Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 374 of 427
Found at i:108836350 original size:11 final size:11
Alignment explanation
Indices: 108836334--108836380 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
108836324 GAATTGTTTC
108836334 TTAAATAATTA
1 TTAAATAATTA
108836345 TTAAATAATTA
1 TTAAATAATTA
*
108836356 -TACATAATTA
1 TTAAATAATTA
*
108836366 TTTAA-AATGTA
1 TTAAATAAT-TA
108836377 TTAA
1 TTAA
108836381 GAATTATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 12 0.40
11 18 0.60
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (11 bp):
TTAAATAATTA
Found at i:108839218 original size:32 final size:32
Alignment explanation
Indices: 108839162--108839234 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
108839152 TCTAACAAGT
* *
108839162 TCAATTAATCAAGAGTTATCAAA-TTATATTAA
1 TCAATTTATCAAGAGTTATCAAATTTA-AGTAA
*
108839194 TCAATTTATCATGAGTTA-CTAAATTTAAGTAA
1 TCAATTTATCAAGAGTTATC-AAATTTAAGTAA
108839226 TCAATTTAT
1 TCAATTTAT
108839235 AAGTTTACGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 1 0.03
32 32 0.89
33 3 0.08
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (32 bp):
TCAATTTATCAAGAGTTATCAAATTTAAGTAA
Found at i:108839907 original size:16 final size:16
Alignment explanation
Indices: 108839886--108839933 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
108839876 GCCTGGCCCG
108839886 ATTTTAATATTAAATT
1 ATTTTAATATTAAATT
* **
108839902 ATTTTAAAATTATTTT
1 ATTTTAATATTAAATT
*
108839918 ATTTTTAATTTTAAAT
1 A-TTTTAATATTAAAT
108839934 AACTTTAGTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTAATATTAAATT
Found at i:108840043 original size:10 final size:11
Alignment explanation
Indices: 108840009--108840047 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
108839999 GTTATTAATA
*
108840009 TAATTTAATTCT
1 TAATTTAGTT-T
108840021 TAATTTAGTTT
1 TAATTTAGTTT
108840032 TAATTT-GTTT
1 TAATTTAGTTT
108840042 TAATTT
1 TAATTT
108840048 TTCAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.38
11 7 0.27
12 9 0.35
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (11 bp):
TAATTTAGTTT
Found at i:108840153 original size:19 final size:20
Alignment explanation
Indices: 108840125--108840163 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
108840115 TCACATTATT
108840125 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
108840144 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
108840164 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:108840181 original size:25 final size:23
Alignment explanation
Indices: 108840144--108840189 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
108840134 TTTGTTTTAA
*
108840144 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
108840167 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
108840190 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:108843104 original size:148 final size:149
Alignment explanation
Indices: 108842935--108843212 Score: 472
Period size: 148 Copynumber: 1.9 Consensus size: 149
108842925 TTTTCAAAAA
* *
108842935 ATAATTATAATTTTATTATCAAATTGATTTACGAACACAATATAAAATTATCATTAT-AAAGCTT
1 ATAATTATAATTTGATTATCAAATTGATTTACGAACACAATATAAAATTATAATTATAAAAGCTT
108842999 CAGAAAAATCTT-TTATGTAT-AAATTATAATTATTAGTTAAATTTATAGTTTCCAAATATAATG
66 CAGAAAAATCTTATTATGTATCAAA-TATAATTATTAGTTAAATTTATAGTTTCCAAATATAATG
108843062 TTAGCAAAATAAAAACTATT
130 TTAGCAAAATAAAAACTATT
* *
108843082 ATAATTTATAATTTGATTATCAATTTGATTTACGGACACAATATAAAATTATAATTATAAAAGCT
1 ATAA-TTATAATTTGATTATCAAATTGATTTACGAACACAATATAAAATTATAATTATAAAAGCT
*
108843147 TTAGAAAAATCTTATTATGTATCAAATATAATTATTAGTTAAATTTATAGTTTCCAAATATAATG
65 TCAGAAAAATCTTATTATGTATCAAATATAATTATTAGTTAAATTTATAGTTTCCAAATATAATG
108843212 T
130 T
108843213 GAGTGAAAGA
Statistics
Matches: 122, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
147 4 0.03
148 49 0.40
149 18 0.15
150 48 0.39
151 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.41
Consensus pattern (149 bp):
ATAATTATAATTTGATTATCAAATTGATTTACGAACACAATATAAAATTATAATTATAAAAGCTT
CAGAAAAATCTTATTATGTATCAAATATAATTATTAGTTAAATTTATAGTTTCCAAATATAATGT
TAGCAAAATAAAAACTATT
Found at i:108846012 original size:2 final size:2
Alignment explanation
Indices: 108846005--108846032 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
108845995 TTATTGTAAA
108846005 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
108846033 TTCTTAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108847602 original size:35 final size:35
Alignment explanation
Indices: 108847549--108847656 Score: 117
Period size: 35 Copynumber: 3.1 Consensus size: 35
108847539 AATGAATCAA
* * *
108847549 ATACAAATTCGGGGCTAAGCCCATCACAGATACAG
1 ATACATATTCGAGCCTAAGCCCATCACAGATACAG
* **
108847584 ATGCATATTCGAGCCTAAGCCCATTGCAGATACAG
1 ATACATATTCGAGCCTAAGCCCATCACAGATACAG
* * * * *
108847619 ATACATATTTGGGGCTAAGCCCATCTCAGATATAG
1 ATACATATTCGAGCCTAAGCCCATCACAGATACAG
108847654 ATA
1 ATA
108847657 TAGATATACA
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (35 bp):
ATACATATTCGAGCCTAAGCCCATCACAGATACAG
Found at i:108847783 original size:37 final size:36
Alignment explanation
Indices: 108847727--108847809 Score: 139
Period size: 37 Copynumber: 2.3 Consensus size: 36
108847717 CGGCCATCCC
*
108847727 TACACATCATTGGGGTTTAAAACACCCACCTAGCCT
1 TACACATCATTGGGGTTTAAAACACCCACCCAGCCT
*
108847763 TACACATCATGTGGGGTTTAAAACACTCACCCAGCCT
1 TACACATCAT-TGGGGTTTAAAACACCCACCCAGCCT
108847800 TACACATCAT
1 TACACATCAT
108847810 AATGTACTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 10 0.23
37 34 0.77
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.25
Consensus pattern (36 bp):
TACACATCATTGGGGTTTAAAACACCCACCCAGCCT
Found at i:108854992 original size:22 final size:22
Alignment explanation
Indices: 108854967--108855008 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
108854957 ATGTGTTTAT
*
108854967 CCTTTTATATTTTTGTATAATA
1 CCTTTTATATTTTTCTATAATA
108854989 CCTTTTATATTTTTCTATAA
1 CCTTTTATATTTTTCTATAA
108855009 GAACAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (22 bp):
CCTTTTATATTTTTCTATAATA
Found at i:108856656 original size:21 final size:21
Alignment explanation
Indices: 108856630--108856670 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
108856620 TCAATTCATC
108856630 AACC-AAATCATACCAAATCAA
1 AACCAAAATCATA-CAAATCAA
*
108856651 AACCAAAATTATACAAATCA
1 AACCAAAATCATACAAATCA
108856671 TATGTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCAAAATCATACAAATCAA
Found at i:108858881 original size:41 final size:41
Alignment explanation
Indices: 108858847--108859007 Score: 155
Period size: 41 Copynumber: 3.9 Consensus size: 41
108858837 CTTGATTCAT
* *
108858847 TACACTAGCACAAAGTCTACTAGGTACAAAGCTTGAATTAA
1 TACACTAGCACAAAGCCTACTAGGCACAAAGCTTGAATTAA
* * * * * *
108858888 TACACTGGCACAAAGCCTGCTAGGCACAAAACCTAAATCAA
1 TACACTAGCACAAAGCCTACTAGGCACAAAGCTTGAATTAA
* * * * * *
