Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 106 of 345
Found at i:35067510 original size:13 final size:13
Alignment explanation
Indices: 35067492--35067537 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
35067482 GCTAAGTACC
35067492 ACATGGCCATGAT
1 ACATGGCCATGAT
*
35067505 ACATGGCCGTG-T
1 ACATGGCCATGAT
35067517 -CTATTGGCCATGAT
1 AC-A-TGGCCATGAT
35067531 ACATGGC
1 ACATGGC
35067538 AAAACTCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 1 0.04
12 2 0.07
13 21 0.78
14 2 0.07
15 1 0.04
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (13 bp):
ACATGGCCATGAT
Found at i:35070922 original size:23 final size:24
Alignment explanation
Indices: 35070896--35070951 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
35070886 AGCCTGGATA
* *
35070896 AGCTTCCCGATA-GGCTCTTTATG
1 AGCTTCCCGAAATGGCTCTATATG
*
35070919 AGCTTCCCGAAATGGCTCTATGTG
1 AGCTTCCCGAAATGGCTCTATATG
35070943 AGCTTCCCG
1 AGCTTCCCG
35070952 TTACAAGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCTTCCCGAAATGGCTCTATATG
Found at i:35081497 original size:13 final size:13
Alignment explanation
Indices: 35081479--35081503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35081469 TGTAGGTGCA
35081479 CACAGTCGTGTCG
1 CACAGTCGTGTCG
35081492 CACAGTCGTGTC
1 CACAGTCGTGTC
35081504 TGGCGTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.28, T:0.24
Consensus pattern (13 bp):
CACAGTCGTGTCG
Found at i:35084154 original size:27 final size:26
Alignment explanation
Indices: 35084140--35084206 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
35084130 TTAAGTCCGT
35084140 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTCAGTGCTATAT-ATCAACTCGC
*
35084167 ACACTTAGTGCTATATAATCAAACTCGC
1 ACACTCAGTGCTATAT-ATC-AACTCGC
*
35084195 ACACTTAGTGCT
1 ACACTCAGTGCT
35084207 GTACAATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 19 0.50
28 19 0.50
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (26 bp):
ACACTCAGTGCTATATATCAACTCGC
Found at i:35084200 original size:28 final size:28
Alignment explanation
Indices: 35084140--35084234 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
35084130 TTAAGTCCGT
*
35084140 ACACTCAGTGCTATATAATC-AACTCGC
1 ACACTTAGTGCTATATAATCAAACTCGC
35084167 ACACTTAGTGCTATATAATCAAACTCGC
1 ACACTTAGTGCTATATAATCAAACTCGC
* * * *
35084195 ACACTTAGTGCTGTACAATTTAAACCCGC
1 ACACTTAGTGCTATATAA-TCAAACTCGC
35084224 ACACTTAGTGC
1 ACACTTAGTGC
35084235 CAATCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 19 0.31
28 23 0.38
29 19 0.31
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
ACACTTAGTGCTATATAATCAAACTCGC
Found at i:35091967 original size:80 final size:80
Alignment explanation
Indices: 35091800--35092026 Score: 273
Period size: 79 Copynumber: 2.9 Consensus size: 80
35091790 TACTCGGATG
* * * * * *
35091800 ATAATCGGGCTAATTCCCGAAGGAATTTGTGCTAGTGACTA-ATTCCGGACTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
* * *
35091863 ATTTGTGTGGGTTACT
65 ACTTGTGCGAGTTACT
* *
35091879 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
35091944 CTTGTGCGAGTTACT
66 CTTGTGCGAGTTACT
* * * *
35091959 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCCGGGCTAAGTCCCGAAGGC
35092022 ACTTG
65 ACTTG
35092027 GTTTGGGAAT
Statistics
Matches: 129, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 66 0.51
80 63 0.49
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
CTTGTGCGAGTTACT
Found at i:35092001 original size:40 final size:40
Alignment explanation
Indices: 35091800--35091987 Score: 263
Period size: 40 Copynumber: 4.7 Consensus size: 40
35091790 TACTCGGATG
* * * * *
35091800 ATAATCGGGCTAATTCCCGAAGGAATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
35091840 A-ATTCCGGACTAAG-CCCGAAGGCATTTGTGTGGGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
35091879 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
35091919 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
35091959 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
35091988 AGCAAGTAGC
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 31 0.24
40 99 0.76
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:35106866 original size:16 final size:16
Alignment explanation
Indices: 35106847--35106877 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35106837 CTTCTTCACT
35106847 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
35106863 TACTTACTTACTTAA
1 TACTCACTTACTTAA
35106878 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:35106883 original size:20 final size:20
Alignment explanation
Indices: 35106844--35106883 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
35106834 AAACTTCTTC
* *
35106844 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
35106864 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
35106884 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:35107198 original size:53 final size:54
Alignment explanation
Indices: 35107069--35107269 Score: 193
Period size: 53 Copynumber: 3.8 Consensus size: 54
35107059 ACACGGGTAC
* * * * * *
35107069 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGTAA
* *
35107118 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTAT-G-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGTAA
* * *
35107171 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAGTAA
* *
35107226 CTTATCAATGCCAT-CTATTGACATGGTCTTACATGGTATCCTTG
1 CTTACCAATGCCATGC-CTTGACATGGTCTTACATGGTA-CCTTG
35107270 AACCCTAATG
Statistics
Matches: 128, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
49 35 0.27
52 2 0.02
53 45 0.35
54 7 0.05
55 37 0.29
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGTAA
Found at i:35114395 original size:16 final size:16
Alignment explanation
Indices: 35114376--35114406 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35114366 CTTCTTCACT
35114376 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
35114392 TACTTACTTACTTAA
1 TACTCACTTACTTAA
35114407 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:35114412 original size:20 final size:20
Alignment explanation
Indices: 35114373--35114412 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
35114363 AAACTTCTTC
* *
35114373 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
35114393 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
35114413 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:35114726 original size:53 final size:54
Alignment explanation
Indices: 35114597--35114802 Score: 228
Period size: 53 Copynumber: 3.9 Consensus size: 54
35114587 ACACGGGTAC
* * * * * *
35114597 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTACCTTGCCTTATAGTAA
*
35114646 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTAT-G-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGTAA
* * * *
35114699 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTACC-TTGCCTTATAGTAA
*
35114754 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTA-CCTTGCCTTA
35114803 GAAACCCTTA
Statistics
Matches: 134, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
49 35 0.26
52 2 0.01
53 45 0.34
54 6 0.04
55 44 0.33
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTACCTTGCCTTATAGTAA
Found at i:35118477 original size:22 final size:22
Alignment explanation
Indices: 35118449--35118493 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
35118439 ATCCTATTAT
35118449 ACGTGTGAGCCTTGTAACTTAG
1 ACGTGTGAGCCTTGTAACTTAG
35118471 ACGTGTGAGCCTTGTAACTTAG
1 ACGTGTGAGCCTTGTAACTTAG
35118493 A
1 A
35118494 AAATTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (22 bp):
ACGTGTGAGCCTTGTAACTTAG
Found at i:35122325 original size:32 final size:32
Alignment explanation
Indices: 35122283--35122349 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
35122273 TACTCAATTG
35122283 AATTTCCGTACATACCTGTACCATCTCGTACC
1 AATTTCCGTACATACCTGTACCATCTCGTACC
* * *
35122315 AATTTTCGTACATACTTGTACCATCTTGTACC
1 AATTTCCGTACATACCTGTACCATCTCGTACC
35122347 AAT
1 AAT
35122350 CTCATATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (32 bp):
AATTTCCGTACATACCTGTACCATCTCGTACC
Found at i:35122491 original size:42 final size:42
Alignment explanation
Indices: 35122425--35122576 Score: 196
Period size: 42 Copynumber: 3.6 Consensus size: 42
35122415 ATCTTGCAGG
* * * * * *
35122425 CTAAGTGCCAATACGTAGCTGAAGCTAACTCAATCACGCACA
1 CTAAGTGCCAATGCATAGCCGAAGCTATCTCGATCTCGCACA
* * *
35122467 CTAAGTGCCAATGCATAGTCGAAGCTATCTTGATCTCACACA
1 CTAAGTGCCAATGCATAGCCGAAGCTATCTCGATCTCGCACA
* * *
35122509 CTAAGTGCTAATGCATAGCCGAAGCTATCCCGATCTCGCATA
1 CTAAGTGCCAATGCATAGCCGAAGCTATCTCGATCTCGCACA
35122551 CTAAGTGCCAATGCATAGCCGAAGCT
1 CTAAGTGCCAATGCATAGCCGAAGCT
35122577 CTCTTAAATA
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 94 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (42 bp):
CTAAGTGCCAATGCATAGCCGAAGCTATCTCGATCTCGCACA
Found at i:35130371 original size:42 final size:42
Alignment explanation
Indices: 35130286--35130374 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
35130276 TCGTTTACTT
* * *
35130286 GATGCCATAGTCCAACTATGGTCTTACACGAAGTCTCACATC
1 GATGCCATAGTCCAACTATGGTCTTACACAAAATCACACATC
* *
35130328 GATGCCAT-GTCCCAGAC-ATGGTCTTATACAAAATCACATATC
1 GATGCCATAGT-CCA-ACTATGGTCTTACACAAAATCACACATC
35130370 GATGC
1 GATGC
35130375 AGATGCCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.05
42 36 0.90
43 2 0.05
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (42 bp):
GATGCCATAGTCCAACTATGGTCTTACACAAAATCACACATC
Found at i:35130399 original size:48 final size:48
Alignment explanation
Indices: 35130328--35130451 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 48
35130318 GTCTCACATC
* * * *
35130328 GATGCCATGTCCCAGACATGGTCTTATACAAAATCACATATCGATGCA
1 GATGCCATATCCCAGATATGGTCTTACACAAAATCACATATCGATCCA
* *** * *
35130376 GATGCCATATCCTAGATATGGTCTTACACGGGATCTCATATCGATCCC
1 GATGCCATATCCCAGATATGGTCTTACACAAAATCACATATCGATCCA
* *
35130424 GATGCCATATCCCAAATATGGTCCTACA
1 GATGCCATATCCCAGATATGGTCTTACA
35130452 TGTATCACAA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATATCCCAGATATGGTCTTACACAAAATCACATATCGATCCA
Found at i:35130505 original size:37 final size:36
Alignment explanation
Indices: 35130425--35130680 Score: 332
Period size: 37 Copynumber: 7.0 Consensus size: 36
