Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 341 of 410
Found at i:105251935 original size:38 final size:38
Alignment explanation
Indices: 105251876--105252038 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
105251866 TCAATCATGC
*
105251876 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
105251915 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
105251953 ATTGGGCCGAAGCCTTTTCATATTTC--A--T-AT--T
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
105251984 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
105252022 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
105252039 ACTGTAAACG
Statistics
Matches: 111, Mismatches: 6, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
31 25 0.23
33 3 0.03
34 1 0.01
35 1 0.01
36 3 0.03
38 67 0.60
39 11 0.10
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.39
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:105251941 original size:31 final size:31
Alignment explanation
Indices: 105251899--105252012 Score: 138
Period size: 31 Copynumber: 3.5 Consensus size: 31
105251889 CCTTTTCATA
105251899 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
*
105251936 GTTTCATATTTCATAATATTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
105251968 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
105251999 TTTCATGTTTCATA
1 TTTCATATTTCATA
105252013 TTTCATAATA
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
31 42 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 27 0.38
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:105252010 original size:69 final size:69
Alignment explanation
Indices: 105251899--105252038 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
105251889 CCTTTTCATA
*
105251899 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATATTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
105251964 GCCT
66 GCCT
*
105251968 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
105252033 GCCT
66 GCCT
105252037 TT
1 TT
105252039 ACTGTAAACG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:105252276 original size:24 final size:24
Alignment explanation
Indices: 105252230--105252324 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
105252220 GCTTTATCAT
*
105252230 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
105252255 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
105252279 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
105252302 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
105252325 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:105252309 original size:47 final size:49
Alignment explanation
Indices: 105252230--105252323 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
105252220 GCTTTATCAT
*
105252230 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
105252279 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
105252324 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:105252400 original size:20 final size:20
Alignment explanation
Indices: 105252375--105252434 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
105252365 TATGATTACC
105252375 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
105252395 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
105252415 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
105252435 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:105252509 original size:25 final size:25
Alignment explanation
Indices: 105252477--105252524 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
105252467 ATACATAAAC
* * *
105252477 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
105252502 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
105252525 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:105258264 original size:38 final size:38
Alignment explanation
Indices: 105258205--105258367 Score: 241
Period size: 38 Copynumber: 4.4 Consensus size: 38
105258195 TCAATCATGC
*
105258205 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
105258244 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
105258282 ACTGGGCCGAAGCCTTTTCATATTTC--A--T-AT--T
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
105258313 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
105258351 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
105258368 ACTGTAAACG
Statistics
Matches: 113, Mismatches: 4, Indels: 15
0.86 0.03 0.11
Matches are distributed among these distances:
31 26 0.23
33 3 0.03
34 1 0.01
35 1 0.01
36 3 0.03
38 68 0.60
39 11 0.10
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:105258270 original size:31 final size:31
Alignment explanation
Indices: 105258228--105258341 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
105258218 CCTTTTCATA
105258228 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
105258265 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
105258297 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
105258328 TTTCATGTTTCATA
1 TTTCATATTTCATA
105258342 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:105258339 original size:69 final size:69
Alignment explanation
Indices: 105258228--105258367 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
105258218 CCTTTTCATA
105258228 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
105258293 GCCT
66 GCCT
*
105258297 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
105258362 GCCT
66 GCCT
105258366 TT
1 TT
105258368 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:105258600 original size:24 final size:23
Alignment explanation
Indices: 105258559--105258651 Score: 102
Period size: 23 Copynumber: 4.0 Consensus size: 23
105258549 GCTTTGTCAT
*
105258559 ATAACTGGAGGCC-TAGCCTCTTTA
1 ATAACTGG-GGCCAAAGCC-CTTTA
105258583 ATAACTGGGGCCAAAGCCCTTTCA
1 ATAACTGGGGCCAAAGCCCTTT-A
*
105258607 ATAACTGGGG-CATAAGCCCTTTT
1 ATAACTGGGGCCA-AAGCCCTTTA
105258630 ATAACTGGGG-CATAAGCCCTTT
1 ATAACTGGGGCCA-AAGCCCTTT
105258652 TTCACTTCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
23 32 0.50
24 32 0.50
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (23 bp):
ATAACTGGGGCCAAAGCCCTTTA
Found at i:105258604 original size:23 final size:23
Alignment explanation
Indices: 105258559--105258651 Score: 118
Period size: 24 Copynumber: 4.0 Consensus size: 23
105258549 GCTTTGTCAT
*
105258559 ATAACTGGAGGCCT-AGCCTCTTTA
1 ATAACTGG-GGCATAAGCC-CTTTA
105258583 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTT-A
*
105258607 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTA
105258630 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
105258652 TTCACTTCCT
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
23 30 0.48
24 33 0.52
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:105258637 original size:47 final size:48
Alignment explanation
Indices: 105258559--105258651 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 48
105258549 GCTTTGTCAT
*
105258559 ATAACTGGAGGCCTAGCCTCTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTAATAACTGGGG-CATAAGCCCTTTCA
*
105258607 ATAACTGG-GGCATAAGCC-CTTTTATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTAATAACTGGGGCATAAGCCCTTT
105258652 TTCACTTCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
46 2 0.05
47 27 0.66
48 12 0.29
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (48 bp):
ATAACTGGAGGCATAGCCTCTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:105258728 original size:20 final size:20
Alignment explanation
Indices: 105258703--105258762 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
105258693 TATGATTACC
105258703 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
105258723 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
*
105258743 TCATATGCATATCATACATA
1 TCATGTGCATATCATACATA
105258763 CCATATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:105258837 original size:25 final size:25
Alignment explanation
Indices: 105258805--105258852 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
105258795 ATACATAAAC
* * *
