGAATCCACAAGTTTAAGATTGCCAAG
1 GTATGAATCCACAAATCTAAGATTGCCAAG
* * *
4915778 GTATGATTCCGCAAATCTAAGTTTGCCAAG
1 GTATGAATCCACAAATCTAAGATTGCCAAG
4915808 AACAAGTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (30 bp):
GTATGAATCCACAAATCTAAGATTGCCAAG
Found at i:4918938 original size:57 final size:58
Alignment explanation
Indices: 4918888--4919023 Score: 218
Period size: 58 Copynumber: 2.3 Consensus size: 58
4918878 CTTAATTTGG
*
4918888 ATTACCCGTCCGGGCTAAATCCAATTTGTTACCTAAGCTCAAGAGGGCTTACATTAGA
1 ATTACCCGTCCGGGCTAAATCCAATTTGTAACCTAAGCTCAAGAGGGCTTACATTAGA
* * *
4918946 ATCACCCTTCCAGGCTAAATCCAATTTGTAACCTAAGCTCAAGAGGGCTTACATTAGA
1 ATTACCCGTCCGGGCTAAATCCAATTTGTAACCTAAGCTCAAGAGGGCTTACATTAGA
* *
4919004 ATTATCTGTCCGGGCTAAAT
1 ATTACCCGTCCGGGCTAAAT
4919024 TCTATCTGCA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 69 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (58 bp):
ATTACCCGTCCGGGCTAAATCCAATTTGTAACCTAAGCTCAAGAGGGCTTACATTAGA
Found at i:4922220 original size:19 final size:19
Alignment explanation
Indices: 4922193--4922256 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
4922183 ATTACAAAAA
*
4922193 AAAAATCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
*
4922212 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
4922230 AAAATTCTAAAATTTATATTTTT
1 AAAATTC-AAAA--TA-ATTTTT
4922253 AAAA
1 AAAA
4922257 AAATTATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 12 0.32
19 15 0.41
21 1 0.03
23 9 0.24
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:4922246 original size:17 final size:17
Alignment explanation
Indices: 4922205--4922247 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
4922195 AAATCAAAAT
*
4922205 AATTTTTAAAATTCAAA
1 AATTTATAAAATTCAAA
*
4922222 ATATTTATAAAATTCTAA
1 A-ATTTATAAAATTCAAA
4922240 AATTTATA
1 AATTTATA
4922248 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTATAAAATTCAAA
Found at i:4922270 original size:12 final size:11
Alignment explanation
Indices: 4922252--4922312 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
4922242 TTTATATTTT
4922252 TAAAAAAATTA
1 TAAAAAAATTA
*
4922263 TAAAAAAATTC
1 TAAAAAAATTA
* *
4922274 CACAAAAATTA
1 TAAAAAAATTA
4922285 TAAAAAAATATA
1 TAAAAAAAT-TA
*
4922297 TAAAGAAATT-
1 TAAAAAAATTA
4922307 TAAAAA
1 TAAAAA
4922313 TTAAAAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
10 5 0.12
11 26 0.63
12 10 0.24
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (11 bp):
TAAAAAAATTA
Found at i:4931069 original size:17 final size:17
Alignment explanation
Indices: 4931049--4931085 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4931039 TAAAAATAAA
4931049 TTTAAAATAAATTTTAT
1 TTTAAAATAAATTTTAT
4931066 TTTAAAATAAATTTTAT
1 TTTAAAATAAATTTTAT
4931083 TTT
1 TTT
4931086 TCGGCTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAAATAAATTTTAT
Found at i:4935544 original size:51 final size:50
Alignment explanation
Indices: 4935415--4935545 Score: 158
Period size: 49 Copynumber: 2.6 Consensus size: 50
4935405 ATGTCATTAG
* *
4935415 TGACT-CAAGTGTGGTACTATGTGAAGGCCAATTTGAGAAAAAATGGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAAAAATAGCTT
* * * **
4935464 GGTC-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAA-AAAATAGCTT
* *
4935514 TGACTACAAGGGTGGTACTATGTGCAGGCCAC
1 TGACTACAAGTGTGGTACTATGTGAAGGCCAC
4935546 CGGGTATCCG
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 34 0.50
50 9 0.13
51 25 0.37
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (50 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAAAAATAGCTT
Found at i:4956389 original size:164 final size:163
Alignment explanation
Indices: 4956068--4956395 Score: 521
Period size: 164 Copynumber: 2.0 Consensus size: 163
4956058 ATTTTCCAAA
* * *
4956068 ACACCACGTTTATATAACAAATTTTGAAAGCTTCCTCAATAAACACTGTTTTAAAGTGTAATAAC
1 ACACCACGTTTATACAACAAATTTTGAAAGCTTCCACAATAAACACTATTTTAAAGTGTAATAAC
* *
4956133 AATCTAATAGGTCAACATTTTGCTAAAACGACTTGAGTCTTCACCATGAACAAGAAATCCTAAAT
66 AATCTAATAGGTCAACATTTTGCCAAAACGACTTGAGTCTTAACCATGAACAAGAAATCCTAAAT
*
4956198 TTTCATTAAGAGCGCAAAGAGGTTTTAATATAG
131 TTTCATTAAAAGCGCAAAGAGGTTTTAATATAG
* *
4956231 ACACCACTTTTATACAATAAATTTTGAAAGCTTCCACAATAAACACTATTTTAAAGTGTAATAAC
1 ACACCACGTTTATACAACAAATTTTGAAAGCTTCCACAATAAACACTATTTTAAAGTGTAATAAC
* * * * * *
4956296 AATCTAGTAGGATCAACGTTTTTCCAAAATGATTTGAGTCTTAACCATGAGCAAGAAATCCTAAA
66 AATCTAATAGG-TCAACATTTTGCCAAAACGACTTGAGTCTTAACCATGAACAAGAAATCCTAAA
4956361 TTTTCATTAAAAGCGCAAAGAGGTTTTAATATAG
130 TTTTCATTAAAAGCGCAAAGAGGTTTTAATATAG
4956395 A
1 A
4956396 ACGGGTTTCC
Statistics
Matches: 150, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
163 70 0.47
164 80 0.53
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (163 bp):
ACACCACGTTTATACAACAAATTTTGAAAGCTTCCACAATAAACACTATTTTAAAGTGTAATAAC
AATCTAATAGGTCAACATTTTGCCAAAACGACTTGAGTCTTAACCATGAACAAGAAATCCTAAAT
TTTCATTAAAAGCGCAAAGAGGTTTTAATATAG
Found at i:4961051 original size:23 final size:23
Alignment explanation
Indices: 4961006--4961051 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4960996 CCAACCAATC
* *
4961006 CAAGCATTATATCAAGACCAATT
1 CAAGCATTAGATCAAGACAAATT
4961029 CAAGCATTAGATTCAAG-CAAATT
1 CAAGCATTAGA-TCAAGACAAATT
4961052 TTAACATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (23 bp):
CAAGCATTAGATCAAGACAAATT
Found at i:4961922 original size:58 final size:58
Alignment explanation
Indices: 4961799--4962054 Score: 250
Period size: 58 Copynumber: 4.4 Consensus size: 58
4961789 TAACACATAA
** * * * *
4961799 CAGGATTACCAGTCCAGGCTAAATCTTTTTTTGTAATATATGCTC-AGAAGAGCTCA-AT
1 CAGGATTACCAGTCCAGGCTAAATC-TTAATTGTAACATATGCTCAAG-AGGGATTATAT
* * * *
4961857 TAGGATTACCAGTCTAGGTTGAATCTTAATTGTAACATATGCTCAAGAGGGATTATAT
1 CAGGATTACCAGTCCAGGCTAAATCTTAATTGTAACATATGCTCAAGAGGGATTATAT
* * ** * * * *
4961915 CAAGATTACCAGTCGAGGCTAAATCTTTTTTGTAATATATGCTC-AGAAGTGCTCA-AT
1 CAGGATTACCAGTCCAGGCTAAATCTTAATTGTAACATATGCTCAAG-AGGGATTATAT
* * *
4961972 TAGGATTACTAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAAGAGGGATTATAT
1 CAGGATTACCAGTCCAGGCTAAATCTTAATTGTAACATATGCTCAAGAGGGATTATAT
**
4962030 CAGGATTACCAGTCCATCCTAAATC
1 CAGGATTACCAGTCCAGGCTAAATC
4962055 CCGTCAACAA
Statistics
Matches: 157, Mismatches: 36, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
57 66 0.42
58 91 0.58
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (58 bp):
CAGGATTACCAGTCCAGGCTAAATCTTAATTGTAACATATGCTCAAGAGGGATTATAT
Found at i:4962005 original size:115 final size:116
Alignment explanation
Indices: 4961802--4962054 Score: 409
Period size: 115 Copynumber: 2.2 Consensus size: 116
4961792 CACATAACAG
4961802 GATTACCAGTCCAGGCTAAATCTTTTTTTGTAATATATGCTCAGAAGAGCTCAATTAGGATTACC
1 GATTACCAGTCCAGGCTAAATCTTTTTTTGTAATATATGCTCAGAAGAGCTCAATTAGGATTACC
* * * *
4961867 AGTCTAGGTTGAATCTTAATTGTAACATATGCTCAAGAGGGATTATATCAA
66 AGTCCAGGCTAAATCCTAATTGTAACATATGCTCAAGAGGGATTATATCAA
* * *
4961918 GATTACCAGTCGAGGCTAAATC-TTTTTTGTAATATATGCTCAGAAGTGCTCAATTAGGATTACT
1 GATTACCAGTCCAGGCTAAATCTTTTTTTGTAATATATGCTCAGAAGAGCTCAATTAGGATTACC
*
4961982 AGTCCAGGCTAAATCCTAATTGTAACATATGCTCAAGAGGGATTATATCAG
66 AGTCCAGGCTAAATCCTAATTGTAACATATGCTCAAGAGGGATTATATCAA
**
4962033 GATTACCAGTCCATCCTAAATC
1 GATTACCAGTCCAGGCTAAATC
4962055 CCGTCAACAA
Statistics
Matches: 126, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
115 105 0.83
116 21 0.17
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (116 bp):
GATTACCAGTCCAGGCTAAATCTTTTTTTGTAATATATGCTCAGAAGAGCTCAATTAGGATTACC
AGTCCAGGCTAAATCCTAATTGTAACATATGCTCAAGAGGGATTATATCAA
Found at i:4972689 original size:36 final size:35
Alignment explanation
Indices: 4972608--4972689 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
4972598 TCGTTGATTC
* *
4972608 ATCCAACTAGAATTGGGCGTAAAACATTGTCAGTTT
1 ATCCAACTA-AACTGGGCGCAAAACATTGTCAGTTT
***
4972644 ATTTGACTAACACTGGGCGCAAAACATTGTCCA-TTT
1 ATCCAACTAA-ACTGGGCGCAAAACATTGT-CAGTTT
