Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 130 of 345
Found at i:35018532 original size:42 final size:42
Alignment explanation
Indices: 35018485--35018638 Score: 166
Period size: 42 Copynumber: 3.6 Consensus size: 42
35018475 TACCGTACCA
* * * *
35018485 ATGCCATATCCCAAATCTAGTCTTACACGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* * * *
35018527 ATGCCAATAGCCCAGCTATGGTCTTACATGAAGTCTCATATCA
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * *
35018570 ATGCCATATCCTAGATATGGTTTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
35018612 ATGCCATATCCTAGATATGGTTTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
35018639 AGTAGTATTA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 64 0.67
43 31 0.33
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:35019919 original size:19 final size:19
Alignment explanation
Indices: 35019892--35019929 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
35019882 TATTTGTGGG
*
35019892 AGTCTGGAGATCCGTTTAT
1 AGTCCGGAGATCCGTTTAT
35019911 AGTCCGGAGATCCGTTTAT
1 AGTCCGGAGATCCGTTTAT
35019930 CCGATGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (19 bp):
AGTCCGGAGATCCGTTTAT
Found at i:35021699 original size:43 final size:42
Alignment explanation
Indices: 35021651--35021808 Score: 108
Period size: 43 Copynumber: 3.7 Consensus size: 42
35021641 AACATATACA
* * *
35021651 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAA-ATCG
*
35021694 ATGCC-ACTATCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACACGTAATCAAA-ATCG
*** ** * *
35021736 ATGTTGATGTCCCAGACATGGTATTACACGTAAAAT-AAAATTCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGT--AATCAAAA-TCG
* *
35021780 ATGCCAACATCCTAGATGTGGTCTTACAC
1 ATGCCAACATCCCAGACGTGGTCTTACAC
35021809 AAAATCACAT
Statistics
Matches: 86, Mismatches: 21, Indels: 15
0.70 0.17 0.12
Matches are distributed among these distances:
42 25 0.29
43 36 0.42
44 25 0.29
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAAATCG
Found at i:35028318 original size:172 final size:172
Alignment explanation
Indices: 35028032--35028376 Score: 663
Period size: 172 Copynumber: 2.0 Consensus size: 172
35028022 AACAATGGTT
35028032 ATACAATCTCAGAGCTTCTTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
1 ATACAATCTCAGAGCTTCTTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
35028097 CATCTGAAGTTCTGAATCAGAAATCAATTTAAACTGAAATCCTTTTTAACTTATAATTAATAACA
66 CATCTGAAGTTCTGAATCAGAAATCAATTTAAACTGAAATCCTTTTTAACTTATAATTAATAACA
35028162 CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
131 CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
*
35028204 ATACAATCTCAGAGCTTCTTGGTATACACACTTTATTTTAAAGCAACAAGCAATCATCAATTTCA
1 ATACAATCTCAGAGCTTCTTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
**
35028269 CATCTGAAGTTCTGAATCAGAAATCAATTTATGCTGAAATCCTTTTTAACTTATAATTAATAACA
66 CATCTGAAGTTCTGAATCAGAAATCAATTTAAACTGAAATCCTTTTTAACTTATAATTAATAACA
35028334 CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
131 CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
35028376 A
1 A
35028377 CTTCTAATCC
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 170 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.35
Consensus pattern (172 bp):
ATACAATCTCAGAGCTTCTTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
CATCTGAAGTTCTGAATCAGAAATCAATTTAAACTGAAATCCTTTTTAACTTATAATTAATAACA
CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
Found at i:35033644 original size:79 final size:81
Alignment explanation
Indices: 35033511--35033727 Score: 220
Period size: 79 Copynumber: 2.7 Consensus size: 81
35033501 AAATCACGTA
** * *
35033511 CCTTCGGAAT-TTA-ACCGGATATAGCT-ACTC-GTTCAAATGCCTTCGGGACATAGCCC-GGTT
1 CCTTCGG-ATCTTAGACCGGATATAG-TAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGGAT
* *
35033571 ATAGTAACTCGCATAAATG
64 -TAGTAACTCACACAAATG
*
35033590 CCTTCGGGA-CTTA-ACCTGGATTTAGTAACTCA-CACAAATGCCTTCGGG-CTTAGCCCGGGAT
1 CCTTC-GGATCTTAGACC-GGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGGAT
*
35033651 TAGTAACTCATACAAATG
64 TAGTAACTCACACAAATG
* * *
35033669 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGG
1 CCTTCGGATCTTAGACCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGG
35033728 ACATCATTCG
Statistics
Matches: 116, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
78 3 0.03
79 65 0.56
80 48 0.41
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (81 bp):
CCTTCGGATCTTAGACCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGGATTA
GTAACTCACACAAATG
Found at i:35033728 original size:40 final size:40
Alignment explanation
Indices: 35033544--35033728 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
35033534 GCTACTCGTT
* * *
35033544 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
* * * *
35033584 TAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
*
35033624 CAAATGCCTTCGGG-CTTAGCCCGGGAT-TAGTAACTCATA
1 CAAATGCCTTCGGGACTTAGCCC-GGATATAGTAACTCACA
* * *
35033663 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCA-CA
35033704 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35033729 CATCATTCGA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 81 0.66
41 8 0.07
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
Found at i:35037714 original size:33 final size:33
Alignment explanation
Indices: 35037677--35037740 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
35037667 ATACTATCAG
* * *
35037677 GTAAAGATTAATGGTGATGATGCATCTAAGACA
1 GTAAAGATTAAGGGTGATGATACACCTAAGACA
35037710 GTAAAGATTAAGGGTGATGATACACCTAAGA
1 GTAAAGATTAAGGGTGATGATACACCTAAGA
35037741 TAGCCTTTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (33 bp):
GTAAAGATTAAGGGTGATGATACACCTAAGACA
Found at i:35045083 original size:24 final size:24
Alignment explanation
Indices: 35045052--35045100 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
35045042 CTATGGCATG
35045052 ACAATTATATCCAATGGATCCACC
1 ACAATTATATCCAATGGATCCACC
35045076 ACAATTATATCCAATGGATCCACC
1 ACAATTATATCCAATGGATCCACC
35045100 A
1 A
35045101 TGCAATGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (24 bp):
ACAATTATATCCAATGGATCCACC
Found at i:35048617 original size:12 final size:12
Alignment explanation
Indices: 35048600--35048626 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
35048590 CACATGCCCA
35048600 TGTGCTAGGCCG
1 TGTGCTAGGCCG
35048612 TGTGCTAGGCCG
1 TGTGCTAGGCCG
35048624 TGT
1 TGT
35048627 AACAGCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.41, T:0.30
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:35049485 original size:30 final size:28
Alignment explanation
Indices: 35049449--35049550 Score: 75
Period size: 30 Copynumber: 3.5 Consensus size: 28
35049439 ACATCGAGTA
35049449 AGAATTTAAGCTTAGTAGTTCATATAACAT
1 AGAATTTAA-CTTAGTAGTTC-TATAACAT
*
35049479 AGAATTTAACTTA-TCA-TT-TAGTCACAAT
1 AGAATTTAACTTAGT-AGTTCTA-TAAC-AT
** *
35049507 TTATGTTTAAGCTTAGTAGTTCGTATAACAT
1 AGA-ATTTAA-CTTAGTAGTTC-TATAACAT
35049538 AGAATTTAACTTA
1 AGAATTTAACTTA
35049551 CCATTTAGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 19
0.67 0.10 0.23
Matches are distributed among these distances:
26 2 0.04
27 3 0.05
28 6 0.11
29 14 0.25
30 19 0.35
31 6 0.11
32 3 0.05
33 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (28 bp):
AGAATTTAACTTAGTAGTTCTATAACAT
Found at i:35049545 original size:59 final size:59
Alignment explanation
Indices: 35049453--35049571 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
35049443 CGAGTAAGAA
*
35049453 TTTAAGCTTAGTAGTTCATATAACATAGAATTTAACTTATCATTTAGTCACAATTTATG
1 TTTAAGCTTAGTAGTTCATATAACATAGAATTTAACTTACCATTTAGTCACAATTTATG
* *
35049512 TTTAAGCTTAGTAGTTCGTATAACATAGAATTTAACTTACCATTTAGTCATAATTTATG
1 TTTAAGCTTAGTAGTTCATATAACATAGAATTTAACTTACCATTTAGTCACAATTTATG
35049571 T
1 T
35049572 AAGTAAACAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (59 bp):
TTTAAGCTTAGTAGTTCATATAACATAGAATTTAACTTACCATTTAGTCACAATTTATG
Found at i:35051019 original size:47 final size:47
Alignment explanation
Indices: 35050949--35051344 Score: 594
Period size: 47 Copynumber: 8.4 Consensus size: 47
35050939 CCCTTCGGGA
* * *
35050949 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
35050996 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
35051043 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * * * *
35051090 CTTATCACAGATATACGCTTTCACATTCATCACGTTGGCCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
35051137 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
35051184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
35051231 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
35051278 CATATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
35051325 CTTATCACATATACACACTT
1 CTTATCACATATATACACTT
35051345 GTACATCATT
Statistics
Matches: 316, Mismatches: 33, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 316 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:35051168 original size:25 final size:25
Alignment explanation
Indices: 35051140--35051218 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
35051130 ACTCGACCTT
35051140 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
35051165 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
35051187 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
35051212 ATCACAT
1 ATCACAT
35051219 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:35054268 original size:25 final size:25
Alignment explanation
Indices: 35054234--35054359 Score: 109
Period size: 25 Copynumber: 5.1 Consensus size: 25
35054224 GTACATGTAT
*
35054234 GCTCATACGAGCTGAGAATCAGTAA
1 GCTCTTACGAGCTGAGAATCAGTAA
* *
35054259 GCTCTCACGAGCT-ACAAT-AGGTAA
1 GCTCTTACGAGCTGAGAATCA-GTAA
* * *
35054283 GCT-TATAAGAGCTTAGAATCAGTAT
1 GCTCT-TACGAGCTGAGAATCAGTAA
*
35054308 GCTCTTACGAGCTGA-AATCGGTAA
1 GCTCTTACGAGCTGAGAATCAGTAA
* *
35054332 GCTCATATGAGCTGAGAAT-AGGTAA
1 GCTCTTACGAGCTGAGAATCA-GTAA
35054357 GCT
1 GCT
35054360 TGATCGCGTG
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
23 2 0.03
24 37 0.46
25 39 0.49
26 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (25 bp):
GCTCTTACGAGCTGAGAATCAGTAA
Found at i:35054318 original size:49 final size:49
Alignment explanation
Indices: 35054234--35054359 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 49
35054224 GTACATGTAT
*
35054234 GCTCATACGAGCTGAGAATCAGTAAGCTCTCACGAGCT-ACAATAGGTAA
1 GCTCATAAGAGCTGAGAATCAGTAAGCTCTCACGAGCTGA-AATAGGTAA
* * * * *