108858929 TAGACT-GACACAAAGCCTGCTAGGCATAAAGCCTAAATGAA
1 TACACTAG-CACAAAGCCTACTAGGCACAAAGCTTGAATTAA
*
108858970 TACACT-GACACAAAGCCTACTAGGCACAAAGCCTGAAT
1 TACACTAG-CACAAAGCCTACTAGGCACAAAGCTTGAAT
108859008 CACTATCTCC
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 1 0.01
41 102 0.99
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (41 bp):
TACACTAGCACAAAGCCTACTAGGCACAAAGCTTGAATTAA
Found at i:108858952 original size:82 final size:82
Alignment explanation
Indices: 108858855--108859009 Score: 211
Period size: 82 Copynumber: 1.9 Consensus size: 82
108858845 ATTACACTAG
* * * * * * *
108858855 CACAAAGTCTACTAGGTACAAAGCTTGAATTAATACACTGGCACAAAGCCTGCTAGGCACAAAAC
1 CACAAAGCCTACTAGGCACAAAGCCTAAATGAATACACTGACACAAAGCCTACTAGGCACAAAAC
108858920 CTAAATCAATAGACTGA
66 CTAAATCAATAGACTGA
* * *
108858937 CACAAAGCCTGCTAGGCATAAAGCCTAAATGAATACACTGACACAAAGCCTACTAGGCACAAAGC
1 CACAAAGCCTACTAGGCACAAAGCCTAAATGAATACACTGACACAAAGCCTACTAGGCACAAAAC
*
108859002 CTGAATCA
66 CTAAATCA
108859010 CTATCTCCAA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
82 62 1.00
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.17
Consensus pattern (82 bp):
CACAAAGCCTACTAGGCACAAAGCCTAAATGAATACACTGACACAAAGCCTACTAGGCACAAAAC
CTAAATCAATAGACTGA
Found at i:108861637 original size:30 final size:31
Alignment explanation
Indices: 108861603--108861665 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
108861593 ACTTATTTTC
108861603 TTGTT-AATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTTGTTATTATTTTAAAGGCAT
* * *
108861633 TTGTTAAATTTTTTTATTATTTTAGAGGTAT
1 TTGTTAAATTTTGTTATTATTTTAAAGGCAT
108861664 TT
1 TT
108861666 ACTTGATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (31 bp):
TTGTTAAATTTTGTTATTATTTTAAAGGCAT
Found at i:108861962 original size:2 final size:2
Alignment explanation
Indices: 108861951--108861987 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
108861941 CTCTAGGTGT
108861951 TA TA -A TA TA TA TA TA TA TA TA TA TCA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
108861988 AAATAACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 2 0.06
2 28 0.88
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:108867837 original size:18 final size:18
Alignment explanation
Indices: 108867814--108867848 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
108867804 GCCCCTAGTT
*
108867814 TTTTTAGAATTTTTCGTA
1 TTTTTACAATTTTTCGTA
108867832 TTTTTACAATTTTTCGT
1 TTTTTACAATTTTTCGT
108867849 GGATAAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.63
Consensus pattern (18 bp):
TTTTTACAATTTTTCGTA
Found at i:108867924 original size:9 final size:9
Alignment explanation
Indices: 108867910--108868003 Score: 52
Period size: 9 Copynumber: 10.3 Consensus size: 9
108867900 TGTTCTAACA
108867910 AAAAAAATT
1 AAAAAAATT
108867919 AAAAAAGA--
1 AAAAAA-ATT
*
108867927 ATAAAAATT
1 AAAAAAATT
*
108867936 ATATAAAATCT
1 A-AAAAAAT-T
*
108867947 ATAAAAAAAT
1 A-AAAAAATT
108867957 -AAAAAATT
1 AAAAAAATT
108867965 AAGAAAAATT
1 AA-AAAAATT
* *
108867975 GAAACAATT
1 AAAAAAATT
* *
108867984 AGAAATA-T
1 AAAAAAATT
108867992 AAAAAAATT
1 AAAAAAATT
108868001 AAA
1 AAA
108868004 TGATAATATA
Statistics
Matches: 63, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
7 1 0.02
8 18 0.29
9 21 0.33
10 15 0.24
11 8 0.13
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (9 bp):
AAAAAAATT
Found at i:108867971 original size:17 final size:18
Alignment explanation
Indices: 108867951--108868002 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
108867941 AAATCTATAA
108867951 AAAAAT-AAAAAATTAAG
1 AAAAATAAAAAAATTAAG
* *
108867968 AAAAATTGAAACAATT-AG
1 AAAAA-TAAAAAAATTAAG
*
108867986 AAATATAAAAAAATTAA
1 AAAAATAAAAAAATTAA
108868003 ATGATAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 13 0.46
18 8 0.29
19 7 0.25
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAAAATTAAG
Found at i:108867971 original size:28 final size:27
Alignment explanation
Indices: 108867913--108867971 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
108867903 TCTAACAAAA
*
108867913 AAAATTAAAAAAGAATAAAAATTATAT
1 AAAATTAAAAAAGAATAAAAATTATAG
108867940 AAAATCTATAAAAA-AATAAAAAATTA-AG
1 AAAAT-TA-AAAAAGAAT-AAAAATTATAG
108867968 AAAA
1 AAAA
108867972 ATTGAAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 5 0.18
28 10 0.36
29 13 0.46
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (27 bp):
AAAATTAAAAAAGAATAAAAATTATAG
Found at i:108871088 original size:17 final size:18
Alignment explanation
Indices: 108871051--108871088 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
108871041 TTTTTTATCC
* *
108871051 AATTAAGTTCCTACTATT
1 AATTAAGTCCCTACCATT
108871069 AATTAAGTCCCT-CCATT
1 AATTAAGTCCCTACCATT
108871086 AAT
1 AAT
108871089 AGTATTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.39
Consensus pattern (18 bp):
AATTAAGTCCCTACCATT
Found at i:108871210 original size:9 final size:9
Alignment explanation
Indices: 108871174--108871335 Score: 70
Period size: 10 Copynumber: 17.4 Consensus size: 9
108871164 CTAAATTTTT
108871174 TTATAAAAA
1 TTATAAAAA
108871183 TTATTAAAAATA
1 TTA-T-AAAA-A
*
108871195 TTTTAAAAA
1 TTATAAAAA
108871204 TTATAAAGAA
1 TTATAAA-AA
108871214 TCTGA-AAAAA
1 T-T-ATAAAAA
108871224 TTATAAAAA
1 TTATAAAAA
*
108871233 -TAT-TAAA
1 TTATAAAAA
*
108871240 -TATTAAAA
1 TTATAAAAA
* *
108871248 TTGATGTAAAC
1 TT-AT-AAAAA
*
108871259 TTATTAAAA
1 TTATAAAAA
108871268 TTATAAAAATA
1 TTAT-AAAA-A
108871279 TTATAAAATA
1 TTATAAAA-A
*
108871289 TTAT-GAAA
1 TTATAAAAA
108871297 -TATAAAAA
1 TTATAAAAA
108871305 -TATAATAAA
1 TTATAA-AAA
*
108871314 TTAT-GAAA
1 TTATAAAAA
*
108871322 TTAATAAAAC
1 TT-ATAAAAA
108871332 TTAT
1 TTAT
108871336 TTAAAATAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 36
0.72 0.07 0.21
Matches are distributed among these distances:
7 9 0.07
8 21 0.17
9 34 0.28
10 35 0.28
11 20 0.16
12 4 0.03
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (9 bp):
TTATAAAAA
Found at i:108871285 original size:28 final size:27
Alignment explanation
Indices: 108871254--108871330 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
108871244 AAAATTGATG
*
108871254 TAAACTTATTAAAATTATAAAAATATTA
1 TAAA-TTATTAAAATTATAAAAATATAA
*
108871282 TAAAATATTATGAAA-TATAAAAATATAA
1 TAAATTATTA--AAATTATAAAAATATAA
*
108871310 TAAATTA-TGAAATTAATAAAA
1 TAAATTATTAAAATT-ATAAAA
108871331 CTTATTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
25 3 0.07
26 1 0.02
27 12 0.29
28 22 0.54
29 3 0.07
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (27 bp):
TAAATTATTAAAATTATAAAAATATAA
Found at i:108871664 original size:19 final size:20
Alignment explanation
Indices: 108871622--108871677 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
108871612 CCAGTTCAAG
* *
108871622 TTTTTATGTTTTTTA-ATTA
1 TTTTTATGATTTTTATATGA
108871641 TTTTTATGATTTTTATATGA
1 TTTTTATGATTTTTATATGA
*
108871661 TTTTAAT-ATTTTTATAT
1 TTTTTATGATTTTTATAT