105258805 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
105258830 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
105258853 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:105264015 original size:52 final size:52
Alignment explanation
Indices: 105263937--105264043 Score: 187
Period size: 52 Copynumber: 2.1 Consensus size: 52
105263927 GTATCATTAA
* *
105263937 CTACTTACCAAACAAAATGATGAAATTAATTTCTCATTTTGTGAAGTGATCC
1 CTACTTACCAAACAAAATGATGAAATTAATTTCCCATGTTGTGAAGTGATCC
*
105263989 CTACTTACCAAACAAAATGATGAAATTAATTTCCCGTGTTGTGAAGTGATCC
1 CTACTTACCAAACAAAATGATGAAATTAATTTCCCATGTTGTGAAGTGATCC
105264041 CTA
1 CTA
105264044 TGCCAAACAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (52 bp):
CTACTTACCAAACAAAATGATGAAATTAATTTCCCATGTTGTGAAGTGATCC
Found at i:105268531 original size:30 final size:30
Alignment explanation
Indices: 105268497--105268559 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
105268487 ACTTAACAAG
* *
105268497 CAAATGTATCTAAAATAATAATAAATTTAA
1 CAAATGTATCTAAAATAATAACAAAATTAA
* *
105268527 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTATCTAAAATAATAACAAAATTAA
105268557 CAA
1 CAA
105268560 TAAAAAAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGTATCTAAAATAATAACAAAATTAA
Found at i:105269498 original size:22 final size:19
Alignment explanation
Indices: 105269470--105269512 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 19
105269460 ATATTCAATT
105269470 TAAATATAGTATTATAAAGTAA
1 TAAATATA-TATT-TAAA-TAA
105269492 TAAATATATATTTAAATAA
1 TAAATATATATTTAAATAA
105269511 TA
1 TA
105269513 TTTAAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 4 0.19
21 4 0.19
22 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
TAAATATATATTTAAATAA
Found at i:105275234 original size:21 final size:21
Alignment explanation
Indices: 105275208--105275250 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
105275198 GTTGGATGGA
105275208 TCAGCTCTTACGAA-CTTCTGT
1 TCAGCTCTTAC-AAGCTTCTGT
105275229 TCAGCTCTTACAAGCTTCTGT
1 TCAGCTCTTACAAGCTTCTGT
105275250 T
1 T
105275251 GGCATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.40
Consensus pattern (21 bp):
TCAGCTCTTACAAGCTTCTGT
Found at i:105275449 original size:21 final size:21
Alignment explanation
Indices: 105275423--105275462 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
105275413 AATAGAAGTT
105275423 GTGAATGACAAGAAATTGATG
1 GTGAATGACAAGAAATTGATG
*
105275444 GTGAATGACAAGGAATTGA
1 GTGAATGACAAGAAATTGA
105275463 CATGAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.30, T:0.23
Consensus pattern (21 bp):
GTGAATGACAAGAAATTGATG
Found at i:105281028 original size:23 final size:23
Alignment explanation
Indices: 105281002--105281074 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
105280992 AATGTAGAAA
105281002 GCATCTTATCTATCCCTAGCAAG
1 GCATCTTATCTATCCCTAGCAAG
* * **
105281025 GCATATTCTAGATCCATCT-GC-A-
1 GCATCTTATCTATCC--CTAGCAAG
*
105281047 GCATCTTATCTATCCCTAGCAGG
1 GCATCTTATCTATCCCTAGCAAG
105281070 GCATC
1 GCATC
105281075 CTCTAGATCC
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 11 0.31
23 17 0.47
24 2 0.06
25 2 0.06
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (23 bp):
GCATCTTATCTATCCCTAGCAAG
Found at i:105281065 original size:45 final size:45
Alignment explanation
Indices: 105281001--105281090 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
105280991 TAATGTAGAA
*
105281001 AGCATCTTATCTATCCCTAGCAAGGCATATTCTAGATCCATCTGC
1 AGCATCTTATCTATCCCTAGCAAGGCATACTCTAGATCCATCTGC
* *
105281046 AGCATCTTATCTATCCCTAGCAGGGCATCCTCTAGATCCATCTGC
1 AGCATCTTATCTATCCCTAGCAAGGCATACTCTAGATCCATCTGC
105281091 GCAAGAAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.30
Consensus pattern (45 bp):
AGCATCTTATCTATCCCTAGCAAGGCATACTCTAGATCCATCTGC
Found at i:105282250 original size:28 final size:28
Alignment explanation
Indices: 105282218--105282273 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
105282208 ATTAGGGAGA
*
105282218 AATTATAGTGTGACCACTTCGTTCGAGT
1 AATTATAGTATGACCACTTCGTTCGAGT
105282246 AATTATAGTATGACCACTTCGTTCGAGT
1 AATTATAGTATGACCACTTCGTTCGAGT
105282274 CAACAACCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (28 bp):
AATTATAGTATGACCACTTCGTTCGAGT
Found at i:105289033 original size:131 final size:132
Alignment explanation
Indices: 105288838--105289092 Score: 388
Period size: 131 Copynumber: 1.9 Consensus size: 132
105288828 TCATTATCCA
*
105288838 TTTAAAAATTCTTAAAAAACGAAGGCAATGTTCGATGTTTAGCAATTCGGGGAATCGTGCCCTAT
1 TTTAAAAATTCTTAAAAAACGAAGGCAATGTTCGATGTTTAGCAATTCGGGGAATAGTGCCCTAT
* * *
105288903 CGTGCTGGGTTGCGA-TTTCCTGTTTGTTCAAAACAATCGAATGTTCCTTTGGAATTTCACTCAT
66 CGTGCTGGGTTGCGATTTTCC-GCTTGTTCAAAACAATAGAATATTCCTTTGGAATTTCACTCAT
105288967 GTC
130 GTC
* * * * *
105288970 TTTAAAAATTCTT-CAAAACTAAGGTAATGTTCGGTGTTTGGCAATTCGGGGAATAGTGCCCTAT
1 TTTAAAAATTCTTAAAAAACGAAGGCAATGTTCGATGTTTAGCAATTCGGGGAATAGTGCCCTAT
**
105289034 CGTGCTGGGTTGCGATTTTCCGCTTGTTCAAAATGATAGAATATTCCTTTGGAATTTCA
66 CGTGCTGGGTTGCGATTTTCCGCTTGTTCAAAACAATAGAATATTCCTTTGGAATTTCA
105289093 TTCGTGTTTT
Statistics
Matches: 111, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
131 93 0.84
132 18 0.16
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (132 bp):
TTTAAAAATTCTTAAAAAACGAAGGCAATGTTCGATGTTTAGCAATTCGGGGAATAGTGCCCTAT
CGTGCTGGGTTGCGATTTTCCGCTTGTTCAAAACAATAGAATATTCCTTTGGAATTTCACTCATG
TC
Found at i:105290279 original size:17 final size:17
Alignment explanation
Indices: 105290251--105290296 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
105290241 AAATAGAAGA
105290251 TATTATTTTATTTAGTTT
1 TATTA-TTTATTTAGTTT
*
105290269 TATTATTTATTTATTTT
1 TATTATTTATTTAGTTT
105290286 TATT-TTTATTT
1 TATTATTTATTT
105290297 TACTAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 7 0.26
17 15 0.56
18 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (17 bp):
TATTATTTATTTAGTTT
Found at i:105295997 original size:27 final size:27
Alignment explanation
Indices: 105295961--105296014 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
105295951 TATCAAATAT
* * *
105295961 TTTTATTATATAATTACATATTTATTA
1 TTTTATTATATAAATAAAAATTTATTA
105295988 TTTTATTATATAAATAAAAATTTATTA
1 TTTTATTATATAAATAAAAATTTATTA
105296015 ATTAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTTATTATATAAATAAAAATTTATTA
Found at i:105296025 original size:96 final size:98
Alignment explanation
Indices: 105295833--105296023 Score: 293
Period size: 96 Copynumber: 2.0 Consensus size: 98
105295823 TTAATTTTAC
*
105295833 ATTTTTAACATAATCGTATATATAATAAATATTTTCATTATACAACTACATATTTATTATTTTAT
1 ATTTTTAACATAATCGTAAATATAATAAATATTTTCATTATACAACTACATATTTATTATTTTAT
105295898 TTATATAAATAAAAGAGTTATTAATTAAAAAAT
66 TTATATAAATAAAAGAGTTATTAATTAAAAAAT
* * *
105295931 ATTTTTAACATAAT-G-AAATAT-ATCAAATATTTTTATTATATAATTACATATTTATTATTTTA
1 ATTTTTAACATAATCGTAAATATAAT-AAATATTTTCATTATACAACTACATATTTATTATTTTA
*
105295993 -TTATATAAATAAAA-ATTTATTAATTAAAAAA
65 TTTATATAAATAAAAGAGTTATTAATTAAAAAA
105296024 AAACTTGAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
94 16 0.18
95 16 0.18
96 40 0.46
97 1 0.01
98 14 0.16
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (98 bp):
ATTTTTAACATAATCGTAAATATAATAAATATTTTCATTATACAACTACATATTTATTATTTTAT
TTATATAAATAAAAGAGTTATTAATTAAAAAAT
Found at i:105296026 original size:19 final size:19
Alignment explanation
Indices: 105295989--105296026 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
105295979 TATTTATTAT
*
105295989 TTTATTATATAAATAAAAA
1 TTTATTATATAAAAAAAAA
105296008 TTTATTA-ATTAAAAAAAAA
1 TTTATTATA-TAAAAAAAAA
105296027 CTTGAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTATTATATAAAAAAAAA
Found at i:105305545 original size:23 final size:23
Alignment explanation
Indices: 105305518--105305564 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
105305508 GGTTTAAATA
105305518 ACAATTTGACCAATTTTAAGTTC
1 ACAATTTGACCAATTTTAAGTTC
105305541 ACAATTTGACCAATTTTAAGTTC
1 ACAATTTGACCAATTTTAAGTTC
105305564 A
1 A
105305565 TGGACAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (23 bp):