4972680 ATCCAACTAA
1 ATCCAACTAA
4972690 GTTGGGCACA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
35 1 0.03
36 33 0.92
37 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (35 bp):
ATCCAACTAAACTGGGCGCAAAACATTGTCAGTTT
Found at i:4973017 original size:14 final size:14
Alignment explanation
Indices: 4972998--4973067 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 14
4972988 GTCCGTACGC
*
4972998 ATGAATCTGGATCT
1 ATGAATCTGCATCT
* *
4973012 ATGAATCCGCATAT
1 ATGAATCTGCATCT
* *
4973026 ATGAACCTGTA-CTT
1 ATGAATCTGCATC-T
*
4973040 ATGAATCTGCATAT
1 ATGAATCTGCATCT
*
4973054 ATGATTCTGCATCT
1 ATGAATCTGCATCT
4973068 TTGAGTCCAC
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (14 bp):
ATGAATCTGCATCT
Found at i:4973029 original size:28 final size:28
Alignment explanation
Indices: 4972998--4973088 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
4972988 GTCCGTACGC
*
4972998 ATGAATCTGGATCTATGAATCCGCATAT
1 ATGAATCTGCATCTATGAATCCGCATAT
* * *
4973026 ATGAACCTGTA-CTTATGAATCTGCATAT
1 ATGAATCTGCATC-TATGAATCCGCATAT
* * * *
4973054 ATGATTCTGCATCTTTGAGTCCACATAT
1 ATGAATCTGCATCTATGAATCCGCATAT
4973082 ATGAATC
1 ATGAATC
4973089 CATACTTATG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
27 1 0.02
28 48 0.96
29 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (28 bp):
ATGAATCTGCATCTATGAATCCGCATAT
Found at i:4973101 original size:28 final size:28
Alignment explanation
Indices: 4973011--4973099 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
4973001 AATCTGGATC
*
4973011 TATGAATCCGCATATATGAA-CCTGTACT
1 TATGAATCCGCATATATGAATCC-ATACT
* *
4973039 TATGAATCTGCATATATGATTCTGCAT-CT
1 TATGAATCCGCATATATGAATC--CATACT
* *
4973068 T-TGAGTCCACATATATGAATCCATACT
1 TATGAATCCGCATATATGAATCCATACT
4973095 TATGA
1 TATGA
4973100 GTTTGTATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
26 3 0.06
27 3 0.06
28 37 0.76
29 4 0.08
30 1 0.02
31 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (28 bp):
TATGAATCCGCATATATGAATCCATACT
Found at i:4973114 original size:56 final size:56
Alignment explanation
Indices: 4972998--4973133 Score: 148
Period size: 56 Copynumber: 2.4 Consensus size: 56
4972988 GTCCGTACGC
* * * * *
4972998 ATGAATCTGGATCTATGAATCCGCATATATGAACCTGTACTTATGAATCTGCATAT
1 ATGATTCTGCATCTATGAATCCACATATATGAACCTATACTTATGAATCTGCATAA
* * * * *
4973054 ATGATTCTGCATCTTTGAGTCCACATATATGAATCC-ATACTTATGAGTTTGTATAA
1 ATGATTCTGCATCTATGAATCCACATATATGAA-CCTATACTTATGAATCTGCATAA
* *
4973110 ATGATTTTGCATCTCTGAATCCAC
1 ATGATTCTGCATCTATGAATCCAC
4973134 TTATGATTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
56 64 0.97
57 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (56 bp):
ATGATTCTGCATCTATGAATCCACATATATGAACCTATACTTATGAATCTGCATAA
Found at i:4973164 original size:26 final size:26
Alignment explanation
Indices: 4973110--4973164 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
4973100 GTTTGTATAA
* *
4973110 ATGATTTTGCATCTCTGAATCCACTT
1 ATGATTTTGCATCTATGAATCCACAT
* *
4973136 ATGATTTTGTATCTATGAATCCGCAT
1 ATGATTTTGCATCTATGAATCCACAT
4973162 ATG
1 ATG
4973165 TGATTCTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (26 bp):
ATGATTTTGCATCTATGAATCCACAT
Found at i:4981643 original size:27 final size:28
Alignment explanation
Indices: 4981559--4981656 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
4981549 TAAATTGTAC
*
4981559 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
4981587 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
4981615 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
4981642 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4981657 GACTTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:4981667 original size:27 final size:27
Alignment explanation
Indices: 4981559--4981669 Score: 125
Period size: 28 Copynumber: 4.0 Consensus size: 27
4981549 TAAATTGTAC
* *
4981559 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
4981587 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
4981615 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
4981642 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
4981669 A
1 A
4981670 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:4981933 original size:28 final size:28
Alignment explanation
Indices: 4981893--4982018 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
4981883 TAAATTGTAC
*
4981893 AGCACTAGGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
4981921 AGCACTAAGTGTGCAAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
4981949 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
4981977 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
4982004 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4982019 GACTTAATAT
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 24 0.26
28 68 0.74
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:4982224 original size:362 final size:362
Alignment explanation
Indices: 4981559--4982247 Score: 1315
Period size: 362 Copynumber: 1.9 Consensus size: 362
4981549 TAAATTGTAC
*
4981559 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
1 AGCACTAAGTGTGCAAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
4981624 TGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATATACTTTTGAATCACTATGGAC
66 TGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATATACTTTTGAATCACTATGGAC
*
4981689 ACTAAGTGTGCGACATTATTAAGTTGATCACGGACAGCGGATCGGGTAAGTACCTCGAGTTCGTG
131 ACTAAGTGTGCGACATTATTAAGTTGATCACGGACAGCGGATCGGGTAAGTACCTCGAGTTCATG
4981754 ACTAATAGGCGCTATGTTTATATTTGAAGTTGAGCTTGGTAAGTTTGAACCTATGTGACAATTAT
196 ACTAATAGGCGCTATGTTTATATTTGAAGTTGAGCTTGGTAAGTTTGAACCTATGTGACAATTAT
4981819 AATTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGTCGTTTAGTTGTATGATTGT
261 AATTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGTCGTTTAGTTGTATGATTGT
4981884 AAATTGTACAGCACTAGGTGTGCGAGTTTGATTATAT
326 AAATTGTACAGCACTAGGTGTGCGAGTTTGATTATAT
*
4981921 AGCACTAAGTGTGCAAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
1 AGCACTAAGTGTGCAAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
4981986 TGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATATACTTTTGAATCACTATGGAC
66 TGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATATACTTTTGAATCACTATGGAC
* *
4982051 ACTAAGTGTGCGACATTATTGAGTTGATCACGGACAGCGGATCGGGTAAGTACCTTGAGTTCATG
131 ACTAAGTGTGCGACATTATTAAGTTGATCACGGACAGCGGATCGGGTAAGTACCTCGAGTTCATG
* *
4982116 GCTAATAGGCGCTATGTTTATATTTGGAGTTGAGCTTGGTAAGTTTGAACCTATGTGACAATTAT
196 ACTAATAGGCGCTATGTTTATATTTGAAGTTGAGCTTGGTAAGTTTGAACCTATGTGACAATTAT
4982181 AATTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGTCGTTTAGTTGTATGATTGT
261 AATTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGTCGTTTAGTTGTATGATTGT
4982246 AA
326 AA
4982248 CGAAAATANN
Statistics
Matches: 320, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
362 320 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (362 bp):
AGCACTAAGTGTGCAAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
TGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATATACTTTTGAATCACTATGGAC
ACTAAGTGTGCGACATTATTAAGTTGATCACGGACAGCGGATCGGGTAAGTACCTCGAGTTCATG
ACTAATAGGCGCTATGTTTATATTTGAAGTTGAGCTTGGTAAGTTTGAACCTATGTGACAATTAT
AATTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGTCGTTTAGTTGTATGATTGT
AAATTGTACAGCACTAGGTGTGCGAGTTTGATTATAT
Found at i:4990508 original size:121 final size:121
Alignment explanation
Indices: 4990294--4990523 Score: 451
Period size: 121 Copynumber: 1.9 Consensus size: 121
4990284 TCACTGGTAT
*
4990294 CTTGCTCTGTAATACAAGCATTTGGTGCATTCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
1 CTTGCTCTGTAATACAAGCATTTGGTGCATCCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
4990359 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAATTTGACTTTTGA
66 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAATTTGACTTTTGA
4990415 CTTGCTCTGTAATACAAGCATTTGGTGCATCCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
1 CTTGCTCTGTAATACAAGCATTTGGTGCATCCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
4990480 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAA
66 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAA
4990524 CTTGGTCGAA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 108 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (121 bp):
CTTGCTCTGTAATACAAGCATTTGGTGCATCCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAATTTGACTTTTGA
Found at i:4992059 original size:113 final size:113
Alignment explanation
Indices: 4991861--4992085 Score: 326
Period size: 113 Copynumber: 2.0 Consensus size: 113
4991851 TGCACTAGGT
* ** * *
4991861 AAGTTCATAGGAAATAGAGGTGGGTCATAGATACTCTTAAATACCAAGTCTTTCTTAGCCAGAAT
1 AAGTTCATAGGAAAGAGAGGTGCATCATACATACTCTTAAATACCAAGTCTTTCCTAGCCAGAAT
* *
4991926 TTTTCCTAAACACGCACTTTCACACAACTACACCTATATCTAGTAATC
66 TTTTCATAAACACGCACTTTCACACAACTACACCTATATCCAGTAATC
* * * *
4991974 AAGTTCCTAGGAAAGAGTGGTGCATCATACATACTTTTAAATACCAAGTCTTTCCTAGCTAGAAC
1 AAGTTCATAGGAAAGAGAGGTGCATCATACATACTCTTAAATACCAAGTCTTTCCTAGCCAGAA-
*
4992039 TTTTT-ATAAACATGCACTTTCACACAACTACACCTATATCCAGTAAT
65 TTTTTCATAAACACGCACTTTCACACAACTACACCTATATCCAGTAAT
4992086 TAAGGAACCA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
113 94 0.95
114 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (113 bp):
AAGTTCATAGGAAAGAGAGGTGCATCATACATACTCTTAAATACCAAGTCTTTCCTAGCCAGAAT
TTTTCATAAACACGCACTTTCACACAACTACACCTATATCCAGTAATC
Found at i:4993096 original size:12 final size:12
Alignment explanation
Indices: 4993081--4993122 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
4993071 CGCTGGGCCT
4993081 TCGCTTGGGTCC
1 TCGCTTGGGTCC
*
4993093 TCGCTTGGTTCC
1 TCGCTTGGGTCC
* *
4993105 TCACTTGGGCCC
1 TCGCTTGGGTCC
4993117 TCGCTT
1 TCGCTT
4993123 TCATTTGGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.02, C:0.36, G:0.26, T:0.36
Consensus pattern (12 bp):
TCGCTTGGGTCC
Found at i:4997818 original size:432 final size:432
Alignment explanation
Indices: 4997015--4997878 Score: 1719
Period size: 432 Copynumber: 2.0 Consensus size: 432
4997005 TTCAGACCAC
4997015 ATAGTTCCTCATGATATACCTTTTGTATCCAATACTATTCCTGAGGTTCAACGGAATTTCATATC
1 ATAGTTCCTCATGATATACCTTTTGTATCCAATACTATTCCTGAGGTTCAACGGAATTTCATATC
4997080 TAACCCGATGTCATCGCACTTGCTCATAATGTAGGTTACTCTTATATCACATTATTTATACTTTT
66 TAACCCGATGTCATCGCACTTGCTCATAATGTAGGTTACTCTTATATCACATTATTTATACTTTT
4997145 GTGGTAACAAGTAAGATTATGATACATGATAACAATAAAACATTTAAACATATATATATCACCTA
131 GTGGTAACAAGTAAGATTATGATACATGATAACAATAAAACATTTAAACATATATATATCACCTA
4997210 TTTCCTATATCACTTGTCATATATCATCGTTTTCTTGCATTTCATGTAACATTCTTCCATGTCAT
196 TTTCCTATATCACTTGTCATATATCATCGTTTTCTTGCATTTCATGTAACATTCTTCCATGTCAT
4997275 ATTTCCACATCATGTACACCATTCCATCAACTTTTCCAATGCATTCAATCATACAATTTATGCAA
261 ATTTCCACATCATGTACACCATTCCATCAACTTTTCCAATGCATTCAATCATACAATTTATGCAA
4997340 TAATAGTAAAGAATTACAATTCAAACATAATATTACATTATTATTATCATACGAACTTACCTCGA
326 TAATAGTAAAGAATTACAATTCAAACATAATATTACATTATTATTATCATACGAACTTACCTCGA
4997405 ATCTAAGCACGGCTAATTGTTTCATTTTAGTCCATAATCTCG
391 ATCTAAGCACGGCTAATTGTTTCATTTTAGTCCATAATCTCG
4997447 ATAGTTCCTCATGATATACCTTTTGTATCCAATACTATTCCTGAGGTTCAACGGAATTTCATATC
1 ATAGTTCCTCATGATATACCTTTTGTATCCAATACTATTCCTGAGGTTCAACGGAATTTCATATC
*
4997512 TAACTCGATGTCATCGCACTTGCTCATAATGTAGGTTACTCTTATATCACATTATTTATACTTTT
66 TAACCCGATGTCATCGCACTTGCTCATAATGTAGGTTACTCTTATATCACATTATTTATACTTTT
4997577 GTGGTAACAAGTAAGATTATGATACATGATAACAATAAAACATTTAAACATATATATATCACCTA
131 GTGGTAACAAGTAAGATTATGATACATGATAACAATAAAACATTTAAACATATATATATCACCTA
4997642 TTTCCTATATCACTTGTCATATATCATCGTTTTCTTGCATTTCATGTAACATTCTTCCATGTCAT
196 TTTCCTATATCACTTGTCATATATCATCGTTTTCTTGCATTTCATGTAACATTCTTCCATGTCAT
4997707 ATTTCCACATCATGTACACCATTCCATCAACTTTTCCAATGCATTCAATCATACAATTTATGCAA
261 ATTTCCACATCATGTACACCATTCCATCAACTTTTCCAATGCATTCAATCATACAATTTATGCAA
4997772 TAATAGTAAAGAATTACAATTCAAACATAATATTACATTATTATTATCATACGAACTTACCTCGA
326 TAATAGTAAAGAATTACAATTCAAACATAATATTACATTATTATTATCATACGAACTTACCTCGA
4997837 ATCTAAGCACGGCTAATTGTTTCATTTTAGTCCATAATCTCG
391 ATCTAAGCACGGCTAATTGTTTCATTTTAGTCCATAATCTCG
4997879 TACTTTCTCG
Statistics
Matches: 431, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
432 431 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (432 bp):
ATAGTTCCTCATGATATACCTTTTGTATCCAATACTATTCCTGAGGTTCAACGGAATTTCATATC
TAACCCGATGTCATCGCACTTGCTCATAATGTAGGTTACTCTTATATCACATTATTTATACTTTT
GTGGTAACAAGTAAGATTATGATACATGATAACAATAAAACATTTAAACATATATATATCACCTA
TTTCCTATATCACTTGTCATATATCATCGTTTTCTTGCATTTCATGTAACATTCTTCCATGTCAT
ATTTCCACATCATGTACACCATTCCATCAACTTTTCCAATGCATTCAATCATACAATTTATGCAA
TAATAGTAAAGAATTACAATTCAAACATAATATTACATTATTATTATCATACGAACTTACCTCGA
ATCTAAGCACGGCTAATTGTTTCATTTTAGTCCATAATCTCG
Found at i:5003621 original size:26 final size:26
Alignment explanation
Indices: 5003572--5003621 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
5003562 CAGAGTTAGT
*
5003572 ATTGATTTGATGATTTTAGGTACTAA
1 ATTGATTTGATGATTTTAGATACTAA
*
5003598 ATTGATTTGATGATTTTATATACT
1 ATTGATTTGATGATTTTAGATACT
5003622 GATTTACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.50
Consensus pattern (26 bp):
ATTGATTTGATGATTTTAGATACTAA
Found at i:5003762 original size:18 final size:16
Alignment explanation
Indices: 5003739--5003777 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
5003729 GAATCCTTGT
5003739 TAAAATAAAATACAATAG
1 TAAAATAAAATA-AA-AG
*
5003757 TAAAATGAAATAAAAG
1 TAAAATAAAATAAAAG
5003773 TAAAA
1 TAAAA
5003778 CCCATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 2 0.10
18 11 0.55
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (16 bp):
TAAAATAAAATAAAAG
Found at i:5006931 original size:14 final size:14
Alignment explanation
Indices: 5006912--5006943 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5006902 AAGCTAGTGA
5006912 ACTCTTCGGTGGAT
1 ACTCTTCGGTGGAT
*
5006926 ACTCTTTGGTGGAT
1 ACTCTTCGGTGGAT
5006940 ACTC
1 ACTC
5006944 CTCAGAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.38
Consensus pattern (14 bp):
ACTCTTCGGTGGAT
Found at i:5009595 original size:27 final size:27
Alignment explanation
Indices: 5009557--5009609 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
5009547 AAAAGATTCA
5009557 CACGACCTAAGACACGCCCGTGTGACC
1 CACGACCTAAGACACGCCCGTGTGACC
*
5009584 CACGACCTAAGACACGCCTGTGTGAC
1 CACGACCTAAGACACGCCCGTGTGAC
5009610 ATACGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.38, G:0.23, T:0.13
Consensus pattern (27 bp):
CACGACCTAAGACACGCCCGTGTGACC
Found at i:5022970 original size:37 final size:38
Alignment explanation
Indices: 5022929--5023019 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 38
5022919 AGTATTTAAT
* *
5022929 TATTTTTTTAATTTTAAAAATT-TTAAAAAGTATAAAA
1 TATTTTTTTAATATTAAAAATTATTAAAAAGTAAAAAA
* *
5022966 TA--TTTTTAAAATTAAAATTTATTAAAAAGTAAAAAA
1 TATTTTTTTAATATTAAAAATTATTAAAAAGTAAAAAA
*
5023002 AATATTTTTTAATATTAA
1 TAT-TTTTTTAATATTAA
5023020 TTAAATACTG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
35 15 0.34
36 15 0.34
37 2 0.05
39 12 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (38 bp):
TATTTTTTTAATATTAAAAATTATTAAAAAGTAAAAAA
Found at i:5022976 original size:19 final size:17
Alignment explanation
Indices: 5022942--5022992 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
5022932 TTTTTTAATT
*
5022942 TTAAAA-ATTTTAAAAA
1 TTAAAATATTTTTAAAA
5022958 GTATAAAATATTTTTAAAA
1 -T-TAAAATATTTTTAAAA
*
5022977 TTAAAAT-TTATTAAAA
1 TTAAAATATTTTTAAAA
5022993 AGTAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.27
17 7 0.23
18 6 0.20
19 9 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
TTAAAATATTTTTAAAA
Found at i:5024473 original size:4 final size:4
Alignment explanation
Indices: 5024464--5024491 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
5024454 GGATTAAACC