35130415 ATCGATCCCG
* ** *
35130425 ATGCCATATCCCAAATATGGTCCTACATGTATCACA
1 ATGCCATAGCCCAGCTATGGTCTTACATGTATCACA
* *
35130461 ATGCCATAGCCTAGCTATGGTCTTACATGTCATCACG
1 ATGCCATAGCCCAGCTATGGTCTTACATGT-ATCACA
* *
35130498 ATGCCATAGCCCAGCTATGGTCTTACACGTATTACA
1 ATGCCATAGCCCAGCTATGGTCTTACATGTATCACA
*
35130534 ATGCCATAGCCCAGCTATGGTCTTACATGTCATCACG
1 ATGCCATAGCCCAGCTATGGTCTTACATGT-ATCACA
* **
35130571 ATGCCATAACCCAGCTATGGTCTTACACATATCACA
1 ATGCCATAGCCCAGCTATGGTCTTACATGTATCACA
*
35130607 ATGCCATAGACCAGCTATGGTCTTACATGTCATCACA
1 ATGCCATAGCCCAGCTATGGTCTTACATGT-ATCACA
* * *
35130644 ATGCCATAGCCGAGCTATGATCTTACACGTACTCACA
1 ATGCCATAGCCCAGCTATGGTCTTACATGTA-TCACA
35130681 TGTATTGCCA
Statistics
Matches: 191, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
36 90 0.47
37 101 0.53
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (36 bp):
ATGCCATAGCCCAGCTATGGTCTTACATGTATCACA
Found at i:35130542 original size:73 final size:72
Alignment explanation
Indices: 35130423--35130680 Score: 381
Period size: 73 Copynumber: 3.5 Consensus size: 72
35130413 ATATCGATCC
* ** * *
35130423 CGATGCCATATCCCAAATATGGTCCTACATGTATCACAATGCCATAGCCTAGCTATGGTCTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAGCC-AGCTATGGTCTTACA
35130488 TGTCATCA
65 TGTCATCA
*
35130496 CGATGCCATAGCCCAGCTATGGTCTTACACGTATTACAATGCCATAGCCCAGCTATGGTCTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAG-CCAGCTATGGTCTTACA
35130561 TGTCATCA
65 TGTCATCA
* *
35130569 CGATGCCATAACCCAGCTATGGTCTTACACATATCACAATGCCATAGACCAGCTATGGTCTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAG-CCAGCTATGGTCTTACA
35130634 TGTCATCA
65 TGTCATCA
* * *
35130642 CAATGCCATAGCCGAGCTATGATCTTACACGTACTCACA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTA-TCACA
35130681 TGTATTGCCA
Statistics
Matches: 168, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
73 161 0.96
74 7 0.04
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (72 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAGCCAGCTATGGTCTTACAT
GTCATCA
Found at i:35135006 original size:28 final size:27
Alignment explanation
Indices: 35134973--35135025 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
35134963 TTAGAATACT
*
35134973 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
35135001 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
35135026 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:35135012 original size:27 final size:27
Alignment explanation
Indices: 35134982--35135080 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
35134972 TTTAGTTTAC
35134982 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
35135009 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * * *
35135036 TAAAATTACTGAAGTACCTTTGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
35135063 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
35135081 CCCGATTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.08
27 54 0.92
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:35135096 original size:27 final size:27
Alignment explanation
Indices: 35135066--35135127 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
35135056 TGACTTGTAA
35135066 AATTACCAAAGTACCCCCGATTTAAAG
1 AATTACCAAAGTACCCCCGATTTAAAG
*** * *
35135093 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTAAAG
35135120 AATTACCA
1 AATTACCA
35135128 TTTTACCCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTAAAG
Found at i:35135128 original size:27 final size:27
Alignment explanation
Indices: 35135077--35135270 Score: 138
Period size: 27 Copynumber: 6.8 Consensus size: 27
35135067 ATTACCAAAG
* *
35135077 TACCCCCGATTTAAAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
35135104 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
35135131 TACCC-CCATTTTACCTCGACTTACAGAATTACCGTTT
1 TACCCTCGA--TT---T--AC--AGA--ATTACCATTT
*
35135168 TACCCTCGATTTACAGAAGTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * **
35135195 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
35135222 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
35135249 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
35135271 TAGAATACCC
Statistics
Matches: 138, Mismatches: 17, Indels: 24
0.77 0.09 0.13
Matches are distributed among these distances:
26 2 0.01
27 106 0.77
28 2 0.01
29 2 0.01
31 3 0.02
33 3 0.02
35 2 0.01
36 2 0.01
37 14 0.10
38 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:35135135 original size:54 final size:55
Alignment explanation
Indices: 35135077--35135270 Score: 162
Period size: 54 Copynumber: 3.4 Consensus size: 55
35135067 ATTACCAAAG
* * *
35135077 TACCCCCGATTTA-AAGAATTACCATTTTACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
*
35135131 TACCCCC-ATTTTACCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAAGTACCATTT
1 TACCCCCGA--TT---T--AC--A-AGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
** * * * **
35135195 TACCCTTGATTTA-TAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
*
35135249 TACCCTCGATTTACAA-AATTAC
1 TACCCCCGATTTACAAGAATTAC
35135271 TAGAATACCC
Statistics
Matches: 113, Mismatches: 14, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
53 1 0.01
54 60 0.53
55 3 0.03
58 2 0.02
60 2 0.02
63 3 0.03
64 41 0.36
65 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (55 bp):
TACCCCCGATTTACAAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
Found at i:35135161 original size:37 final size:38
Alignment explanation
Indices: 35135098--35135172 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
35135088 TAAAGAATTA
* *
35135098 CCATTTTACCCCCGATTTACATAATTACCATTTTACCC
1 CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
* *
35135136 CCATTTTA-CCTCGACTTACAGAATTACCGTTTTACCC
1 CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
35135173 TCGATTTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 25 0.76
38 8 0.24
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.36
Consensus pattern (38 bp):
CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
Found at i:35135271 original size:27 final size:27
Alignment explanation
Indices: 35135139--35135271 Score: 178
Period size: 27 Copynumber: 5.0 Consensus size: 27
35135129 TTTACCCCCA
* *
35135139 TTTTA-CCTCGACTTACAGAATTACCG
1 TTTTACCCTCGATTTACAGAATTACTG
* **
35135165 TTTTACCCTCGATTTACAGAAGTACCA
1 TTTTACCCTCGATTTACAGAATTACTG
* *
35135192 TTTTACCCTTGATTTATAGAATTACTG
1 TTTTACCCTCGATTTACAGAATTACTG
*
35135219 TTTTACCCTTGATTTACAGAATTACTG
1 TTTTACCCTCGATTTACAGAATTACTG
*
35135246 TTTTACCCTCGATTTACAAAATTACT
1 TTTTACCCTCGATTTACAGAATTACT
35135272 AGAATACCCT
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 5 0.05
27 90 0.95
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACTG
Found at i:35135360 original size:54 final size:53
Alignment explanation
Indices: 35135263--35135441 Score: 225
Period size: 54 Copynumber: 3.3 Consensus size: 53
35135253 CTCGATTTAC
* * * * *
35135263 AAAATTACTAGAATACCCTAGTCTGTAAAATTGCTAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
* *
35135316 AAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCA-AAATACCCT-AGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
* * * *
35135370 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
35135424 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
35135442 CTGATTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
52 1 0.01
53 16 0.15
54 88 0.81
55 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
Found at i:35135395 original size:81 final size:81
Alignment explanation
Indices: 35135249--35135443 Score: 261
Period size: 81 Copynumber: 2.4 Consensus size: 81
35135239 ATTACTGTTT
* ** * * * *
35135249 TACCCTCGATTTACAAAATTACTAGAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTAGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTAGTT
35135313 TGTAAAATTA-CAGAAA
66 TGTAAAATTACCA-AAA
* *
35135329 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTAGT
*
35135393 TTGTGAAATTACCAAAA
65 TTGTAAAATTACCAAAA
35135410 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
35135444 GATTTACAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
80 24 0.24
81 75 0.74
82 3 0.03
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTAGTT
TGTAAAATTACCAAAA
Found at i:35135448 original size:27 final size:26
Alignment explanation
Indices: 35135263--35135441 Score: 198
Period size: 27 Copynumber: 6.7 Consensus size: 26
35135253 CTCGATTTAC
* * * *
35135263 AAAATTACTAGAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTAATTTGT
* * *
35135289 AAAATTGCTAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCC-TAATTTGT
35135316 AAAATTA-CAGAAATACCCTCAATTTGT
1 AAAATTACCA-AAATACCCT-AATTTGT
*
35135343 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAATTTGT
**
35135370 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTAATTTGT
*
35135397 GAAATTACCAAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AATTTGT
35135424 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
35135442 CTGATTTACA
Statistics
Matches: 134, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
26 22 0.16
27 106 0.79
28 6 0.04
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAATTTGT
Found at i:35135458 original size:27 final size:26
Alignment explanation
Indices: 35135263--35135468 Score: 115
Period size: 27 Copynumber: 7.7 Consensus size: 26
35135253 CTCGATTTAC
* *
35135263 AAAATTACTAGAATA-CCCTAG-TCTGT
1 AAAATTACCAAAATACCCCTAGAT-T-T
* * * *
35135289 AAAATTGCTAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCCTAGATT-T
35135316 AAAATTA-CAGAAATA-CCCTCA-ATTTGT
1 AAAATTACCA-AAATACCCCT-AGA-TT-T
*
35135343 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGATT-T
* * *
35135370 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTAGATT-T
*
35135397 GAAATTACCAAAATA-CCCTCA-ATTTGT
1 AAAATTACCAAAATACCCCT-AGA-TT-T
35135424 AAAATTACCAAAATACCCCT-GATTT
1 AAAATTACCAAAATACCCCTAGATTT
35135449 ACAAAGTTA-CAGAAATACCC
1 A-AAA-TTACCA-AAATACCC
35135469 TTGACTTTCT
Statistics
Matches: 150, Mismatches: 15, Indels: 29
0.77 0.08 0.15
Matches are distributed among these distances:
25 2 0.01
26 27 0.18
27 110 0.73
28 11 0.07
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCTAGATTT
Found at i:35135465 original size:54 final size:53