35054283 GCTTATAAGAGCTTAGAATCAGTATGCTCTTACGAGCTGAAATCGGTAA
1 GCTCATAAGAGCTGAGAATCAGTAAGCTCTCACGAGCTGAAATAGGTAA
*
35054332 GCTCATATGAGCTGAGAAT-AGGTAAGCT
1 GCTCATAAGAGCTGAGAATCA-GTAAGCT
35054360 TGATCGCGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.02
49 63 0.97
50 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (49 bp):
GCTCATAAGAGCTGAGAATCAGTAAGCTCTCACGAGCTGAAATAGGTAA
Found at i:35069674 original size:22 final size:22
Alignment explanation
Indices: 35069646--35069691 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
35069636 AATAGCTGCC
35069646 AACTCTAGGTCTTGTGTCAAAT
1 AACTCTAGGTCTTGTGTCAAAT
*
35069668 AACTCTAGGTCTTGTGTCGAAT
1 AACTCTAGGTCTTGTGTCAAAT
35069690 AA
1 AA
35069692 TTCTTTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (22 bp):
AACTCTAGGTCTTGTGTCAAAT
Found at i:35084528 original size:40 final size:39
Alignment explanation
Indices: 35084370--35084530 Score: 259
Period size: 39 Copynumber: 4.1 Consensus size: 39
35084360 GTGTATGAAT
*
35084370 TGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
1 TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
*
35084409 TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGG
1 TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
* *
35084448 TGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATTG
1 TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
* *
35084487 TGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTG
1 TGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAATTG
35084527 TGCG
1 TGCG
35084531 GGTTACCATA
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
Found at i:35084546 original size:40 final size:39
Alignment explanation
Indices: 35084370--35084561 Score: 249
Period size: 39 Copynumber: 4.9 Consensus size: 39
35084360 GTGTATGAAT
* *
35084370 TGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
1 TGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTG
* *
35084409 TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGG
1 TGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTG
*
35084448 TGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATTG
1 TGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTG
* * *
35084487 TGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTG
1 TGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAATTG
* ** * *
35084527 TGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
35084562 GTTTGAACGA
Statistics
Matches: 136, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 95 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTG
Found at i:35093891 original size:25 final size:25
Alignment explanation
Indices: 35093841--35093959 Score: 177
Period size: 25 Copynumber: 4.8 Consensus size: 25
35093831 CTCTTTTAAT
35093841 AACTGGGGCAAAGCCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35093865 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
35093890 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
35093915 AACTGGGGCAAAGCCCTTTCCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35093940 AACTGGGGCAAAACCCTTTT
1 AACTGGGGCAAAGCCCTTTT
35093960 AGCACTTCCT
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 20 0.23
25 67 0.77
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:35094195 original size:27 final size:27
Alignment explanation
Indices: 35094165--35094228 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
35094155 GGGGCAAAAT
35094165 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCCACAAGGGTATCTC
* * *
35094192 GGTAATTCTACCCCACAGGGGTATTTC
1 GGTAATTTTACCCCACAAGGGTATCTC
35094219 GGT-ATTTTAC
1 GGTAATTTTAC
35094229 AAATCGAGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTTTACCCCACAAGGGTATCTC
Found at i:35094306 original size:27 final size:27
Alignment explanation
Indices: 35094207--35094387 Score: 127
Period size: 27 Copynumber: 6.8 Consensus size: 27
35094197 TTCTACCCCA
* *
35094207 CAGGGGTATTTCGGT-ATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
* *** * *
35094233 C-GAGAGTATTTCAATAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
* *
35094260 CAAGGGTA-TTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAAAC
35094286 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * ** *
35094313 TAGGGATATTTTGGTAATTTTACTGAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
* **
35094340 C-GAAGGTATTTTGGTAATTTTGTAAAC
1 CAG-GGGTATTTTGGTAATTTTACAAAC
* **
35094367 CAAGGGTATTTTAATAATTTT
1 CAGGGGTATTTTGGTAATTTT
35094388 GTAATCAAGG
Statistics
Matches: 118, Mismatches: 31, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
25 1 0.01
26 30 0.25
27 87 0.74
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:35094377 original size:54 final size:53
Alignment explanation
Indices: 35094247--35094387 Score: 142
Period size: 54 Copynumber: 2.6 Consensus size: 53
35094237 AGTATTTCAA
* *
35094247 TAATTTCACAAATCAAGGGTA-TTTGGTAATTTTACAAGCCAGGGGTATTTTGG
1 TAATTTTACAAA-CAAGGGTATTTTGGTAATTTTACAAGCCAGAGGTATTTTGG
* * * *
35094300 TAATTTTACAAACTAGGGATATTTTGGTAATTTTACTGATCGA-AGGTATTTTGG
1 TAATTTTACAAACAAGGG-TATTTTGGTAATTTTAC-AAGCCAGAGGTATTTTGG
** **
35094354 TAATTTTGTAAACCAAGGGTATTTTAATAATTTT
1 TAATTTTACAAA-CAAGGGTATTTTGGTAATTTT
35094388 GTAATCAAGG
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
52 5 0.07
53 13 0.18
54 47 0.64
55 8 0.11
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (53 bp):
TAATTTTACAAACAAGGGTATTTTGGTAATTTTACAAGCCAGAGGTATTTTGG
Found at i:35094396 original size:26 final size:27
Alignment explanation
Indices: 35094344--35094400 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
35094334 ACTGATCGAA
**
35094344 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTAATAATTTTGTAAACCAAG
*
35094371 GGTATTTTAATAATTTTGT-AATCAAG
1 GGTATTTTAATAATTTTGTAAACCAAG
35094397 GGTA
1 GGTA
35094401 AAACGGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (27 bp):
GGTATTTTAATAATTTTGTAAACCAAG
Found at i:35094628 original size:27 final size:27
Alignment explanation
Indices: 35094381--35094615 Score: 332
Period size: 27 Copynumber: 8.8 Consensus size: 27
35094371 GGTATTTTAA
* * *
35094381 TAATTTTGT-AATCAAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
35094407 TAATTCTGTAAATTGATGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
35094434 TAATTCTGTAAATCGAGGGTAAACA--G
1 TAATTCTGTAAATCGAGGGTAAA-ATGG
35094460 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
35094487 TAATTCTGTAAATCGAGAGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
35094514 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
35094541 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
35094568 TAACTCTGTAAATCGAGGATAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
35094595 TAATTTTGTAAATCGAGGGTA
1 TAATTCTGTAAATCGAGGGTA
35094616 CTTTGGTAAT
Statistics
Matches: 187, Mismatches: 18, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
25 1 0.01
26 32 0.17
27 153 0.82
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAATGG
Found at i:35094846 original size:17 final size:17
Alignment explanation
Indices: 35094824--35094866 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
35094814 CACTTATCCA
35094824 ATTGGGCCCATAGGCCC
1 ATTGGGCCCATAGGCCC
*
35094841 ATTGGGCCCGTAGGCCC
1 ATTGGGCCCATAGGCCC
35094858 ATT-GGCCCA
1 ATTGGGCCCA
35094867 CATGGCCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.19
Consensus pattern (17 bp):
ATTGGGCCCATAGGCCC
Found at i:35099478 original size:37 final size:37
Alignment explanation
Indices: 35099435--35099509 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
35099425 CATATCCTAG
35099435 ACCTCATAATGATCATAAAATAATTATTTTAACATCA
1 ACCTCATAATGATCATAAAATAATTATTTTAACATCA
35099472 ACCTCATAATGATCATAAAATAATTATTTTAACATCA
1 ACCTCATAATGATCATAAAATAATTATTTTAACATCA
35099509 A
1 A
35099510 ATTTGTGGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.35
Consensus pattern (37 bp):
ACCTCATAATGATCATAAAATAATTATTTTAACATCA
Found at i:35101613 original size:45 final size:46
Alignment explanation
Indices: 35101564--35101733 Score: 168
Period size: 45 Copynumber: 3.7 Consensus size: 46
35101554 TGTTTGGGCA
*
35101564 TCCGAACTCGTTGAGTTGAGTCCGAG-TCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * ** *
35101609 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGAT-GA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * * *
35101655 TCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
35101701 TCC-AGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35101734 CGGGCGGGTT
Statistics
Matches: 98, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 57 0.58
46 37 0.38
47 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:35101715 original size:91 final size:91
Alignment explanation
Indices: 35101560--35101728 Score: 259
Period size: 91 Copynumber: 1.9 Consensus size: 91
35101550 AGGATGTTTG
* *
35101560 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
35101625 TGAGTCCGAGTTCGAGAGATGAACTA
66 TGAGTCCGAGTTCGAGAGATGAACTA
* * * * *
35101651 GGCATCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCC-AGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAG-TCACTTATGGATGCAAACGTCCGAACTCATTGAG
35101715 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
35101729 ACTTACGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
91 50 0.71
92 20 0.29
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (91 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGAGAGATGAACTA
Found at i:35105400 original size:49 final size:49
Alignment explanation
Indices: 35105343--35105574 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
35105333 CTTATACGCA
*
35105343 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
35105392 TAGTAGCCTGCACTTTGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
35105442 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* * * *
35105493 TAGTAGCCTGCATTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
35105542 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
35105575 TCACAATAGA
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 71 0.46
50 46 0.30
51 36 0.24
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:35110230 original size:46 final size:46
Alignment explanation
Indices: 35110175--35110305 Score: 226
Period size: 46 Copynumber: 2.8 Consensus size: 46
35110165 GATATTTGGG
*
35110175 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