5024464 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
5024492 TTTTTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:5027429 original size:22 final size:22
Alignment explanation
Indices: 5027385--5027429 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
5027375 CTCTCTCATA
*
5027385 TTCTCAAATCTCTCCTAAATTT
1 TTCTCAAATCCCTCCTAAATTT
* *
5027407 TTCTCAATTCCCT-CTTAATTT
1 TTCTCAAATCCCTCCTAAATTT
5027428 TT
1 TT
5027430 ACTTAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (22 bp):
TTCTCAAATCCCTCCTAAATTT
Found at i:5032630 original size:16 final size:16
Alignment explanation
Indices: 5032609--5032644 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5032599 CTTAGGAGGT
*
5032609 AGATTGTTCGCATAGA
1 AGATTGTTCGCACAGA
*
5032625 AGATTGTTTGCACAGA
1 AGATTGTTCGCACAGA
5032641 AGAT
1 AGAT
5032645 CTTTAGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (16 bp):
AGATTGTTCGCACAGA
Found at i:5035006 original size:79 final size:78
Alignment explanation
Indices: 5034904--5035126 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
5034894 GCTCCTCGTT
* *
5034904 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
5034969 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
5034984 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGGTC-TAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
5035047 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
5035062 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
5035125 GA
63 GA
5035127 CATCATTCAA
Statistics
Matches: 123, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 46 0.37
79 56 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:5035021 original size:39 final size:40
Alignment explanation
Indices: 5034904--5035126 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
5034894 GCTCCTCGTT
* *
5034904 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
5034944 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
5034984 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
5035023 CAAATGCCTTCGGGTC-TAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
5035062 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
5035103 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
5035127 CATCATTCAA
Statistics
Matches: 164, Mismatches: 10, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:5036994 original size:68 final size:68
Alignment explanation
Indices: 5036867--5037051 Score: 167
Period size: 68 Copynumber: 2.7 Consensus size: 68
5036857 TTCGTGTGAC
* * * * ** * * *
5036867 TCAAAACAGTTAGCAAGAGA-AAAGCTCCTAGTTGTCATATTAAGGTTCGTAGGTAAAGAGCTAC
1 TCAAAACAGTTAGCGAGA-ACAAAGCTCCCAATCGTCATATTAAGGTTCACAAGCAAAGAGCCAC
5036931 AACA
65 AACA
* *
5036935 TCAAAACAATTAGCGAGAACAAAGCTCCCAATCGTCATATTAAGGTTCACAAGCGAAGAGCCACA
1 TCAAAACAGTTAGCGAGAACAAAGCTCCCAATCGTCATATTAAGGTTCACAAGCAAAGAGCCACA
*
5037000 ACC
66 ACA
* * * * * *
5037003 TCTAAAATAGTTAGTGGGAGCAAAGCTCCC-AGCTATCATATTAAGGTTC
1 TC-AAAACAGTTAGCGAGAACAAAGCTCCCAATC-GTCATATTAAGGTTC
5037052 GCAATTGAAT
Statistics
Matches: 95, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
67 1 0.01
68 58 0.61
69 36 0.38
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (68 bp):
TCAAAACAGTTAGCGAGAACAAAGCTCCCAATCGTCATATTAAGGTTCACAAGCAAAGAGCCACA
ACA
Found at i:5037050 original size:69 final size:69
Alignment explanation
Indices: 5036868--5037233 Score: 241
Period size: 69 Copynumber: 5.3 Consensus size: 69
5036858 TCGTGTGACT
** * * * * ** * ** *
5036868 CAAAACAGTTAGCAAGAGAAAAGCTCCTAGTTGTCATATTAAGGTTCGTAGGTAAAGAGCTACAA
1 CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAAGCGAAGAGCCACAA
*
5036933 CAT-
66 CCTC
* * * * *
5036936 CAAAACAATTAGCGAGAACAAAGCTCCCA-ATCGTCATATTAAGGTTCACAAGCGAAGAGCCACA
1 CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCT-ATCATATTAAGGTTCACAAGCGAAGAGCCACA
5037000 ACCTC
65 ACCTC
* * * * ** * * **
5037005 TAAAATAGTTAGTGGGAGCAAAGCTCCCAGCTATCATATTAAGGTTCGCAATTGAATAGTCGTAA
1 CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAAGCGAAGAGCCACAA
5037070 CCTC
66 CCTC
* * * * * * ** * **
5037074 CAAAACAGTTAATAAGAGCAAAGCTCTCTGTTTTCATATTAAGGTTTGCAGGCGAAGAGCCGTAA
1 CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAAGCGAAGAGCCACAA
*
5037139 TCTC
66 CCTC
* * * * * * * *
5037143 CAAAACAATTAGCGAGAGCAAAACTCCCAGCTATAATATTAAGGTTCACAGGTGAAGAACCACTA
1 CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAAGCGAAGAGCCACAA
5037208 CCTC
66 CCTC
* * * *
5037212 CAAGACATTTAATGAAAGCAAA
1 CAAAACAGTTAGTGAGAGCAAA
5037234 ACTCTCAGTT
Statistics
Matches: 228, Mismatches: 67, Indels: 5
0.76 0.22 0.02
Matches are distributed among these distances:
67 1 0.00
68 53 0.23
69 173 0.76
70 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (69 bp):
CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAAGCGAAGAGCCACAA
CCTC
Found at i:5037211 original size:138 final size:138
Alignment explanation
Indices: 5036969--5037244 Score: 304
Period size: 138 Copynumber: 2.0 Consensus size: 138
5036959 CTCCCAATCG
* * * * * *
5036969 TCATATTAAGGTTCACAAGCGAAGAGCCACAACCTCTAAAATAGTTAGTGGGAGCAAAGCTCCCA
1 TCATATTAAGGTTCACAAGCGAAGAGCCACAACCTCCAAAACAATTAGCGAGAGCAAAACTCCCA
* * * * ** * *
5037034 GCTATCATATTAAGGTTCGCAATTGAATAGTCGTAACCTCCAAAACAGTTAAT-AAGAGCAAAGC
66 GCTATAATATTAAGGTTCACAAGTGAAGAACCCTAACCTCCAAAACAGTTAATGAA-AGCAAAAC
*
5037098 TCTCTGTTT
130 TCTCAGTTT
** * ** *
5037107 TCATATTAAGGTTTGCAGGCGAAGAGCCGTAATCTCCAAAACAATTAGCGAGAGCAAAACTCCCA
1 TCATATTAAGGTTCACAAGCGAAGAGCCACAACCTCCAAAACAATTAGCGAGAGCAAAACTCCCA
* * *
5037172 GCTATAATATTAAGGTTCACAGGTGAAGAACCACT-ACCTCCAAGACATTTAATGAAAGCAAAAC
66 GCTATAATATTAAGGTTCACAAGTGAAGAACC-CTAACCTCCAAAACAGTTAATGAAAGCAAAAC
5037236 TCTCAGTTT
130 TCTCAGTTT
5037245 GTTATCCTTC
Statistics
Matches: 112, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
138 109 0.97
139 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (138 bp):
TCATATTAAGGTTCACAAGCGAAGAGCCACAACCTCCAAAACAATTAGCGAGAGCAAAACTCCCA
GCTATAATATTAAGGTTCACAAGTGAAGAACCCTAACCTCCAAAACAGTTAATGAAAGCAAAACT
CTCAGTTT
Found at i:5042443 original size:5 final size:5
Alignment explanation
Indices: 5042415--5042457 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
5042405 GTACATATGC
*
5042415 TCTTT TTTTGT TCTTT TACTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTT-T TCTTT T-CTTT TCTTT TCTTT TCTTT TCTTT T
5042458 TCACGAGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:5047688 original size:25 final size:24
Alignment explanation
Indices: 5047642--5047690 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
5047632 GAAGGAAATG
*
5047642 AAGAAAAATGGAAGGGAATGAAGA
1 AAGAAAAATGGAAGAGAATGAAGA
5047666 AAGAAAAAT-GATAGAGAAGTGAAGA
1 AAGAAAAATGGA-AGAGAA-TGAAGA
5047691 GATGAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 2 0.09
24 14 0.64
25 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.31, T:0.10
Consensus pattern (24 bp):
AAGAAAAATGGAAGAGAATGAAGA
Found at i:5054310 original size:25 final size:25
Alignment explanation
Indices: 5054281--5054329 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
5054271 ATGAATTTTC
5054281 TCAAAATTTTA-TCAAGGTAAAATTG
1 TCAAAATTTTACTCAA-GTAAAATTG
*
5054306 TCAAAATTTTACTGAAGTAAAATT
1 TCAAAATTTTACTCAAGTAAAATT
5054330 AGGATGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (25 bp):
TCAAAATTTTACTCAAGTAAAATTG
Found at i:5054609 original size:37 final size:37
Alignment explanation
Indices: 5054568--5054643 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
5054558 GGATGTTGTT
5054568 TTTCTATTTAAAATAAACCTCTATAACTTTACAAGGG
1 TTTCTATTTAAAATAAACCTCTATAACTTTACAAGGG
5054605 TTTCTATTTAAAATAAACCTCTATAACTTTACAAGGG
1 TTTCTATTTAAAATAAACCTCTATAACTTTACAAGGG
5054642 TT
1 TT
5054644 CTAACTTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (37 bp):
TTTCTATTTAAAATAAACCTCTATAACTTTACAAGGG
Found at i:5058186 original size:18 final size:17
Alignment explanation