108871678 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 24 0.73
20 9 0.27
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTTATGATTTTTATATGA
Found at i:108871713 original size:19 final size:18
Alignment explanation
Indices: 108871623--108871713 Score: 56
Period size: 19 Copynumber: 4.7 Consensus size: 18
108871613 CAGTTCAAGT
* *
108871623 TTTTATGTTTTTTAATTA
1 TTTTATATTTTTTTATTA
* *
108871641 TTTTTATGATTTTTATATGA
1 -TTTTAT-ATTTTTTTATTA
**
108871661 TTTTAATATTTTTATATAAAA
1 TTTT-ATATTTTT-T-TATTA
* *
108871682 TTTTAAATATTTTTATTA
1 TTTTATATTTTTTTATTA
108871700 CTTTTATATTTTTT
1 -TTTTATATTTTTT
108871714 GTAATTTATT
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
18 3 0.06
19 28 0.52
20 16 0.30
21 7 0.13
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTTTTATTA
Found at i:108872352 original size:17 final size:19
Alignment explanation
Indices: 108872297--108872466 Score: 73
Period size: 19 Copynumber: 8.8 Consensus size: 19
108872287 AAAAAACACT
*
108872297 AAAATTATTAAAATTATA-A
1 AAAATTA-TAAAAATATAGA
*
108872316 AAAGATATTTAAAAATATAG-
1 AAA-AT-TATAAAAATATAGA
*
108872336 AAACTTATAAAAA-ATAGA
1 AAAATTATAAAAATATAGA
* *
108872354 AAAATTATAAAATTATTGA
1 AAAATTATAAAAATATAGA
** *
108872373 AATTTTATAAATAACATAGA
1 AAAATTATAAA-AATATAGA
* * * *
108872393 AAACTT-TTAAAATTTATTA
1 AAAATTATAAAAATATA-GA
* * *
108872412 AAATTTATTATAAATAT-GG
1 AAAATTA-TAAAAATATAGA
108872431 AAAATTATAGAAAATTATTA-A
1 AAAATTATA-AAAA-TA-TAGA
*
108872452 AAATTTATAAAAATA
1 AAAATTATAAAAATA
108872467 GAAAAAAAAA
Statistics
Matches: 110, Mismatches: 28, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
17 4 0.04
18 24 0.22
19 37 0.34
20 29 0.26
21 16 0.15
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (19 bp):
AAAATTATAAAAATATAGA
Found at i:108872392 original size:39 final size:37
Alignment explanation
Indices: 108872340--108872472 Score: 130
Period size: 39 Copynumber: 3.5 Consensus size: 37
108872330 ATATAGAAAC
*
108872340 TTATAAA-AAATAGAAAAATTATAAAATTATTGAAATT
1 TTATAAATAAATAGAAAAATTATAAAATTATT-AAAAT
* *
108872377 TTATAAATAACATAGAAAACTTTTAAAATTTATTAAAAT
1 TTATAAATAA-ATAGAAAAATTATAAAA-TTATTAAAAT
* *
108872416 TTAT-TATAAATATGGAAAATTATAGAAAATTATTAAAAAT
1 TTATAAATAAATA-GAAAAATTAT--AAAATTATT-AAAAT
108872456 TTAT-AA-AAATAGAAAAA
1 TTATAAATAAATAGAAAAA
108872473 AAAACATTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
37 10 0.12
38 18 0.22
39 33 0.41
40 19 0.24
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (37 bp):
TTATAAATAAATAGAAAAATTATAAAATTATTAAAAT
Found at i:108872454 original size:20 final size:20
Alignment explanation
Indices: 108872297--108872465 Score: 55
Period size: 20 Copynumber: 8.8 Consensus size: 20
108872287 AAAAAACACT
108872297 AAAATTATT-AAAATTATA-
1 AAAATTATTAAAAATTATAG
*
108872315 AAAAGATATTTAAAAA-TATAG
1 AAAA-TTA-TTAAAAATTATAG
*
108872336 AAACTTA-TAAAAA--ATAG
1 AAAATTATTAAAAATTATAG
*
108872353 AAAA--ATTATAAAATTATTG
1 AAAATTATTA-AAAATTATAG
**
108872372 -AAATT-TTATAAATAACATAG
1 AAAATTATTA-AAA-ATTATAG
*
108872392 AAAACTT-TTAAAATTTATTA-
1 AAAA-TTATTAAAAATTA-TAG
* * *
108872412 AAATTTATTATAAA-TATGG
1 AAAATTATTAAAAATTATAG
108872431 AAAATTA-TAGAAAATTATTA-
1 AAAATTATTA-AAAATTA-TAG
108872451 AAAATT-TATAAAAAT
1 AAAATTAT-TAAAAAT
108872466 AGAAAAAAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 40
0.66 0.11 0.24
Matches are distributed among these distances:
15 1 0.01
16 2 0.02
17 11 0.10
18 16 0.14
19 25 0.22
20 34 0.30
21 18 0.16
22 5 0.04
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAATTATTAAAAATTATAG
Found at i:108873030 original size:17 final size:17
Alignment explanation
Indices: 108873008--108873040 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
108872998 TTATATAAAA
108873008 TTTATT-TTATTGTTAAT
1 TTTATTATTATT-TTAAT
108873025 TTTATTATTATTTTAA
1 TTTATTATTATTTTAA
108873041 AGGCATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATTATTATTTTAAT
Found at i:108873053 original size:30 final size:30
Alignment explanation
Indices: 108873017--108873079 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
108873007 ATTTATTTTA
*
108873017 TTGTTAATTTTATTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTATAAAGGCAT
*
108873047 TTGTTAATTTTATTATTATTATAGAGGCAT
1 TTGTTAATTTTATTATTATTATAAAGGCAT
108873077 TTG
1 TTG
108873080 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTATAAAGGCAT
Found at i:108873578 original size:15 final size:17
Alignment explanation
Indices: 108873550--108873587 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
108873540 AAAAATTCAA
108873550 TATATATTTGTTATATT
1 TATATATTTGTTATATT
108873567 TATA-ATTT-TTATATT
1 TATATATTTGTTATATT
*
108873582 TTTATA
1 TATATA
108873588 GATTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 10 0.53
16 5 0.26
17 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TATATATTTGTTATATT
Found at i:108873584 original size:8 final size:8
Alignment explanation
Indices: 108873552--108873616 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
108873542 AAATTCAATA
108873552 TATATTTGT
1 TATATTT-T
*
108873561 TATATTTA
1 TATATTTT
108873569 TA-ATTTT
1 TATATTTT
108873576 TATATTTT
1 TATATTTT
108873584 TATAGATTTT
1 TAT--ATTTT
108873594 TAATAATTTT
1 T-AT-ATTTT
*
108873604 ATGTATTTT
1 -TATATTTT
108873613 TATA
1 TATA
108873617 GTTGATAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
7 6 0.13
8 13 0.28
9 12 0.26
10 12 0.26
11 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (8 bp):
TATATTTT
Found at i:108873611 original size:19 final size:19
Alignment explanation
Indices: 108873565--108873614 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
108873555 ATTTGTTATA
*
108873565 TTTATA-ATTTTT-ATATT
1 TTTATAGATTTTTAATAAT
108873582 TTTATAGATTTTTAATAAT
1 TTTATAGATTTTTAATAAT
108873601 TTTAT-GTATTTTTA
1 TTTATAG-ATTTTTA
108873615 TAGTTGATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 7 0.24
19 16 0.55
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTATAGATTTTTAATAAT
Found at i:108873640 original size:9 final size:9
Alignment explanation
Indices: 108873464--108873733 Score: 69
Period size: 9 Copynumber: 29.1 Consensus size: 9
108873454 AATGATTAAA
108873464 TTATAATTT
1 TTATAATTT
108873473 TTATATATCTT
1 TTATA-AT-TT
*
108873484 ATATATATATT
1 TTATA-AT-TT
108873495 TTA-AATTT
1 TTATAATTT
108873503 TCTAT--TTT
1 T-TATAATTT
108873511 TTA-AA-TT
1 TTATAATTT
108873518 TTATAATAATT
1 TTATAAT--TT
108873529 TTATAATTT
1 TTATAATTT
* * *
108873538 TAAAAAATT
1 TTATAATTT
** *
108873547 CAATATATAT
1 TTATA-ATTT
* * *
108873557 TTGTTATAT
1 TTATAATTT
108873566 TTATAATTT
1 TTATAATTT
108873575 TTAT-ATTT
1 TTATAATTT
108873583 TTATAGATTT
1 TTATA-ATTT
108873593 TTAATAA-TT
1 TT-ATAATTT
*
108873602 TTATGTATTT
1 TTAT-AATTT
* *
108873612 TTATAGTTG
1 TTATAATTT
*
108873621 ATAGTTAATTT
1 TTA--TAATTT
108873632 TTATAATTTT
1 TTATAA-TTT
*
108873642 TTAAAATTT
1 TTATAATTT
*