35110221 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
35110267 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35110306 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:35112008 original size:28 final size:28
Alignment explanation
Indices: 35111943--35112041 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
35111933 CATGAGATTG
* * *
35111943 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGAGTTCGA-TTATATA
*
35111972 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCGATTATATA
*
35112000 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTCGATTATAT-A
35112028 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35112042 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.70
29 18 0.29
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGATTATATA
Found at i:35134212 original size:23 final size:23
Alignment explanation
Indices: 35134186--35134231 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
35134176 CATTCTCTTG
35134186 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACTATGC
* * *
35134209 TCATTCTCATGCTATTACTATGC
1 TCATACCCATGCCATTACTATGC
35134232 CAATGTCACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.30, G:0.09, T:0.37
Consensus pattern (23 bp):
TCATACCCATGCCATTACTATGC
Found at i:35141752 original size:38 final size:38
Alignment explanation
Indices: 35141701--35141781 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
35141691 ATATTTGATG
* * *
35141701 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGAGTTAAATCCCGCAGGCCTAGTGCTGGTAT
* *
35141739 TATATCCGAGTTAAATCCTGCAGGCCTAGTGTTGGTAT
1 TATATCCGAGTTAAATCCCGCAGGCCTAGTGCTGGTAT
35141777 TATAT
1 TATAT
35141782 TCAGGCCTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (38 bp):
TATATCCGAGTTAAATCCCGCAGGCCTAGTGCTGGTAT
Found at i:35141819 original size:25 final size:25
Alignment explanation
Indices: 35141791--35141864 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
35141781 TTCAGGCCTT
35141791 TGAGCCTAGCAGGCTATTATGCCGG
1 TGAGCCTAGCAGGCTATTATGCCGG
** **
35141816 TGAG---A-CA--CTATTCGGGCCTT
1 TGAGCCTAGCAGGCTATT-ATGCCGG
35141836 TGAGCCTAGCAGGCTATTATGCCGG
1 TGAGCCTAGCAGGCTATTATGCCGG
35141861 TGAG
1 TGAG
35141865 ACACTATTCG
Statistics
Matches: 34, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
19 5 0.15
20 7 0.21
21 2 0.06
22 1 0.03
23 1 0.03
24 2 0.06
25 11 0.32
26 5 0.15
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (25 bp):
TGAGCCTAGCAGGCTATTATGCCGG
Found at i:35141834 original size:45 final size:45
Alignment explanation
Indices: 35141779--35142073 Score: 362
Period size: 45 Copynumber: 6.6 Consensus size: 45
35141769 GTTGGTATTA
*
35141779 TATTCAGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
35141824 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* * *
35141869 TATTCGGGCCTTTGAGCCTAGTAGGCTATTATGCCAGTGAGACAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* * * * * * * *
35141914 TATTCAGACCTTTAAGCCTAGCAGGCTATGATGCCAGTAAAATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* * *
35141959 TATTCGGGCCTTTGACCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* * * *
35142004 TATTCAGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATTATGCCGGTGAGA-CAC
* *
35142049 TAATCGGGCC-TCGAGCCTAGCAGGC
1 TATTCGGGCCTTTGAGCCTAGCAGGC
35142074 AAAATGTCGG
Statistics
Matches: 219, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
44 17 0.08
45 200 0.91
46 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
Found at i:35152193 original size:28 final size:28
Alignment explanation
Indices: 35152161--35152225 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
35152151 ATTTACTAGA
*
35152161 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
35152189 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
35152217 ATACCCCTA
1 ATACCCCTA
35152226 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:35152432 original size:29 final size:28
Alignment explanation
Indices: 35152331--35152421 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
35152321 AGGAAGCGTC
35152331 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
* *
35152359 CTGGTGGCCCTGCCACAAATTATCTATT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
35152387 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
35152416 CTGGTG
1 CTGGTG
35152422 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:35159739 original size:8 final size:8
Alignment explanation
Indices: 35159726--35159757 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
35159716 CTAGATCGGC
35159726 AAAAGCCG
1 AAAAGCCG
35159734 AAAAGCCG
1 AAAAGCCG
*
35159742 AAATGCCG
1 AAAAGCCG
35159750 AAAAGCCG
1 AAAAGCCG
35159758 GTATTTTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:35160036 original size:28 final size:28
Alignment explanation
Indices: 35160004--35160068 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
35159994 ATTTACTAGA
*
35160004 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
35160032 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
35160060 ATACCCCTA
1 ATACCCCTA
35160069 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:35160216 original size:28 final size:28
Alignment explanation
Indices: 35160183--35160263 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 28
35160173 CTAGTGGCTA
* *
35160183 TGCCACAAGTTATCTGTTCTGGTGGCCC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
*
35160211 TGCCACAAATTATCTGTTCTAGTGGCAC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
*
35160239 TGCCACAAAATATCTGTATCTGGTG
1 TGCCACAAATTATCTGT-TCTGGTG
35160264 ACTCTGTCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 41 0.87
29 6 0.13
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAATTATCTGTTCTGGTGGCAC
Found at i:35161622 original size:30 final size:30
Alignment explanation
Indices: 35161576--35161636 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
35161566 TTCCCGAGAA
* *
35161576 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAATGTAATTATGCAAAAGTT
* *
35161606 TAGGGGAAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAATGTAATTATGCAAAAGTT
35161636 T
1 T
35161637 GTATTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAATGTAATTATGCAAAAGTT
Found at i:35163880 original size:27 final size:27
Alignment explanation
Indices: 35163849--35163905 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
35163839 TTGGTCAATT
35163849 TGGCAAGTATGGATTTTGGGATATATG
1 TGGCAAGTATGGATTTTGGGATATATG
35163876 TGGCAAGTATGGATTTTGGGATATATG
1 TGGCAAGTATGGATTTTGGGATATATG
35163903 TGG
1 TGG
35163906 TGTTATGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.04, G:0.35, T:0.37
Consensus pattern (27 bp):
TGGCAAGTATGGATTTTGGGATATATG
Found at i:35166969 original size:17 final size:19
Alignment explanation
Indices: 35166941--35166981 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
35166931 CAAGGCCATT
35166941 ATGGGTTGTGTGGG-CCAC
1 ATGGGTTGTGTGGGTCCAC
35166959 ATGGG-TGTGTGGGTCCAC
1 ATGGGTTGTGTGGGTCCAC
35166977 ATGGG
1 ATGGG
35166982 CCTGCAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.12, C:0.15, G:0.46, T:0.27
Consensus pattern (19 bp):
ATGGGTTGTGTGGGTCCAC
Found at i:35167129 original size:27 final size:27
Alignment explanation
Indices: 35167099--35167154 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
35167089 CCCCTAATTA
*
35167099 ATAAAATAACTGTTATGCCCCTATGTG
1 ATAAAATAACTATTATGCCCCTATGTG
* *
35167126 ATAAAATGATTATTATGCCCCTATGTG
1 ATAAAATAACTATTATGCCCCTATGTG
35167153 AT
1 AT
35167155 GTATGATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (27 bp):
ATAAAATAACTATTATGCCCCTATGTG
Found at i:35170159 original size:27 final size:27
Alignment explanation
Indices: 35170129--35170184 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
35170119 ATCTCATATA
* *
35170129 TGTAGGCTAGTATTACTGAAATGCCCT
1 TGTAGGCTAGAATTACTGAAATACCCT
*
35170156 TGTAGGGTAGAATTACTGAAATACCCT
1 TGTAGGCTAGAATTACTGAAATACCCT
35170183 TG
1 TG
35170185 GTTTACAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (27 bp):
TGTAGGCTAGAATTACTGAAATACCCT
Found at i:35170567 original size:27 final size:27
Alignment explanation
Indices: 35170173--35170569 Score: 221
Period size: 27 Copynumber: 14.7 Consensus size: 27
35170163 TAGAATTACT
* **
35170173 GAAATACCCTTGGTTTACAAAATTA-C
1 GAAATACCCTTGATTTGTAAAATTATC
* * * * *
35170199 TG-AATACCTTTGGTTTATAAAATCACC
1 -GAAATACCCTTGATTTGTAAAATTATC
* * * * * *
35170226 AAAATACCCTCGATTAGCAAAACTACC
1 GAAATACCCTTGATTTGTAAAATTATC
* *
35170253 AAAATACCCCT-AGTTTGTAAAATTATC
1 GAAATACCCTTGA-TTTGTAAAATTATC
* * * *
35170280 AAAATACCCCTGGTTTGTAAAATTACC
1 GAAATACCCTTGATTTGTAAAATTATC
* ** *
35170307 AAAATACCCTTGACCTGTAAAATTATT
1 GAAATACCCTTGATTTGTAAAATTATC
* ** *
35170334 GAAATACCCTCGACCTATAAAATTATC
1 GAAATACCCTTGATTTGTAAAATTATC
* * * * *
35170361 GAAACACCCTCGATTAGGAAAATTACC
1 GAAATACCCTTGATTTGTAAAATTATC
* * * *
35170388 GAAATACCCTCGATTAGGAAAATTACC
1 GAAATACCCTTGATTTGTAAAATTATC
* *
35170415 GAAACACCCTTGATTTGGAAAATTATC
1 GAAATACCCTTGATTTGTAAAATTATC
*
35170442 GAAATACACTTGATTTAG-AAAATTA-C
1 GAAATACCCTTGATTT-GTAAAATTATC
* * * ** *
35170468 AAAAATACCCCTAATTTACAAAATTATA
1 -GAAATACCCTTGATTTGTAAAATTATC
**
35170496 GAAATACCCTTGACTTTCAAAAATTA-C
1 GAAATACCCTTGA-TTTGTAAAATTATC
* * *
35170523 AAAAATACCATTGGTTTGTAAAATTATC
1 -GAAATACCCTTGATTTGTAAAATTATC
* *
35170551 GAAATAACCTTGGTTTGTA
1 GAAATACCCTTGATTTGTA
35170570 GATTTACCAA
Statistics
Matches: 295, Mismatches: 64, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
26 22 0.07
27 251 0.85
28 22 0.07
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (27 bp):
GAAATACCCTTGATTTGTAAAATTATC
Found at i:35170888 original size:41 final size:41
Alignment explanation
Indices: 35170831--35170946 Score: 178
Period size: 41 Copynumber: 2.8 Consensus size: 41
35170821 GAAGAAATTG
* *
35170831 AGGATCGCATGGTTGCTTGACGACCATGGATCCACTGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
*
35170872 AGGATCGCATGGTTGCTTGACGGCCGTGGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* * *
35170913 AGGATCACATGGTTGCTTGATGACTGTGGATCCA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCA
35170947 TCGGTGGCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:35171135 original size:22 final size:22
Alignment explanation
Indices: 35171096--35171155 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
35171086 TTATTCTGAT
* * *
35171096 TATGGCTTTGCGCTAACCTACA
1 TATGGCTCTGTGCCAACCTACA