ACAATTTGACCAATTTTAAGTTC
Found at i:105312953 original size:23 final size:23
Alignment explanation
Indices: 105312926--105312972 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
105312916 GGTTTAAATA
105312926 ACAATTTGACCAATTTTAAGTTC
1 ACAATTTGACCAATTTTAAGTTC
105312949 ACAATTTGACCAATTTTAAGTTC
1 ACAATTTGACCAATTTTAAGTTC
105312972 A
1 A
105312973 TGGACAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (23 bp):
ACAATTTGACCAATTTTAAGTTC
Found at i:105320853 original size:43 final size:43
Alignment explanation
Indices: 105320750--105320858 Score: 166
Period size: 43 Copynumber: 2.5 Consensus size: 43
105320740 TAGCCCAGCT
* *
105320750 ATGGTCTTACACGA-AATCAAATAATGATGCCAATGTCCTAGAC
1 ATGGTCTTACAC-ATAATCACATAATGATGCCAATGTCCTAAAC
*
105320793 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCTAAAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCTAAAC
*
105320836 ATGTTCTTACACATAATCACATA
1 ATGGTCTTACACATAATCACATA
105320859 TCGTTAATCC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATGCCAATGTCCTAAAC
Found at i:105322562 original size:3 final size:3
Alignment explanation
Indices: 105322554--105322583 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
105322544 TAAAATGAAT
105322554 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA
105322584 ATAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CTA
Found at i:105322588 original size:3 final size:3
Alignment explanation
Indices: 105322582--105322625 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
105322572 CTACTACTAC
105322582 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
105322626 GATAGTGCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:105324020 original size:21 final size:22
Alignment explanation
Indices: 105323980--105324020 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
105323970 TTCCAAATAA
* *
105323980 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
105324002 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
105324021 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:105325217 original size:15 final size:16
Alignment explanation
Indices: 105325190--105325219 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
105325180 AGATATTCCA
105325190 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
105325206 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
105325220 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:105334403 original size:22 final size:22
Alignment explanation
Indices: 105334373--105334425 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
105334363 TTGTTGTTTC
* *
105334373 GTTGTTATTTTGCTACAATTTT
1 GTTGCTATTTTACTACAATTTT
**
105334395 GTTGCTATTTTACTATTATTTT
1 GTTGCTATTTTACTACAATTTT
*
105334417 GTTGGTATT
1 GTTGCTATT
105334426 GTTTGAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.17, C:0.08, G:0.15, T:0.60
Consensus pattern (22 bp):
GTTGCTATTTTACTACAATTTT
Found at i:105337562 original size:3 final size:3
Alignment explanation
Indices: 105337554--105337591 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
105337544 CCCTGGCAAT
* *
105337554 AGA AGA AGA AG- AGA AAA AGA AGA AGA AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
105337592 GAAAATGGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:105337574 original size:17 final size:18
Alignment explanation
Indices: 105337554--105337591 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
105337544 CCCTGGCAAT
105337554 AGAAGAAGAAG-AGAAAA
1 AGAAGAAGAAGAAGAAAA
105337571 AGAAGAAGAAGAAGAAAA
1 AGAAGAAGAAGAAGAAAA
105337589 AGA
1 AGA
105337592 GAAAATGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AGAAGAAGAAGAAGAAAA
Found at i:105342997 original size:13 final size:13
Alignment explanation
Indices: 105342979--105343008 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
105342969 ATTATAACAC
105342979 ATTAATAATATTA
1 ATTAATAATATTA
*
105342992 ATTAATAGTATTA
1 ATTAATAATATTA
105343005 ATTA
1 ATTA
105343009 GTGAGATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
ATTAATAATATTA
Found at i:105351676 original size:28 final size:28
Alignment explanation
Indices: 105351607--105351990 Score: 297
Period size: 28 Copynumber: 13.5 Consensus size: 28
105351597 AAGTTATGAC
* * *
105351607 AGTCCGTAGGGACTATCTTTCATGCAAA
1 AGTCCGCAGGGACTATCTTTCAAGCAAG
** *
105351635 AGTCTACGGGGACTATCTTTCAAGCAAG
1 AGTCCGCAGGGACTATCTTTCAAGCAAG
** * * *
105351663 AGTCCATAGAGACTATCATT-AATACAAG
1 AGTCCGCAGGGACTATCTTTCAA-GCAAG
* *
105351691 AGTCCGCAGGGATTATCTTTCAAGCAAT
1 AGTCCGCAGGGACTATCTTTCAAGCAAG
* * *
105351719 AGTCCGTAGGGATTATCTTTCATGCAAG
1 AGTCCGCAGGGACTATCTTTCAAGCAAG
* *
105351747 AG-CCTGCAAGGACTATCTTTATCTTTTAAGCAAA
1 AGTCC-GCAGGGACTATC-TT-TC----AAGCAAG
* * * * *
105351781 AGTTCGCAGAGACTACCTTTCATGCAAA
1 AGTCCGCAGGGACTATCTTTCAAGCAAG
*
105351809 AGTTCGCAGGGACTATCTTTCAAGCAAG
1 AGTCCGCAGGGACTATCTTTCAAGCAAG
* * * *
105351837 AGTCTGCAAGGACTATCTTTTATGCAAG
1 AGTCCGCAGGGACTATCTTTCAAGCAAG
* ** *
105351865 ATTCCGCAATGACTATCTTTCAAGCAGG
1 AGTCCGCAGGGACTATCTTTCAAGCAAG
* *
105351893 AGTCCGTAGAGACTATCTTTCAAGCAAG
1 AGTCCGCAGGGACTATCTTTCAAGCAAG
* * * **
105351921 AGTTCACAAGGACTATCTTTCATTCAAG
1 AGTCCGCAGGGACTATCTTTCAAGCAAG
*
105351949 AGTCCGTAGGG-CTATCTTTCAAGCAAG
1 AGTCCGCAGGGACTATCTTTCAAGCAAG
* *
105351976 ATTCCGCAGGAACTA
1 AGTCCGCAGGGACTA
105351991 ATTGTAAGTA
Statistics
Matches: 277, Mismatches: 68, Indels: 22
0.75 0.19 0.06
Matches are distributed among these distances:
27 26 0.09
28 224 0.81
29 4 0.01
30 2 0.01
32 2 0.01
33 2 0.01
34 16 0.06
35 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (28 bp):
AGTCCGCAGGGACTATCTTTCAAGCAAG
Found at i:105351822 original size:62 final size:62
Alignment explanation
Indices: 105351703--105351828 Score: 146
Period size: 62 Copynumber: 2.0 Consensus size: 62
105351693 TCCGCAGGGA
* * * * * *
105351703 TTATCTTTCAAGCAATAGTCCGTAGGGATTATCTTTCATGCAAGAGCCTGCAAGGACTATCT
1 TTATCTTTCAAGCAAAAGTCCGCAGAGACTACCTTTCATGCAAAAGCCTGCAAGGACTATCT
* * * *
105351765 TTATCTTTTAAGCAAAAGTTCGCAGAGACTACCTTTCATGCAAAAG-TTCGCAGGGACTATCT
1 TTATCTTTCAAGCAAAAGTCCGCAGAGACTACCTTTCATGCAAAAGCCT-GCAAGGACTATCT
105351827 TT
1 TT
105351829 CAAGCAAGAG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 1 0.02
62 52 0.98
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (62 bp):
TTATCTTTCAAGCAAAAGTCCGCAGAGACTACCTTTCATGCAAAAGCCTGCAAGGACTATCT
Found at i:105351913 original size:174 final size:174
Alignment explanation
Indices: 105351617--105351940 Score: 433
Period size: 174 Copynumber: 1.9 Consensus size: 174
105351607 AGTCCGTAGG
*
105351617 GACTATCTTTCATGCAAAAGTCTACGGGGACTATCTTTCAAGCAAGAGTCCATAGAGACTATCAT
1 GACTACCTTTCATGCAAAAGTCTACGGGGACTATCTTTCAAGCAAGAGTCCATAGAGACTATCAT
* * * * * *
105351682 TAATACAAGAGTCCGCAGGGATTATCTTTCAAGCAATAGTCCGTAGGGATTATCTTTCATGCAAG
66 TAATACAAGAGTCCGCAAGGACTATCTTTCAAGCAAGAGTCCGTAGAGACTATCTTTCAAGCAAG
*
105351747 AGC-CTGCAAGGACTATCTTTATCTTTTAAGCAAAAGTTCGCAGA
131 AGCTC-ACAAGGACTATCTTTATCTTTTAAGCAAAAGTTCGCAGA
105351791 GACTACCTTTCATGCAAAAGT-T-CGCAGGGACTATCTTTCAAGCAAGAGTCTGCA-AG-GACTA
1 GACTACCTTTCATGCAAAAGTCTACG--GGGACTATCTTTCAAGCAAGAGTC--CATAGAGACTA
* * * * * *
105351852 TCTTTTATGCAAGATTCCGCAATGACTATCTTTCAAGCAGGAGTCCGTAGAGACTATCTTTCAAG
62 TCATTAATACAAGAGTCCGCAAGGACTATCTTTCAAGCAAGAGTCCGTAGAGACTATCTTTCAAG
*
105351917 CAAGAGTTCACAAGGACTATCTTT
127 CAAGAGCTCACAAGGACTATCTTT
105351941 CATTCAAGAG
Statistics
Matches: 130, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
172 2 0.02
173 1 0.01
174 122 0.94
175 3 0.02
176 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (174 bp):
GACTACCTTTCATGCAAAAGTCTACGGGGACTATCTTTCAAGCAAGAGTCCATAGAGACTATCAT
TAATACAAGAGTCCGCAAGGACTATCTTTCAAGCAAGAGTCCGTAGAGACTATCTTTCAAGCAAG
AGCTCACAAGGACTATCTTTATCTTTTAAGCAAAAGTTCGCAGA
Found at i:105352043 original size:29 final size:29
Alignment explanation
Indices: 105351996--105352112 Score: 153
Period size: 29 Copynumber: 4.0 Consensus size: 29
105351986 AACTAATTGT
* ** *
105351996 AAGTATGAGTCCTTATGTATGAGTTCACC