108873651 TTCT-ATATT
1 TTATAAT-TT
*
108873660 TTAAAATTT
1 TTATAATTT
* *
108873669 TAAATATTTT
1 T-TATAATTT
*
108873679 TTCT-ATGTT
1 TTATAAT-TT
108873688 TTAT-ATTT
1 TTATAATTT
*
108873696 TTCTAATAATT
1 TTATAAT--TT
* *
108873707 TTCTAACTT
1 TTATAATTT
108873716 TTAT-ATTT
1 TTATAATTT
108873724 TCTAT-ATTT
1 T-TATAATTT
108873733 T
1 T
108873734 AAACAAATTT
Statistics
Matches: 193, Mismatches: 41, Indels: 54
0.67 0.14 0.19
Matches are distributed among these distances:
7 7 0.04
8 31 0.16
9 81 0.42
10 35 0.18
11 39 0.20
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
TTATAATTT
Found at i:108873640 original size:29 final size:28
Alignment explanation
Indices: 108873568--108873642 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
108873558 TGTTATATTT
**
108873568 ATAATTTTTATATTTTTATAGATTTTTA
1 ATAATTTTTATATTTTTATAGATTGATA
*
108873596 ATAATTTTATGTATTTTTATAG-TTGATA
1 ATAATTTT-TATATTTTTATAGATTGATA
*
108873624 GTTAATTTTTATAATTTTT
1 -ATAATTTTTAT-ATTTTT
108873643 TAAAATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 14 0.36
29 25 0.64
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.63
Consensus pattern (28 bp):
ATAATTTTTATATTTTTATAGATTGATA
Found at i:108873649 original size:19 final size:18
Alignment explanation
Indices: 108873627--108873678 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
108873617 GTTGATAGTT
*
108873627 AATTTTTATAATTTTTTAA
1 AATTTTTAT-ATATTTTAA
*
108873646 AATTTTTCTATATTTTAA
1 AATTTTTATATATTTTAA
*
108873664 AA-TTTTAAATATTTT
1 AATTTTTATATATTTT
108873679 TTCTATGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 11 0.38
18 10 0.34
19 8 0.28
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTTTATATATTTTAA
Found at i:108873662 original size:28 final size:27
Alignment explanation
Indices: 108873630--108873724 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 27
108873620 GATAGTTAAT
108873630 TTTTATAATTTTTTAAAATTTTTCTATA
1 TTTTAT-ATTTTTTAAAATTTTTCTATA
** *
108873658 TTTTA-AAATTTTAAATATTTTTTCTATG
1 TTTTATATTTTTTAAA-A-TTTTTCTATA
108873686 TTTTATATTTTTCTAATAA-TTTTCTA-A
1 TTTTATATTTTT-TAA-AATTTTTCTATA
108873713 CTTTTATATTTT
1 -TTTTATATTTT
108873725 CTATATTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
26 8 0.15
27 1 0.02
28 37 0.67
29 4 0.07
30 4 0.07
31 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTATATTTTTTAAAATTTTTCTATA
Found at i:108874954 original size:43 final size:42
Alignment explanation
Indices: 108874897--108875039 Score: 135
Period size: 44 Copynumber: 3.3 Consensus size: 42
108874887 TGCACAATAT
* *
108874897 ATTTGCAGATAAAATTGTCCCTGGGTTGTGGATGCATAGCAAA
1 ATTTGCAGATAAAATT-TCCCTAGGTTGTGGATGCATAACAAA
* * * * *
108874940 ATTTACAGATAAAATCTACCACTTGGTTGTGGATACACAACAAA
1 ATTTGCAGATAAAAT-TTCC-CTAGGTTGTGGATGCATAACAAA
* * *
108874984 ATTTGTAGATAAAAACTTTCACTAGGTTGTGGATGCATAAC-GA
1 ATTTGCAGAT-AAAA-TTTCCCTAGGTTGTGGATGCATAACAAA
*
108875027 GTTTGCAGATAAA
1 ATTTGCAGATAAA
108875040 CTACCAATCT
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
42 3 0.04
43 25 0.31
44 45 0.56
45 6 0.08
46 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (42 bp):
ATTTGCAGATAAAATTTCCCTAGGTTGTGGATGCATAACAAA
Found at i:108875173 original size:38 final size:38
Alignment explanation
Indices: 108875122--108875195 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
108875112 TAGCAGCAGG
*
108875122 CATGTTTAACATGTATTCAAATCATCATTAATAGTAGA
1 CATGTTTAACATGTACTCAAATCATCATTAATAGTAGA
*
108875160 CATGTTTAACATGTACTCAAATTATCATTAATAGTA
1 CATGTTTAACATGTACTCAAATCATCATTAATAGTA
108875196 CTCAATTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (38 bp):
CATGTTTAACATGTACTCAAATCATCATTAATAGTAGA
Found at i:108875196 original size:21 final size:21
Alignment explanation
Indices: 108875172--108875216 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
108875162 TGTTTAACAT
108875172 GTACTCAAATT-ATCATTAATA
1 GTACTC-AATTCATCATTAATA
108875193 GTACTCAATTCATCATTAATA
1 GTACTCAATTCATCATTAATA
108875214 GTA
1 GTA
108875217 GACATGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (21 bp):
GTACTCAATTCATCATTAATA
Found at i:108876868 original size:30 final size:30
Alignment explanation
Indices: 108876824--108876889 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
108876814 TATATATGCG
*
108876824 AACCCCCATGTATGTAAACCCATACATACA
1 AACCCCCATATATGTAAACCCATACATACA
* * *
108876854 AACCCTCATATATGTGAACCCATACATTCA
1 AACCCCCATATATGTAAACCCATACATACA
108876884 AACCCC
1 AACCCC
108876890 ATGCATGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.35, G:0.06, T:0.21
Consensus pattern (30 bp):
AACCCCCATATATGTAAACCCATACATACA
Found at i:108876928 original size:18 final size:16
Alignment explanation
Indices: 108876768--108876927 Score: 114
Period size: 16 Copynumber: 10.3 Consensus size: 16
108876758 ATGTAATTTG
108876768 TATATGTGAACCCCCA
1 TATATGTGAACCCCCA
* * *
108876784 TGTATATGAATCCCCA
1 TATATGTGAACCCCCA
* *
108876800 TGTATGTGAACCCCTA
1 TATATGTGAACCCCCA
*
108876816 TATATGCGAACCCCCA
1 TATATGTGAACCCCCA
* *
108876832 TGTATGT-AA-ACCCA
1 TATATGTGAACCCCCA
* *** *
108876846 TACATACAAACCCTCA
1 TATATGTGAACCCCCA
108876862 TATATGTGAA--CCCA
1 TATATGTGAACCCCCA
* * *
108876876 TACAT-TCAAACCCCA
1 TATATGTGAACCCCCA
**
108876891 TGCATGTGAACCCCCA
1 TATATGTGAACCCCCA
*
108876907 TATATGTGAACACCCA
1 TATATGTGAACCCCCA
108876923 TATAT
1 TATAT
108876928 ACGAACCCCA
Statistics
Matches: 108, Mismatches: 31, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
13 3 0.03
14 14 0.13
15 12 0.11
16 79 0.73
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (16 bp):
TATATGTGAACCCCCA
Found at i:108877513 original size:22 final size:23
Alignment explanation
Indices: 108877487--108877529 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
108877477 TATCTTATTA
108877487 TTATTATTTTC-TTTCTATTTAT
1 TTATTATTTTCTTTTCTATTTAT
108877509 TTATTATTTTCTTTTCTATTT
1 TTATTATTTTCTTTTCTATTT
108877530 TTGAATTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.74
Consensus pattern (23 bp):
TTATTATTTTCTTTTCTATTTAT
Found at i:108877601 original size:10 final size:10
Alignment explanation
Indices: 108877573--108877602 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
108877563 ATAAACACAT
*
108877573 AAAAAATACA
1 AAAAAATATA
108877583 AAAAAATATA
1 AAAAAATATA
108877593 AAAAAATATA
1 AAAAAATATA
108877603 CCTTTCGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAAATATA
Found at i:108878194 original size:3 final size:3
Alignment explanation
Indices: 108878188--108878214 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
108878178 ATCTAATCGC
108878188 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
108878215 ATAGTAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:108878239 original size:31 final size:31
Alignment explanation
Indices: 108878202--108878261 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
108878192 ATTATTATTA
*
108878202 TTATTAT-TAT-TATATAGTAGTGTATATTTTT