Indices: 5058129--5058186 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
5058119 TATAACTCAA
5058129 AAAGTTAT-AAAAATCT
1 AAAGTTATAAAAAATCT
*
5058145 AAAGAATATATAAAAAATTTT
1 AAAG--T-TATAAAAAA-TCT
5058166 AAAGTTATAAAAAATCCT
1 AAAGTTATAAAAAAT-CT
5058184 AAA
1 AAA
5058187 CCCATAAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
16 4 0.12
17 1 0.03
18 14 0.41
19 4 0.12
20 5 0.15
21 6 0.18
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (17 bp):
AAAGTTATAAAAAATCT
Found at i:5059114 original size:60 final size:60
Alignment explanation
Indices: 5059023--5059147 Score: 232
Period size: 60 Copynumber: 2.1 Consensus size: 60
5059013 AGTAAACACA
5059023 AAAATATTGAAAATCATCCCAATCCTATTATTTGACTTTACTTTTTAGCCTTATAAATAC
1 AAAATATTGAAAATCATCCCAATCCTATTATTTGACTTTACTTTTTAGCCTTATAAATAC
* *
5059083 AAAATATTGAAAATCATCCCAATCCTATTATTTTACTTTACTTTTTAGCCTTTTAAATAC
1 AAAATATTGAAAATCATCCCAATCCTATTATTTGACTTTACTTTTTAGCCTTATAAATAC
5059143 AAAAT
1 AAAAT
5059148 GCCTTTAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.41
Consensus pattern (60 bp):
AAAATATTGAAAATCATCCCAATCCTATTATTTGACTTTACTTTTTAGCCTTATAAATAC
Found at i:5059325 original size:9 final size:9
Alignment explanation
Indices: 5059313--5059404 Score: 78
Period size: 9 Copynumber: 9.7 Consensus size: 9
5059303 TTTTTTACCA
5059313 AAAATTATT
1 AAAATTATT
5059322 AAAATATTATT
1 -AAA-ATTATT
*
5059333 AAAAATATT
1 AAAATTATT
5059342 AAAATTGATAT
1 AAAATT-AT-T
*
5059353 AAACTTATT
1 AAAATTATT
*
5059362 AAAATTATAA
1 AAAATTAT-T
5059372 AAAATTA-T
1 AAAATTATT
*
5059380 AAATTTTATT
1 AAA-ATTATT
*
5059390 AAAAATATT
1 AAAATTATT
5059399 AAAATT
1 AAAATT
5059405 TTATAAATAA
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.05
9 30 0.45
10 21 0.32
11 12 0.18
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (9 bp):
AAAATTATT
Found at i:5059388 original size:19 final size:19
Alignment explanation
Indices: 5059312--5059411 Score: 98
Period size: 20 Copynumber: 5.2 Consensus size: 19
5059302 ATTTTTTACC
*
5059312 AAAAATTATTAAAATATTATT
1 AAAAA-TATTAAAATTTTA-T
*
5059333 AAAAATATTAAAATTGATAT
1 AAAAATATTAAAATT-TTAT
**
5059353 AAACTTATTAAAA--TTAT
1 AAAAATATTAAAATTTTAT
5059370 AAAAA-ATTATAAATTTTATT
1 AAAAATATTA-AAATTTTA-T
5059390 AAAAATATTAAAATTTTAT
1 AAAAATATTAAAATTTTAT
5059409 AAA
1 AAA
5059412 TAAAACTTAC
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
16 4 0.06
17 9 0.14
19 7 0.11
20 35 0.53
21 11 0.17
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (19 bp):
AAAAATATTAAAATTTTAT
Found at i:5059395 original size:29 final size:28
Alignment explanation
Indices: 5059357--5059413 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
5059347 TGATATAAAC
* *
5059357 TTATTAAAATTATAAAAAATTATAAATT
1 TTATTAAAAATATAAAAAATTATAAATA
**
5059385 TTATTAAAAATATTAAAATTTTATAAATA
1 TTATTAAAAATA-TAAAAAATTATAAATA
5059414 AAACTTACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TTATTAAAAATATAAAAAATTATAAATA
Found at i:5059567 original size:20 final size:21
Alignment explanation
Indices: 5059542--5059592 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
5059532 CAAGACTCTC
5059542 TTATTTTTATTA-ATAAATTA
1 TTATTTTTATTAGATAAATTA
5059562 TTATTTTTA-TAGATAAATTA
1 TTATTTTTATTAGATAAATTA
5059582 TTATTTTTATT
1 TTATTTTTATT
5059593 TTTAAAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTTTATTAGATAAATTA
Found at i:5059898 original size:10 final size:10
Alignment explanation
Indices: 5059861--5060098 Score: 77
Period size: 10 Copynumber: 23.8 Consensus size: 10
5059851 ATGAGGACAA
*
5059861 ATAAATTTTT
1 ATAATTTTTT
*
5059871 AT-ATATTTT
1 ATAATTTTTT
*
5059880 -TAATATTTT
1 ATAATTTTTT
5059889 ATAATTTTTT
1 ATAATTTTTT
*
5059899 AAATTATTTTTT
1 --ATAATTTTTT
* *
5059911 ATACTTTATT
1 ATAATTTTTT
* *
5059921 AGAATCTTTT
1 ATAATTTTTT
*
5059931 ATAAGTTTTT
1 ATAATTTTTT
*
5059941 ATGAATTTTGT
1 AT-AATTTTTT
*
5059952 ATAA-GTTTT
1 ATAATTTTTT
** *
5059961 ATAATTACTG
1 ATAATTTTTT
*
5059971 ATGA-TTTTT
1 ATAATTTTTT
*
5059980 ACAAATTTTTT
1 A-TAATTTTTT
5059991 -TAGATTTTTT
1 ATA-ATTTTTT
5060001 CATAAGTTTTTT
1 -ATAA-TTTTTT
5060013 -TGAATTTTTT
1 AT-AATTTTTT
* **
5060023 ATAAGTTTAC
1 ATAATTTTTT
* *
5060033 AGAAATTTTT
1 ATAATTTTTT
5060043 A-AATATTTTT
1 ATAAT-TTTTT
5060053 A-AGA-TTTTT
1 ATA-ATTTTTT
5060062 A-AATATTTTT
1 ATAAT-TTTTT
*
5060072 A-AATATTTT
1 ATAATTTTTT
*
5060081 -TAAGTTTTT
1 ATAATTTTTT
5060090 ATGAATTTT
1 AT-AATTTT
5060099 AGTAAAATTT
Statistics
Matches: 166, Mismatches: 41, Indels: 41
0.67 0.17 0.17
Matches are distributed among these distances:
8 2 0.01
9 42 0.25
10 82 0.49
11 23 0.14
12 17 0.10
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:5059908 original size:29 final size:28
Alignment explanation
Indices: 5059861--5059919 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
5059851 ATGAGGACAA
* *
5059861 ATAAATTTTTATATATTTTTAATATTTT
1 ATAAATTTTTAAATATTTTTAATACTTT
* *
5059889 ATAATTTTTTAAATTATTTTTTATACTTT
1 ATAAATTTTTAAA-TATTTTTAATACTTT
5059918 AT
1 AT
5059920 TAGAATCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
ATAAATTTTTAAATATTTTTAATACTTT
Found at i:5060010 original size:21 final size:21
Alignment explanation
Indices: 5059973--5060030 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
5059963 AATTACTGAT
* *
5059973 GATTTTTACA-AATTTTTTTA
1 GATTTTTTCATAAGTTTTTTA
*
5059993 GATTTTTTCATAAGTTTTTTT
1 GATTTTTTCATAAGTTTTTTA
5060014 GAATTTTTT-ATAAGTTT
1 G-ATTTTTTCATAAGTTT
5060031 ACAGAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.27
21 17 0.52
22 7 0.21
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (21 bp):
GATTTTTTCATAAGTTTTTTA
Found at i:5060059 original size:9 final size:9
Alignment explanation
Indices: 5060037--5060120 Score: 64
Period size: 10 Copynumber: 8.8 Consensus size: 9
5060027 GTTTACAGAA
5060037 ATTTTTAAAT
1 ATTTTT-AAT
*
5060047 ATTTTTAAG
1 ATTTTTAAT
5060056 ATTTTTAAAT
1 ATTTTT-AAT
5060066 ATTTTTAAAT
1 ATTTTT-AAT
5060076 ATTTTTAAGT
1 ATTTTTAA-T
5060086 -TTTTATGAAT
1 ATTTT-T-AAT
* *
5060096 -TTTAGTAAA
1 ATTT-TTAAT
5060105 ATTTTTAAT
1 ATTTTTAAT
5060114 ATTTTTA
1 ATTTTTA
5060121 TAAGTTTATT
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
9 26 0.42
10 34 0.55
11 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:5060059 original size:19 final size:20
Alignment explanation
Indices: 5060037--5060083 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
5060027 GTTTACAGAA
5060037 ATTTTTAAATATTTTT-AAG
1 ATTTTTAAATATTTTTAAAG
*
5060056 ATTTTTAAATATTTTTAAAT
1 ATTTTTAAATATTTTTAAAG
5060076 ATTTTTAA
1 ATTTTTAA
5060084 GTTTTTATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTTTAAATATTTTTAAAG
Found at i:5060069 original size:29 final size:29
Alignment explanation
Indices: 5060038--5060138 Score: 118
Period size: 29 Copynumber: 3.4 Consensus size: 29
5060028 TTTACAGAAA
5060038 TTTTTAAATATTTTTAAGATTTTTA-AAT
1 TTTTTAAATATTTTTAAGATTTTTATAAT
5060066 ATTTTTAAATATTTTTAAG-TTTTTATGAAT
1 -TTTTTAAATATTTTTAAGATTTTTAT-AAT
* *
5060096 TTTAGTAAA-ATTTTTAATATTTTTATAAGT
1 TTT-TTAAATATTTTTAAGATTTTTATAA-T
5060126 TTATTTAAATATT
1 TT-TTTAAATATT
5060139 AATATTGCAA
Statistics
Matches: 62, Mismatches: 3, Indels: 12
0.81 0.04 0.16
Matches are distributed among these distances:
28 6 0.10
29 31 0.50
30 21 0.34
31 4 0.06
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (29 bp):
TTTTTAAATATTTTTAAGATTTTTATAAT
Found at i:5062746 original size:18 final size:18
Alignment explanation
Indices: 5062705--5062740 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5062695 AAATTAAAAT
* *
5062705 ATTAATTAAGCTAATTAA
1 ATTAATTAACCTAACTAA
5062723 ATTAATTAACCTAACTAA
1 ATTAATTAACCTAACTAA
5062741 TCTAATGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (18 bp):
ATTAATTAACCTAACTAA
Found at i:5064223 original size:30 final size:30
Alignment explanation
Indices: 5064182--5064244 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