1 AAGTATGAATCCACATGTATGAGTCCACC
* *
105352025 AAGTATGAATCCTCGTGTATGAGTCCACC
1 AAGTATGAATCCACATGTATGAGTCCACC
* * *
105352054 AAGTATGAATCCACATATACGAGTCCATC
1 AAGTATGAATCCACATGTATGAGTCCACC
105352083 AAGTATGAATCCACATGTATGAGTCCACC
1 AAGTATGAATCCACATGTATGAGTCCACC
105352112 A
1 A
105352113 TGTCTTTGTG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 76 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (29 bp):
AAGTATGAATCCACATGTATGAGTCCACC
Found at i:105352114 original size:15 final size:15
Alignment explanation
Indices: 105352010--105352115 Score: 83
Period size: 15 Copynumber: 7.3 Consensus size: 15
105352000 ATGAGTCCTT
*
105352010 ATGTATGAGTTCACC
1 ATGTATGAGTCCACC
* * *
105352025 AAGTATGAATCC-TC
1 ATGTATGAGTCCACC
*
105352039 GTGTATGAGTCCACC
1 ATGTATGAGTCCACC
* *
105352054 AAGTATGAATCCA-C
1 ATGTATGAGTCCACC
* * *
105352068 ATATACGAGTCCATC
1 ATGTATGAGTCCACC
* *
105352083 AAGTATGAATCCA-C
1 ATGTATGAGTCCACC
105352097 ATGTATGAGTCCACC
1 ATGTATGAGTCCACC
105352112 ATGT
1 ATGT
105352116 CTTTGTGCTT
Statistics
Matches: 67, Mismatches: 21, Indels: 6
0.71 0.22 0.06
Matches are distributed among these distances:
14 32 0.48
15 35 0.52
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (15 bp):
ATGTATGAGTCCACC
Found at i:105353803 original size:6 final size:6
Alignment explanation
Indices: 105353794--105353826 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
105353784 CTAAAAATAG
*
105353794 AAATGA AAATGA AAATAA AAATGA AAATGA AAA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAA
105353827 ATGCTTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (6 bp):
AAATGA
Found at i:105353810 original size:18 final size:18
Alignment explanation
Indices: 105353787--105353826 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
105353777 TGGTTTTCTA
*
105353787 AAAATAGAAATGAAAATG
1 AAAATAAAAATGAAAATG
105353805 AAAATAAAAATGAAAATG
1 AAAATAAAAATGAAAATG
105353823 AAAA
1 AAAA
105353827 ATGCTTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.15
Consensus pattern (18 bp):
AAAATAAAAATGAAAATG
Found at i:105357448 original size:45 final size:45
Alignment explanation
Indices: 105357384--105357472 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
105357374 CGTTTGGAGG
*
105357384 AAGGTGGGCCTGTACACGAAAACTTAACAGTGTTTAAAGAAATTA
1 AAGGTGCGCCTGTACACGAAAACTTAACAGTGTTTAAAGAAATTA
*
105357429 AAGGTGCGTCTGTACACGAAAACTTAACAGTGTTTAAAGAAATT
1 AAGGTGCGCCTGTACACGAAAACTTAACAGTGTTTAAAGAAATT
105357473 CTCTCAAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (45 bp):
AAGGTGCGCCTGTACACGAAAACTTAACAGTGTTTAAAGAAATTA
Found at i:105362906 original size:29 final size:29
Alignment explanation
Indices: 105362805--105362897 Score: 177
Period size: 29 Copynumber: 3.2 Consensus size: 29
105362795 GTGACGAGAT
105362805 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
105362834 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
105362863 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
105362892 CGGCAC
1 TGGCAC
105362898 AGGGTGTGCG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:105362923 original size:58 final size:58
Alignment explanation
Indices: 105362801--105362935 Score: 161
Period size: 58 Copynumber: 2.3 Consensus size: 58
105362791 TACGGTGACG
* *
105362801 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTGCAA
* *
105362858 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCAC-AGGGTGTGCGA-GCT-CAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTA-AGTGTGC-ATGCTGCAA
* *
105362915 AGGGTATGGCACTATGTGTGC
1 A-GATATGGCACTAAGTGTGC
105362936 GGGCTTAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
57 7 0.10
58 59 0.88
59 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTGCAA
Found at i:105362933 original size:29 final size:29
Alignment explanation
Indices: 105362901--105362966 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
105362891 ACGGCACAGG
* * *
105362901 GTGTGCGAGCTCAAAGGGTATGGCACTAT
1 GTGTGCGAGCTCAAAGCGCATGGCACTAA
* * *
105362930 GTGTGCGGGCTTAAATCGCATGGCACTAA
1 GTGTGCGAGCTCAAAGCGCATGGCACTAA
105362959 GTGTGCGA
1 GTGTGCGA
105362967 AATCGAGTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.24
Consensus pattern (29 bp):
GTGTGCGAGCTCAAAGCGCATGGCACTAA
Found at i:105365418 original size:68 final size:68
Alignment explanation
Indices: 105365220--105365418 Score: 263
Period size: 68 Copynumber: 2.9 Consensus size: 68
105365210 TTATCTGACT
* * ** * * *
105365220 CCATAACCTAACTAAGGTCTTACATTTTATGACCCCATGTTTAATGTCCTGGCGGACTCCATATG
1 CCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCTTGGCGGACTCCATGTG
105365285 TTG
66 TTG
* *
105365288 CCATAGCCTAATTATGGTCTTACACATTATGAACCCATGTTTAATGTCTTGGTGGACTCCATGTG
1 CCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCTTGGCGGACTCCATGTG
105365353 TTG
66 TTG
* * * * * *
105365356 TCATTGTCTAACTATGGTCTTACACATTATGAACCTATGTTTAATGTCTTGACGGGCTCCATG
1 CCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCTTGGCGGACTCCATG
105365419 GTATTACCCC
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 114 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (68 bp):
CCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCTTGGCGGACTCCATGTG
TTG
Found at i:105366235 original size:2 final size:2
Alignment explanation
Indices: 105366228--105366261 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
105366218 CTTTCCACGC
105366228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105366262 CAACCTCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105369142 original size:25 final size:24
Alignment explanation
Indices: 105369119--105369166 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
105369109 TTCTGAAATC
*
105369119 TTTTTTATTTTATTTTGAGAAAATGA
1 TTTTTT-TATTATTTT-AGAAAATGA
105369145 TTTTTTTATTATTTTAGAAAAT
1 TTTTTTTATTATTTTAGAAAAT
105369167 TGAAAAACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 8 0.38
26 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (24 bp):
TTTTTTTATTATTTTAGAAAATGA
Found at i:105369148 original size:24 final size:24
Alignment explanation
Indices: 105369121--105369166 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
105369111 CTGAAATCTT
105369121 TTTTATT-TTATTTTGAGAAAATGA
1 TTTTATTATTATTTT-AGAAAATGA
*
105369145 TTTTTTTATTATTTTAGAAAAT
1 TTTTATTATTATTTTAGAAAAT
105369167 TGAAAAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTTATTATTATTTTAGAAAATGA
Found at i:105382104 original size:17 final size:19
Alignment explanation
Indices: 105382082--105382120 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
105382072 TTTTTTTTTC
*
105382082 TTTCTTCTTC-TTCT-TCT
1 TTTCTTCTACTTTCTCTCT
105382099 TTTCTTCTACTTTCTCTCT
1 TTTCTTCTACTTTCTCTCT
105382118 TTT
1 TTT
105382121 TTTTTTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTCTACTTTCTCTCT
Found at i:105382498 original size:18 final size:19
Alignment explanation
Indices: 105382466--105382504 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
105382456 AATAAAAATA
*
105382466 AAAAAATAATATTTTATTT
1 AAAAAACAATATTTTATTT
*
105382485 AAAAAACAAT-TTTTTTTT
1 AAAAAACAATATTTTATTT
105382503 AA
1 AA
105382505 TATAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAAAACAATATTTTATTT
Found at i:105393060 original size:42 final size:45
Alignment explanation
Indices: 105392956--105393108 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 45
105392946 CGATCTGAAA
* * *
105392956 TATCGTGTAAGACCGTGTCTGGGACATAGGCCTCGAT-TGAGATT
1 TATCGTGTAAGACCATGTCTGGGACATAGGCATCGATATTAGATT
* * *
105393000 TAT-GTATAAGACCATGTCTGGGACATCGGCATC-ATATTTG-TT
1 TATCGTGTAAGACCATGTCTGGGACATAGGCATCGATATTAGATT
* * * *
105393042 T-TCGTGTAAGACCCTGTCTAGGACAGAGGCATCGATATT-GAAT
1 TATCGTGTAAGACCATGTCTGGGACATAGGCATCGATATTAGATT
* * *
105393085 TA-CATGTAAGACCACGTCCGGGAC
1 TATCGTGTAAGACCATGTCTGGGAC
105393109 GTCGGCATTG
Statistics
Matches: 87, Mismatches: 17, Indels: 11
0.76 0.15 0.10
Matches are distributed among these distances:
41 1 0.01
42 31 0.36
43 52 0.60
44 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (45 bp):