1 TTATTATATATGTATAT-GTA-TATATATTTTT
108878233 TTATTATATATGTATATGTATATATATTT
1 TTATTATATATGTATATGTATATATATTT
108878262 ATACATAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 15 0.58
32 6 0.23
33 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (31 bp):
TTATTATATATGTATATGTATATATATTTTT
Found at i:108878262 original size:27 final size:25
Alignment explanation
Indices: 108878208--108878263 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
108878198 ATTATTATTA
* * *
108878208 TTATTATATAGTAGTGTATATTTTT
1 TTATTATATAGTAATGTATATATAT
108878233 TTATTATATATGTATATGTATATATAT
1 TTATTATATA-GTA-ATGTATATATAT
108878260 TTAT
1 TTAT
108878264 ACATAAGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 3 0.12
27 13 0.50
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (25 bp):
TTATTATATAGTAATGTATATATAT
Found at i:108878544 original size:3 final size:3
Alignment explanation
Indices: 108878344--108878526 Score: 118
Period size: 3 Copynumber: 61.0 Consensus size: 3
108878334 ATCTAATCAC
*
108878344 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATACG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T
* *
108878394 TA- TAT GTA- TAT ATAT T-T ATACGT AAG TAT TAT T-T T-T TAAT TACT
1 TAT TAT -TAT TAT -TAT TAT -TA--T TAT TAT TAT TAT TAT T-AT TA-T
* * **
108878438 TAAT T-T TAA TAT TTT TAT TA- TAT TA- TAT T-T GCT T-T T-T GTAT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
108878479 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
108878527 CAGTGTATAT
Statistics
Matches: 147, Mismatches: 13, Indels: 40
0.74 0.06 0.20
Matches are distributed among these distances:
2 19 0.13
3 109 0.74
4 16 0.11
5 2 0.01
6 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:108878551 original size:18 final size:18
Alignment explanation
Indices: 108878344--108878554 Score: 93
Period size: 18 Copynumber: 12.0 Consensus size: 18
108878334 ATCTAATCAC
108878344 TATTATTATTAT-TATTAT
1 TATTATTATTATGTA-TAT
108878362 TATTATTATTAT-TATTAT
1 TATTATTATTATGTA-TAT
*
108878380 TATTATTATATACGTATAT
1 TATTATTAT-TATGTATAT
*
108878399 GTA-TATATATTTATACGTA-AG
1 -TATTAT-TA-TTAT--GTATAT
108878420 TATTATT-TT-T-TA-AT
1 TATTATTATTATGTATAT
108878434 TACTTA--ATT-T-TAATAT
1 TA-TTATTATTATGT-ATAT
*
108878450 TTTTATTA-TAT-TATAT
1 TATTATTATTATGTATAT
**
108878466 T-TGCTT-TT-TGTATTAT
1 TATTATTATTATGTA-TAT
108878482 TATTATTATTAT-TATTAT
1 TATTATTATTATGTA-TAT
108878500 TATTATTATTATTGT-TAT
1 TATTATTATTA-TGTATAT
*
108878518 TATTATTATCAGTGTATAT
1 TATTATTATTA-TGTATAT
108878537 T-TTATTATATATGTATAT
1 TATTATTAT-TATGTATAT
108878555 ATATATGTAT
Statistics
Matches: 156, Mismatches: 12, Indels: 50
0.72 0.06 0.23
Matches are distributed among these distances:
14 10 0.06
15 13 0.08
16 13 0.08
17 7 0.04
18 78 0.50
19 15 0.10
20 12 0.08
21 5 0.03
22 3 0.02
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (18 bp):
TATTATTATTATGTATAT
Found at i:108878557 original size:12 final size:12
Alignment explanation
Indices: 108878542--108878572 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
108878532 TATATTTTAT
108878542 TATATATGTATA
1 TATATATGTATA
108878554 TATATATGTATA
1 TATATATGTATA
*
108878566 TTTATAT
1 TATATAT
108878573 ATAGTACTAT
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:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (12 bp):
TATATATGTATA
Found at i:108878586 original size:156 final size:149
Alignment explanation
Indices: 108878177--108878630 Score: 549
Period size: 156 Copynumber: 3.0 Consensus size: 149
108878167 CTAAATTATT
*
108878177 AATCTAATCGCTATTATTATTATTATTATTATTATTATATAGTAGTGTATATTTTTTTATTATAT
1 AATCTAATCACTATTATTATTATTATTATTATTATTAT-TA-TAGTGTATA---TTTTATTATAT
* * * *
108878242 ATGTATATGTATATATATTTATACATAAGTATTGTTTTTTAATTACTTTATTTTAGTATTTTTGT
61 ATGTATATGTATATATATTTATATAT-AGTATT-ATTTTTAATTACTTTATTTTAATATTTTTAT
*
108878307 TATATTATATTAGCTTTTTGTATTTC
124 TATATTATATTTGCTTTTTGTATTTC
* *
108878333 AATCTAATCACTATTATTATTATTATTATTATTATTATTATTA-T-TAT-TATTATTATATACGT
1 AATCTAATCACTATTATTATTATTATTATTATTATTATTA-TAGTGTATATTTTATTATATATGT
*
108878395 ATATGTATATATATTTATACGTA-AGTATTATTTTTTAATTACTTAATTTTAATATTTTTATTAT
65 ATATGTATATATATTTATA--TATAGTATTA-TTTTTAATTACTTTATTTTAATATTTTTATTAT
*
108878459 ATTATATTTGCTTTTTGTATTATT
127 ATTATATTTGCTTTTTGTATT-TC
* * *
108878483 ATTAT-TATTATTATTATTATTATTATTATTGTTATTATTATTATCAGTGTATATTTTATTATAT
1 A--ATCTA--ATCACTATTATTATTATTATTATTATTATTATTAT-AGTGTATATTTTATTATAT
* * * *
108878547 ATGTATATATATATGTATATTTATATATAGTACTATTTTTAATTACTTTATTTTAACATTATTAT
61 ATGTATATGTATA--TATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTTTTAT
108878612 TATATTATATTTGCTTTTT
124 TATATTATATTTGCTTTTT
108878631 TTTGTATTTC
Statistics
Matches: 262, Mismatches: 21, Indels: 30
0.84 0.07 0.10
Matches are distributed among these distances:
149 88 0.34
150 2 0.01
151 3 0.01
152 3 0.01
153 35 0.13
154 2 0.01
155 7 0.03
156 106 0.40
157 6 0.02
158 10 0.04
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (149 bp):
AATCTAATCACTATTATTATTATTATTATTATTATTATTATAGTGTATATTTTATTATATATGTA
TATGTATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTA
TATTTGCTTTTTGTATTTC
Found at i:108884310 original size:15 final size:15
Alignment explanation
Indices: 108884291--108884376 Score: 61
Period size: 15 Copynumber: 5.8 Consensus size: 15
108884281 TGAACTATTG
108884291 ATGTGCGAACCCTA-
1 ATGTGCGAACCCTAT
* *
108884305 AGTGTGCAAACTCTAT
1 A-TGTGCGAACCCTAT
*
108884321 ATGTGCGAACCCTGT
1 ATGTGCGAACCCTAT
**
108884336 ATGTATGAATCCC--T
1 ATGTGCGAA-CCCTAT
**
108884350 ATGTATGAACCCTAT
1 ATGTGCGAACCCTAT
*
108884365 ATGTGTGAACCC
1 ATGTGCGAACCC
108884377 AAATCCAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
13 3 0.05
14 11 0.19
15 41 0.69
16 4 0.07
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (15 bp):
ATGTGCGAACCCTAT
Found at i:108884364 original size:13 final size:14
Alignment explanation
Indices: 108884335--108884364 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
108884325 GCGAACCCTG
108884335 TATGTATGAATCCC
1 TATGTATGAATCCC
108884349 TATGTATGAA-CCC
1 TATGTATGAATCCC
108884362 TAT
1 TAT
108884365 ATGTGTGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (14 bp):
TATGTATGAATCCC
Found at i:108884477 original size:13 final size:13
Alignment explanation
Indices: 108884459--108884484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108884449 TGCAAACCCT
108884459 ATACATGTGAACC
1 ATACATGTGAACC
108884472 ATACATGTGAACC
1 ATACATGTGAACC
108884485 TGTTATGTAT
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:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
ATACATGTGAACC
Found at i:108885317 original size:9 final size:9
Alignment explanation
Indices: 108885303--108885371 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
108885293 TGGTTTTTCA
108885303 AAAAAATAT
1 AAAAAATAT
108885312 AAAAAATAT
1 AAAAAATAT
** *
108885321 AGAATTATTT