**
35171118 TATGGCTCTGTGCCAACCTAGT
1 TATGGCTCTGTGCCAACCTACA
* *
35171140 TATAGCTGTGTGCCAA
1 TATGGCTCTGTGCCAA
35171156 ACGTATTTGC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTACA
Found at i:35175000 original size:40 final size:39
Alignment explanation
Indices: 35174963--35175145 Score: 212
Period size: 40 Copynumber: 4.7 Consensus size: 39
35174953 GCTACTCGTT
* *
35174963 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* * *
35175003 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
35175043 CAAATGCCTTCGGG-CTTAGCCCGGATTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
35175081 CAAATG-CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
35175121 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35175146 CATCATTCGA
Statistics
Matches: 122, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
36 2 0.02
37 4 0.03
38 28 0.23
39 17 0.14
40 67 0.55
41 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:35175123 original size:78 final size:80
Alignment explanation
Indices: 35174963--35175145 Score: 232
Period size: 78 Copynumber: 2.3 Consensus size: 80
35174953 GCTACTCGTT
* * *
35174963 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
35175028 ATTTAGTAACTCACA
66 ATATAGTAACTCACA
* **
35175043 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGTACAAATG-CTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
35175104 GATATAGTCACTTAGCA
65 GATATAGTAACTCA-CA
35175121 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35175146 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
76 3 0.03
77 31 0.34
78 33 0.36
79 10 0.11
80 14 0.15
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTCACA
Found at i:35181058 original size:40 final size:40
Alignment explanation
Indices: 35180999--35181185 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
35180989 CATTGGAATG
* * * *
35180999 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
35181039 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
35181079 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
35181119 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
35181159 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
35181186 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:35181101 original size:80 final size:80
Alignment explanation
Indices: 35180999--35181152 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
35180989 CATTGGAATG
* * ** *
35180999 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
35181064 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
35181079 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
35181144 ATCGTGCGA
66 ATCGTGCGA
35181153 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:35181167 original size:80 final size:80
Alignment explanation
Indices: 35181003--35181185 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
35180993 GGAATGATAT
* ** * *
35181003 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
35181068 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
35181083 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
35181148 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
35181163 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
35181186 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:35181205 original size:80 final size:80
Alignment explanation
Indices: 35181003--35181220 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
35180993 GGAATGATAT
* * * * * * * *
35181003 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
35181067 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
35181083 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
35181148 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
35181163 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
35181221 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:35189093 original size:40 final size:40
Alignment explanation
Indices: 35189034--35189185 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
35189024 CATTGGAATG
* * * *
35189034 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
35189074 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* * **
35189114 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * *
35189154 AAATCCGGGTTAAGACCCGAAGGCAATCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
35189186 GAATCACTAT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.03
40 89 0.95
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:35189168 original size:80 final size:80
Alignment explanation
Indices: 35189034--35189187 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
35189024 CATTGGAATG
* * * ** *
35189034 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
35189099 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
35189114 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
35189179 ATCGTGCGA
66 ATCGTGCGA
35189188 ATCACTATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCAAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:35198255 original size:48 final size:47
Alignment explanation
Indices: 35198112--35198292 Score: 174
Period size: 48 Copynumber: 3.9 Consensus size: 47
35198102 ATTCGGTTAT
* *
35198112 ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTA-A-AT-
1 ATATTGGCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATA
** * * * *
35198156 ATATTGGCA-TTAAGTGTGCGAGA-CCAGATAACTTCAGTTATATACA
1 ATATTGGCACTT-AGTGTGCGAGATTGAGATAGCTTCGGCTATATATA
* *
35198202 TATATTGGCACTTAGAGTGCGTGATTGAGATAGCTTCGGCTATATATA
1 -ATATTGGCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATA
* * * *
35198250 CATATTGGCACTTAGTGTGCAAGATTGATATATCTTCGACTAT
1 -ATATTGGCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTAT
35198293 TTATTTGGCA
Statistics
Matches: 108, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
43 13 0.12
44 21 0.19
45 1 0.01
47 18 0.17
48 55 0.51
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (47 bp):
ATATTGGCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATA
Found at i:35200145 original size:40 final size:40
Alignment explanation
Indices: 35200083--35200327 Score: 260
Period size: 40 Copynumber: 6.1 Consensus size: 40
35200073 GGATACGACC
* *
35200083 GATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCG
* * * *
35200123 GATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* * *
35200163 GATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* * *
35200203 GATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* * * *
35200243 GATGTAGTC-ACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 GATATA-ACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
** * * * *
35200283 GATATAATTACCAGCATAAATGTCTTCGGGACTTAGCCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
35200323 GATAT
1 GATAT
35200328 CATTCAATTG
Statistics
Matches: 176, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 175 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:35200310 original size:120 final size:120
Alignment explanation
Indices: 35200096--35200325 Score: 304
Period size: 120 Copynumber: 1.9 Consensus size: 120
35200086 ATAACCACAT
* *
35200096 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACC
* * *
35200161 CGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTC
66 CGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAACAACTC
* * *
35200216 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAATTGCCTTCGGGTCTTAA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAATGCCTTCGGGTATTAA
** * *
35200279 CCCGGATATAATTAC-CAGCATAAATGTCTTCGGGACTTAGCCCGGAT
64 CCCGGATATAACAACTC-GCACAAATGCCTTCGGGACTTAGCCCGGAT
35200326 ATCATTCAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
118 1 0.01
119 3 0.03
120 91 0.96
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACC
CGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAACAACTC
Found at i:35207506 original size:42 final size:42
Alignment explanation
Indices: 35207395--35207548 Score: 193
Period size: 42 Copynumber: 3.6 Consensus size: 42
35207385 TACCGTACCA
* *
35207395 ATGCCATATCCTAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AAGTCTCATATCG
* *
35207437 ATGCCAATAGCCCAGCTATGGTCTTACATGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
* * *
35207480 ATGCCATATCCCAGATATGGTTTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
* * *
35207522 ATGTCATATCCTAGATATGGTTTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
35207549 CGTAGTCTTA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
42 64 0.65
43 35 0.35
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
Found at i:35210411 original size:47 final size:47
Alignment explanation
Indices: 35210357--35210512 Score: 178
Period size: 47 Copynumber: 3.3 Consensus size: 47
35210347 GGCGTCCAAA
35210357 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
* * * *
35210404 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAG
* * *
35210450 CTCGTTGAGCTGAGTCCGAGTTCGTGAAATGTAATTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
35210497 CTCGTTGAGTTGAGTC
1 CTCGTTGAGTTGAGTC
35210513 TAAGTTCACT
Statistics
Matches: 88, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 3 0.03
46 27 0.31
47 43 0.49
48 3 0.03
50 4 0.05
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
Found at i:35210465 original size:46 final size:46
Alignment explanation
Indices: 35210398--35210573 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
35210388 TAACTAGGCA
* *
35210398 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
* * * * * * *
35210444 TCCGAACTCGTTGAGCTGAGTCCGAGTTC-GTGAAATGTAATTAG-GCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GATGAGAACG
* ** *
35210491 TCCGAGCTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
* * *
35210537 CCCGAACTCGTTGAGTTGAGTTCGAGTTCTCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35210574 GCGGGTTACA
Statistics
Matches: 99, Mismatches: 26, Indels: 10
0.73 0.19 0.07
Matches are distributed among these distances:
45 4 0.04
46 62 0.63
47 29 0.29
48 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
Found at i:35210508 original size:93 final size:93
Alignment explanation
Indices: 35210349--35210565 Score: 353
Period size: 93 Copynumber: 2.3 Consensus size: 93
35210339 AATATTTGGG
* *
35210349 CGTCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGT
1 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAGCTCGTTGAGT
*