TATCGTGTAAGACCATGTCTGGGACATAGGCATCGATATTAGATT
Found at i:105393108 original size:85 final size:84
Alignment explanation
Indices: 105392958--105393116 Score: 196
Period size: 85 Copynumber: 1.9 Consensus size: 84
105392948 ATCTGAAATA
* * * * * * *
105392958 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCGATTGAGATTTATGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTAGGACAGAGGCATCGATTGAGATTCATG-ATAAGACCACGTCCGGGA
105393023 CATCGGCATCATATTTGTTT
65 CATCGGCATCATATTTGTTT
105393043 TCGTGTAAGACCCTGTCTAGGACAGAGGCATCGATATTGA-ATTACATG-TAAGACCACGTCCGG
1 TCGTGTAAGACCCTGTCTAGGACAGAGGCATCG--ATTGAGATT-CATGATAAGACCACGTCCGG
*
105393106 GACGTCGGCAT
63 GACATCGGCAT
105393117 TGTACTTGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
85 52 0.83
86 3 0.05
87 8 0.13
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (84 bp):
TCGTGTAAGACCCTGTCTAGGACAGAGGCATCGATTGAGATTCATGATAAGACCACGTCCGGGAC
ATCGGCATCATATTTGTTT
Found at i:105394348 original size:18 final size:19
Alignment explanation
Indices: 105394322--105394363 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
105394312 TTCCATCAAG
*
105394322 TTATGTTAT-AATAAAATA
1 TTATTTTATGAATAAAATA
* *
105394340 TTATTTTATGTATAAAATT
1 TTATTTTATGAATAAAATA
105394359 TTATT
1 TTATT
105394364 GTTTCAGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TTATTTTATGAATAAAATA
Found at i:105401196 original size:10 final size:10
Alignment explanation
Indices: 105401177--105401226 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
105401167 ATAAATACTA
105401177 AAAGATAAAT
1 AAAGATAAAT
105401187 ACAA-ATAAAT
1 A-AAGATAAAT
105401197 AAAGATAAAT
1 AAAGATAAAT
105401207 AAAGATAAAT
1 AAAGATAAAT
105401217 GAAA-ATAAAT
1 -AAAGATAAAT
105401227 TCCAGAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:105401703 original size:15 final size:15
Alignment explanation
Indices: 105401680--105401733 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
105401670 ATCTAAAAAT
105401680 AATAATAAAATAATA
1 AATAATAAAATAATA
*
105401695 AATAGTAAAATAA-A
1 AATAATAAAATAATA
*
105401709 AAAAATAAAATTAAT-
1 AATAATAAAA-TAATA
105401724 AATAATAAAA
1 AATAATAAAA
105401734 AAATTAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.27
15 24 0.73
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
AATAATAAAATAATA
Found at i:105403846 original size:21 final size:20
Alignment explanation
Indices: 105403808--105403846 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
105403798 TGGACCTGTA
*
105403808 AGCCTATTGGGCCCAATTTT
1 AGCCTATCGGGCCCAATTTT
*
105403828 AGCCTATCGAGGCCTAATT
1 AGCCTATCG-GGCCCAATT
105403847 ACCGAAGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (20 bp):
AGCCTATCGGGCCCAATTTT
Found at i:105408491 original size:10 final size:10
Alignment explanation
Indices: 105408472--105408531 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
105408462 TAAAATTTTA
105408472 AAAGATAAAT
1 AAAGATAAAT
105408482 ACAA-ATAAAT
1 A-AAGATAAAT
*
105408492 AAAGATAATT
1 AAAGATAAAT
105408502 AAAGATAAAT
1 AAAGATAAAT
105408512 AAAGATAAAT
1 AAAGATAAAT
105408522 GAAA-ATAAAT
1 -AAAGATAAAT
105408532 CTTAGAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:105412323 original size:25 final size:24
Alignment explanation
Indices: 105412280--105412347 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
105412270 GCTTGTATGT
* *
105412280 GCTTACCGATTCTCAGCTCATATGG-
1 GCTTACCGATTCT-GGCTCAGA-GGA
*
105412305 GCTTACCGTATTTTGGCTCAGAGGA
1 GCTTACCG-ATTCTGGCTCAGAGGA
105412330 GCTTACCGATTCTGGCTC
1 GCTTACCGATTCTGGCTC
105412348 GTAAAGGCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 11 0.30
25 22 0.59
26 4 0.11
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (24 bp):
GCTTACCGATTCTGGCTCAGAGGA
Found at i:105413986 original size:20 final size:18
Alignment explanation
Indices: 105413961--105413997 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
105413951 ATTGCTAAGT
105413961 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
105413981 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
105413998 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:105414603 original size:46 final size:46
Alignment explanation
Indices: 105414551--105414726 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
105414541 TGGTTGAGCA
105414551 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
105414597 TTCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
105414642 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
105414690 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
105414727 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:105414707 original size:93 final size:93
Alignment explanation
Indices: 105414548--105414718 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
105414538 GGATGGTTGA
* **
105414548 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
105414613 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
105414641 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
105414706 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
105414719 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:105417346 original size:46 final size:45
Alignment explanation
Indices: 105417295--105417459 Score: 172
Period size: 46 Copynumber: 3.6 Consensus size: 45
105417285 CAAGGGCTAG
*
105417295 TGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGAGCCAA
* * ** *
105417341 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGTCAA
1 TGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGAGAGCCAA
* * * * * *
105417387 TGTCAGACATGTCTGGGACATGCGTCGGCTAC-GA-GATGTGCTAA
1 TGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA-GAGCCAA
*
105417431 TGTAAGACATGTCTGGGACATGCGTCAGC
1 TGTAAGACATGTCTGGGACATGCATCAGC
105417460 ACGGTTACAT
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.01
44 32 0.32
46 65 0.65
47 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGAGCCAA
Found at i:105420290 original size:20 final size:18
Alignment explanation
Indices: 105420265--105420301 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
105420255 ATTGCTAAGT
105420265 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
105420285 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
105420302 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:105420909 original size:46 final size:46
Alignment explanation
Indices: 105420857--105421032 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
105420847 TGGTTGAGCA
105420857 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
105420903 TTCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
105420948 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
105420996 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
105421033 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:105421013 original size:93 final size:93
Alignment explanation
Indices: 105420854--105421024 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
105420844 GGATGGTTGA
* **
105420854 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
105420919 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
105420947 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
105421012 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
105421025 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:105429267 original size:2 final size:2
Alignment explanation
Indices: 105429260--105429288 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
105429250 CCAAGCAAAC
105429260 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
105429289 TTGGATGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:105431380 original size:3 final size:3
Alignment explanation
Indices: 105431372--105431403 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
105431362 CACTTAACAA
105431372 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
105431404 CAACAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:105431914 original size:19 final size:18
Alignment explanation
Indices: 105431873--105431915 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