5064172 ACGGGAATAA
* * *
5064182 GTTGCTCACACAAGTTGACATTATATCAGG
1 GTTGCTCACACAAGCTAACATTATATCAAG
*
5064212 GTTGCTTACACAAGCTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAAG
5064242 GTT
1 GTT
5064245 ACCTGTCTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (30 bp):
GTTGCTCACACAAGCTAACATTATATCAAG
Found at i:5068101 original size:31 final size:31
Alignment explanation
Indices: 5068063--5068121 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
5068053 ACACCTGAAG
5068063 TAAAAAAAATTCAACTAGATTTGACTTATGA
1 TAAAAAAAATTCAACTAGATTTGACTTATGA
5068094 TAAAAAAAATTCAACTAGATTTGACTTA
1 TAAAAAAAATTCAACTAGATTTGACTTA
5068122 CGAAGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.32
Consensus pattern (31 bp):
TAAAAAAAATTCAACTAGATTTGACTTATGA
Found at i:5068131 original size:32 final size:32
Alignment explanation
Indices: 5068059--5068131 Score: 112
Period size: 31 Copynumber: 2.3 Consensus size: 32
5068049 GATCACACCT
*
5068059 GAAGTAAAAAAAATTCAACTAGATTTGACTTAT
1 GAAG-AAAAAAAATTCAACTAGATTTGACTTAC
*
5068092 G-ATAAAAAAAATTCAACTAGATTTGACTTAC
1 GAAGAAAAAAAATTCAACTAGATTTGACTTAC
5068123 GAAGAAAAA
1 GAAGAAAAA
5068132 GTAAAGTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 28 0.78
32 7 0.19
33 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (32 bp):
GAAGAAAAAAAATTCAACTAGATTTGACTTAC
Found at i:5076544 original size:43 final size:43
Alignment explanation
Indices: 5076483--5076566 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
5076473 TGTGATTTCA
*
5076483 ATATGTGTTTACGAGTAAGACC-CTGTCTGGGACAG-TGGCATCG
1 ATATGTGGTTACGAGTAAGACCAC-GTCTGGGAC-GTTGGCATCG
5076526 ATATGTGGTTAC-ATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGGTTACGA-GTAAGACCACGTCTGGGACGTTGGCAT
5076567 TGTACGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
42 2 0.05
43 34 0.92
44 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (43 bp):
ATATGTGGTTACGAGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:5082453 original size:28 final size:29
Alignment explanation
Indices: 5082399--5082453 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
5082389 ACAAGGGCTT
*
5082399 TCACAAGGCCAAGCACATGCCCGTGTCCA
1 TCACAAGGCCAAGCACACGCCCGTGTCCA
* *
5082428 TCACACGGCCTAG-ACACGCCCGTGTC
1 TCACAAGGCCAAGCACACGCCCGTGTC
5082454 GTCGCTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.24, C:0.40, G:0.22, T:0.15
Consensus pattern (29 bp):
TCACAAGGCCAAGCACACGCCCGTGTCCA
Found at i:5086737 original size:41 final size:41
Alignment explanation
Indices: 5086664--5086844 Score: 209
Period size: 41 Copynumber: 4.4 Consensus size: 41
5086654 ATGAAATGCG
5086664 CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
1 CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
* * * * * *
5086705 CATACATGCCCCTATTTATACTCCAGTGCCCCTTAAATACA
1 CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
* * *
5086746 CATACGTGCCCCTGTTTGTACTTCAGTACCCCTAAATTTCA
1 CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
* * * * * *
5086787 CATACATTCCACTATTTGTACTTTAATACCCCTGAATTGCA
1 CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
**
5086828 CATATGTGCCCCTGTTT
1 CATACATGCCCCTGTTT
5086845 AGACTTCGGT
Statistics
Matches: 113, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (41 bp):
CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
Found at i:5086851 original size:82 final size:82
Alignment explanation
Indices: 5086655--5086844 Score: 236
Period size: 82 Copynumber: 2.3 Consensus size: 82
5086645 AGAATAATGA
* * * * *
5086655 TGAAATGCGCATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACACATACATGCCCCTAT
1 TGAAATACACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAAATTACACATACATGCCACTAT
* *
5086720 TTATACTCCAGTGCCCC
66 TTATACTCCAATACCCC
* * *
5086737 TTAAATACACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAAATTTCACATACATTCCACTAT
1 TGAAATACACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAAATTACACATACATGCCACTAT
* **
5086802 TTGTACTTTAATACCCC
66 TTATACTCCAATACCCC
* * *
5086819 TGAATTGCACATATGTGCCCCTGTTT
1 TGAAATACACATACGTGCCCCTGTTT
5086845 AGACTTCGGT
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
82 91 1.00
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (82 bp):
TGAAATACACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAAATTACACATACATGCCACTAT
TTATACTCCAATACCCC
Found at i:5087610 original size:15 final size:15
Alignment explanation
Indices: 5087590--5087638 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
5087580 AGACACAGGC
5087590 GTGTGACTCAGCCAT
1 GTGTGACTCAGCCAT
5087605 GTGTGACACTCAGCCA-
1 GTGTG--ACTCAGCCAT
*
5087621 G-GTGACACAGCCAT
1 GTGTGACTCAGCCAT
5087635 GTGT
1 GTGT
5087639 CCCCTGTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
13 8 0.28
14 1 0.03
15 10 0.34
16 1 0.03
17 9 0.31
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (15 bp):
GTGTGACTCAGCCAT
Found at i:5087617 original size:17 final size:17
Alignment explanation
Indices: 5087595--5087638 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
5087585 CAGGCGTGTG
5087595 ACTCAGCCATGTGTGAC
1 ACTCAGCCATGTGTGAC
5087612 ACTCAGCCA-G-GTGAC
1 ACTCAGCCATGTGTGAC
5087627 A--CAGCCATGTGT
1 ACTCAGCCATGTGT
5087639 CCCCTGTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.24
14 1 0.04
15 8 0.32
16 1 0.04
17 9 0.36
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (17 bp):
ACTCAGCCATGTGTGAC
Found at i:5097420 original size:46 final size:47
Alignment explanation
Indices: 5097352--5097450 Score: 128
Period size: 46 Copynumber: 2.1 Consensus size: 47
5097342 TATAATCTAC
* *
5097352 GTAGGGGAAAAGCTAAAATGTAATGTCGATGTAACTATTTCAAATAT
1 GTAGGGGAAAAGCTAAAATGTAATATCGATGCAACTATTTCAAATAT
* * **
5097399 GTAGGGG-CAAGCTGAAATGTAATATCGATGCAGTTATTTCAAATAT
1 GTAGGGGAAAAGCTAAAATGTAATATCGATGCAACTATTTCAAATAT
*
5097445 GAAGGG
1 GTAGGG
5097451 TTGACGAGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 38 0.84
47 7 0.16
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.28
Consensus pattern (47 bp):
GTAGGGGAAAAGCTAAAATGTAATATCGATGCAACTATTTCAAATAT
Found at i:5102297 original size:47 final size:49
Alignment explanation
Indices: 5102174--5102300 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 49
5102164 AGATATGTGA
*
5102174 GAGCTAGTGTAAGACCATGTCTGGGACATGGAGTCGACCTCGATTTCGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGAGTCGACCTCGA-TTCGAT
** * * * * *
5102224 -ATTCAGTGTAAGACCAGGTCTAGGACATGGTA-TTGA-CTTGA-TGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGG-AGTCGACCTCGATTCGAT
5102270 GAGCCAGTGTAAGACCATGTCTGGGACATGG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGG
5102301 CATCGGCATT
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
46 4 0.06
47 26 0.41
48 4 0.06
49 28 0.44
50 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGAGTCGACCTCGATTCGAT
Found at i:5103624 original size:117 final size:117
Alignment explanation
Indices: 5103418--5103651 Score: 432
Period size: 117 Copynumber: 2.0 Consensus size: 117
5103408 GTTAGCTCAA
* * *
5103418 GGTTGGAGATCGTTGGAGGCAGCGTCACACTATCAAGTTGCTATCTTTGAAATAATGAAGCATAT
1 GGTTGGAGATCGTCGGAGGCAGCATCACACTATCAAGTTGCTACCTTTGAAATAATGAAGCATAT
5103483 ATTAGAAATTTCAAGTGAGTGGCATGTATAGGGATCTAGTTGATTGACATGT
66 ATTAGAAATTTCAAGTGAGTGGCATGTATAGGGATCTAGTTGATTGACATGT
*
5103535 GGTTGGAGATCGTCGGAGGCAGCATCACACTATCAAGTTGCTACCTTTGGAATAATGAAGCATAT
1 GGTTGGAGATCGTCGGAGGCAGCATCACACTATCAAGTTGCTACCTTTGAAATAATGAAGCATAT
5103600 ATTAGAAATTTCAAGTGAGTGGCATGTATAGGGATCTAGTTGATTGACATGT
66 ATTAGAAATTTCAAGTGAGTGGCATGTATAGGGATCTAGTTGATTGACATGT
5103652 ATTATTTTAC
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 113 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (117 bp):
GGTTGGAGATCGTCGGAGGCAGCATCACACTATCAAGTTGCTACCTTTGAAATAATGAAGCATAT
ATTAGAAATTTCAAGTGAGTGGCATGTATAGGGATCTAGTTGATTGACATGT
Found at i:5105971 original size:717 final size:711
Alignment explanation