35210414 TGAGTCCGAGTTCACTTATGGATGCGAA
66 TGAGTCCAAGTTCACTTATGGATGCGAA
* *
35210442 CGTCCGAACTCGTTGAGCTGAGTCCGAGTTCGTGAAATGTAATTAGGCATCCGAGCTCGTTGAGT
1 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAGCTCGTTGAGT
* *
35210507 TGAGTCTAAGTTCACTTATGGATGTGAA
66 TGAGTCCAAGTTCACTTATGGATGCGAA
* *
35210535 CGCCCGAACTCGTTGAGTTGAGTTCGAGTTC
1 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
35210566 TCTTATGGGC
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 114 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAGCTCGTTGAGT
TGAGTCCAAGTTCACTTATGGATGCGAA
Found at i:35214655 original size:49 final size:49
Alignment explanation
Indices: 35214596--35215325 Score: 567
Period size: 49 Copynumber: 14.5 Consensus size: 49
35214586 GTATGAGATG
35214596 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
35214645 TATATCTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
35214694 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * *
35214741 TGTATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * *
35214790 TATATTTGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * *
35214839 TATATATGTGATAAGGCCTAATGGCTGACGTGACGAATGTGAAAATGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* ** * * * * * *
35214888 TATATATGTGATAATGTATATATATG-TGATAAGGCCTAATGGCCGACGTGACGAATGTGAA
1 TATATATGTGATAAGGCCTA-AT-GGCCGAT---G--TGAT-G--AATGTGA--AA-GTGTA
* * * * * * *
35214949 AATGTATAT-ATATGTG-ATAA-GGCCTAATGGCCGACGTGACGAATGTGAAAGTGTA
1 TATATATGTGATAAG-GCCTAATGG--------CCGATGTGATGAATGTGAAAGTGTA
* * * * * *
35215004 TATATATGTGATAAGG-ATATATATG-TGATAAG-GCCT-AATG-GCCGACGTG-A
1 TATATATGTGATAAGGCCTA-AT-GGCCGAT--GTG-ATGAATGTG--AAAGTGTA
** ** * * * *
35215054 -CGA-ATGTGA-AAGTGTATATATATG-TGATAAGGCTGACGAATGTGAAAGTGTC
1 TATATATGTGATAAG-GCCTA-AT-GGCCGAT---G-TGATGAATGTGAAAGTGTA
*
35215106 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
35215155 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-TGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
35215203 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
35215252 TATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTGAAAATGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
35215301 TATATATGTGATAAAGCCGAATGGC
1 TATATATGTGATAAGGCCTAATGGC
35215326 TAATGTGAAT
Statistics
Matches: 566, Mismatches: 68, Indels: 94
0.78 0.09 0.13
Matches are distributed among these distances:
47 47 0.08
48 53 0.09
49 355 0.63
50 14 0.02
51 10 0.02
52 6 0.01
53 8 0.01
54 9 0.02
55 19 0.03
56 8 0.01
57 1 0.00
58 11 0.02
59 1 0.00
60 9 0.02
61 12 0.02
63 1 0.00
66 2 0.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:35214908 original size:67 final size:67
Alignment explanation
Indices: 35214826--35214968 Score: 268
Period size: 67 Copynumber: 2.1 Consensus size: 67
35214816 GACGTGACGA
* *
35214826 ATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCTGACGTGACGAATGTGAAAATGTATAT
1 ATGTGATAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATAT
35214891 AT
66 AT
35214893 ATGTGATAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATAT
1 ATGTGATAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATAT
35214958 AT
66 AT
35214960 ATGTGATAA
1 ATGTGATAA
35214969 GGCCTAATGG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 74 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (67 bp):
ATGTGATAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATAT
AT
Found at i:35214916 original size:116 final size:116
Alignment explanation
Indices: 35214777--35215086 Score: 559
Period size: 116 Copynumber: 2.7 Consensus size: 116
35214767 GACGTGATGA
* *
35214777 ATGTGAAAATGTATATATTTGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATAT
1 ATGTGATAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATAT
*
35214842 ATATGTGATAAGGCCTAATGGCTGACGTGACGAATGTGAAAATGTATATAT
66 ATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATATAT
35214893 ATGTGATAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATAT
1 ATGTGATAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATAT
*
35214958 ATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAGTGTATATAT
66 ATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATATAT
* *
35215009 ATGTGATAA-GGATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAGTGTATAT
1 ATGTGATAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATAT
35215073 ATATGTGATAAGGC
66 ATATGTGATAAGGC
35215087 TGACGAATGT
Statistics
Matches: 188, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
115 67 0.36
116 121 0.64
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (116 bp):
ATGTGATAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATAT
ATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATATAT
Found at i:35214917 original size:18 final size:18
Alignment explanation
Indices: 35214875--35214919 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
35214865 GACGTGACGA
*
35214875 ATGTGAAAATGTATATAT
1 ATGTGATAATGTATATAT
35214893 ATGTGATAATGTATATAT
1 ATGTGATAATGTATATAT
35214911 ATGTGATAA
1 ATGTGATAA
35214920 GGCCTAATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (18 bp):
ATGTGATAATGTATATAT
Found at i:35215026 original size:19 final size:17
Alignment explanation
Indices: 35215003--35215036 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35214993 GTGAAAGTGT
35215003 ATATATATGTGATAAGG
1 ATATATATGTGATAAGG
35215020 ATATATATGTGATAAGG
1 ATATATATGTGATAAGG
35215037 CCTAATGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (17 bp):
ATATATATGTGATAAGG
Found at i:35215060 original size:66 final size:66
Alignment explanation
Indices: 35214954--35215085 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
35214944 GTGAAAATGT
35214954 ATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAGTGTATATATATGTGATAAG
1 ATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAGTGTATATATATGTGATAAG
35215019 G
66 G
35215020 ATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAGTGTATATATATGTGATAAG
1 ATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAGTGTATATATATGTGATAAG
35215085 G
66 G
35215086 CTGACGAATG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (66 bp):
ATATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAGTGTATATATATGTGATAAG
G
Found at i:35215098 original size:36 final size:36
Alignment explanation
Indices: 35215051--35215122 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
35215041 ATGGCCGACG
35215051 TGACGAATGTGAAAGTGTATATATATGTGATAAGGC
1 TGACGAATGTGAAAGTGTATATATATGTGATAAGGC
*
35215087 TGACGAATGTGAAAGTGTCTATATATGTGATAAGGC
1 TGACGAATGTGAAAGTGTATATATATGTGATAAGGC
35215123 CTAATGGCCG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (36 bp):
TGACGAATGTGAAAGTGTATATATATGTGATAAGGC
Found at i:35215114 original size:18 final size:18
Alignment explanation
Indices: 35215057--35215116 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
35215047 GACGTGACGA
*
35215057 ATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTCTATAT
*
35215075 ATGTGATAAG-G-CTGACGA-
1 ATGTGA-AAGTGTCT-A-TAT
35215093 ATGTGAAAGTGTCTATAT
1 ATGTGAAAGTGTCTATAT
35215111 ATGTGA
1 ATGTGA
35215117 TAAGGCCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
17 5 0.15
18 22 0.67
19 6 0.18
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (18 bp):
ATGTGAAAGTGTCTATAT
Found at i:35215208 original size:182 final size:177
Alignment explanation
Indices: 35214727--35215268 Score: 660
Period size: 182 Copynumber: 3.0 Consensus size: 177
35214717 GCCGATGTGA
*
35214727 TGAATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATA
* * *
35214792 TATTTGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATATATATGTGATAAGGCC
66 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAATGTATATATATGTGATAAGGCC
*
35214857 TAATGGCTGACGTGACGAATGTGAAAATGTATATATATGTG---A---
130 TAATGGCCGACGTGACGAATGTGAAAATGTATATATATGTGATAAGGC
*
35214899 T-AATGT---A---TATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATA
* *
35214957 TATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAGTGTATATATATGTGATAAGGAT
66 TATATGTGATAAGGCCTAATGGCCGA--TG-TG-A--TG-AA-TGT-GA-A-A--TG-T----AT
*
35215022 ATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAGTGTATATATATGTGATAAGGC
113 ATATATGTGATAAGGCCTAATGGCCGACGTGACGAATGTGAAAATGTATATATATGTGATAAGGC
* *
35215087 TGACGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 T---GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAAT
*
35215152 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATGTATATATATGTGATAA
61 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATGTATATATATGTGATAA
*
35215217 GGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
126 GGCCTAATGGCCGACGTGACGAATGTGAAAATGTATATATATGTGATAAGGC
35215269 CTAATGGCCG
Statistics
Matches: 317, Mismatches: 17, Indels: 62
0.80 0.04 0.16
Matches are distributed among these distances:
165 74 0.23
167 1 0.00
168 2 0.01
169 1 0.00
171 6 0.02
172 3 0.01
173 4 0.01
174 1 0.00
175 1 0.00
177 2 0.01
178 1 0.00
182 123 0.39
185 1 0.00
186 1 0.00
187 2 0.01
188 1 0.00
189 1 0.00
190 1 0.00
191 1 0.00
192 8 0.03
193 2 0.01
194 2 0.01
195 1 0.00
196 1 0.00
197 1 0.00
198 2 0.01
200 73 0.23
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (177 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATA
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATGTATATATATGTGATAAGGCCT
AATGGCCGACGTGACGAATGTGAAAATGTATATATATGTGATAAGGC
Found at i:35215429 original size:37 final size:37
Alignment explanation
Indices: 35215388--35215460 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
35215378 TTCCGAGTGA
35215388 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAC
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAC
35215425 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
35215461 AGACTTCGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.25
Consensus pattern (37 bp):
GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAC
Found at i:35220698 original size:47 final size:47
Alignment explanation
Indices: 35220639--35220795 Score: 153
Period size: 47 Copynumber: 3.4 Consensus size: 47
35220629 TGTGCGTCCA
*
35220639 AACTTGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
* * * * *
35220686 AACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAAC---G--TCCA
1 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
* *
35220732 AACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAATTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