105431863 TATGTGTTTT
**
105431873 ATTTTTTTATTTTTGGTA
1 ATTTTTTTATTTTTAATA
105431891 ATTTTTATTATTTTTAATA
1 ATTTTT-TTATTTTTAATA
*
105431910 GTTTTT
1 ATTTTT
105431916 GGTAATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (18 bp):
ATTTTTTTATTTTTAATA
Found at i:105433993 original size:17 final size:17
Alignment explanation
Indices: 105433971--105434020 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
105433961 ATAGATTAAG
105433971 AACAATAAAAATAAATA
1 AACAATAAAAATAAATA
*
105433988 AACAATGAAAATAAATA
1 AACAATAAAAATAAATA
* *
105434005 AATAAAGAAAAATAAA
1 AA-CAATAAAAATAAA
105434021 CAAATGAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (17 bp):
AACAATAAAAATAAATA
Found at i:105434016 original size:18 final size:18
Alignment explanation
Indices: 105433977--105434025 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
105433967 TAAGAACAAT
* *
105433977 AAAAATAAATAAACAATG
1 AAAAATAAATAAATAAAG
105433995 -AAAATAAATAAATAAAG
1 AAAAATAAATAAATAAAG
*
105434012 AAAAATAAACAAAT
1 AAAAATAAATAAAT
105434026 GAATTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (18 bp):
AAAAATAAATAAATAAAG
Found at i:105434034 original size:17 final size:16
Alignment explanation
Indices: 105433980--105434034 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
105433970 GAACAATAAA
105433980 AATAAATAAAC-AATG
1 AATAAATAAACAAATG
*
105433995 AAAATAAATAAATAAA-G
1 --AATAAATAAACAAATG
105434012 AA-AAATAAACAAATG
1 AATAAATAAACAAATG
105434027 AATTAAAT
1 AA-TAAAT
105434035 TGATAAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 10 0.31
15 5 0.16
17 15 0.47
18 2 0.06
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.20
Consensus pattern (16 bp):
AATAAATAAACAAATG
Found at i:105435223 original size:49 final size:49
Alignment explanation
Indices: 105435159--105435256 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
105435149 GAAAATAAGT
105435159 TAAAAAAATCAACATTTTCTGTTAATTCACACCTACAAAAATAATTTAA
1 TAAAAAAATCAACATTTTCTGTTAATTCACACCTACAAAAATAATTTAA
*
105435208 TAAAAAAATCGACATTTTCTGTTAATTCACACCTACAAAAATAATTTAA
1 TAAAAAAATCAACATTTTCTGTTAATTCACACCTACAAAAATAATTTAA
105435257 GAGTTTGTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (49 bp):
TAAAAAAATCAACATTTTCTGTTAATTCACACCTACAAAAATAATTTAA
Found at i:105452346 original size:23 final size:23
Alignment explanation
Indices: 105452319--105452364 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
105452309 ATTGAGTTAG
*
105452319 GATGATAAAATAGGATTCGTCAA
1 GATGATAAAATAAGATTCGTCAA
105452342 GATGATAAAATAAGATTCGTCAA
1 GATGATAAAATAAGATTCGTCAA
105452365 TTCGATCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.26
Consensus pattern (23 bp):
GATGATAAAATAAGATTCGTCAA
Found at i:105455508 original size:9 final size:9
Alignment explanation
Indices: 105455490--105455539 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
105455480 TTACAAGTCA
105455490 AAAAAATAT
1 AAAAAATAT
*
105455499 AAAAAGTAT
1 AAAAAATAT
*
105455508 AAAGAATAT
1 AAAAAATAT
105455517 ATAAAAAT-T
1 A-AAAAATAT
105455526 ATAAAAATAT
1 A-AAAAATAT
105455536 AAAA
1 AAAA
105455540 CCCCCTAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 28 0.80
10 7 0.20
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (9 bp):
AAAAAATAT
Found at i:105455519 original size:11 final size:10
Alignment explanation
Indices: 105455489--105455536 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
105455479 TTTACAAGTC
*
105455489 AAAAAAATAT
1 AAAAATATAT
105455499 AAAAAGTATA-
1 AAAAA-TATAT
*
105455509 AAGAATATAT
1 AAAAATATAT
105455519 AAAAAT-TAT
1 AAAAATATAT
105455528 AAAAATATA
1 AAAAATATA
105455537 AAACCCCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
9 13 0.41
10 16 0.50
11 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (10 bp):
AAAAATATAT
Found at i:105455520 original size:20 final size:19
Alignment explanation
Indices: 105455489--105455536 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
105455479 TTTACAAGTC
*
105455489 AAAAAAATATAAAAAGTAT
1 AAAAATATATAAAAAGTAT
*
105455508 AAAGAATATATAAAAATTAT
1 AAA-AATATATAAAAAGTAT
105455528 AAAAATATA
1 AAAAATATA
105455537 AAACCCCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAAATATATAAAAAGTAT
Found at i:105457923 original size:15 final size:15
Alignment explanation
Indices: 105457900--105457929 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
105457890 TTACAATAGT
105457900 CATCAGCCCAAATTA
1 CATCAGCCCAAATTA
*
105457915 CATCGGCCCAAATTA
1 CATCAGCCCAAATTA
105457930 ACCCTAGCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.33, G:0.10, T:0.20
Consensus pattern (15 bp):
CATCAGCCCAAATTA
Found at i:105459526 original size:3 final size:3
Alignment explanation
Indices: 105459462--105459508 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
105459452 ATTTTGTTGC
105459462 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
105459509 TTTGTCGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:105461237 original size:12 final size:12
Alignment explanation
Indices: 105461222--105461252 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
105461212 TATTTGATTC
*
105461222 TCAATTTTTCAT
1 TCAATTTTCCAT
105461234 TCAATTTTCCAT
1 TCAATTTTCCAT
105461246 TCAATTT
1 TCAATTT
105461253 CTCTCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.55
Consensus pattern (12 bp):
TCAATTTTCCAT
Found at i:105461291 original size:15 final size:15
Alignment explanation
Indices: 105461270--105461307 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
105461260 ATTCTTGTTG
105461270 TTTTAATTT-TATAT
1 TTTTAATTTCTATAT
*
105461284 TTTGTAATTTCTTTAT
1 TTT-TAATTTCTATAT
105461300 TTTTAATT
1 TTTTAATT
105461308 GATTTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 11 0.52
16 7 0.33
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTTAATTTCTATAT
Found at i:105462183 original size:11 final size:11
Alignment explanation
Indices: 105462169--105462208 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
105462159 ACTTTATGAA
105462169 CAATTTTTATT
1 CAATTTTTATT
105462180 CAATTATCTT-TT
1 CAATT-T-TTATT
105462192 CAATTTTTATT
1 CAATTTTTATT
105462203 CAATTT
1 CAATTT
105462209 AGTTTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.08
11 14 0.54
12 8 0.31
13 2 0.08
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (11 bp):
CAATTTTTATT
Found at i:105465306 original size:26 final size:26
Alignment explanation
Indices: 105465277--105465384 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
105465267 TGAAATTCTA
105465277 ATCATGGAAA-ATTTACCTAACCCATT
1 ATCAT-GAAACATTTACCTAACCCATT
105465303 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
105465329 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
105465355 ATCATGGAAA-ATTTACCTAACCCATT
1 ATCAT-GAAACATTTACCTAACCCATT
105465381 ATCA
1 ATCA
105465385 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
25 4 0.05
26 72 0.90
27 4 0.05
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:105468208 original size:25 final size:26
Alignment explanation
Indices: 105468158--105468208 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
105468148 AGTTGTAGAG
*
105468158 AGAAAATTCTTTAAAGAGATTATTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
* *
105468184 AGAAAATT-TCTAAAGATATTTTTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
105468209 GATTTATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAGATTATTCT
Found at i:105478607 original size:13 final size:14
Alignment explanation
Indices: 105478591--105478621 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
105478581 ACTTAATTCG
105478591 AAAA-TTAAATTAA
1 AAAATTTAAATTAA
105478604 AAAATTTAAATTAA
1 AAAATTTAAATTAA
105478618 AAAA
1 AAAA
105478622 AGTTATTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATTTAAATTAA
Found at i:105479225 original size:20 final size:20
Alignment explanation
Indices: 105479176--105479230 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
105479166 GTTACATTAA
*
105479176 TAATATTTTT-TTAT-TCTT
1 TAATATTTTTATTATATCAT
* * *