Alignment explanation
Indices: 35135298--35135469 Score: 174
Period size: 54 Copynumber: 3.2 Consensus size: 53
35135288 TAAAATTGCT
* *
35135298 AAAATACCCTTAGTTTGTAAAATTA-CAGAAATA-CCCTCAATTTGTA-AAATTACC
1 AAAATACCCTCAGTTTGTAAAATTACCA-AAATACCCCT-GA-TT-TACAAATTACC
* * **
35135352 AAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACC
1 AAAATACCCTC-AGTTTGTAAAATTACCAAAATACCCCTGATTT-ACAAATTACC
*
35135406 AAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-C
1 AAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCTGATTTACAAA-TTACC
35135459 AGAAATACCCT
1 A-AAATACCCT
35135470 TGACTTTCTA
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
52 1 0.01
53 7 0.07
54 86 0.86
55 6 0.06
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (53 bp):
AAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCTGATTTACAAATTACC
Found at i:35135519 original size:27 final size:27
Alignment explanation
Indices: 35135480--35135531 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
35135470 TGACTTTCTA
35135480 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
35135507 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
35135532 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:35135649 original size:27 final size:27
Alignment explanation
Indices: 35135572--35135649 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
35135562 AAATGACTAA
* *
35135572 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
35135599 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
35135626 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
35135650 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:35136917 original size:20 final size:20
Alignment explanation
Indices: 35136892--35136962 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
35136882 ATTTTGATAA
*
35136892 ACATGATATGTGTGATATGC
1 ACATGATATGTATGATATGC
*
35136912 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
35136932 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
35136952 ACATGAGATGT
1 ACATGATATGT
35136963 TCATAAATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:35136939 original size:11 final size:11
Alignment explanation
Indices: 35136904--35136957 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
35136894 ATGATATGTG
35136904 TGATATGCACA
1 TGATATGCACA
* *
35136915 TGACATG--TA
1 TGATATGCACA
35136924 TGATATGCACA
1 TGATATGCACA
*
35136935 TGATATG--TA
1 TGATATGCACA
35136944 TGATATGCACA
1 TGATATGCACA
35136955 TGA
1 TGA
35136958 GATGTTCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
TGATATGCACA
Found at i:35137088 original size:25 final size:24
Alignment explanation
Indices: 35137009--35137202 Score: 225
Period size: 25 Copynumber: 8.0 Consensus size: 24
35136999 AGGAAGTACA
*
35137009 AAAGGGCTTATGCCCTAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
* *
35137032 AAAGGGCTTATGCCCTAATTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
35137055 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
35137080 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
35137105 GAAGGGCTTATGCCCCAGTAATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
35137130 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
* *
35137154 AAAGGGCTTTTGCCCAAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
35137178 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
35137203 GATAAAGCAG
Statistics
Matches: 152, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
23 42 0.28
24 30 0.20
25 80 0.53
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:35140655 original size:32 final size:32
Alignment explanation
Indices: 35140614--35140680 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
35140604 AATACTCAAT
35140614 AATTTCCGTACATACCTGTACCATATCGTACC
1 AATTTCCGTACATACCTGTACCATATCGTACC
*
35140646 AATTTCCGTACATACCTGTACCATATTGTACC
1 AATTTCCGTACATACCTGTACCATATCGTACC
35140678 AAT
1 AAT
35140681 CTCATATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (32 bp):
AATTTCCGTACATACCTGTACCATATCGTACC
Found at i:35140817 original size:42 final size:42
Alignment explanation
Indices: 35140745--35140914 Score: 198
Period size: 42 Copynumber: 4.0 Consensus size: 42
35140735 GTTACTCGGG
* * * * * *
35140745 AATCTCGTAGACTAAGTGCCAATACGTAGCCGAAGATAACTC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
*
35140787 AATCAT-GCACACTAAGTGCCAATGCATAGCCGAAGCTATCTT
1 AATC-TCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
* * * * *
35140829 GATCTCGCACGCTAAGTGCTAATGCATAGTCGAAGCTATCCC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
* *
35140871 AATCTCGCACACTAAATGCCAATGCATAGCAGAAGCTATCTC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
35140913 AA
1 AA
35140915 ATATTTTCAT
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.01
42 104 0.98
43 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (42 bp):
AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
Found at i:35145809 original size:35 final size:35
Alignment explanation
Indices: 35145744--35145923 Score: 166
Period size: 35 Copynumber: 5.1 Consensus size: 35
35145734 TACTTACTTG
* *
35145744 TATGGCCGAATACT-CAAGGTTCATTATATCATCACA
1 TATGGCCAAATA-TACAA-GTTCAATATATCATCACA
* *
35145780 TATGGCCAAATATACAAGTACAATATATCATCATA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * *
35145815 TATGACCTAATATACAAGCTCAATAAAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
*** * * *
35145850 TGCAGTCAAATATTCAAGTTTAATATAAT-ATCACA
1 TATGGCCAAATATACAAGTTCAATAT-ATCATCACA
* *
35145885 TGTGGCCAAATATACAAGTTCAATATGTCATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
35145920 TATG
1 TATG
35145924 TACATACCTA
Statistics
Matches: 112, Mismatches: 29, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
34 1 0.01
35 96 0.86
36 15 0.13
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:35147144 original size:27 final size:27
Alignment explanation
Indices: 35147113--35147711 Score: 724
Period size: 27 Copynumber: 22.2 Consensus size: 27
35147103 AAAGTACTCC
35147113 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
35147140 TGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
35147167 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
35147194 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
35147221 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
35147248 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
35147275 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
35147302 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
35147329 CGATTTATAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
35147356 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
35147383 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
35147410 CAATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
35147437 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
35147464 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
35147491 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
35147518 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
35147545 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
35147572 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
35147599 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
35147626 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
35147653 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
35147680 CGATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
35147707 TGATT
1 CGATT
35147712 GTGAAATTAC
Statistics
Matches: 502, Mismatches: 58, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
26 6 0.01
27 490 0.98
28 6 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:35147746 original size:27 final size:27
Alignment explanation
Indices: 35147716--35147910 Score: 221
Period size: 27 Copynumber: 7.2 Consensus size: 27
35147706 TTGATTGTGA
35147716 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
35147743 AATTTTTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
35147770 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
35147797 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
35147824 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
35147851 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * ** * *
35147878 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
35147905 AATTAC
1 AATTAC
35147911 CATTTTGCCC
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:35147779 original size:54 final size:54
Alignment explanation
Indices: 35147716--35147911 Score: 250
Period size: 54 Copynumber: 3.6 Consensus size: 54
35147706 TTGATTGTGA
* *** *
35147716 AATTACTGAAATACCCCTGTAGGGTAGAATTTTTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
35147770 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
35147824 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * * *
35147878 AATTACCGAGATACCTTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
35147912 ATTTTGCCCC
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.99
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:35147892 original size:81 final size:81
Alignment explanation
Indices: 35147716--35147892 Score: 246
Period size: 81 Copynumber: 2.2 Consensus size: 81
35147706 TTGATTGTGA
* * * * *
35147716 AATTACTGAAATACCCCTGTAGGGTAGAATTTTTGAAATACCCCTATAGGGTAGAATTACTGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAA
*
35147781 TACCCTTATAGGATAG
66 TACCCCTATAGGATAG
* * *
35147797 AATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAA
* *
35147862 TACCCCTGTAGGGTAG
66 TACCCCTATAGGATAG
*
35147878 AATTACCGAGATACC
1 AATTACCGAAATACC
35147893 TTTGTGGGGT
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAA
TACCCCTATAGGATAG
Found at i:35148155 original size:27 final size:26
Alignment explanation
Indices: 35148114--35148187 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
35148104 GGAAGCGTTC
35148114 TGGTGGCTATGCCACAAATATCTGTTT
1 TGGTGGCTATGCCAC-AATATCTGTTT
* * *
35148141 TGGTGGCTCTTCCACAATATCTGTATC
1 TGGTGGCTATGCCACAATATCTGT-TT
* * *
35148168 TGGTGACTCTGTCACAATAT
1 TGGTGGCTATGCCACAATAT
35148188 TTTTTGACCG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 9 0.22
27 31 0.77
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