* *
35220779 AGCTAGTTGAGTTGAGT
1 AACTCGTTGAGTTGAGT
35220796 TCAAGTTCAC
Statistics
Matches: 86, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 3 0.03
46 27 0.31
47 41 0.48
48 3 0.03
50 4 0.05
51 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
Found at i:35220792 original size:93 final size:93
Alignment explanation
Indices: 35220633--35220850 Score: 301
Period size: 93 Copynumber: 2.3 Consensus size: 93
35220623 AATATTTGTG
* * *
35220633 CGTCCAAACTTGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGT
1 CGTCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTAGTTGAGT
* * *
35220698 TGAATCCGAGTTCACTTATGGATGCGAA
66 TGAATCCAAGTTCACTTATAGATGCAAA
* *
35220726 CGTCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAATTAGGCATCCGAGCTAGTTGAGT
1 CGTCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTAGTTGAGT
* *
35220791 TGAGTTCAAGTTCACTTATAGATGCAAA
66 TGAATCCAAGTTCACTTATAGATGCAAA
*** * *
35220819 AACCCGAACGCGTTGAGTTGAGTCCGAGTTCG
1 CGTCCAAACTCGTTGAGTTGAGTCCGAGTTCG
35220851 CTTATGGGCG
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 110 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (93 bp):
CGTCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTAGTTGAGT
TGAATCCAAGTTCACTTATAGATGCAAA
Found at i:35227962 original size:43 final size:43
Alignment explanation
Indices: 35227870--35227964 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
35227860 AAATTAAAAA
* * **
35227870 TGATGCCAATGTCCCAGACATGGTCTTACACGTAATCTTTAGT
1 TGATGCCAATGTCCCAAACACGGTCTTACACGTAATCTCAAGT
** *
35227913 CAATGCCAGTGTCCCAAACACGGTCTTACACG-ATATCTCAAGT
1 TGATGCCAATGTCCCAAACACGGTCTTACACGTA-ATCTCAAGT
35227956 TGATGCCAA
1 TGATGCCAA
35227965 CATCCCAGAT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
42 1 0.02
43 40 0.98
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
TGATGCCAATGTCCCAAACACGGTCTTACACGTAATCTCAAGT
Found at i:35229814 original size:40 final size:39
Alignment explanation
Indices: 35229770--35229895 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
35229760 GGGACTCAAC
*
35229770 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
35229810 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
35229850 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
35229890 CCGGAT
1 CCGGAT
35229896 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:35236745 original size:43 final size:43
Alignment explanation
Indices: 35236684--35236770 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
35236674 AATTTCATTG
35236684 TAACATTTTACGGATAAGGGGGTAAGGGTAGTAAAGCCTCAAA
1 TAACATTTTACGGATAAGGGGGTAAGGGTAGTAAAGCCTCAAA
35236727 TAACATTTTACGGATAAGGGGGTAAGGGTAGTAAAGCCTCAAA
1 TAACATTTTACGGATAAGGGGGTAAGGGTAGTAAAGCCTCAAA
35236770 T
1 T
35236771 TTAACTCTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.24
Consensus pattern (43 bp):
TAACATTTTACGGATAAGGGGGTAAGGGTAGTAAAGCCTCAAA
Found at i:35239273 original size:43 final size:44
Alignment explanation
Indices: 35239185--35239277 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 44
35239175 AATTAAATAT
** *
35239185 GATGCC-GATGTCCCAGACATGGTCTTACACATAATCTTTAATC
1 GATGCCAGATGTCCCAGACACAGTCTTACACATAATCTTCAATC
35239228 GATGCCAG-TGTCCCAGACACAGTCTTACACGAT-ATC-TCAAGTC
1 GATGCCAGATGTCCCAGACACAGTCTTACAC-ATAATCTTCAA-TC
35239271 GATGCCA
1 GATGCCA
35239278 ACATCCTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
42 3 0.07
43 38 0.86
44 3 0.07
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (44 bp):
GATGCCAGATGTCCCAGACACAGTCTTACACATAATCTTCAATC
Found at i:35244203 original size:13 final size:13
Alignment explanation
Indices: 35244185--35244210 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35244175 ATATATATGG
35244185 CTTTTTTTTTTTT
1 CTTTTTTTTTTTT
35244198 CTTTTTTTTTTTT
1 CTTTTTTTTTTTT
35244211 GATATTGGCT
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:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
CTTTTTTTTTTTT
Found at i:35245378 original size:36 final size:36
Alignment explanation
Indices: 35245331--35245403 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
35245321 TACTTAGTCA
35245331 CCCATCCCTTGAGACATTATTTGTTCATCATATAAG
1 CCCATCCCTTGAGACATTATTTGTTCATCATATAAG
35245367 CCCATCCCTTGAGACATTATTTGTTCATCATATAAG
1 CCCATCCCTTGAGACATTATTTGTTCATCATATAAG
35245403 C
1 C
35245404 TTATTGAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (36 bp):
CCCATCCCTTGAGACATTATTTGTTCATCATATAAG
Found at i:35247278 original size:25 final size:25
Alignment explanation
Indices: 35247250--35247332 Score: 64
Period size: 25 Copynumber: 3.3 Consensus size: 25
35247240 CATATAACAG
35247250 GAAGCTCATGTGAGCTAAGTAATGA
1 GAAGCTCATGTGAGCTAAGTAATGA
* * *
35247275 GAAGATCATATGAGCT--GTATATTAA
1 GAAGCTCATGTGAGCTAAGTA-A-TGA
* * *
35247300 GAAGCTCATGAGAG-TCAAGTATTGG
1 GAAGCTCATGTGAGCT-AAGTAATGA
35247325 GAAGCTCA
1 GAAGCTCA
35247333 AGAGAGTTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
23 3 0.07
24 2 0.05
25 36 0.82
27 3 0.07
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (25 bp):
GAAGCTCATGTGAGCTAAGTAATGA
Found at i:35250916 original size:40 final size:39
Alignment explanation
Indices: 35250751--35250934 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
35250741 AAATTGAATG
* * *
35250751 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
35250791 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
35250831 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
35250871 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
35250910 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
35250935 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:35250959 original size:80 final size:81
Alignment explanation
Indices: 35250791--35250979 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
35250781 GCTGGAAATT
* * * *
35250791 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
35250856 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
35250872 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
35250935 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
35250951 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
35250980 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:35259034 original size:40 final size:39
Alignment explanation
Indices: 35258869--35259052 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
35258859 AAATTGAATG
* * *
35258869 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
35258909 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
35258949 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
35258989 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
35259028 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
35259053 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:35259077 original size:80 final size:81
Alignment explanation
Indices: 35258909--35259097 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
35258899 GCTGGAAATT
* * * *
35258909 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
35258974 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
35258990 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
35259053 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
35259069 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
35259098 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:35260845 original size:20 final size:21
Alignment explanation
Indices: 35260820--35260859 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35260810 TTTTTGAAAT
*
35260820 AGGGC-ACACGTCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
35260840 AGGGCAACGCGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
35260860 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.17, C:0.28, G:0.42, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:35262194 original size:48 final size:47
Alignment explanation
Indices: 35262134--35262277 Score: 123
Period size: 48 Copynumber: 3.1 Consensus size: 47
35262124 AAGCTGACGC
* * *
35262134 CATGTCCTAGACAGGTATTACACTAGCTTGTATATCGCGAGGCCGATG
1 CATGTCC-AGACATGTATTACACTAGCTTATATATCTCGAGGCCGATG
* * * * * *
35262182 CATGTCTCAGACATGTCTTA-GCTAGC-TCTA-GTCTCAATGCCGATG
1 CATGTC-CAGACATGTATTACACTAGCTTATATATCTCGAGGCCGATG
* * * *
35262227 CATGTCCCAGACATATTTTACACTGGCTTAAATATCTCGAGGCCGATG
1 CATGT-CCAGACATGTATTACACTAGCTTATATATCTCGAGGCCGATG
35262275 CAT
1 CAT
35262278 ATCCCAAACG
Statistics
Matches: 74, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
45 27 0.36
46 8 0.11
47 7 0.09
48 31 0.42
49 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (47 bp):
CATGTCCAGACATGTATTACACTAGCTTATATATCTCGAGGCCGATG
Found at i:35264072 original size:16 final size:16
Alignment explanation
Indices: 35264051--35264085 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
35264041 ACAGTAAGAC
35264051 CATATTTGGGATATGG
1 CATATTTGGGATATGG
35264067 CATATTTGGGATATGG
1 CATATTTGGGATATGG
35264083 CAT
1 CAT
35264086 CCAGATGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.37
Consensus pattern (16 bp):
CATATTTGGGATATGG
Found at i:35267559 original size:40 final size:39
Alignment explanation
Indices: 35267514--35267643 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
35267504 CGGAATACAA
35267514 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
35267554 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * *
35267594 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
35267634 CCGGATATAA
1 CCGGATATAA
35267644 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:35275476 original size:40 final size:39
Alignment explanation
Indices: 35275431--35275559 Score: 179
Period size: 40 Copynumber: 3.3 Consensus size: 39
35275421 CGGAATACAA
35275431 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
35275471 CCGGATAGAACGACTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
* * *
35275510 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
35275550 CCGGATATAA
1 CCGGATATAA
35275560 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 38 0.49
40 40 0.51
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:35275489 original size:39 final size:39
Alignment explanation
Indices: 35275431--35275556 Score: 166
Period size: 39 Copynumber: 3.2 Consensus size: 39
35275421 CGGAATACAA
*
35275431 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
*