105479194 TAAAAATATTATTATATCAT
1 TAATATTTTTATTATATCAT
105479214 TAATATTTTTATTATAT
1 TAATATTTTTATTATAT
105479231 AATAAGATTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 7 0.25
19 4 0.14
20 17 0.61
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATATTTTTATTATATCAT
Found at i:105480081 original size:36 final size:35
Alignment explanation
Indices: 105480020--105480093 Score: 123
Period size: 34 Copynumber: 2.1 Consensus size: 35
105480010 TCACTAGTCT
105480020 AATCTGTCATACCTTTTTTTAAAATATATATTTTTTA
1 AATCTGTCATACCTTTTTTT-AAA-ATATATTTTTTA
105480057 AATCTGTCATACC-TTTTTTAAAATATATTTTTTA
1 AATCTGTCATACCTTTTTTTAAAATATATTTTTTA
105480091 AAT
1 AAT
105480094 TTAAATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
34 15 0.41
35 3 0.08
36 6 0.16
37 13 0.35
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (35 bp):
AATCTGTCATACCTTTTTTTAAAATATATTTTTTA
Found at i:105480691 original size:21 final size:21
Alignment explanation
Indices: 105480666--105480752 Score: 76
Period size: 21 Copynumber: 4.3 Consensus size: 21
105480656 TATTGAGATC
105480666 TCTTTATTTTTATTATTTCAT
1 TCTTTATTTTTATTATTTCAT
*
105480687 TCTTTAATTTCT-TTATTT--T
1 TCTTT-ATTTTTATTATTTCAT
* * * *
105480706 T-ATTA-TTTCATTCTTTAATT
1 TCTTTATTTTTATTATTTCA-T
105480726 TCTTTATTTTTATTATTTCAT
1 TCTTTATTTTTATTATTTCAT
105480747 TCTTTA
1 TCTTTA
105480753 ATTTCATGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
16 2 0.04
17 6 0.12
18 2 0.04
19 2 0.04
20 2 0.04
21 21 0.42
22 15 0.30
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (21 bp):
TCTTTATTTTTATTATTTCAT
Found at i:105480702 original size:30 final size:30
Alignment explanation
Indices: 105480666--105480757 Score: 184
Period size: 30 Copynumber: 3.1 Consensus size: 30
105480656 TATTGAGATC
105480666 TCTTTATTTTTATTATTTCATTCTTTAATT
1 TCTTTATTTTTATTATTTCATTCTTTAATT
105480696 TCTTTATTTTTATTATTTCATTCTTTAATT
1 TCTTTATTTTTATTATTTCATTCTTTAATT
105480726 TCTTTATTTTTATTATTTCATTCTTTAATT
1 TCTTTATTTTTATTATTTCATTCTTTAATT
105480756 TC
1 TC
105480758 ATGTACCTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.70
Consensus pattern (30 bp):
TCTTTATTTTTATTATTTCATTCTTTAATT
Found at i:105481950 original size:26 final size:26
Alignment explanation
Indices: 105481910--105481986 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
105481900 CCTCATTCCT
*
105481910 ATTTTATCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
**
105481936 ATTTTACCTCC-AGTAATTTTTTTGACG
1 ATTTTACC-CCTAGTAA-AATTTTGACG
*
105481963 ATTTTACCCCTGGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
105481987 GAAAATATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:105485987 original size:25 final size:25
Alignment explanation
Indices: 105485920--105485991 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 25
105485910 ATCCTATACA
*
105485920 TGTATGCTCAT-ACGAGTTGTGAATC
1 TGTATGCTC-TCACGAGCTGTGAATC
* * *
105485945 GGTATGCTCTCTCTCGAGCTGTTAATC
1 TGTATG--CTCTCACGAGCTGTGAATC
105485972 TGTATGCTCTCACGAGCTGT
1 TGTATGCTCTCACGAGCTGT
105485992 AAACCGGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 18 0.47
26 1 0.03
27 19 0.50
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (25 bp):
TGTATGCTCTCACGAGCTGTGAATC
Found at i:105486000 original size:52 final size:50
Alignment explanation
Indices: 105485920--105486016 Score: 115
Period size: 52 Copynumber: 1.9 Consensus size: 50
105485910 ATCCTATACA
* * * * *
105485920 TGTATGCTCATACGAGTTGTGAATCGGTATGCTCTCTCTCGAGCTGTTAATC
1 TGTATGCTCATACGAGCTGTAAACCGGTAAGCT-TAT-TCGAGCTGTTAATC
105485972 TGTATGCTC-TCACGAGCTGTAAACCGGTAAGCTTATTCGAGCTGT
1 TGTATGCTCAT-ACGAGCTGTAAACCGGTAAGCTTATTCGAGCTGT
105486017 GGTGCATCCG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
50 9 0.23
51 3 0.08
52 27 0.69
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (50 bp):
TGTATGCTCATACGAGCTGTAAACCGGTAAGCTTATTCGAGCTGTTAATC
Found at i:105490985 original size:5 final size:5
Alignment explanation
Indices: 105490972--105491007 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
105490962 ACCTAAACTA
105490972 AAAATG AAAAG AAAAAG AAAAG AAAAG AAAAG AAAA
1 AAAA-G AAAAG -AAAAG AAAAG AAAAG AAAAG AAAA
105491008 AGAGAACGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 20 0.69
6 9 0.31
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:105490991 original size:11 final size:11
Alignment explanation
Indices: 105490971--105491010 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
105490961 AACCTAAACT
105490971 AAAAATGAAAAG
1 AAAAA-GAAAAG
105490983 AAAAAGAAAAG
1 AAAAAGAAAAG
105490994 -AAAAGAAAAG
1 AAAAAGAAAAG
105491004 AAAAAGA
1 AAAAAGA
105491011 GAACGAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.37
11 12 0.44
12 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:105494708 original size:24 final size:24
Alignment explanation
Indices: 105494681--105494728 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
105494671 GTAGGGTCTC
105494681 GTATCCACATAAATTAGTAATAAT
1 GTATCCACATAAATTAGTAATAAT
105494705 GTATCCACATAAATTAGTAATAAT
1 GTATCCACATAAATTAGTAATAAT
105494729 TTTACTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.33
Consensus pattern (24 bp):
GTATCCACATAAATTAGTAATAAT
Found at i:105498714 original size:27 final size:28
Alignment explanation
Indices: 105498678--105498817 Score: 157
Period size: 27 Copynumber: 5.2 Consensus size: 28
105498668 AGCATGGCTG
* * *
105498678 CCAGA-ACAGATA-ATATGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
105498704 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
* *
105498732 ACA-AAACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
105498759 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
105498786 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
105498813 CCAGA
1 CCAGA
105498818 ACGCTTCCTC
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.81
28 14 0.14
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:105500473 original size:26 final size:26
Alignment explanation
Indices: 105500437--105500546 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
105500427 CATGAAATTC
105500437 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
105500463 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
105500489 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
105500515 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
105500541 TTATCA
1 TTATCA
105500547 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:105505354 original size:2 final size:2
Alignment explanation
Indices: 105505305--105505341 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
105505295 AGATTTACCC
105505305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105505342 CTCACATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:105505362 original size:14 final size:14
Alignment explanation
Indices: 105505305--105505363 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
105505295 AGATTTACCC
*
105505305 ATATATATATATAT
1 ATATATATATACAT
*
105505319 ATATATATATATAT
1 ATATATATATACAT
105505333 ATATATATACTCACAT
1 ATATATATA-T-ACAT
105505349 ATATATCATA-ACAT
1 ATATAT-ATATACAT
105505363 A
1 A
105505364 ATTTTTTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
14 28 0.68
15 1 0.02
16 9 0.22
17 3 0.07
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATATATACAT
Found at i:105506074 original size:24 final size:24
Alignment explanation
Indices: 105506004--105506063 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
105505994 CTGTCAGGAG
105506004 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
105506028 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
105506052 AGGATTTAGGAG
1 AGGATTTAGGAG
105506064 CAGAGAAGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:105507529 original size:27 final size:27
Alignment explanation
Indices: 105507489--105507600 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
105507479 AGGAAGCGTC
*
105507489 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
105507516 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