1 A-AAAAATAT
108885331 AAAATAAT-T
1 AAAA-AATAT
* *
108885340 AAGAAGTAT
1 AAAAAATAT
108885349 AAAAAAT-T
1 AAAAAATAT
108885357 AAAAAATATT
1 AAAAAATA-T
108885367 AAAAA
1 AAAAA
108885372 CATCCAGAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
8 10 0.22
9 22 0.48
10 14 0.30
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (9 bp):
AAAAAATAT
Found at i:108885370 original size:17 final size:17
Alignment explanation
Indices: 108885303--108885371 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
108885293 TGGTTTTTCA
108885303 AAAAAATATAAAAAATAT
1 AAAAAATATAAAAAAT-T
** *
108885321 AGAATTATTTAAAATAATT
1 A-AAAAATATAAAA-AATT
* *
108885340 AAGAAGTATAAAAAATT
1 AAAAAATATAAAAAATT
*
108885357 AAAAAATATTAAAAA
1 AAAAAATATAAAAAA
108885372 CATCCAGAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 5
0.70 0.20 0.09
Matches are distributed among these distances:
17 16 0.42
18 8 0.21
19 11 0.29
20 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
AAAAAATATAAAAAATT
Found at i:108885429 original size:37 final size:37
Alignment explanation
Indices: 108885387--108885460 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
108885377 AGAATGATCT
108885387 TGGAAAAATGGTTGTCCACACTCGAATGAACGTGGTC
1 TGGAAAAATGGTTGTCCACACTCGAATGAACGTGGTC
108885424 TGGAAAAATGGTTGTCCACACTCGAATGAACGTGGTC
1 TGGAAAAATGGTTGTCCACACTCGAATGAACGTGGTC
108885461 AACCTTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (37 bp):
TGGAAAAATGGTTGTCCACACTCGAATGAACGTGGTC
Found at i:108885521 original size:10 final size:10
Alignment explanation
Indices: 108885495--108885564 Score: 56
Period size: 10 Copynumber: 7.1 Consensus size: 10
108885485 GAACAGTTTC
108885495 TTAAGTAATTA
1 TTAA-TAATTA
108885506 -TAATAATTA
1 TTAATAATTA
108885515 TTAATAATTA
1 TTAATAATTA
*
108885525 -TAAGAAATTA
1 TTAA-TAATTA
* *
108885535 TAAATAATGA
1 TTAATAATTA
*
108885545 TTAA-AATTT
1 TTAATAATTA
*
108885554 TTAAAAATTA
1 TTAATAATTA
108885564 T
1 T
108885565 ATACACATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
9 16 0.34
10 29 0.62
11 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (10 bp):
TTAATAATTA
Found at i:108885528 original size:29 final size:29
Alignment explanation
Indices: 108885496--108885565 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
108885486 AACAGTTTCT
* *
108885496 TAAGTAATTAT-AATAATTATTAATAATTA
1 TAAGAAATTATAAATAATGATTAA-AATTA
*
108885525 TAAGAAATTATAAATAATGATTAAAATTTT
1 TAAGAAATTATAAATAATGATTAAAA-TTA
108885555 TAA-AAATTATA
1 TAAGAAATTATA
108885566 TACACATTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 20 0.56
30 16 0.44
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (29 bp):
TAAGAAATTATAAATAATGATTAAAATTA
Found at i:108885745 original size:11 final size:11
Alignment explanation
Indices: 108885729--108885754 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
108885719 GTATAATTGT
108885729 ATAATTATTTA
1 ATAATTATTTA
108885740 ATAATTATTTA
1 ATAATTATTTA
108885751 ATAA
1 ATAA
108885755 ACAATTCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATAATTATTTA
Found at i:108888158 original size:6 final size:7
Alignment explanation
Indices: 108888138--108888168 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
108888128 TTAGAAAGTC
108888138 ATTAAAA
1 ATTAAAA
108888145 ATTAAAA
1 ATTAAAA
108888152 ATTAAAA
1 ATTAAAA
*
108888159 AATAAAA
1 ATTAAAA
108888166 ATT
1 ATT
108888169 CAATTCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATTAAAA
Found at i:108892573 original size:41 final size:42
Alignment explanation
Indices: 108892515--108892604 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 42
108892505 ACCTAATTGG
* * *
108892515 TAAAATATTTCTCTTATTCTAATAAACTACTAAAAGATAAGA
1 TAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
108892557 -AAAATAATTCCCTTATTTTAATAAACTACTAAAAGATAAAA
1 TAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
108892598 TAAAATA
1 TAAAATA
108892605 TTTTTAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 37 0.86
42 6 0.14
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.33
Consensus pattern (42 bp):
TAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:108897437 original size:26 final size:26
Alignment explanation
Indices: 108897408--108897485 Score: 111
Period size: 26 Copynumber: 3.0 Consensus size: 26
108897398 ATCCGCTCAT
108897408 GGTCCTCCGACCCACTTAAACTCAAG
1 GGTCCTCCGACCCACTTAAACTCAAG
* *
108897434 GGTCCTCCGACCCATTTAAACTCAAA
1 GGTCCTCCGACCCACTTAAACTCAAG
** *
108897460 GGTCCTCTAACCCACTTAAATTCAAG
1 GGTCCTCCGACCCACTTAAACTCAAG
108897486 CTCACTAGGC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.23
Consensus pattern (26 bp):
GGTCCTCCGACCCACTTAAACTCAAG
Found at i:108898581 original size:14 final size:13
Alignment explanation
Indices: 108898554--108898578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108898544 ATTTTACAAT
108898554 AAAAAATATTTTG
1 AAAAAATATTTTG
108898567 AAAAAATATTTT
1 AAAAAATATTTT
108898579 TGATTTTACA
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:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AAAAAATATTTTG
Found at i:108902923 original size:12 final size:12
Alignment explanation
Indices: 108902906--108902930 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108902896 TGAAGATATT
108902906 AGAAATAATAAA
1 AGAAATAATAAA
108902918 AGAAATAATAAA
1 AGAAATAATAAA
108902930 A
1 A
108902931 CAACAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AGAAATAATAAA
Found at i:108904744 original size:51 final size:51
Alignment explanation
Indices: 108904679--108904927 Score: 165
Period size: 51 Copynumber: 5.1 Consensus size: 51
108904669 AAGATAAGAT
* * *
108904679 TTGTAATTTCAATCTACTCCACTGTAACTTCAGAGAGATAAGATTTGTAAC
1 TTGTAATTTTAATCTACTCCACTGCAACTTCAGAGAAATAAGATTTGTAAC
** * *
108904730 TTGTAATTTTAATCTGTTCCTCTACAACTTCA-AGGAAATAAGATTTG---C
1 TTGTAATTTTAATCTACTCCACTGCAACTTCAGA-GAAATAAGATTTGTAAC
* *
108904778 ---T-ATCTTTAATCTACTCTACTGCAACTTCAGAGATATAAGATTTGTAAC
1 TTGTAAT-TTTAATCTACTCCACTGCAACTTCAGAGAAATAAGATTTGTAAC
* * ** * *
108904826 TTGTAACTTTAATATGTTCCTCTACAACTTCA-AGGAAATAAGATTTG---C
1 TTGTAATTTTAATCTACTCCACTGCAACTTCAGA-GAAATAAGATTTGTAAC
* * *
108904874 ---T-ATCTTTAATCTACTCTACTGCAACTTTA-AGGAGATAAGATTTGTAAC
1 TTGTAAT-TTTAATCTACTCCACTGCAACTTCAGA-GAAATAAGATTTGTAAC
108904922 TT-TAAT
1 TTGTAAT
108904928 CTACTCAATT
Statistics
Matches: 150, Mismatches: 30, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
44 3 0.02
45 66 0.44
46 1 0.01
48 4 0.03
50 3 0.02
51 72 0.48
52 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (51 bp):
TTGTAATTTTAATCTACTCCACTGCAACTTCAGAGAAATAAGATTTGTAAC
Found at i:108904803 original size:45 final size:45
Alignment explanation
Indices: 108904584--108905373 Score: 350
Period size: 44 Copynumber: 17.2 Consensus size: 45
108904574 CTTTACAAAA
* * * * *
108904584 ATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAG
1 ATAAGATTTGCTATCTTTAATCTGCTCTACTGCAACTTCAAGGAG