TGGTGGCTATGCCACAATATCTGTTT
Found at i:35148503 original size:27 final size:27
Alignment explanation
Indices: 35148473--35148553 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
35148463 TATTCTGTTA
* *
35148473 GGTGGCTTTGCCACATTATCTG-ATTCT
1 GGTGGCTCTGCCACAATATCTGTA-TCT
35148500 GGTGGCTCTGCCACAATATCTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* * **
35148527 GGTGACTCTGTCATGATATCTGT-TCT
1 GGTGGCTCTGCCACAATATCTGTATCT
35148553 G
1 G
35148554 ACAGCCATGC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.09
27 42 0.89
28 1 0.02
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:35148706 original size:6 final size:6
Alignment explanation
Indices: 35148697--35148858 Score: 140
Period size: 6 Copynumber: 26.8 Consensus size: 6
35148687 CTGTCACCTA
* *
35148697 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* *
35148745 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * *
35148794 ATTTTA ATTCTG -TTACT- AGTAT-TG ATTTTG ATTCTG ATTCT- ATTACTG
1 ATTCTG ATTCTG ATT-CTG A-T-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
35148842 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
35148859 CATTTTGGTT
Statistics
Matches: 128, Mismatches: 13, Indels: 30
0.75 0.08 0.18
Matches are distributed among these distances:
5 11 0.09
6 105 0.82
7 10 0.08
8 2 0.02
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:35148820 original size:85 final size:85
Alignment explanation
Indices: 35148672--35148858 Score: 311
Period size: 85 Copynumber: 2.2 Consensus size: 85
35148662 TTGCATTCAC
* *
35148672 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
*
35148737 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTATTACTG
* * * *
35148757 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTTTAATTCTGTTACTAGTATTGATTT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
35148822 TGATTCTGATTCTATTACTG
66 TGATTCTGATTCTATTACTG
35148842 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
35148859 CATTTTGGTT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 95 1.00
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
TGATTCTGATTCTATTACTG
Found at i:35156767 original size:35 final size:35
Alignment explanation
Indices: 35156693--35156872 Score: 173
Period size: 35 Copynumber: 5.1 Consensus size: 35
35156683 TACTTACTTG
* *
35156693 TATGGCCATATACT-CAAGTTTCATTATATCATCACA
1 TATGGCCAAATA-TACAAG-TTCAATATATCATCACA
* *
35156729 TATGGCCAAATATACAAGTACAATATATCATCATA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * * *
35156764 TATGACCTAATACACAAGCTCAATAAAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * * * *
35156799 TGTAGTCAAATATTCATGTTTAATATAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
*
35156834 TGTGGCCAAATATACAAGTTCAATATATCATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
35156869 TATG
1 TATG
35156873 TACATACCTA
Statistics
Matches: 113, Mismatches: 30, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
35 98 0.87
36 15 0.13
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:35173777 original size:22 final size:22
Alignment explanation
Indices: 35173752--35173806 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
35173742 TCTATTTTTA
*
35173752 ATGTCGCGACAACAGCCATAAG
1 ATGTCACGACAACAGCCATAAG
*
35173774 ATGTCACGACAACAGCCATAGG
1 ATGTCACGACAACAGCCATAAG
35173796 ATGTCACGACA
1 ATGTCACGACA
35173807 CCAACCTGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.15
Consensus pattern (22 bp):
ATGTCACGACAACAGCCATAAG
Found at i:35179880 original size:13 final size:13
Alignment explanation
Indices: 35179862--35179886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35179852 TTTATCTATG
35179862 TTTAATTGATAGT
1 TTTAATTGATAGT
35179875 TTTAATTGATAG
1 TTTAATTGATAG
35179887 CCCTATGATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TTTAATTGATAGT
Found at i:35189909 original size:49 final size:49
Alignment explanation
Indices: 35189854--35189966 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 49
35189844 TGTCCCAGAC
*
35189854 AGGTCTTACACTGACT-TTCATATATCGAG-G-CTGATGCCGTATCCCAAAT
1 AGGTCTTACACTGACTCTT-ATATATCG-GTGTC-GATGCCATATCCCAAAT
* * * *
35189903 AGGTCTTACACTGGCTCTTATCTATCGGTGTCGATGCCATGTCCCAGAT
1 AGGTCTTACACTGACTCTTATATATCGGTGTCGATGCCATATCCCAAAT
35189952 AGGTCTTACACTGAC
1 AGGTCTTACACTGAC
35189967 ACACAACAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
48 1 0.02
49 51 0.93
50 3 0.05
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (49 bp):
AGGTCTTACACTGACTCTTATATATCGGTGTCGATGCCATATCCCAAAT
Found at i:35190043 original size:48 final size:48
Alignment explanation
Indices: 35189984--35190111 Score: 152
Period size: 46 Copynumber: 2.7 Consensus size: 48
35189974 AAGCTAACGT
* *
35189984 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* * ** * *
35190032 CATGTCCCAGACATGTCTTACACAAGC-TCT-CGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* *
35190078 CATGTCCCAGACATGTCTTACACTGGCTAGTATA
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATA
35190112 CATGTTTTAT
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
46 36 0.56
47 3 0.05
48 25 0.39
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
Found at i:35198331 original size:12 final size:12
Alignment explanation
Indices: 35198314--35198338 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35198304 CTTGAATCAA
35198314 TCCGAGTAAAAC
1 TCCGAGTAAAAC
35198326 TCCGAGTAAAAC
1 TCCGAGTAAAAC
35198338 T
1 T
35198339 TTTAGCAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (12 bp):
TCCGAGTAAAAC
Found at i:35198541 original size:20 final size:20
Alignment explanation
Indices: 35198518--35198571 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
35198508 ATACCCTAAA
* *
35198518 TGAAGTATCGATACTTTGGC
1 TGAAGTATCGATACCTTGAC
*
35198538 TGAAATATCGATACCTTGAC
1 TGAAGTATCGATACCTTGAC
*
35198558 TGAAGTATCAATAC
1 TGAAGTATCGATAC
35198572 ATTTCTCAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (20 bp):
TGAAGTATCGATACCTTGAC
Found at i:35198655 original size:30 final size:30
Alignment explanation
Indices: 35198619--35198679 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
35198609 TGCCAAAGTA
*
35198619 TGATTTGTTGTTCCAGAATAAGAGAAAATT
1 TGATTTGTTGTTCCAAAATAAGAGAAAATT
*
35198649 TGATTTGTTGTTCTAAAATAAGAGAAAATT
1 TGATTTGTTGTTCCAAAATAAGAGAAAATT
35198679 T
1 T
35198680 ACTTTAGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (30 bp):
TGATTTGTTGTTCCAAAATAAGAGAAAATT
Found at i:35199167 original size:39 final size:39
Alignment explanation
Indices: 35199124--35199203 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
35199114 CCTCCTCTTC
35199124 AATCCATATCTTTATTGTACGTATATAAGATTCTTAGTA
1 AATCCATATCTTTATTGTACGTATATAAGATTCTTAGTA
35199163 AATCCATATCTTTATTGTACGTATATAAGATTCTTAGTA
1 AATCCATATCTTTATTGTACGTATATAAGATTCTTAGTA
35199202 AA
1 AA
35199204 ATTTAGCATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (39 bp):
AATCCATATCTTTATTGTACGTATATAAGATTCTTAGTA
Found at i:35202191 original size:6 final size:6
Alignment explanation
Indices: 35202180--35202211 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
35202170 ATTTCTGTTA
*
35202180 ATACAT ATACAT ATACAT ATACAT ATATAT AT
1 ATACAT ATACAT ATACAT ATACAT ATACAT AT
35202212 GCTATTCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (6 bp):
ATACAT
Found at i:35204408 original size:10 final size:10
Alignment explanation
Indices: 35204357--35204456 Score: 63
Period size: 9 Copynumber: 10.6 Consensus size: 10
35204347 TATTAAAAAT
35204357 TAAAATATATA
1 TAAAATAT-TA
* *
35204368 TATAA-ATCA
1 TAAAATATTA
* *
35204377 TAAAAAAATA
1 TAAAATATTA
*
35204387 -AAAAT-TTG
1 TAAAATATTA
*
35204395 TAAAATTTTA
1 TAAAATATTA
*
35204405 TAAAA-ATCA
1 TAAAATATTA
35204414 TAAAATATTA
1 TAAAATATTA
35204424 TAAAATA-TA
1 TAAAATATTA
35204433 TAGAAATA-TA
1 TA-AAATATTA
35204443 -AAAA-ATTA
1 TAAAATATTA
35204451 TAAAAT
1 TAAAAT
35204457 TTTACAAAGT
Statistics
Matches: 69, Mismatches: 12, Indels: 17
0.70 0.12 0.17
Matches are distributed among these distances:
7 1 0.01
8 6 0.09
9 30 0.43
10 28 0.41
11 4 0.06
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
TAAAATATTA
Found at i:35204417 original size:19 final size:18
Alignment explanation
Indices: 35204395--35204460 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
35204385 TAAAAATTTG
35204395 TAAAATTTTATAAAAATCA
1 TAAAATTTTATAAAAAT-A
*
35204414 TAAAATATTATAAAATATA
1 TAAAATTTTATAAAA-ATA
*
35204433 TAGAAA-TATA-AAAAATTA
1 TA-AAATTTTATAAAAA-TA
35204451 TAAAATTTTA
1 TAAAATTTTA
35204461 CAAAGTCATT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 4 0.10
18 11 0.28
19 19 0.49
20 5 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TAAAATTTTATAAAAATA
Found at i:35204447 original size:37 final size:39
Alignment explanation
Indices: 35204396--35204487 Score: 100
Period size: 37 Copynumber: 2.4 Consensus size: 39
35204386 AAAAATTTGT
* *
35204396 AAAATTTTATAAAAATCATAAAATATTATAAAAT-ATATAG
1 AAAATTATA-AAAAATCATAAAATATTACAAAATCAT-TAG
* * *
35204436 -AAA-TATAAAAAATTATAAAATTTTACAAAGTCATTAG
1 AAAATTATAAAAAATCATAAAATATTACAAAATCATTAG
35204473 AAAATTATAAAAAAT
1 AAAATTATAAAAAAT
35204488 GTAAAGAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
37 23 0.52
38 8 0.18
39 13 0.30
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (39 bp):
AAAATTATAAAAAATCATAAAATATTACAAAATCATTAG
Found at i:35204480 original size:56 final size:57
Alignment explanation
Indices: 35204344--35204502 Score: 152
Period size: 56 Copynumber: 2.8 Consensus size: 57
35204334 AAGCCCCTAC
* * *
35204344 TTTTATTAAAAAT--TAAAATATATATATAAATCATAAA-AAA-ATAAAAATTTGTAAAA
1 TTTTA-TAAAAATCATAAAATAT-TATAAAAAT-ATAAAGAAATATAAAAAATTATAAAA
*
35204400 TTTTATAAAAATCATAAAATATTAT-AAAATATATAGAAATATAAAAAATTATAAAA
1 TTTTATAAAAATCATAAAATATTATAAAAATATAAAGAAATATAAAAAATTATAAAA
* * *
35204456 TTTTA-CAAAGTCATTAGAAA-ATTATAAAAAATGTAAAGAAATATAAA
1 TTTTATAAAAATCA-TA-AAATATTAT-AAAAATATAAAGAAATATAAA
35204503 TTTCATAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
54 4 0.05
55 20 0.23
56 34 0.39
57 11 0.13
58 18 0.21
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (57 bp):
TTTTATAAAAATCATAAAATATTATAAAAATATAAAGAAATATAAAAAATTATAAAA
Found at i:35204520 original size:10 final size:10