105507543 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
105507571 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
105507597 CTGG
1 CTGG
105507601 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 48 0.66
28 17 0.23
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:105507595 original size:54 final size:54
Alignment explanation
Indices: 105507492--105507598 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
105507482 AAGCGTCCTG
* *
105507492 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTCTA
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTA
* * *
105507546 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCT
1 GTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCT
105507599 GGCAGCCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTA
Found at i:105509319 original size:16 final size:16
Alignment explanation
Indices: 105509285--105509319 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
105509275 AGTATTATGA
*
105509285 TAACATTTCAAACATT
1 TAACATTTCAAACAAT
*
105509301 TAACATTTCATACAAT
1 TAACATTTCAAACAAT
105509317 TAA
1 TAA
105509320 ATATGCAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (16 bp):
TAACATTTCAAACAAT
Found at i:105510758 original size:94 final size:92
Alignment explanation
Indices: 105510611--105510786 Score: 230
Period size: 94 Copynumber: 1.9 Consensus size: 92
105510601 TCAACTCGTA
* * * **
105510611 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCTAATGCTTGTCCCAGGC
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCAATGCATGTCCCAAAC
105510676 ATGTCTTACACTAGCTCTCGTCTCAAT
66 ATGTCTTACACTAGCTCTCGTCTCAAT
* * *
105510703 GTCGATGCCATGTCCCAGACGTGGTCTTACACTGGCTCT-CATAAT-GTGGCCAATGCATGTCCC
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCAATGCATGTCCC
105510766 AAACATGTCTTACACTAGCTC
62 AAACATGTCTTACACTAGCTC
105510787 ACAATAACCC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 7 0.10
93 13 0.18
94 50 0.69
95 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (92 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCAATGCATGTCCCAAAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:105512918 original size:8 final size:8
Alignment explanation
Indices: 105512905--105512934 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
105512895 AGATCAGCAC
105512905 AAGCCGAA
1 AAGCCGAA
105512913 AAGCCGAA
1 AAGCCGAA
*
105512921 ATGCCGAA
1 AAGCCGAA
105512929 AAGCCG
1 AAGCCG
105512935 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:105513390 original size:28 final size:26
Alignment explanation
Indices: 105513324--105513404 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 26
105513314 AGGAAGCGTC
105513324 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
105513351 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* * *
105513379 CTGGTGACTCTGTCACATTATTTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
105513405 TTGGCAGCCA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 31 0.63
28 17 0.35
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.40
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:105517076 original size:24 final size:24
Alignment explanation
Indices: 105517049--105517098 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
105517039 TACATAGTCT
105517049 CTGTGGAGACGATAACTCTTTTAC
1 CTGTGGAGACGATAACTCTTTTAC
105517073 CTGTGGAGACGATAACTCTTTTAC
1 CTGTGGAGACGATAACTCTTTTAC
105517097 CT
1 CT
105517099 ACTTTATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (24 bp):
CTGTGGAGACGATAACTCTTTTAC
Found at i:105537490 original size:42 final size:42
Alignment explanation
Indices: 105537378--105537545 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 42
105537368 ATAAAGCTGG
* ** *
105537378 TACGATGCCAACGTCGTAGACATGGTCTTACATGTAATCAAA
1 TACGATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
* * * *
105537420 TATCGATGCTACTGTCCCAGACAAGGTCTTACATGAAATCATA
1 TA-CGATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
*
105537463 TACGATGCCAATGTCCCGGACATGGTCTTACACAT-AAATCTCAAA
1 TACGATGCCAATGTCCCAGACATGGTCTT--ACATGAAA--TCAAA
* * * * *
105537508 T-CGATGCCAACGTCCTAGACGTGGTCTTGCACGAAATC
1 TACGATGCCAATGTCCCAGACATGGTCTTACATGAAATC
105537546 TCATATCTGA
Statistics
Matches: 101, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
41 2 0.02
42 27 0.27
43 40 0.40
44 27 0.27
45 5 0.05
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
TACGATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
Found at i:105546983 original size:46 final size:46
Alignment explanation
Indices: 105546916--105547044 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
105546906 TGTAACCCGC
* * * *
105546916 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
105546962 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
105547008 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
105547045 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:105547063 original size:46 final size:45
Alignment explanation
Indices: 105546924--105547063 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
105546914 GCCCATAAGC
* ** * *
105546924 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
105546970 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
105547016 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
105547062 GA
1 GA
105547064 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:105554564 original size:93 final size:93
Alignment explanation
Indices: 105554452--105554623 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
105554442 CGCCCATAAG
* *
105554452 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
105554517 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
105554545 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
105554610 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
105554624 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:105554620 original size:46 final size:46
Alignment explanation
Indices: 105554445--105554620 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
105554435 TGTAACCCGC
* * *
105554445 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
105554491 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
105554541 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
105554584 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
105554621 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:105557772 original size:43 final size:42
Alignment explanation
Indices: 105557625--105557786 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
105557615 GGCTCGTACA
* * * *
105557625 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCCAA-ATCG
* * * * *
105557668 GTGCC-ACTATCCCAGACAGGGTCTTACACGAAA-CCATATAG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCCAAATCG
* * *
105557709 ATGCTAATGCCCCAGACATGGTCTTACACGAAATCTCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATC-CAAATCG
* *
105557752 ATGCCAACGTCCCAAACATGGTCTTATACGAAATC
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATC
105557787 TCATATCGGA
Statistics
Matches: 93, Mismatches: 22, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
41 28 0.30
42 6 0.06
43 59 0.63
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCCAAATCG
Found at i:105558443 original size:13 final size:13
Alignment explanation
Indices: 105558425--105558449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105558415 ACAAATGATA
105558425 AAATTTTCACACG
1 AAATTTTCACACG
105558438 AAATTTTCACAC
1 AAATTTTCACAC
105558450 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:105559521 original size:29 final size:30
Alignment explanation
Indices: 105559463--105559521 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
105559453 TTTTATGAAA
*
105559463 CAGGGGCTAAAATGTCAAAATGTGAAATTT
1 CAGGGGCTAAAATGTCAAAATGTCAAATTT
* * *
105559493 CAGGGGTTAAAGTGT-AAAATGTCATATTT
1 CAGGGGCTAAAATGTCAAAATGTCAAATTT
105559522 TATGTGTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (30 bp):
CAGGGGCTAAAATGTCAAAATGTCAAATTT
Done.