35275471 CCGGATAGAACGACTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCACTGCACGAATGCCTTCGGGTCTTAGC
* *
35275510 CCGGAT-GTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATAG-AACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
35275550 CCGGATA
1 CCGGATA
35275557 TAATTTCCAG
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
38 1 0.01
39 38 0.49
40 38 0.49
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CCGGATAGAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:35283434 original size:40 final size:40
Alignment explanation
Indices: 35283389--35283556 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
35283379 CGGAATACAA
35283389 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
35283429 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
35283469 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
35283509 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
35283549 CCGGATAT
1 CCGGATAT
35283557 CATTCAATTG
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 101 0.95
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:35285511 original size:30 final size:30
Alignment explanation
Indices: 35285477--35285533 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
35285467 TAATTCAAAA
35285477 TTTTGCAAAATTACAATTTTGCCCCTAAAC
1 TTTTGCAAAATTACAATTTTGCCCCTAAAC
* * *
35285507 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGCAAAATTACAATTTTGCCCCTA
35285534 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCTAAAC
Found at i:35290470 original size:37 final size:37
Alignment explanation
Indices: 35290417--35290538 Score: 208
Period size: 37 Copynumber: 3.3 Consensus size: 37
35290407 TATAAAAGAA
*
35290417 GTCTTACCCGGACATAATCTCCATACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCATACGTAGTCATCGG
35290454 GTCTTACCCGGTCATAATCTCCATACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCATACGTAGTCATCGG
* *
35290491 GTCTTACCCGATCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCATACGTAGTCATCGG
*
35290528 GTCTCACCCGG
1 GTCTTACCCGG
35290539 AACATATTCC
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 80 1.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCATACGTAGTCATCGG
Found at i:35290691 original size:49 final size:49
Alignment explanation
Indices: 35290638--35290999 Score: 652
Period size: 49 Copynumber: 7.4 Consensus size: 49
35290628 TTTTACATTA
* *
35290638 GCCATTAGGCCTTATCACATATACATAGACTTTCACATCCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
35290687 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
35290736 GCCATTAGGCCTTAACACATATACATACACTTTCACATCCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
35290785 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
35290834 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
35290883 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
35290932 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
35290981 GCCATTAGGCCTCATCACA
1 GCCATTAGGCCTTATCACA
35291000 CATATATGTA
Statistics
Matches: 302, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 302 1.00
ACGTcount: A:0.31, C:0.33, G:0.09, T:0.27
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:35299269 original size:21 final size:22
Alignment explanation
Indices: 35299234--35299281 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
35299224 TTCGACCATT
*
35299234 ATTTGACAATGATTCGACAGTG
1 ATTTGACAATGATTCGACACTG
* *
35299256 ATTTGA-ATTGATTCGACTCTG
1 ATTTGACAATGATTCGACACTG
35299277 ATTTG
1 ATTTG
35299282 GTATTGGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (22 bp):
ATTTGACAATGATTCGACACTG
Found at i:35306213 original size:48 final size:48
Alignment explanation
Indices: 35306091--35306414 Score: 228
Period size: 48 Copynumber: 6.7 Consensus size: 48
35306081 TATGTGCGCT
* * ** ** *
35306091 AGTGTAAGACAATGTCTGGGACATGGCGTCAACCACGA-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCAATATTGTGAGAGCC
* * * * * *
35306139 AATAG-AAGACCATGTTTGGAATATGGCATCAGCAATGTTGTGAGAGCC
1 AGT-GTAAGACCATGTCTGGGACATGGCATCGGCAATATTGTGAGAGCC
** * * *
35306187 AGTGTAAGATTATGTCTGGGACATGGCATCGGCATTGATATGTG-CA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT-AT-TGTGAGAGCC
* * * *
35306235 AGTGGAAGACCATGTCTGGGACAATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGAC-ATGGCATCGGCAATATTGTGAGAGCC
* * * *
35306284 AATGTAAAACCATGTCTGGGACATGGCATCGG-AAT-TGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATAT-TG-TGAGAGCC
* * ** *** *
35306332 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTTAACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATATTGTGAGAGCC
*
35306380 AGTGCAAGACCATGTCTGGGACATGGCATCGGCAA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
35306415 ATACCCTCTT
Statistics
Matches: 209, Mismatches: 55, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
46 1 0.00
47 8 0.04
48 161 0.77
49 35 0.17
50 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATATTGTGAGAGCC
Found at i:35306305 original size:97 final size:96
Alignment explanation
Indices: 35306179--35306413 Score: 301
Period size: 97 Copynumber: 2.4 Consensus size: 96
35306169 AGCAATGTTG
** * *
35306179 TGAGAGCCAGTGTAAGATTATGTCTGGGACATGGCATCGGCATTGATATGTGCA-CTAGTGGAAG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAG-AGCTAGTGGAAG
* * **
35306243 ACCATGTCTGGGACAATGGCATCGGCCACATTA
65 ACCATGTCTAGGAC-ATGGCATCAGCCACAACA
* * * *
35306276 TGAGAGCCAATGTAAAACCATGTCTGGGACATGGCATCGGAATTGAGATGAGAGCTAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGGAAGA
**
35306341 CCATGTCTAGGACATGGCATCAGCCTTAACA
66 CCATGTCTAGGACATGGCATCAGCCACAACA
* *
35306372 TGTGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCGGCA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
35306414 AATACCCTCT
Statistics
Matches: 118, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
96 51 0.43
97 67 0.57
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (96 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGGAAGA
CCATGTCTAGGACATGGCATCAGCCACAACA
Found at i:35306311 original size:145 final size:144
Alignment explanation
Indices: 35306078--35306412 Score: 383
Period size: 145 Copynumber: 2.3 Consensus size: 144
35306068 GACATTTGGG
* * * * **
35306078 TGATATGTGCGCTAGTGTAAGACAATGTCTGGGACATGGCGTCAACCACGATATGAGAGCCAATA
1 TGATATGTGCACTAGTGCAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAATA
* * * * ** *
35306143 GAAGACCATGTTTGGAATATGGCATCAGCAA-TGTTG-TGAGAGCCAGTGTAAGATTATGTCTGG
66 GAAAACCATGTCTGGAACATGGCATC-GCAATTG-AGATGAGAGCCAGTGTAAGACCATGTCTAG
*
35306206 GACATGGCATCGGCAT
129 GACATGGCATCAGCAT
*
35306222 TGATATGTGCACTAGTGGAAGACCATGTCTGGGACAATGGCATCGGCCAC-ATTATGAGAGCCAA
1 TGATATGTGCACTAGTGCAAGACCATGTCTGGGAC-ATGGCATCGGCCACGA-TATGAGAGCCAA
* * *
35306286 T-GTAAAACCATGTCTGGGACATGGCATCGGAATTGAGATGAGAGCTAGTGTAAGACCATGTCTA
64 TAG-AAAACCATGTCTGGAACATGGCATCGCAATTGAGATGAGAGCCAGTGTAAGACCATGTCTA
*
35306350 GGACATGGCATCAGCCT
128 GGACATGGCATCAGCAT
* * *
35306367 TAACATGTG-AGCCAGTGCAAGACCATGTCTGGGACATGGCATCGGC
1 TGATATGTGCA-CTAGTGCAAGACCATGTCTGGGACATGGCATCGGC
35306413 AAATACCCTC
Statistics
Matches: 163, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
144 50 0.31
145 113 0.69
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (144 bp):
TGATATGTGCACTAGTGCAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAATA
GAAAACCATGTCTGGAACATGGCATCGCAATTGAGATGAGAGCCAGTGTAAGACCATGTCTAGGA
CATGGCATCAGCAT
Found at i:35314266 original size:40 final size:40
Alignment explanation
Indices: 35314206--35314389 Score: 239
Period size: 40 Copynumber: 4.5 Consensus size: 40
35314196 ACCCAAGTAT
* * *
35314206 CTTCGGGATTTA-TCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
35314245 CTTCGGGTCTTAGCTCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
35314285 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
35314325 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
35314368 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
35314390 CATCCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 11 0.09
40 85 0.66
41 1 0.01
43 31 0.24
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:35316404 original size:29 final size:29
Alignment explanation
Indices: 35316363--35316465 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
35316353 CCTCCGAACT
** * * *
35316363 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * *
35316392 TGCACACTTAGTGCCAAATATTTCTAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
35316421 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
35316450 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
35316466 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:35324317 original size:29 final size:29
Alignment explanation
Indices: 35324284--35324386 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
35324274 CCTCCGAACT
** * * *
35324284 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
35324313 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
35324342 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
35324371 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
35324387 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:35334303 original size:40 final size:40
Alignment explanation
Indices: 35334259--35334401 Score: 200
Period size: 40 Copynumber: 3.6 Consensus size: 40
35334249 AACTTGCACA
* *
35334259 AATGCCTTCGGGTCTTAGCCCGGATATAACAATTCACACG
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTCACATG
*
35334299 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATG
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTCACATG
* *
35334339 AATGCCTTCGGGTCTTAGCCCAGATATAATC-ACT-AGCATA
1 AATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCA-CATG
*
35334379 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGTCTTAGCCCGG
35334402 GTATCATTCA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
40 92 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGTCTTAGCCCGGATATAACAACTCACATG
Found at i:35334321 original size:80 final size:80
Alignment explanation
Indices: 35334213--35334401 Score: 220
Period size: 80 Copynumber: 2.4 Consensus size: 80
35334203 TATAACCGCA
* * * *** *
35334213 AGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* *
35334278 CCGGATATAA-CAATT
66 CCAGATATAATC-ACT
* **
35334293 CA-CACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATGAATGCCTTCGGGTCTTAG
1 -AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAG
35334357 CCCAGATATAATCACT
65 CCCAGATATAATCACT