Alignment explanation
Indices: 35204371--35204527 Score: 52
Period size: 10 Copynumber: 16.7 Consensus size: 10
35204361 ATATATATAT
*
35204371 AAATCATAAA
1 AAATTATAAA
35204381 AAA--ATAAA
1 AAATTATAAA
* *
35204389 AATTTGTAAA
1 AAATTATAAA
**
35204399 ATTTTAT-AA
1 AAATTATAAA
*
35204408 AAATCATAAA
1 AAATTATAAA
*
35204418 ATATTATAAA
1 AAATTATAAA
* *
35204428 ATA-TAT-AG
1 AAATTATAAA
35204436 AAA-TATAAA
1 AAATTATAAA
35204445 AAATTAT--A
1 AAATTATAAA
* *
35204453 AAATTTTACA
1 AAATTATAAA
* * *
35204463 AAGTCATTAGA
1 AAATTA-TAAA
35204474 AAATTATAAA
1 AAATTATAAA
*
35204484 AAATGTA-AAG
1 AAAT-TATAAA
35204494 AAA-TAT--A
1 AAATTATAAA
*
35204501 AATTTCATAAA
1 AAATT-ATAAA
35204512 AAATTAT-AA
1 AAATTATAAA
35204521 AAATTAT
1 AAATTAT
35204528 CATAACAAGA
Statistics
Matches: 109, Mismatches: 24, Indels: 29
0.67 0.15 0.18
Matches are distributed among these distances:
7 2 0.02
8 23 0.21
9 24 0.22
10 46 0.42
11 14 0.13
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (10 bp):
AAATTATAAA
Found at i:35204682 original size:21 final size:20
Alignment explanation
Indices: 35204658--35204762 Score: 69
Period size: 20 Copynumber: 5.3 Consensus size: 20
35204648 TAGGGGCATT
35204658 AAATTTTTAATGATTTTTATA
1 AAATTTTTAAT-ATTTTTATA
*
35204679 AAA-TTTTACA-ATTTTTTTA
1 AAATTTTTA-ATATTTTTATA
* **
35204698 CAATTTTTAATAAATTT-T-
1 AAATTTTTAATATTTTTATA
35204716 AAATTGTTT-ATATTTTTATTA
1 AAATT-TTTAATATTTTTA-TA
* *
35204737 AAA-TTTAAATAATTTTTCTA
1 AAATTTTTAAT-ATTTTTATA
35204757 AAATTT
1 AAATTT
35204763 ATTATTTATT
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
18 10 0.15
19 17 0.26
20 23 0.35
21 15 0.23
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (20 bp):
AAATTTTTAATATTTTTATA
Found at i:35205688 original size:84 final size:78
Alignment explanation
Indices: 35205597--35205747 Score: 212
Period size: 78 Copynumber: 1.9 Consensus size: 78
35205587 ATCGGCTAAG
* *
35205597 TACTTGAATTTAGTAAATACAAGATTAAAAATAAAATTTAAAAAAACAAAACAAATAATGAGTTC
1 TACTTGAATTTAATAAATACAA-ATT--AAA-AAAATTT-AAAAAA-AAAACAAATAATGAATTC
35205662 GAATATTCAAATAAGATAA
60 GAATATTCAAATAAGATAA
* *
35205681 TACTTGAATTTAATAAATACAAATTTAAAAAATTTAAAAAAAAAACAAATATTGAATTCGAATAT
1 TACTTGAATTTAATAAATACAAATTAAAAAAATTTAAAAAAAAAACAAATAATGAATTCGAATAT
35205746 TC
66 TC
35205748 GATTCCACAT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
78 24 0.38
79 6 0.10
80 7 0.11
81 2 0.03
83 3 0.05
84 21 0.33
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (78 bp):
TACTTGAATTTAATAAATACAAATTAAAAAAATTTAAAAAAAAAACAAATAATGAATTCGAATAT
TCAAATAAGATAA
Found at i:35210563 original size:182 final size:189
Alignment explanation
Indices: 35210056--35210575 Score: 811
Period size: 194 Copynumber: 2.8 Consensus size: 189
35210046 TAAGTAACAA
* * * *
35210056 TAGAAGATTTAAGTAGAGCAAATCTGCAATTACAACAGAGATCTTCAACACCAACTAAACAGCTT
1 TAGAAGTTTTAAGTAGAGCAAATCTGCAATGAGAACAGAGATCTTCAACATCAACTAAACAGCTT
*
35210121 AATGCATTTCTCTTCACATTGATCTACTCTTTCCTAAAATCAAACATGAAATTCTCACTCTTTCT
66 AATGCATTTCTCTTCACATTGATCTACTCTTACCTAAAATCAAACATGAAATTCTCACTCTTTCT
*
35210186 CTGGAAACAAACAAACAATAAACACTAACCAACTTAGTGAAAAGAAAAAAGAAACGAGTAAGAC
131 CAGGAAACAAACAAACAATAAACACTAACCAA--TAGT---AAGAAAAAAGAAACGAGTAAGAC
* *
35210250 TAGAAGTTTTAAGTAGAGCACATCTGCAACGAGAACAGAGATCTTCAACATCAACTAAACAGCTT
1 TAGAAGTTTTAAGTAGAGCAAATCTGCAATGAGAACAGAGATCTTCAACATCAACTAAACAGCTT
* *
35210315 AACGCATTTCTCTTCACATTGATCTACTATTACCTAAAATCAAACATGAAATTCTCACTCTTTCT
66 AATGCATTTCTCTTCACATTGATCTACTCTTACCTAAAATCAAACATGAAATTCTCACTCTTTCT
**
35210380 CAGGAAACAAACAAACAATAAACACTAACCAA-AGT-AGTGAAAA-AAACGAGT-A-A-
131 CAGGAAACAAACAAACAATAAACACTAACCAATAGTAAGAAAAAAGAAACGAGTAAGAC
*
35210433 TAG-ATTTTTAAGTAGAGCAAATCTGCAATGAGAACAGAGATCTTCAACATCAACTAAACAGCTT
1 TAGAAGTTTTAAGTAGAGCAAATCTGCAATGAGAACAGAGATCTTCAACATCAACTAAACAGCTT
*
35210497 AATGCATTTCTCTTCACATTGATCTACTCTTACCTAAAATCAAACATGAAAATCTCACTCTTTCT
66 AATGCATTTCTCTTCACATTGATCTACTCTTACCTAAAATCAAACATGAAATTCTCACTCTTTCT
*
35210562 CAGGAAACAGACAA
131 CAGGAAACAAACAA
35210576 GCAACAATTT
Statistics
Matches: 307, Mismatches: 19, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
182 133 0.43
183 3 0.01
184 1 0.00
185 1 0.00
186 8 0.03
187 6 0.02
191 3 0.01
194 152 0.50
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (189 bp):
TAGAAGTTTTAAGTAGAGCAAATCTGCAATGAGAACAGAGATCTTCAACATCAACTAAACAGCTT
AATGCATTTCTCTTCACATTGATCTACTCTTACCTAAAATCAAACATGAAATTCTCACTCTTTCT
CAGGAAACAAACAAACAATAAACACTAACCAATAGTAAGAAAAAAGAAACGAGTAAGAC
Found at i:35215076 original size:33 final size:33
Alignment explanation
Indices: 35215034--35215101 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
35215024 TATTATTCAC
35215034 TTTTTTCATCTAGTGGACTATGGTATTTAATAA
1 TTTTTTCATCTAGTGGACTATGGTATTTAATAA
35215067 TTTTTTCATCTAGTGGACTATGGTATTTAATAA
1 TTTTTTCATCTAGTGGACTATGGTATTTAATAA
35215100 TT
1 TT
35215102 GTATTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (33 bp):
TTTTTTCATCTAGTGGACTATGGTATTTAATAA
Found at i:35218685 original size:49 final size:49
Alignment explanation
Indices: 35218609--35218731 Score: 156
Period size: 49 Copynumber: 2.5 Consensus size: 49
35218599 TGGGCCACTT
* * **
35218609 GTAAGGCATGGTAGTTGCTAACTAGATTGGTGTATGTGTTGGACTACTG
1 GTAAGGCATGTTAGTTGCTAACCAGATTGGCATATGTGTTGGACTACTG
* ** *
35218658 GTAAGGCATGTTAATTGCTAACCAGATTGGCATATGTGTTGGGTTATTG
1 GTAAGGCATGTTAGTTGCTAACCAGATTGGCATATGTGTTGGACTACTG
* *
35218707 ATAGGGCATGTTAGTTGCTAACCAG
1 GTAAGGCATGTTAGTTGCTAACCAG
35218732 TATGGCGTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.24, C:0.11, G:0.30, T:0.34
Consensus pattern (49 bp):
GTAAGGCATGTTAGTTGCTAACCAGATTGGCATATGTGTTGGACTACTG
Found at i:35224783 original size:48 final size:47
Alignment explanation
Indices: 35224709--35224888 Score: 207
Period size: 48 Copynumber: 3.8 Consensus size: 47
35224699 AGGGTAAATT
* * * *
35224709 GCCGATGCCATATCCCAGACATGGTCTTACATTAGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-GAG
* * * * * *
35224757 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTTAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATGAG
* * *
35224805 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATGAG
*
35224853 GCCGATGCCATGTCCCAGACATGGTCTTGCACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
35224889 ACACCTATCA
Statistics
Matches: 109, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
48 108 0.99
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATGAG
Found at i:35224875 original size:96 final size:96
Alignment explanation
Indices: 35224708--35224888 Score: 256
Period size: 96 Copynumber: 1.9 Consensus size: 96
35224698 GAGGGTAAAT
* * *
35224708 TGCCGATGCCATATCCCAGACATGGTCTTACATTAGCTCACATGTCGAGGCTGATGCCATGTCCC
1 TGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCC
35224773 AAACATGGTCTTACACTAGCTCTCGTCTTAA
66 AAACATGGTCTTACACTAGCTCTCGTCTTAA
* * * * *
35224804 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTCC
1 TGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCACAT-ATCGAGGCCGATGCCATGTCC
* *
35224868 CAGACATGGTCTTGCACTAGC
65 CAAACATGGTCTTACACTAGC
35224889 ACACCTATCA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 73 0.99
97 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (96 bp):
TGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCC
AAACATGGTCTTACACTAGCTCTCGTCTTAA
Found at i:35227161 original size:25 final size:24
Alignment explanation
Indices: 35227129--35227213 Score: 102
Period size: 24 Copynumber: 3.5 Consensus size: 24
35227119 GAAAGTCCGG
35227129 ACACATAGTGCTCTTAC-TTAT-TCGC
1 ACACATAGTGC-C--ACGTTATCTCGC
*
35227154 ACACATAGTGCCACGTTTTCTCGC
1 ACACATAGTGCCACGTTATCTCGC
* *
35227178 ACACATAGTGCCATGTAATCTCGC
1 ACACATAGTGCCACGTTATCTCGC
35227202 ACACATAGTGCC
1 ACACATAGTGCC
35227214 GCATAGCCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
22 2 0.04
23 3 0.06
24 38 0.70
25 11 0.20
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (24 bp):
ACACATAGTGCCACGTTATCTCGC
Found at i:35227182 original size:24 final size:24
Alignment explanation
Indices: 35227150--35227236 Score: 102
Period size: 24 Copynumber: 3.6 Consensus size: 24
35227140 TCTTACTTAT
**
35227150 TCGCACACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTAATC
*
35227174 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTAATC
* * **
35227198 TCGCACACATAGTGCCGCATAGCC
1 TCGCACACATAGTGCCACGTAATC
*
35227222 TTGCACACATAGTGC
1 TCGCACACATAGTGC
35227237 TGTATTTTCT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.24
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTAATC
Found at i:35236217 original size:48 final size:47
Alignment explanation
Indices: 35236066--35236243 Score: 164
Period size: 48 Copynumber: 3.7 Consensus size: 47
35236056 GAGGGTAAAT
* * * *
35236066 TGCCGATGCCATGTCCTAGACATGGTCTTACGCTGGCTCACAT-GTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G
* * * ** *
35236113 AAGCTGATACCATGTCCTGGACATGGTCTTACACTAGCTCTCGTATCAATG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATG
*
35236164 T--CGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
* *
35236209 TGGCCGATGCCACGTCCCAGACATGGTCTTGCACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
35236244 AGCACACCTA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
45 5 0.05
46 2 0.02
48 94 0.90
50 2 0.02
51 1 0.01
52 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
Found at i:35236233 original size:96 final size:96
Alignment explanation
Indices: 35236069--35236246 Score: 223
Period size: 96 Copynumber: 1.9 Consensus size: 96
35236059 GGTAAATTGC
* * * * * **
35236069 CGATGCCATGTCCTAGACATGGTCTTACGCTGGCTCACATGTCGAAGCTGATACCATGTCCTGGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAAGCCGATACCACGTCCCAGA
35236134 CATGGTCTTACACTAGCTCTCGTATCAATGT
66 CATGGTCTTACACTAGCTCTCGTATCAATGT
* * ** *
35236165 CGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCACGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAAGCCGATACCACGTCCCAG
*
35236229 ACATGGTCTTGCACTAGC
65 ACATGGTCTTACACTAGC
35236247 ACACCTATCA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
96 67 0.99
97 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAAGCCGATACCACGTCCCAGA
CATGGTCTTACACTAGCTCTCGTATCAATGT
Found at i:35240152 original size:23 final size:23
Alignment explanation