Indices: 5104593--5105987 Score: 2384
Period size: 717 Copynumber: 2.0 Consensus size: 711
5104583 TGTTACAAGC
* *
5104593 ATAATGGAATTGTACAAAGAATGAACAGAACCTTGCTAGAAAAAGGTCAATGCACGTTCTCTAAT
1 ATAATGGAATTGTACAAAGAATGAACAGAACCTTGCTAGAAAAAGCTCAATGCACGTTCTCTAAC
5104658 GCAGGCTTAGGGAAGGAATTTTGGGCTGAAGCCATAAACCTGGCAAGTTATTTGGTAAATTGATC
66 GCAGGCTTAGGGAAGGAATTTTGGGCTGAAGCCATAAACCTGGCAAGTTATTTGGTAAATTGATC
5104723 TCCTCATCAAGCATTGAATGGTAAAGTTCTAGAGAAGATATGGTCAGGTAAACCTCCCAAATATT
131 TCCTCATCAAGCATTGAATGGTAAAGTTCTAGAGAAGATATGGTCAGGTAAACCTCCCAAATATT
*
5104788 CTAATCTAAAAAAATTTGGTTGTCTTGCTTATGCTAAAGTTAGCCAGAGAAAGTTTGAACCAAGG
196 CTAATCTAAAAAAATTTGGTTGTCTTACTTATGCTAAAGTTAGCCAGAGAAAGTTTGAACCAAGG
* * *
5104853 GCAATTAAATTATCTTTCTACACAAAAGGTTTTAAGTTGTGTGAAATCCGACAAAATAATTGTTA
261 GAAATTAAATCATCTTTCAACACAAAAGGTTTTAAGTTGTGTGAAATCCGACAAAATAATTGTTA
*
5104918 GCAGAGATGTTACGTTTGATGAATCTATCATGTTTCGATCAAAAAAGAAGACTTTTACTTTTAAA
326 GCAGAGATGTTACGTTTGATGAATCTATCATGTTTCGATCAAAAAAGAAGACGTTTACTTTTAAA
5104983 GACACAACAAATCAGAATGTCTCAAGCAAGGTGGAGTCAAAAGATAAAATTGGGGGCGATGTCAA
391 GACACAACAAATCAGAATGTCTCAAGCAAGGTGGAGTCAAAAGATAAAATTGGGGGCGATGTCAA
*
5105048 GTGATGATGATTCACTTAACTAACTAAAATCACGACAAAGGCAAGCGCATCTATCTAACAATAGT
456 GTGATGATGATTCACTTAACTAACTAAAATCACGACAAAGGCAAGCGCACCTATCTAACAATAGT
* * *
5105113 ATAGCTATGGTGAGTCAGGAATATCGTATCCACGAGGACTAAAAGTACTAGTACTTACTATTTTT
521 ATAGCTATGGTGAGGCAGGAATATCGTATCCACGAGGACTAAAAGCACTAGTACTTACTATCTTT
* *
5105178 CTATTATCTAGCCAGTAATTTGAAGAAGTTTGTTTTAAATCTAAAATTATCTAATTACTAAGGAT
586 CTATTATCTAGCCAGTAATTTGAAGAAGTTTGTTTTAAATCTAAAACTATCTAATTACTAAGGAA
* *
5105243 GCAATAGAGAATAAGTAAGAAAATAATCTAAAATTATCGAACCATTGTTGGAACTCGCAGA
651 ACAAAAGAGAATAAGTAAGAAAATAATCTAAAATTATCGAACCATTGTTGGAACTCGCAGA
* * *
5105304 ATAATGGAATTGTACAAAGAATGAACAGAACCTTGCTAGAAAAAGCTCGATGCATGTTTTCTAAC
1 ATAATGGAATTGTACAAAGAATGAACAGAACCTTGCTAGAAAAAGCTCAATGCACGTTCTCTAAC
5105369 GCAGGCTTAGGGAAGGAATTTTGGGCTGAAGCCATAAACCTGGCAAGTTATTTGGTAAATTGATC
66 GCAGGCTTAGGGAAGGAATTTTGGGCTGAAGCCATAAACCTGGCAAGTTATTTGGTAAATTGATC
* * *
5105434 TCCTCATCGAA-CATTGAATGGTAAAGTTCTAGAGGAGATATGGTCAGGTAATCCTCCCAATTAT
131 TCCTCATC-AAGCATTGAATGGTAAAGTTCTAGAGAAGATATGGTCAGGTAAACCTCCCAAATAT
* *
5105498 TTTAATCT-CAAAAATTATGGTTGTCTTACTTATGCTAAAGTTAGCCAGAGAAAGTTTGAACCAA
195 TCTAATCTAAAAAAATT-TGGTTGTCTTACTTATGCTAAAGTTAGCCAGAGAAAGTTTGAACCAA
5105562 GGGAAATTAAATGCATCTTTCAACACAAAAGGTTTTAAGTTGTGGTGTCTGAAATCCGACAAAAT
259 GGGAAATTAAAT-CATCTTTCAACACAAAAGGTTTTAAG-T-T-GTG--TGAAATCCGACAAAAT
*
5105627 AATTGTTAGCAGAGATGTTACGTTTGGTGAATCTATCATGTTTCGATCAAAAAATG-AGACGTTT
318 AATTGTTAGCAGAGATGTTACGTTTGATGAATCTATCATGTTTCGATCAAAAAA-GAAGACGTTT
* *
5105691 ACTTTTAAAGACACAACAAATCAGAGTGTCTCAAGCAAGGTGGAGTCAAAAGATGAAATTGGGGG
382 ACTTTTAAAGACACAACAAATCAGAATGTCTCAAGCAAGGTGGAGTCAAAAGATAAAATTGGGGG
* * *
5105756 TGATGTCACGTGATGATGATTCACTTATCTAACTAAAATCACGACAAAGGCAAGCGCACCTAT-T
447 CGATGTCAAGTGATGATGATTCACTTAACTAACTAAAATCACGACAAAGGCAAGCGCACCTATCT
*
5105820 GAACAATAGTATAGCTGTGGTGAGGCAGGAATATCGTATCCACGAGGACTAAAAGCACTAGTACT
512 -AACAATAGTATAGCTATGGTGAGGCAGGAATATCGTATCCACGAGGACTAAAAGCACTAGTACT
* *
5105885 TACTATCTTTCTATTATCTAGTCGGTAATTTGAAGAAGTTTGTTTTAAATCTAAAACTATCTAAT
576 TACTATCTTTCTATTATCTAGCCAGTAATTTGAAGAAGTTTGTTTTAAATCTAAAACTATCTAAT
5105950 TACTAAGGAAACAAAAGAGAATAAGTAAGAAAATAATC
641 TACTAAGGAAACAAAAGAGAATAAGTAAGAAAATAATC
5105988 GAATAAACCA
Statistics
Matches: 642, Mismatches: 32, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
710 7 0.01
711 247 0.38
712 26 0.04
713 1 0.00
714 1 0.00
715 3 0.00
716 1 0.00
717 355 0.55
718 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (711 bp):
ATAATGGAATTGTACAAAGAATGAACAGAACCTTGCTAGAAAAAGCTCAATGCACGTTCTCTAAC
GCAGGCTTAGGGAAGGAATTTTGGGCTGAAGCCATAAACCTGGCAAGTTATTTGGTAAATTGATC
TCCTCATCAAGCATTGAATGGTAAAGTTCTAGAGAAGATATGGTCAGGTAAACCTCCCAAATATT
CTAATCTAAAAAAATTTGGTTGTCTTACTTATGCTAAAGTTAGCCAGAGAAAGTTTGAACCAAGG
GAAATTAAATCATCTTTCAACACAAAAGGTTTTAAGTTGTGTGAAATCCGACAAAATAATTGTTA
GCAGAGATGTTACGTTTGATGAATCTATCATGTTTCGATCAAAAAAGAAGACGTTTACTTTTAAA
GACACAACAAATCAGAATGTCTCAAGCAAGGTGGAGTCAAAAGATAAAATTGGGGGCGATGTCAA
GTGATGATGATTCACTTAACTAACTAAAATCACGACAAAGGCAAGCGCACCTATCTAACAATAGT
ATAGCTATGGTGAGGCAGGAATATCGTATCCACGAGGACTAAAAGCACTAGTACTTACTATCTTT
CTATTATCTAGCCAGTAATTTGAAGAAGTTTGTTTTAAATCTAAAACTATCTAATTACTAAGGAA
ACAAAAGAGAATAAGTAAGAAAATAATCTAAAATTATCGAACCATTGTTGGAACTCGCAGA
Found at i:5106581 original size:178 final size:178
Alignment explanation
Indices: 5106282--5106639 Score: 689
Period size: 178 Copynumber: 2.0 Consensus size: 178
5106272 ATCTACTCTT
5106282 AAACAGGGACTTTTGCTCCACTGAATTAAGCACATCAATCATGAATTAATATCCTTAAACATTAA
1 AAACAGGGACTTTTGCTCCACTGAATTAAGCACATCAATCATGAATTAATATCCTTAAACATTAA
*
5106347 AACATGGAATAATTACATATAATTGACATCAAGAACTCAAGTCTTTATCATGTAATTCAGAAAAT
66 AACATGGAATAATTACATATAATTGACATCAAGAACTCAAGTATTTATCATGTAATTCAGAAAAT
5106412 TAAATAACAAGATCCATCATAGGTTTCATCTTCCCTAGATATTTAGGA
131 TAAATAACAAGATCCATCATAGGTTTCATCTTCCCTAGATATTTAGGA
5106460 AAACAGGGACTTTTGCTCCACTGAATTAAGCACATCAATCATGAATTAATATCCTTAAACATTAA
1 AAACAGGGACTTTTGCTCCACTGAATTAAGCACATCAATCATGAATTAATATCCTTAAACATTAA
* *
5106525 AACATGGAATAATTACATATAATTGAGATCAAGAAGTCAAGTATTTATCATGTAATTCAGAAAAT
66 AACATGGAATAATTACATATAATTGACATCAAGAACTCAAGTATTTATCATGTAATTCAGAAAAT
5106590 TAAATAACAAGATCCATCATAGGTTTCATCTTCCCTAGATATTTAGGA
131 TAAATAACAAGATCCATCATAGGTTTCATCTTCCCTAGATATTTAGGA
5106638 AA
1 AA
5106640 TTTAGTTCAT
Statistics
Matches: 177, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 177 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (178 bp):
AAACAGGGACTTTTGCTCCACTGAATTAAGCACATCAATCATGAATTAATATCCTTAAACATTAA
AACATGGAATAATTACATATAATTGACATCAAGAACTCAAGTATTTATCATGTAATTCAGAAAAT
TAAATAACAAGATCCATCATAGGTTTCATCTTCCCTAGATATTTAGGA
Found at i:5108174 original size:20 final size:20
Alignment explanation
Indices: 5108149--5108188 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
5108139 TTGAAAGATA
5108149 GACATTTTGGGAAATTGATT
1 GACATTTTGGGAAATTGATT
5108169 GACATTTTGGGAAATTGATT
1 GACATTTTGGGAAATTGATT
5108189 TTATCACAAT
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:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (20 bp):
GACATTTTGGGAAATTGATT
Found at i:5109838 original size:8 final size:9
Alignment explanation
Indices: 5109818--5109848 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
5109808 TTGGTGTTAA
5109818 TTTTT-ATG
1 TTTTTGATG
5109826 TTTTTGATG
1 TTTTTGATG
5109835 TTTTTGATG
1 TTTTTGATG
5109844 TTTTT
1 TTTTT
5109849 AAGATCATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.10, C:0.00, G:0.16, T:0.74
Consensus pattern (9 bp):
TTTTTGATG
Found at i:5110644 original size:42 final size:42
Alignment explanation
Indices: 5110597--5110749 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
5110587 TGAGTTATCA
* *
5110597 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGATTTCG
1 TGTAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCG
** * * *
5110639 TGTAAGACCACGTCTGGGACATGGCGTCGAAACGAGAATTCG
1 TGTAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCG
* * * * * ** *
5110681 TATAAGACCATATCTAGGATATGGCATCGATGTGAGATCACA
1 TGTAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCG
*
5110723 TGTAAGACCATGTCTGGGACATGGCGT
1 TGTAAGACCATATCTGGGACATGGCGT
5110750 TGGCATCTTA
Statistics
Matches: 86, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCG
Found at i:5118938 original size:13 final size:13
Alignment explanation
Indices: 5118920--5118945 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5118910 ATTATGACTT
5118920 AATTAATTAAAAA
1 AATTAATTAAAAA
5118933 AATTAATTAAAAA
1 AATTAATTAAAAA
5118946 TGAAAATTAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAATTAAAAA
Found at i:5122057 original size:130 final size:130
Alignment explanation
Indices: 5121821--5122057 Score: 343
Period size: 130 Copynumber: 1.8 Consensus size: 130