* ** ** * * *
108904628 ATAAGATTTG-TAGCTTCCATCTATTCCACTGCAACATCAAGAAG
1 ATAAGATTTGCTATCTTTAATCTGCTCTACTGCAACTTCAAGGAG
* * * *
108904672 ATAAGATTTG-TAAT-TTCAATCTACTCCACTGTAACTTC-AGAGAG
1 ATAAGATTTGCT-ATCTTTAATCTGCTCTACTGCAACTTCAAG-GAG
* * *
108904716 ATAAGATTTGTAACTTGTAAT-TTTAATCTGTTCCT-CTACAACTTCAAGGAA
1 ATAAGATTTG---C---T-ATCTTTAATCTGCT-CTACTGCAACTTCAAGGAG
* *
108904767 ATAAGATTTGCTATCTTTAATCTACTCTACTGCAACTTC-AGAGAT
1 ATAAGATTTGCTATCTTTAATCTGCTCTACTGCAACTTCAAG-GAG
* * * * *
108904812 ATAAGATTTGTAACTTGTAACTTTAATATGTTCCT-CTACAACTTCAAGGAA
1 ATAAGATTTG---C---TATCTTTAATCTGCT-CTACTGCAACTTCAAGGAG
* *
108904863 ATAAGATTTGCTATCTTTAATCTACTCTACTGCAACTTTAAGGAG
1 ATAAGATTTGCTATCTTTAATCTGCTCTACTGCAACTTCAAGGAG
* * * * *
108904908 ATAAGATTTG-TAACTTTAATCTACTCAATTGCAACTTCAAAGAG
1 ATAAGATTTGCTATCTTTAATCTGCTCTACTGCAACTTCAAGGAG
* ** * *
108904952 ATAAGATCTG-TGGCTTCAATCTGCTCCACTGCAACTTC-AGAGAG
1 ATAAGATTTGCTATCTTTAATCTGCTCTACTGCAACTTCAAG-GAG
* * * * * * *
108904996 ATAAGATTTACCATGATAACTTCAATCCG-TCCCACTACAACTT-TAGGGG
1 ATAAGATTT-GC-T-AT--CTTTAATCTGCT-CTACTGCAACTTCAAGGAG
* * * * *
108905045 TATAGGATTTG-TAACTTTGATCTACTGC-ACTGCAACTTC-TGTGAG
1 -ATAAGATTTGCTATCTTTAATCTGCT-CTACTGCAACTTCAAG-GAG
* * * * * *
108905090 ATAAGGTTT-ATAGCTTTAATCTGTTCTATTGCAACTT-TAGAGAG
1 ATAAGATTTGCTATCTTTAATCTGCTCTACTGCAACTTCAAG-GAG
* * * *
108905134 ATAAGATTTACTAT-TTTCAATCTGCTCTACTGTAACTTTAGGGAG
1 ATAAGATTTGCTATCTTT-AATCTGCTCTACTGCAACTTCAAGGAG
* * *
108905179 ATAA-AGTTT-ATAGCTTTAATCTGCTCTACTGTAACTTC-AGAGAG
1 ATAAGA-TTTGCTATCTTTAATCTGCTCTACTGCAACTTCAAG-GAG
* * * *
108905223 ATAAGATTTGCTATCTTCAATCTGCTCCACTGTAACTTCATGGAG
1 ATAAGATTTGCTATCTTTAATCTGCTCTACTGCAACTTCAAGGAG
* * * * *
108905268 ATAAGACTTGTGGTTTGTAGCTTTAATCTGTTCTACTGCAACTT-TAGGGG
1 ATAAGA-TT-T-G---CTATCTTTAATCTGCTCTACTGCAACTTCAAGGAG
* * * * * *
108905318 AATAAGATTCGCTATCTTCAATCTACTCCACTGCAACTTTAGGGAG
1 -ATAAGATTTGCTATCTTTAATCTGCTCTACTGCAACTTCAAGGAG
108905364 ATAAGATTTG
1 ATAAGATTTG
108905374 TAACTTGTAG
Statistics
Matches: 576, Mismatches: 114, Indels: 111
0.72 0.14 0.14
Matches are distributed among these distances:
43 5 0.01
44 250 0.43
45 168 0.29
46 8 0.01
47 3 0.01
48 5 0.01
49 3 0.01
50 35 0.06
51 92 0.16
52 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (45 bp):
ATAAGATTTGCTATCTTTAATCTGCTCTACTGCAACTTCAAGGAG
Found at i:108904810 original size:96 final size:96
Alignment explanation
Indices: 108904582--108905419 Score: 533
Period size: 96 Copynumber: 9.1 Consensus size: 96
108904572 AACTTTACAA
* * * *
108904582 AAATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGT-A---G-
1 AAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTTGT
** * * * *
108904641 --CTTCCATCTATTCCACTGCAACATCAA-G
66 AACTTTAATCTGTTCCTCTACAACTTCAAGG
*
108904669 AAGATAAGATTTG-TAAT-TTCAATCTACTCCACTGTAACTTCAGAGAGATAAGATTTGTAACTT
1 AA-ATAAGATTTGCT-ATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTT
*
108904732 GTAATTTTAATCTGTTCCTCTACAACTTCAAGG
64 GTAACTTTAATCTGTTCCTCTACAACTTCAAGG
* * *
108904765 AAATAAGATTTGCTATCTTTAATCTACTCTACTGCAACTTCAGAGATATAAGATTTGTAACTTGT
1 AAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTTGT
*
108904830 AACTTTAATATGTTCCTCTACAACTTCAAGG
66 AACTTTAATCTGTTCCTCTACAACTTCAAGG
* * *
108904861 AAATAAGATTTGCTATCTTTAATCTACTCTACTGCAACTTTA-AGGAGATAAGATTTGTAACTT-
1 AAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGA-GAGATAAGATTTGTAACTTG
* * * *
108904924 TAA-TCT-A-C---TCAAT-TGCAACTTCAAAG
65 TAACTTTAATCTGTTC-CTCTACAACTTCAAGG
* * ** * * *
108904950 AGATAAGATCTG-TGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-TACCATGA
1 AAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTTG-
* * * * * *
108905012 TAACTTCAATCCGTCCCACTACAACTTTAGGG
65 TAACTTTAATCTGTTCCTCTACAACTTCAAGG
** * * ** * * * *
108905044 GTATAGGATTTG-TAACTTTGATCTACTGCACTGCAACTTCTGTGAGATAAG----GT---TTAT
1 AAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTTGT
* * * *
108905101 AGCTTTAATCTGTT-CTATTGCAACTT-TAGAG
66 AACTTTAATCTGTTCCT-CTACAACTTCAAG-G
* * * * * * * * *
108905132 AGATAAGATTTACTATTTTCAATCTGCTCTACTGTAACTTTAGGGAGATAA-A---GT---TTAT
1 AAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTTGT
* * **
108905190 AGCTTTAATCTGCT-CTACTGTAACTTC-AGAG
66 AACTTTAATCTGTTCCT-CTACAACTTCAAG-G
* * * * ***
108905221 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGTAACTTCATG-GAGATAAGACTTGTGGTTTG
1 AAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCA-GAGAGATAAGATTTGTAACTTG
* * * *
108905285 TAGCTTTAATCTGTT-CTACTGCAACTTTAGGG
65 TAACTTTAATCTGTTCCT-CTACAACTTCAAGG
* * * *
108905317 GAATAAGATTCGCTATCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGT
1 AAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTTGT
* * *
108905382 AGCTTTAATCTATTCCACTAC-ACTTCAAGG
66 AACTTTAATCTGTTCCTCTACAACTTCAAGG
108905412 AAATAAGA
1 AAATAAGA
108905420 CTCGCTACGA
Statistics
Matches: 600, Mismatches: 110, Indels: 74
0.77 0.14 0.09
Matches are distributed among these distances:
86 4 0.01
87 6 0.01
88 110 0.18
89 133 0.22
90 4 0.01
91 1 0.00
92 2 0.00
93 3 0.00
94 51 0.09
95 51 0.09
96 233 0.39
97 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (96 bp):
AAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTTGT
AACTTTAATCTGTTCCTCTACAACTTCAAGG
Found at i:108905079 original size:138 final size:138
Alignment explanation
Indices: 108904609--108905273 Score: 371
Period size: 138 Copynumber: 4.8 Consensus size: 138
108904599 TCAATCTGCT
* * * ** * * *
108904609 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCCATCTATTCCACTGCAACATC-AAGAAGA
1 CCACTACAACTTTAAGGAGATAAGATTTGTAACTTTAATCTACTCAACTGCAACTTCAAAG-AGA
* * ** * * * * *
108904673 TAAGATTTGTAATTTCAATCTACTCCACTGTAACTTCAGAGAGATAAGATTTGTAACTTG-TAAT
65 TAAGATCTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-TACCATGATAAC
* * *
108904737 TTTAATCTGTT
128 TTCAATCCGTC
* * * * * * *
108904748 CCTCTACAACTTCAAGGAAATAAGATTTGCTATCTTTAATCTACTCTACTGCAACTTCAGAGATA
1 CCACTACAACTTTAAGGAGATAAGATTTG-TAACTTTAATCTACTCAACTGCAACTTCAAAGAGA
* * * * * * * * *
108904813 TAAGATTTGTAACTTGTAACTTTAATATGTTCCTCTACAACTTCA-AGGAAATAAGATTT-GC-T
65 TAAGA----T--C-TATAGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTACCAT
*
108904875 -AT--CTTTAAT-C-TAC
122 GATAACTTCAATCCGT-C
* * *
108904888 TCTACTGCAACTTTAAGGAGATAAGATTTGTAACTTTAATCTACTCAATTGCAACTTCAAAGAGA
1 -CCACTACAACTTTAAGGAGATAAGATTTGTAACTTTAATCTACTCAACTGCAACTTCAAAGAGA
* *
108904953 TAAGATCTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACCATGATAACTT
65 TAAGATCTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACCATGATAACTT
108905018 CAATCCGTC
130 CAATCCGTC
* * * ***
108905027 CCACTACAACTTT-AGGGGTATAGGATTTGTAACTTTGATCTACTGC-ACTGCAACTTCTGTGAG
1 CCACTACAACTTTAAGGAG-ATAAGATTTGTAACTTTAATCTACT-CAACTGCAACTTCAAAGAG
* * * * * * * *
108905090 ATAAGGTTTATAGCTTTAATCTGTTCTATTGCAACTTTAGAGAGATAAGATTTA-C-T-AT--TT