Indices: 35240126--35240171 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
35240116 AATAATTTGA
35240126 AAGTCAATATGTTACTTTAATAT
1 AAGTCAATATGTTACTTTAATAT
35240149 AAGTCAATATGTTACTTTAATAT
1 AAGTCAATATGTTACTTTAATAT
35240172 TCTTTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (23 bp):
AAGTCAATATGTTACTTTAATAT
Found at i:35242843 original size:16 final size:16
Alignment explanation
Indices: 35242822--35242877 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
35242812 CGTTTGGTTG
*
35242822 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
*
35242838 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
*
35242854 GCCGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
35242870 GGTGTAAT
1 GCTGTAAT
35242878 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.07, G:0.29, T:0.27
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:35242955 original size:49 final size:49
Alignment explanation
Indices: 35242890--35243011 Score: 244
Period size: 49 Copynumber: 2.5 Consensus size: 49
35242880 GTAATTCAAC
35242890 TGTTTGGTTGAATGGAATGGAATGGAATAGAATTGTAATAGTATCCTTG
1 TGTTTGGTTGAATGGAATGGAATGGAATAGAATTGTAATAGTATCCTTG
35242939 TGTTTGGTTGAATGGAATGGAATGGAATAGAATTGTAATAGTATCCTTG
1 TGTTTGGTTGAATGGAATGGAATGGAATAGAATTGTAATAGTATCCTTG
35242988 TGTTTGGTTGAATGGAATGGAATG
1 TGTTTGGTTGAATGGAATGGAATG
35243012 ATGTTGTAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.37
Consensus pattern (49 bp):
TGTTTGGTTGAATGGAATGGAATGGAATAGAATTGTAATAGTATCCTTG
Found at i:35243233 original size:58 final size:58
Alignment explanation
Indices: 35243116--35243238 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 58
35243106 TTTTAATAAG
* * *
35243116 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATTTTAACATA
1 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATTTCAACATA
* * * *
35243174 ATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATAAAATTCTCAATATA
1 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATT-TCAACATA
35243232 ATTATTA
1 ATTATTA
35243239 CTATATGAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 22 0.39
58 35 0.61
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATTTCAACATA
Found at i:35246615 original size:18 final size:17
Alignment explanation
Indices: 35246588--35246630 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
35246578 ATATTTTAAG
*
35246588 TATAAGATATTTAATATA
1 TATAATATA-TTAATATA
*
35246606 TATAATATATTATTATA
1 TATAATATATTAATATA
35246623 -ATAATATA
1 TATAATATA
35246631 ATATAATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 8 0.35
17 7 0.30
18 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TATAATATATTAATATA
Found at i:35246629 original size:21 final size:21
Alignment explanation
Indices: 35246594--35246652 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
35246584 TAAGTATAAG
35246594 ATATT-TAATATATATAATATA
1 ATATTATAATA-ATATAATATA
*
35246615 TTATTATAATAATATAATATA
1 ATATTATAATAATATAATATA
*
35246636 ATAGTTAAAATAA-ATAA
1 ATA-TTATAATAATATAA
35246653 AAGAAACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 20 0.61
22 13 0.39
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
ATATTATAATAATATAATATA
Found at i:35246663 original size:18 final size:17
Alignment explanation
Indices: 35246642--35246675 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35246632 TATAATAGTT
35246642 AAAATAAATAAAAGAAAC
1 AAAATAAA-AAAAGAAAC
*
35246660 AAAATAGAAAAAGAAA
1 AAAATAAAAAAAGAAA
35246676 GAACAGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAAAGAAAC
Found at i:35246673 original size:17 final size:17
Alignment explanation
Indices: 35246651--35246723 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 17
35246641 TAAAATAAAT
35246651 AAAAGAAACAAAATAGA
1 AAAAGAAACAAAATAGA
* * *
35246668 AAAAGAAAGAACAGAGA
1 AAAAGAAACAAAATAGA
** *
35246685 ATGA-AAACGAAATAG-
1 AAAAGAAACAAAATAGA
* *
35246700 AAAGGAAAGAAAA-AGA
1 AAAAGAAACAAAATAGA
35246716 AAAAGAAA
1 AAAAGAAA
35246724 AAGAAAGGAA
Statistics
Matches: 39, Mismatches: 15, Indels: 5
0.66 0.25 0.08
Matches are distributed among these distances:
15 3 0.08
16 20 0.51
17 16 0.41
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (17 bp):
AAAAGAAACAAAATAGA
Found at i:35246714 original size:6 final size:6
Alignment explanation
Indices: 35246705--35246729 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35246695 AATAGAAAGG
35246705 AAAGAA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA A
35246730 GGAAAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:35246722 original size:21 final size:22
Alignment explanation
Indices: 35246651--35246736 Score: 70
Period size: 21 Copynumber: 3.9 Consensus size: 22
35246641 TAAAATAAAT
* *
35246651 AAAAGAAACAAAATAGAAAAAG-
1 AAAAGAAAGAGAA-AGAAAAAGA
* *
35246673 -AAAGAACAGAGAATGAAAACGA
1 AAAAGAA-AGAGAAAGAAAAAGA
*
35246695 AATAGAAAG-GAAAGAAAAAGA
1 AAAAGAAAGAGAAAGAAAAAGA
*
35246716 AAAAGAAAAAGAAAGGAAAAA
1 AAAAGAAAGAGAAA-GAAAAA
35246737 TAGGGTTTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
21 29 0.58
22 10 0.20
23 11 0.22
ACGTcount: A:0.73, C:0.03, G:0.20, T:0.03
Consensus pattern (22 bp):
AAAAGAAAGAGAAAGAAAAAGA
Found at i:35246724 original size:33 final size:33
Alignment explanation
Indices: 35246651--35246729 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 33
35246641 TAAAATAAAT
* *
35246651 AAAAG-AAACAAAATAGAAAAAGAAAGAACAGA
1 AAAAGAAAACGAAATAGAAAAAGAAAGAAAAGA
* * *
35246683 GAATGAAAACGAAATAG-AAAGGAAAGAAAAAGA
1 AAAAGAAAACGAAATAGAAAAAGAAAG-AAAAGA
*
35246716 AAAAGAAAAAGAAA
1 AAAAGAAAACGAAA
35246730 GGAAAAATAG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
32 11 0.30
33 26 0.70
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (33 bp):
AAAAGAAAACGAAATAGAAAAAGAAAGAAAAGA
Found at i:35246731 original size:27 final size:27
Alignment explanation
Indices: 35246652--35246734 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
35246642 AAAATAAATA
* *
35246652 AAAGAAACA-AAATAGAAAAAGAAA-G
1 AAAGAAAAAGAAAAAGAAAAAGAAAGG
* * * *
35246677 AACAGAGAATGAAAACGAAATAGAAAGG
1 AA-AGAAAAAGAAAAAGAAAAAGAAAGG
35246705 AAAGAAAAAGAAAAAGAAAAAGAAAGG
1 AAAGAAAAAGAAAAAGAAAAAGAAAGG
35246732 AAA
1 AAA
35246735 AATAGGGTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
25 2 0.04
26 4 0.09
27 36 0.80
28 3 0.07
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (27 bp):
AAAGAAAAAGAAAAAGAAAAAGAAAGG
Found at i:35246764 original size:26 final size:26
Alignment explanation
Indices: 35246728--35246782 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
35246718 AAGAAAAAGA
35246728 AAGGAAAAATAGGGTTTTAAGGTTTG
1 AAGGAAAAATAGGGTTTTAAGGTTTG
35246754 AAGGAAAAATAGGGTTTTAAGGTTTG
1 AAGGAAAAATAGGGTTTTAAGGTTTG
35246780 AAG
1 AAG
35246783 CTTAATTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (26 bp):
AAGGAAAAATAGGGTTTTAAGGTTTG
Found at i:35247625 original size:6 final size:6
Alignment explanation
Indices: 35247613--35247651 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
35247603 TCGATACTAC
* *
35247613 TACTGT TATTGT TACTGT TATTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
35247652 GGTGTATTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (6 bp):
TACTGT
Found at i:35247630 original size:12 final size:12
Alignment explanation
Indices: 35247613--35247651 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
35247603 TCGATACTAC
35247613 TACTGTTATTGT
1 TACTGTTATTGT
35247625 TACTGTTATTGT
1 TACTGTTATTGT
*
35247637 TACTGTTACTGT
1 TACTGTTATTGT
35247649 TAC
1 TAC
35247652 GGTGTATTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (12 bp):
TACTGTTATTGT
Found at i:35248423 original size:13 final size:13
Alignment explanation
Indices: 35248407--35248432 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35248397 CAAAAGACAC
35248407 GGCCGTGTGTCTT
1 GGCCGTGTGTCTT
35248420 GGCCGTGTGTCTT
1 GGCCGTGTGTCTT
35248433 AGTCGTGTGA
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:0.00, C:0.23, G:0.38, T:0.38
Consensus pattern (13 bp):
GGCCGTGTGTCTT
Found at i:35248439 original size:13 final size:13
Alignment explanation
Indices: 35248408--35248441 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35248398 AAAAGACACG
*
35248408 GCCGTGTGTCTTG
1 GCCGTGTGTCTTA
35248421 GCCGTGTGTCTTA
1 GCCGTGTGTCTTA
*
35248434 GTCGTGTG
1 GCCGTGTG
35248442 AAGGACACGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.38, T:0.38
Consensus pattern (13 bp):
GCCGTGTGTCTTA
Found at i:35257348 original size:156 final size:156
Alignment explanation
Indices: 35256954--35257536 Score: 861
Period size: 155 Copynumber: 3.8 Consensus size: 156
35256944 TATTTATGTG
* * * * *
35256954 TTGGAATTTTGGAAGGAAAGGTTTGTTTGTGTTGGAGTTTTAGGGAGGAAGTGTGATAATTTTAA
1 TTGGAATTTTGGAAGGAAAAGTTTGTTTGTGTTGGAGTTTTAAGGAGAAAGTGTAATAGTTTTAA
* * * *
35257019 GGTATGTTTTTGTTGTTTGTTATAATAATTTGTATATTATATATGTTTATATTTTAATTTATTGC
66 GATATATTTTTATTGTTTGTTATAATAATTTGTATATTATATATATTTATATTTTAATTTATTGC
*
35257084 TAATTTTTTTTTTATCGTAGTTGGCTT
131 TAA-TTTTTTTTTATCGTAGTTGGCTA
35257111 TTGGAATTTTGGAAGGAAAAGTTTG--TGTGTTGGAGTTTTAAGGAGAAAGTGTAATAGTTTTAA
1 TTGGAATTTTGGAAGGAAAAGTTTGTTTGTGTTGGAGTTTTAAGGAGAAAGTGTAATAGTTTTAA
* *
35257174 GATATATTTTTATTGTTTGTTATAATAATTTTTATATTATATATGTTTATATTTTAATTTATTGC
66 GATATATTTTTATTGTTTGTTATAATAATTTGTATATTATATATATTTATATTTTAATTTATTGC
*
35257239 TAATTTTTTTTTATCATAGTTGGCTA
131 TAATTTTTTTTTATCGTAGTTGGCTA
* ** *
35257265 TTGAAATTTTGGAAGGAAAAGTTTGAATGTGTTGGAGTTTTAGGGAGAAAGTGTAATAGTTTTAA
1 TTGGAATTTTGGAAGGAAAAGTTTGTTTGTGTTGGAGTTTTAAGGAGAAAGTGTAATAGTTTTAA
35257330 GATATATTTTTATTGTTTGTTATAATAATTTGTATATTATATATATTTATATTTTAATTTATTG-
66 GATATATTTTTATTGTTTGTTATAATAATTTGTATATTATATATATTTATATTTTAATTTATTGC
* * * *
35257394 TTA-TCTTTTTTATTGTAGTTGGCTG
131 TAATTTTTTTTTATCGTAGTTGGCTA
* * * *
35257419 TTGGAATTTTTGAAGGAAAAGTTTGTTTGTGTTAGAG-TTTAAAGAGAAAGTGTGATAGTTTTAA
1 TTGGAATTTTGGAAGGAAAAGTTTGTTTGTGTTGGAGTTTTAAGGAGAAAGTGTAATAGTTTTAA
* * * *
35257483 GGTATGTTTTTATTGTTTGTAATAATAATTTGTATATTATATATATATATATTT
66 GATATATTTTTATTGTTTGTTATAATAATTTGTATATTATATATATTTATATTT
35257537 ATATTTTAAA
Statistics
Matches: 392, Mismatches: 32, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
153 74 0.19
154 95 0.24
155 100 0.26
156 99 0.25
157 24 0.06