* *
35334373 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
35334402 GTATCATTCA
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
79 1 0.01
80 88 0.97
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
CCAGATATAATCACT
Found at i:35338397 original size:47 final size:48
Alignment explanation
Indices: 35338274--35338405 Score: 126
Period size: 47 Copynumber: 2.8 Consensus size: 48
35338264 GAATATATGA
* * ** * *
35338274 GAGCTAGTGTAAGACCATGTCTGGGACATGGGGTCGGCCTTAATTTTGAT
1 GAGCCAGTGTAAGACCATTTCTGGGACATGGCATC-GACTTAA-TTGGAT
* * * *
35338324 -AGTCAGTGTAAGACTATGTT-TAGGACATGGCATCGACTTGA-TGGAT
1 GAGCCAGTGTAAGACCAT-TTCTGGGACATGGCATCGACTTAATTGGAT
35338370 GAGCCAGTGTAAGACCATTTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATTTCTGGGACATGGCATCG
35338406 GCATTATACC
Statistics
Matches: 66, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
46 6 0.09
47 29 0.44
48 5 0.08
49 25 0.38
50 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATTTCTGGGACATGGCATCGACTTAATTGGAT
Found at i:35344229 original size:25 final size:25
Alignment explanation
Indices: 35344201--35344250 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
35344191 TTTCAAGTCA
35344201 GGGATACAGAGTTTTTGAAAGTATC
1 GGGATACAGAGTTTTTGAAAGTATC
35344226 GGGATACAGAGTTTTTGAAAGTATC
1 GGGATACAGAGTTTTTGAAAGTATC
35344251 CCTGTGGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (25 bp):
GGGATACAGAGTTTTTGAAAGTATC
Found at i:35360723 original size:43 final size:40
Alignment explanation
Indices: 35360635--35360756 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 40
35360625 TAAGGTTATT
*
35360635 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATT-CGTGTAAGACCATATCT-AGATATGGCATCGATA
*
35360677 TGAGACTTCGTGTAAGACCATAGCTAGACTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTAGA-TA-TGGCATCGATA
* *
35360720 TGAGATACCATGTAAGACCATATCTAGGATATGGCAT
1 TGAGAT-TCGTGTAAGACCATATCTA-GATATGGCAT
35360757 TGGCATGGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
41 2 0.03
42 30 0.43
43 36 0.51
44 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (40 bp):
TGAGATTCGTGTAAGACCATATCTAGATATGGCATCGATA
Found at i:35361105 original size:19 final size:19
Alignment explanation
Indices: 35361083--35361120 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
35361073 TTGCATAGGA
35361083 ACTTACTAAGATTTAAAGC
1 ACTTACTAAGATTTAAAGC
35361102 ACTTACTAAGATTTAAAGC
1 ACTTACTAAGATTTAAAGC
35361121 TTACTCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (19 bp):
ACTTACTAAGATTTAAAGC
Found at i:35363357 original size:44 final size:44
Alignment explanation
Indices: 35363292--35363378 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
35363282 TTGATATCTC
* *
35363292 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
* *
35363336 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACGG
1 AAAGTCCATGGTT-ATAACATGGCAATTAAGGAAGAATTGACGG
35363379 TTAAGGATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 3 0.08
44 35 0.92
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
Found at i:35363730 original size:53 final size:54
Alignment explanation
Indices: 35363523--35363729 Score: 215
Period size: 53 Copynumber: 3.9 Consensus size: 54
35363513 TAGGTAAGAT
* *
35363523 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * * * *
35363577 AA-GAAATCATGTAAGACCATGTCAAGACATGGCCTTGATGAGTTACTAAAAGGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAA-GGC
* * *
35363632 AAGG-TCCCATGTAAGACCATGCCAATG-CATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCATTGATAAGTTCTATAAGGC
* * * *
35363684 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
35363730 AAAAAGGAAA
Statistics
Matches: 127, Mismatches: 20, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
52 7 0.06
53 74 0.58
54 8 0.06
55 36 0.28
56 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:35368802 original size:15 final size:15
Alignment explanation
Indices: 35368782--35368812 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35368772 GTATGAATAA
35368782 GAATTCATGATATAT
1 GAATTCATGATATAT
*
35368797 GAATTCGTGATATAT
1 GAATTCATGATATAT
35368812 G
1 G
35368813 TATATGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (15 bp):
GAATTCATGATATAT
Found at i:35371131 original size:64 final size:64
Alignment explanation
Indices: 35371026--35371233 Score: 181
Period size: 67 Copynumber: 3.2 Consensus size: 64
35371016 CATCATGTGT
*
35371026 ACAAGAGAGCTACAAGAAATTATAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TA-AATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
35371091 TAG
62 TAG
* * * * * * *
35371094 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATG
35371158 TAG
62 TAG
* * * * *
35371161 ACAAGAGAGCTATGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG
35371223 TACAAGAGAGC
1 -ACAAGAGAGC
35371234 CAAACCATAT
Statistics
Matches: 114, Mismatches: 19, Indels: 19
0.75 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 23 0.20
65 6 0.05
66 20 0.18
67 32 0.28
68 13 0.11
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:35376567 original size:40 final size:40
Alignment explanation
Indices: 35376509--35376733 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
35376499 AAACCAAGTA
* * *
35376509 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTTGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * *
35376548 CCTTTGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTTGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * * *
35376588 CCTTCGGGTCTTAGCCCGGAAATAGTC-ACTAGCACAAATG
1 CCTTTGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
*
35376628 CCTTTGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTTGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATG
* *
35376671 CCTTCT-GGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTT-TGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* *
35376711 CCTTCGAGACTTAGCCCGGATAT
1 CCTTTGGGACTTAGCCCGGATAT
35376734 CATCCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 12 0.08
40 107 0.69
42 1 0.01
43 34 0.22
44 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTTGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:35376696 original size:83 final size:80
Alignment explanation
Indices: 35376509--35376733 Score: 274
Period size: 83 Copynumber: 2.8 Consensus size: 80
35376499 AAACCAAGTA
* * * *
35376509 CCTTCGGGATTTAG-CCGGATATCG-CAACTCGCACAAATGCCTTTGGGACTTAACCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATA
* *
35376572 GTAACTCGCACACATG
65 GAAACTCGCACAAATG
* * *
35376588 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCGGGTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAG
35376653 CAACTACTCGCACAAATG
66 -AA--ACTCGCACAAATG
* * * * *
35376671 CCTTCTGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCGGATAT
35376734 CATCCGAATA
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 12 0.10
80 43 0.35
81 2 0.02
83 67 0.54
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAG
AAACTCGCACAAATG
Found at i:35380234 original size:46 final size:46
Alignment explanation
Indices: 35380167--35380341 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
35380157 TGTAACCCAC
* *
35380167 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
35380213 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTCGCAT
* * * ***
35380263 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
35380306 CCATAAGTGAACTCGGCCTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
35380342 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.58
47 25 0.24
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:35380281 original size:93 final size:93
Alignment explanation
Indices: 35380175--35380345 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
35380165 ACCCATAAGT
*** * *
35380175 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35380240 CGAGCTCGGATGCCTAGTCACATCTCAC
66 CGAGCTCGGATGCCTAGTCACATCTCAC
* *
35380268 GAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCATAAGTGAACTCGGCCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
35380333 CGAGTTCGGATGC
66 CGAGCTCGGATGC
35380346 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTCACATCTCAC
Found at i:35384537 original size:47 final size:49
Alignment explanation
Indices: 35384486--35384605 Score: 122
Period size: 47 Copynumber: 2.5 Consensus size: 49
35384476 GAATTGACAG
* *
35384486 TTAAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGCA-T-TGA
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGCACTAAGA
* * ** **
35384533 TTAAGGACT-CCATGTAAGGCAACATCAAGATGTGGCATTGGCACTAAGA
1 TTAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGGCACTAAGA
*
35384582 -CAAGGATACCATGTAAGACCATGT
1 TTAAGGATACCATGTAAGACCATGT
35384606 TTGTAACATG
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
47 35 0.62
48 19 0.34
49 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (49 bp):
TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGCACTAAGA
Found at i:35384751 original size:55 final size:54
Alignment explanation
Indices: 35384630--35384825 Score: 218
Period size: 55 Copynumber: 3.6 Consensus size: 54
35384620 TTGGTAAGAT
* * * * * *
35384630 AAGGATA-TATGTAAGACCACGTCAAGGCCTGGCATGGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
35384683 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
35384738 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
35384791 AAGGATACCACGTAAGACCTTGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
35384826 ATGGTAAGTT
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 38 0.32
54 31 0.26
55 42 0.35
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:35384823 original size:53 final size:54
Alignment explanation
Indices: 35384630--35384836 Score: 215
Period size: 53 Copynumber: 3.9 Consensus size: 54
35384620 TTGGTAAGAT
* * * * *
35384630 AAGGATA-TATGTAAGACCACGTCAAGGCCTGGCA-TGGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGG-TGAGTTCTATAAGGC
* * * *
35384683 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTT-CTATAAGGC
* * *
35384738 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCTATAAGGC
* * * *
35384791 AAGGATACCACGTAAGACCTTGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTC
35384837 AAAAAGGAAA
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
52 4 0.03
53 47 0.37
54 28 0.22
55 44 0.35
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCTATAAGGC
Done.