5121811 GACGAGATTT
5121821 GATATTTGGCAATTCGCGGAATCGTGCCCCAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCCAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAA
* * * * *
5121886 TAGTCGAATATCACTTCAAAATTTCACTTATGTCTTTTAAAACCCCTTAAACGAAGGCAATGTGC
66 TAATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAACCCCTTAAACGAAGGCAATGTGC
* * * * *
5121951 GATATTTTGCAATTCGTGGAATCGTGCCCTAATGTGTTGGGTTGCAATTTC-TCGTTTGCTTAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCCAACGTGTTGGGTTGCAATTTCGT-GTTTGCTCAAA
*
5122015 ATAATCAAATATCCCTTCAAAATTTCACTCAGGT-TTCCTAAAA
65 ATAATCAAATATCACTTCAAAATTTCACTCAGGTCTT-CTAAAA
5122058 ATCTTTCAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
129 3 0.03
130 91 0.97
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (130 bp):
GATATTTGGCAATTCGCGGAATCGTGCCCCAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAA
TAATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAACCCCTTAAACGAAGGCAATGTGC
Found at i:5134037 original size:132 final size:132
Alignment explanation
Indices: 5133768--5134810 Score: 816
Period size: 132 Copynumber: 7.9 Consensus size: 132
5133758 GAATCCTGCG
* * * * * *
5133768 GATTTGGCATCTCTGTGTTGACAGAGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTGT
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
* * * * *
5133833 TAGAG-GCAGATCGAAGATAGTAGATTTGGTGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAG
66 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAG
5133897 CA
131 CA
* *
5133899 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGG
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
* * * * * *
5133964 CAGAGAGCATATCAAAGATAGCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAAGATAA
66 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAG
5134029 CA
131 CA
* *
5134031 GATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
** *
5134096 TGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCATATCAAAGATAG
66 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAG
5134161 CA
131 CA
* * * * *
5134163 GATTTGGCGTCTCTGTATTGGCGGTGAGCAGATCAAAGATAGCAGATTTAGCATCTCTGTATTGA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
* * * * * * *** *
5134228 CAGAGAGCAGATCGAAGATAAGCA-A---GGAG---CAG-A-TCGAAGATAGCAAAT-TTGGCGT
66 CAGAGAGCAGATCGAAGAT-AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAG-AT
** *
5134283 CTCT
129 AGCA
* ** * * * *
5134287 GTATTAGTGGAG-AGCAG-A-TCGAAGATAGCAGAT--------------TTGGCATCTCTGTAT
1 G-ATT--TGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTAT
* * * ** * *
5134335 TGGCGGAAAGCAAATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGNTTTG-GCATCTCTGTAT
63 TGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG--CAGAG-A--GCAG-A-
* *
5134399 TGGCGGAGAGTAGATCGAA
121 T--C--A-A--AGATAGCA
* * * * * *
5134418 GATAGTAG-ATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTC
1 GAT-TTGGCGTCT-------CTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTC
* * * *
5134482 TGTATTGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATC
58 TGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATC
* *
5134547 GAAGATAACA
123 AAAGATAGCA
* ** *
5134557 AATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGG
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
* * * * * *
5134622 CGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGATAG
66 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAG
5134687 CA
131 CA
** * * * *
5134689 GATTTGGTATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTGTTGA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
* * *
5134754 CAGAGAGCAGATCGAAGAT-GACAGATTTGGCATCTCTATATTGGCAGAGAACAGATC
66 CAGAGAGCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATC
5134811 GAAAATAATA
Statistics
Matches: 725, Mismatches: 129, Indels: 115
0.75 0.13 0.12
Matches are distributed among these distances:
109 4 0.01
110 33 0.05
113 3 0.00
116 2 0.00
117 1 0.00
118 2 0.00
120 2 0.00
122 1 0.00
123 2 0.00
124 25 0.03
125 5 0.01
126 4 0.01
127 4 0.01
129 5 0.01
130 2 0.00
131 65 0.09
132 468 0.65
133 4 0.01
136 2 0.00
137 1 0.00
138 14 0.02
139 9 0.01
141 1 0.00
144 1 0.00
146 1 0.00
147 1 0.00
148 2 0.00
150 2 0.00
151 1 0.00
152 58 0.08
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (132 bp):
GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGG
CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAG
CA
Found at i:5134260 original size:22 final size:21
Alignment explanation
Indices: 5134232--5134273 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
5134222 TATTGACAGA
5134232 GAGCAGATCGAAGATAAGCAAG
1 GAGCAGATCGAAGAT-AGCAAG
5134254 GAGCAGATCGAAGATAGCAA
1 GAGCAGATCGAAGATAGCAA
5134274 ATTTGGCGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.45, C:0.14, G:0.31, T:0.10
Consensus pattern (21 bp):
GAGCAGATCGAAGATAGCAAG
Found at i:5134268 original size:66 final size:66
Alignment explanation
Indices: 5134188--5134313 Score: 182
Period size: 66 Copynumber: 1.9 Consensus size: 66
5134178 TATTGGCGGT
*
5134188 GAGCAGATCAAAGATAGCAGATTTAGCATCTCTGTATT-GACAGAGAGCAGATCGAAGATAAGCA
1 GAGCAGATCAAAGATAGCAAATTTAGCATCTCTGTATTAG-CAGAGAGCAGATCGAAGATAAGCA
5134252 AG
65 AG
* * * **
5134254 GAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTAGTGGAGAGCAGATCGAAGATA
1 GAGCAGATCAAAGATAGCAAATTTAGCATCTCTGTATTAGCAGAGAGCAGATCGAAGATA
5134314 GCAGATTTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 52 0.98
67 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (66 bp):
GAGCAGATCAAAGATAGCAAATTTAGCATCTCTGTATTAGCAGAGAGCAGATCGAAGATAAGCAA
G
Found at i:5134352 original size:110 final size:110
Alignment explanation
Indices: 5134144--5134357 Score: 320
Period size: 110 Copynumber: 1.9 Consensus size: 110
5134134 TATTGGCAGA
* * * *
5134144 GAGCATATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGTGAGCAGATCAAAGATAGCAGA
1 GAGCAGATCAAAGATAGCAAATTTGGCGTCTCTGTATTAGCGGAGAGCAGATCAAAGATAGCAGA
* *
5134209 TTTAGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAAGCAAG
66 TTTAGCATCTCTGTATTGACAGAAAGCAAATCGAAGATAAGCAAG
* * *
5134254 GAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTAGTGGAGAGCAGATCGAAGATAGCAGA
1 GAGCAGATCAAAGATAGCAAATTTGGCGTCTCTGTATTAGCGGAGAGCAGATCAAAGATAGCAGA
* * *
5134319 TTTGGCATCTCTGTATTGGCGGAAAGCAAATCGAAGATA
66 TTTAGCATCTCTGTATTGACAGAAAGCAAATCGAAGATA
5134358 GCAGATTTGG
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
110 92 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (110 bp):
GAGCAGATCAAAGATAGCAAATTTGGCGTCTCTGTATTAGCGGAGAGCAGATCAAAGATAGCAGA
TTTAGCATCTCTGTATTGACAGAAAGCAAATCGAAGATAAGCAAG
Found at i:5134388 original size:20 final size:19
Alignment explanation
Indices: 5134363--5134401 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
5134353 AGATAGCAGA
*
5134363 TTTGGCGTCTCTGTATTGG
1 TTTGGCATCTCTGTATTGG
5134382 NTTTGGCATCTCTGTATTGG
1 -TTTGGCATCTCTGTATTGG
5134402 CGGAGAGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.15, G:0.28, T:0.46
Consensus pattern (19 bp):
TTTGGCATCTCTGTATTGG
Found at i:5134420 original size:64 final size:63
Alignment explanation
Indices: 5134319--5134446 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 63
5134309 AGATAGCAGA
5134319 TTTGGCATCTCTGTATTGGCGGAAAGCAAATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
1 TTTGGCATCTCTGTATTGGCGGAAAGCAAATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
* * * *
5134382 NTTTGGCATCTCTGTATTGGCGGAGAGTAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGG
1 -TTTGGCATCTCTGTATTGGCGGAAAGCAAATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
5134446 T
1 T
5134447 AGAGAGCAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 1 0.02
64 59 0.98
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (63 bp):
TTTGGCATCTCTGTATTGGCGGAAAGCAAATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
Done.