ACGTcount: A:0.28, C:0.01, G:0.20, T:0.51
Consensus pattern (156 bp):
TTGGAATTTTGGAAGGAAAAGTTTGTTTGTGTTGGAGTTTTAAGGAGAAAGTGTAATAGTTTTAA
GATATATTTTTATTGTTTGTTATAATAATTTGTATATTATATATATTTATATTTTAATTTATTGC
TAATTTTTTTTTATCGTAGTTGGCTA
Found at i:35257348 original size:311 final size:308
Alignment explanation
Indices: 35256958--35257536 Score: 890
Period size: 311 Copynumber: 1.9 Consensus size: 308
35256948 TATGTGTTGG
* ** * * *
35256958 AATTTTGGAAGGAAAGGTTTGTTTGTGTTGGAGTTTTAGGGAGGAAGTGTGATAATTTTAAGGTA
1 AATTTTGGAAGGAAAAGTTTGAATGTGTTGGAGTTTTAGGGAGAAAGTGTAATAATTTTAAGATA
* * *
35257023 TGTTTTTGTTGTTTGTTATAATAATTTGTATATTATATATGTTTATATTTTAATTTATTGCTAAT
66 TATTTTTATTGTTTGTTATAATAATTTGTATATTATATATATTTATATTTTAATTTATTG-T--T
* * * *
35257088 TTTTTTTTTATCGTAGTTGGCTTTTGGAATTTTGGAAGGAAAAGTTTG-TGTGTTGGAGTTTTAA
128 ATCTTTTTTATCGTAGTTGGCTGTTGGAATTTTGGAAGGAAAAGTTTGTTGTGTTAGAG-TTTAA
* * *
35257152 GGAGAAAGTGTAATAGTTTTAAGATATATTTTTATTGTTTGTTATAATAATTTTTATATTATATA
192 AGAGAAAGTGTAATAGTTTTAAGATATATTTTTATTGTTTGTAATAATAATTTGTATATTATATA
* *
35257217 TGTTTATATTTTAATTTATTGCTAATTTTTTTTTATCATAGTTGGCTATTGA
257 TATATATATTTTAATTTATTGCTAATTTTTTTTTATCATAGTTGGCTATTGA
*
35257269 AATTTTGGAAGGAAAAGTTTGAATGTGTTGGAGTTTTAGGGAGAAAGTGTAATAGTTTTAAGATA
1 AATTTTGGAAGGAAAAGTTTGAATGTGTTGGAGTTTTAGGGAGAAAGTGTAATAATTTTAAGATA
35257334 TATTTTTATTGTTTGTTATAATAATTTGTATATTATATATATTTATATTTTAATTTATTGTTATC
66 TATTTTTATTGTTTGTTATAATAATTTGTATATTATATATATTTATATTTTAATTTATTGTTATC
* *
35257399 TTTTTTATTGTAGTTGGCTGTTGGAATTTTTGAAGGAAAAGTTTGTTTGTGTTAGAGTTTAAAGA
131 TTTTTTATCGTAGTTGGCTGTTGGAATTTTGGAAGGAAAAGTTTG-TTGTGTTAGAGTTTAAAGA
* * *
35257464 GAAAGTGTGATAGTTTTAAGGTATGTTTTTATTGTTTGTAATAATAATTTGTATATTATATATAT
195 GAAAGTGTAATAGTTTTAAGATATATTTTTATTGTTTGTAATAATAATTTGTATATTATATATAT
35257529 ATATATTT
260 ATATATTT
35257537 ATATTTTAAA
Statistics
Matches: 242, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
308 44 0.18
309 73 0.30
310 10 0.04
311 115 0.48
ACGTcount: A:0.28, C:0.01, G:0.19, T:0.51
Consensus pattern (308 bp):
AATTTTGGAAGGAAAAGTTTGAATGTGTTGGAGTTTTAGGGAGAAAGTGTAATAATTTTAAGATA
TATTTTTATTGTTTGTTATAATAATTTGTATATTATATATATTTATATTTTAATTTATTGTTATC
TTTTTTATCGTAGTTGGCTGTTGGAATTTTGGAAGGAAAAGTTTGTTGTGTTAGAGTTTAAAGAG
AAAGTGTAATAGTTTTAAGATATATTTTTATTGTTTGTAATAATAATTTGTATATTATATATATA
TATATTTTAATTTATTGCTAATTTTTTTTTATCATAGTTGGCTATTGA
Found at i:35263582 original size:18 final size:19
Alignment explanation
Indices: 35263569--35263604 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
35263559 TCAAGATAAT
35263569 AAAATAATTTAAGAATATA
1 AAAATAATTTAAGAATATA
35263588 AAAATAA-TTAA-AATATA
1 AAAATAATTTAAGAATATA
35263605 TATTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 4 0.24
19 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATAATTTAAGAATATA
Found at i:35274567 original size:22 final size:22
Alignment explanation
Indices: 35274531--35274583 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
35274521 TTTTCATATA
*
35274531 TTTTGA-GAAGTTTCCTATGTG
1 TTTTGATGACGTTTCCTATGTG
35274552 TTTTGATGACGTTTCCTATGTG
1 TTTTGATGACGTTTCCTATGTG
35274574 TTTTGATGAC
1 TTTTGATGAC
35274584 TTAATATGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.17, C:0.11, G:0.23, T:0.49
Consensus pattern (22 bp):
TTTTGATGACGTTTCCTATGTG
Found at i:35281277 original size:40 final size:40
Alignment explanation
Indices: 35281222--35281439 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
35281212 CGGATGATAA
* * *
35281222 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
35281262 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
35281302 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35281342 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
35281382 CCGAGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
35281422 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35281440 TACTTGGTTG
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 148 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35284339 original size:12 final size:12
Alignment explanation
Indices: 35284322--35284351 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35284312 CACTTAAAGT
*
35284322 ATGCATATGAAA
1 ATGCATATAAAA
35284334 ATGCATATAAAA
1 ATGCATATAAAA
35284346 ATGCAT
1 ATGCAT
35284352 CCATCTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (12 bp):
ATGCATATAAAA
Found at i:35290672 original size:104 final size:105
Alignment explanation
Indices: 35290426--35290693 Score: 441
Period size: 104 Copynumber: 2.6 Consensus size: 105
35290416 GTTGTATAAA
** *
35290426 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
35290490 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTAATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTAATTCCCCCG
*
35290531 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
35290596 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTAATTCCCCCG
** *
35290635 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
35290694 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 84 0.55
105 68 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTAATTCCCCCG
Found at i:35298005 original size:103 final size:104
Alignment explanation
Indices: 35297801--35298065 Score: 437
Period size: 103 Copynumber: 2.6 Consensus size: 104
35297791 GTTGTATAAA
** *
35297801 AGGGGTTGCTGTGTGCT-ATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
35297864 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
35297904 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
35297969 TGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
35298007 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
35298066 ATAACGGTTA
Statistics
Matches: 152, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
103 96 0.63
104 55 0.36
105 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:35298022 original size:27 final size:27
Alignment explanation
Indices: 35297980--35298031 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
35297970 GAAATGTGAA
*
35297980 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
35298007 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
35298032 GATTCAGCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:35303392 original size:188 final size:187
Alignment explanation
Indices: 35303075--35303449 Score: 687
Period size: 188 Copynumber: 2.0 Consensus size: 187
35303065 TATTTTAGGA
* *
35303075 TATTATATTAGTATTTTAGGACATTGCATGATGAAGCTTGGATTGTGCTTAAATGTTATTATGTT
1 TATTATATTAGTATTTTAGGACATTACATCATGAAGCTTGGATTGTGCTTAAATGTTATTATGTT
35303140 ACTTTTACTTGTAGATGGAAAAGATTTGTTTGGATGACAGGTGTAGAATGAGGAGAACAAATGAA
66 ACTTTTACTTGTAGATGGAAAAGATTTGTTTGGATGACAGGTGTAGAATGAGGAGAACAAATGAA
*
35303205 GGAGTGAAGTTTTTCAATTGCAAAAGGGTGGATGGATTTCCAACATTAATGCCATGGC
131 GGAGTGAAGTTTTTC-ATTGCAAAAGGGTGGATGGATTACCAACATTAATGCCATGGC
*
35303263 TATTATATTAGTATTTTAGGACATTACATCATGAAGCTTTGATTGTGCTTAAATGTTATTATGTT
1 TATTATATTAGTATTTTAGGACATTACATCATGAAGCTTGGATTGTGCTTAAATGTTATTATGTT
* *
35303328 ACTTTTACTTTTAGATGGAAAAGATTTGTTTGGATGATAGGTGTAGAATGAGGAGAACAAATGAA
66 ACTTTTACTTGTAGATGGAAAAGATTTGTTTGGATGACAGGTGTAGAATGAGGAGAACAAATGAA
35303393 GGAGTGAAGTTTTTCATTGCAAAAGGGTGGATGGATTACCAACATTAATGCCATGGC
131 GGAGTGAAGTTTTTCATTGCAAAAGGGTGGATGGATTACCAACATTAATGCCATGGC
35303450 AATTTCAGGA
Statistics
Matches: 181, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
187 41 0.23
188 140 0.77
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.36
Consensus pattern (187 bp):
TATTATATTAGTATTTTAGGACATTACATCATGAAGCTTGGATTGTGCTTAAATGTTATTATGTT
ACTTTTACTTGTAGATGGAAAAGATTTGTTTGGATGACAGGTGTAGAATGAGGAGAACAAATGAA
GGAGTGAAGTTTTTCATTGCAAAAGGGTGGATGGATTACCAACATTAATGCCATGGC
Found at i:35318836 original size:47 final size:47
Alignment explanation
Indices: 35318783--35319255 Score: 754
Period size: 47 Copynumber: 10.1 Consensus size: 47
35318773 TTAGGATTTT
*
35318783 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
35318830 ATGTGATGAATGTGAACATGGATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
35318877 ATGTGATGAATGTGAACATGCGA-ATGTGTGATAAGGCCGAATGTCCA
1 ATGTGATGAATGTGAACATGC-ATATATGTGATAAGGCCGAATGGCCA
*
35318924 ATGTGATGAATGTGAACATGCGA-ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGC-ATATATGTGATAAGGCCGAATGGCCA
35318971 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
35319018 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
35319065 TTGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
35319112 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
35319159 ATGTAATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
35319206 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
35319253 ATG
1 ATG
35319256 CGAAATGTGT
Statistics
Matches: 402, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 397 0.99
48 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:35318903 original size:23 final size:23
Alignment explanation
Indices: 35318876--35318951 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
35318866 CCGAATGGCC
35318876 AATGTGATGAATGTGAACATGCG
1 AATGTGATGAATGTGAACATGCG
* * *
35318899 AATGTG-TGATAAG-G-CCGAATGTCC
1 AATGTGATGA-ATGTGAAC--ATG-CG
35318923 AATGTGATGAATGTGAACATGCG
1 AATGTGATGAATGTGAACATGCG
35318946 AATGTG
1 AATGTG
35318952 TGATAAGGCC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 1 0.03
22 4 0.10
23 18 0.45
24 12 0.30
25 4 0.10
26 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (23 bp):
AATGTGATGAATGTGAACATGCG
Found at i:35318908 original size:25 final size:25
Alignment explanation
Indices: 35318878--35318955 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
35318868 GAATGGCCAA
35318878 TGTGATGAATGTGAACATGCGAATG
1 TGTGATGAATGTGAACATGCGAATG
* * *
35318903 TGTGAT-AAGGCCG-A-ATGTCCAA--
1 TGTGATGAATG-TGAACATG-CGAATG
35318925 TGTGATGAATGTGAACATGCGAATG
1 TGTGATGAATGTGAACATGCGAATG
35318950 TGTGAT
1 TGTGAT
35318956 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 7 0.17
23 10 0.25
24 10 0.25
25 13 0.32
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGAATG
Found at i:35319285 original size:46 final size:46
Alignment explanation
Indices: 35319229--35319319 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
35319219 GGAAGTGTAT
* * *
35319229 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGGGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* *
35319275 ATATGGGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGGGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
35319320 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGGGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:35320512 original size:52 final size:52
Alignment explanation
Indices: 35320434--35320540 Score: 214
Period size: 52 Copynumber: 2.1 Consensus size: 52
35320424 TATTTCTTTA
35320434 TTTATTTGGCTGATTTTTGATTAATATTCATAGTTCTAACTATAGTCATACT
1 TTTATTTGGCTGATTTTTGATTAATATTCATAGTTCTAACTATAGTCATACT
35320486 TTTATTTGGCTGATTTTTGATTAATATTCATAGTTCTAACTATAGTCATACT
1 TTTATTTGGCTGATTTTTGATTAATATTCATAGTTCTAACTATAGTCATACT
35320538 TTT
1 TTT
35320541 GCTTCTTATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (52 bp):
TTTATTTGGCTGATTTTTGATTAATATTCATAGTTCTAACTATAGTCATACT
Found at i:35323826 original size:79 final size:82
Alignment explanation
Indices: 35323715--35323899 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
35323705 GCTACTCGTT
* *
35323715 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
35323778 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* ***
35323795 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTTCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35323858 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
35323875 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35323900 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:35323832 original size:39 final size:40
Alignment explanation
Indices: 35323715--35323899 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
35323705 GCTACTCGTT
*
35323715 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
35323755 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
35323795 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * * * *
35323834 CAAATGCCTTC-GGATCTTAGTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
35323875 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35323900 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:35327275 original size:40 final size:40
Alignment explanation
Indices: 35327084--35327268 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
35327074 TCGAATGATG
* * * *
35327084 TCCGGGCTAAGTCCCGAA-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35327123 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35327163 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35327203 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35327244 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35327269 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 16 0.13
40 101 0.80
41 9 0.07
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35335292 original size:40 final size:40
Alignment explanation
Indices: 35335100--35335285 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
35335090 TCGAATGATG
* * * *
35335100 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35335140 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35335180 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35335220 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35335261 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35335286 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 116 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35335292 original size:80 final size:79
Alignment explanation
Indices: 35335153--35335318 Score: 201
Period size: 80 Copynumber: 2.1 Consensus size: 79
35335143 GGACTAAGAT
** * **
35335153 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
35335217 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
35335233 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
35335297 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
35335312 CCGAAGG
1 CCGAAGG
35335319 TACGTGATTT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
79 18 0.24
80 56 0.76
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:35337069 original size:14 final size:14
Alignment explanation
Indices: 35337050--35337076 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35337040 AAATTTACTC
35337050 TTAAAACAAGAATA
1 TTAAAACAAGAATA
35337064 TTAAAACAAGAAT
1 TTAAAACAAGAAT
35337077 TAAGAACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (14 bp):
TTAAAACAAGAATA
Found at i:35368192 original size:49 final size:48
Alignment explanation
Indices: 35368113--35368242 Score: 127
Period size: 49 Copynumber: 2.6 Consensus size: 48
35368103 ACATCAAAGT
* * * *
35368113 GATGCCGTGTCCCAAAAAGGTATTATACTGACTTTCATATATCGAG-GCC
1 GATGCCGTGTCCCAACAA-GTCTTACACTGACTCTCATATATCG-GTGCC
* * *
35368162 GATGTCGTGTCCCAGACAAGTCTTACACTGACTCTCATTTATCGGTGTC
1 GATGCCGTGTCCCA-ACAAGTCTTACACTGACTCTCATATATCGGTGCC
* * *
35368211 GATGCCATGTCCCAAACAGGTCTTTCACTGAC
1 GATGCCGTGTCCC-AACAAGTCTTACACTGAC
35368243 ACACAACAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 62 0.93
50 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCGTGTCCCAACAAGTCTTACACTGACTCTCATATATCGGTGCC
Found at i:35368373 original size:46 final size:48
Alignment explanation
Indices: 35368260--35368380 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 48
35368250 AAGCTAATGC
* * * * * *
35368260 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTCTACATCTCAAAGCCGATG
* * *
35368308 CATGTCCAAGATATGTCTTACACTAGC-TCT-CGTCTCAAAGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTCTACATCTCAAAGCCGATG
*
35368354 TATGTCCTAGACATGTCTTACACTAGC
1 CATGTCCTAGACATGTCTTACACTAGC
35368381 ACACATATCA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 35 0.57
47 2 0.03
48 24 0.39
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
CATGTCCTAGACATGTCTTACACTAGCTTCTACATCTCAAAGCCGATG
Found at i:35376544 original size:27 final size:27
Alignment explanation
Indices: 35376508--35376704 Score: 202
Period size: 27 Copynumber: 7.4 Consensus size: 27
35376498 ACCTGAACCT
*
35376508 TTATGAGATAAAATGACTGTTTTTCCC
1 TTATGAGATAAAATGACTGTTTTGCCC
* *
35376535 TTATGTGATAAAATGA-TGATTTTACCC
1 TTATGAGATAAAATGACTG-TTTTGCCC
35376562 TTATGAGATAAAATGACTGTTTTG-CC
1 TTATGAGATAAAATGACTGTTTTGCCC
* * * *
35376588 TT-TGTGGTAAAATAACTATTTTGCCC
1 TTATGAGATAAAATGACTGTTTTGCCC
* * ***
35376614 TTATGTGGTAAAATGAAAATTTTGCCC
1 TTATGAGATAAAATGACTGTTTTGCCC
* * *
35376641 TTATGAGGTAAAATGTCAGTTTTGCCC
1 TTATGAGATAAAATGACTGTTTTGCCC
* *
35376668 TTATGAGGTAAAATGACTATTTTGCCC
1 TTATGAGATAAAATGACTGTTTTGCCC
*
35376695 TTATGTGATA
1 TTATGAGATA
35376705 TATGTGTATA
Statistics
Matches: 146, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
25 17 0.12
26 10 0.07
27 117 0.80
28 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.40
Consensus pattern (27 bp):
TTATGAGATAAAATGACTGTTTTGCCC
Found at i:35376636 original size:79 final size:81
Alignment explanation
Indices: 35376508--35376704 Score: 272
Period size: 79 Copynumber: 2.5 Consensus size: 81
35376498 ACCTGAACCT
* * * **
35376508 TTATGAGATAAAATGACTGTTTTTCCCTTATGTGATAAAATGATGATTTTACCCTTATGAGATAA
1 TTATGAGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGAAAATTTTACCCTTATGAGATAA
*
35376573 AATGACTGTTTTG-CC
66 AATGACAGTTTTGCCC
* * * * *
35376588 TT-TGTGGTAAAATAACTATTTTGCCCTTATGTGGTAAAATGAAAATTTTGCCCTTATGAGGTAA
1 TTATGAGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGAAAATTTTACCCTTATGAGATAA
*
35376652 AATGTCAGTTTTGCCC
66 AATGACAGTTTTGCCC
35376668 TTATGAGGTAAAATGACTATTTTGCCCTTATGTGATA
1 TTATGAGGTAAAATGACTATTTTGCCCTTATGTGATA
35376705 TATGTGTATA
Statistics
Matches: 100, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
79 63 0.63
80 6 0.06
81 31 0.31
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.40
Consensus pattern (81 bp):
TTATGAGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGAAAATTTTACCCTTATGAGATAA
AATGACAGTTTTGCCC
Found at i:35377037 original size:18 final size:18
Alignment explanation
Indices: 35377011--35377047 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
35377001 GGATTTGCAT
35377011 ACTGATTACTGTTACTGC
1 ACTGATTACTGTTACTGC
*
35377029 ACTGTTTACTGTTACTGC
1 ACTGATTACTGTTACTGC
35377047 A
1 A
35377048 ATGGGCCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (18 bp):
ACTGATTACTGTTACTGC
Found at i:35378269 original size:49 final size:49
Alignment explanation
Indices: 35378121--35378295 Score: 151
Period size: 49 Copynumber: 3.6 Consensus size: 49
35378111 AGATGCCAAC
* * ** * *
35378121 GCCATGTCCTAGACATGGTCTTACACTGGCTAGCA-A-ATCAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCGAGGTCGAT
* * * * *
35378169 GCCATGTCCCAGAGAGGTCTTATACTGACTTTCATATATCGAGGCCAAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGAT
* * * *
35378218 GCCGTGTCCCAAACAGGTCTTACACTGGCTCTCATTTATCG-GTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GTCGAT
*
35378267 GCCATGT-CCACGACAGTTCTTACACTGAC
1 GCCATGTCCCA-GACAGGTCTTACACTGAC
35378296 ACACAACAAG
Statistics
Matches: 100, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
47 15 0.15
48 18 0.18
49 67 0.67
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGAT
Found at i:35384904 original size:55 final size:55
Alignment explanation
Indices: 35384816--35384946 Score: 154
Period size: 55 Copynumber: 2.4 Consensus size: 55
35384806 CCCATGTTAA
* * * * *
35384816 TTTAACAGGTTTGACCATGGGTGTTCCATACGGGCGTGTCGAACGCCCGTGTTGT
1 TTTAACAGGTTCGACCACGGTTCTTCCACACGGGCGTGTCGAACGCCCGTGTTGT
* * * *
35384871 TTTAACAGGTTCGCCCACGGTTCTTCCACACGGGCGTGTCGCATGCTCGTGTTGT
1 TTTAACAGGTTCGACCACGGTTCTTCCACACGGGCGTGTCGAACGCCCGTGTTGT
** *
35384926 TTTGGCAGGCTCGACCACGGT
1 TTTAACAGGTTCGACCACGGT
35384947 CATATCGTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.30
Consensus pattern (55 bp):
TTTAACAGGTTCGACCACGGTTCTTCCACACGGGCGTGTCGAACGCCCGTGTTGT
Found at i:35395015 original size:18 final size:18
Alignment explanation
Indices: 35394988--35395040 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
35394978 TGTTAATATA
*
35394988 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCTTGATTG
*
35395006 GGAGTCAATCCTTGATTG
1 GGAGTAAATCCTTGATTG
35395024 GGAGTAAATCCTTGATT
1 GGAGTAAATCCTTGATT
35395041 AAGATTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (18 bp):
GGAGTAAATCCTTGATTG
Done.