64 ATAAGATCTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACCATGATAACT
*
108905150 TCAATCTG-C
129 TCAATCCGTC
* ** * * * * * * *
108905159 TCTACTGTAACTTTAGGGAGATAA-AGTTTATAGCTTTAATCTGCTCTACTGTAACTTCAGAGAG
1 -CCACTACAACTTTAAGGAGATAAGA-TTTGTAACTTTAATCTACTCAACTGCAACTTCAAAGAG
* * * *
108905223 ATAAGATTTGCTATCTTCAATCTGCTCCACTGTAACTTCATG-GAGATAAGA
64 ATAAGATCT-ATAGCTTCAATCTGCTCCACTGCAACTTCA-GAGAGATAAGA
108905274 CTTGTGGTTT
Statistics
Matches: 408, Mismatches: 89, Indels: 63
0.73 0.16 0.11
Matches are distributed among these distances:
132 3 0.01
133 93 0.23
134 37 0.09
135 4 0.01
136 4 0.01
137 5 0.01
138 98 0.24
139 28 0.07
140 65 0.16
141 32 0.08
143 2 0.00
144 2 0.00
145 1 0.00
146 3 0.01
147 31 0.08
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (138 bp):
CCACTACAACTTTAAGGAGATAAGATTTGTAACTTTAATCTACTCAACTGCAACTTCAAAGAGAT
AAGATCTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACCATGATAACTTC
AATCCGTC
Found at i:108905094 original size:182 final size:183
Alignment explanation
Indices: 108904584--108905140 Score: 408
Period size: 182 Copynumber: 3.0 Consensus size: 183
108904574 CTTTACAAAA
* * * * * * *
108904584 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGC-T-T-CC
1 ATAAGATCTGTGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACATGTAAC
* * * * * *
108904646 ATC--TA--TTCCACTGCAACATCAA-GAAGATAAGATTTG-TAA-TTTCAATCTACTCCACTGT
66 TTCAATACGTCCCACTACAACTTCAAGGAA-ATAAGATTTGCTAACTTT-AATCTACTCTACTGC
* * * * * * *
108904704 AACTTCAGAGAGATAAGATTTGTAACTTGTAATTTTAATCTGTTC-CTCTACAACTTCAAGGAA
129 AACTTTAG-GAGATAAGATTTATAACTT-TAA-TCT-A-C---TCAAT-TGCAACTTCAAAGAG
* ** * * * *
108904767 ATAAGATTTGCTATCTTTAATCTACTCTACTGCAACTTCAGAGATATAAGATTTGTAACTTGTAA
1 ATAAGATCTG-TGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACATGTAA
* * * * *
108904832 CTTTAATATGTTCCTCTACAACTTCAAGGAAATAAGATTTGCTATCTTTAATCTACTCTACTGCA
65 CTTCAATACGTCCCACTACAACTTCAAGGAAATAAGATTTGCTAACTTTAATCTACTCTACTGCA
*
108904897 ACTTTAAGGAGATAAGATTTGTAACTTTAATCTACTCAATTGCAACTTCAAAGAG
130 ACTTT-AGGAGATAAGATTTATAACTTTAATCTACTCAATTGCAACTTCAAAGAG
* *
108904952 ATAAGATCTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-TACCATGATAA
1 ATAAGATCTGTGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACATG-TAA
* * * ** * *
108905015 CTTCAATCCGTCCCACTACAACTTTAGGGGTATAGGATTTG-TAACTTTGATCTACTGC-ACTGC
65 CTTCAATACGTCCCACTACAACTTCAAGGAAATAAGATTTGCTAACTTTAATCTACT-CTACTGC
* * ** * * *
108905078 AACTTCT-GTGAGATAAGGTTTATAGCTTTAATCTGTTCTATTGCAACTTTAGAGAG
129 AACTT-TAG-GAGATAAGATTTATAACTTTAATCTACTCAATTGCAACTTCAAAGAG
108905134 ATAAGAT
1 ATAAGAT
108905141 TTACTATTTT
Statistics
Matches: 305, Mismatches: 52, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
181 1 0.00
182 74 0.24
183 48 0.16
184 74 0.24
185 24 0.08
186 2 0.01
187 2 0.01
188 1 0.00
189 3 0.01
190 2 0.01
191 27 0.09
192 42 0.14
193 5 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (183 bp):
ATAAGATCTGTGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAACATGTAAC
TTCAATACGTCCCACTACAACTTCAAGGAAATAAGATTTGCTAACTTTAATCTACTCTACTGCAA
CTTTAGGAGATAAGATTTATAACTTTAATCTACTCAATTGCAACTTCAAAGAG
Found at i:108905124 original size:44 final size:44
Alignment explanation
Indices: 108905073--108905368 Score: 186
Period size: 45 Copynumber: 6.5 Consensus size: 44
108905063 GATCTACTGC
* *
108905073 ACTGCAACTTCT-GTGAGATAAGGTTTATAGCTTTAATCTGTTCT
1 ACTGCAACTT-TAGAGAGATAAGGTTTATAGCTTTAATCTGCTCT
* * *
108905117 ATTGCAACTTTAGAGAGATAAGATTTACTA-TTTTCAATCTGCTCT
1 ACTGCAACTTTAGAGAGATAAGGTTTA-TAGCTTT-AATCTGCTCT
* * *
108905162 ACTGTAACTTTAGGGAGATAAAGTTTATAGCTTTAATCTGCTCT
1 ACTGCAACTTTAGAGAGATAAGGTTTATAGCTTTAATCTGCTCT
* * * * * * *
108905206 ACTGTAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCC
1 ACTGCAACTTTAGAGAGATAAGGTTT-ATAGCTTTAATCTGCTCT
* * * *
108905251 ACTGTAACTTCATG-GAGATAAGACTTGTGGTTTGTAGCTTTAATCTGTTCT
1 ACTGCAACTTTA-GAGAGAT-A-A-----GGTTTATAGCTTTAATCTGCTCT
* * ** * * * *
108905302 ACTGCAACTTTAG-GGGAATAAGATTCGCTATCTTCAATCTACTCC
1 ACTGCAACTTTAGAGAG-ATAAGGTT-TATAGCTTTAATCTGCTCT
*
108905347 ACTGCAACTTTAGGGAGATAAG
1 ACTGCAACTTTAGAGAGATAAG
108905369 ATTTGTAACT
Statistics
Matches: 199, Mismatches: 37, Indels: 31
0.75 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 62 0.31
45 97 0.49
46 4 0.02
47 1 0.01
49 1 0.01
50 4 0.02
51 25 0.13
52 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (44 bp):
ACTGCAACTTTAGAGAGATAAGGTTTATAGCTTTAATCTGCTCT
Found at i:108905519 original size:94 final size:93
Alignment explanation
Indices: 108905378--108905704 Score: 397
Period size: 94 Copynumber: 3.5 Consensus size: 93
108905368 GATTTGTAAC
* * * * * *
108905378 TTGTAGCTTTAATCTATTCCACTAC-ACTTCAAGGAAATAAGACTCGCTACGATAGATTTAATCC
1 TTGTGGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATG-TAGATTTAATCC
* * * *
108905442 GACCTACAGCAATTTTAGAAGTATAGGAT
65 GACCTACTGCAACTTCAGAGGTATAGGAT
* * * * *
108905471 TTATCGCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTTAATCC
1 TTGTGGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCTAT-GTAGATTTAATCC
108905536 GACCTACTGCAACTTCAGAGGTATAGGAT
65 GACCTACTGCAACTTCAGAGGTATAGGAT
* * * *
108905565 TTGTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCTCTATGTTGACTTCAATCC
1 TTGTGGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATGTAGA-TTTAATCC
* * *
108905630 G-TCTCACTGTAACTTCAGCGGTATAGGAT
65 GACCT-ACTGCAACTTCAGAGGTATAGGAT
*
108905659 TTGTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTC
1 TTGTGGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTC
108905705 ACCATGATAA
Statistics
Matches: 206, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
93 27 0.13
94 178 0.86
95 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (93 bp):
TTGTGGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATGTAGATTTAATCCG
ACCTACTGCAACTTCAGAGGTATAGGAT
Found at i:108905593 original size:44 final size:43
Alignment explanation
Indices: 108905545--108905693 Score: 138
Period size: 44 Copynumber: 3.3 Consensus size: 43
108905535 CGACCTACTG
108905545 CAACTTCAGAGGTATAGGATTTGTGGCTTTAATCTGCTCCACTA
1 CAACTTCAG-GGTATAGGATTTGTGGCTTTAATCTGCTCCACTA
* * * * * *
108905589 CAACTTCAGGGAGATAAGATTCTCTATGTTGACTTCAATCCG-TCTCACTG
1 CAACTTCAGGG-TATAGGA---T-T-TG-TGGCTTTAATCTGCTC-CACTA
*
108905639 TAACTTCAGCGGTATAGGATTTGTGGCTTTAATCTGCTCCACTA
1 CAACTTCAG-GGTATAGGATTTGTGGCTTTAATCTGCTCCACTA
108905683 CAACTTCAGGG
1 CAACTTCAGGG
108905694 AGATAAGATT
Statistics
Matches: 81, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
43 4 0.05
44 36 0.44
45 4 0.05
46 1 0.01
47 2 0.02
48 1 0.01
49 4 0.05
50 27 0.33
51 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (43 bp):
CAACTTCAGGGTATAGGATTTGTGGCTTTAATCTGCTCCACTA
Found at i:108905718 original size:94 final size:93
Alignment explanation
Indices: 108905378--108905754 Score: 364
Period size: 94 Copynumber: 4.0 Consensus size: 93
108905368 GATTTGTAAC
* ** * * * * * *
108905378 TTGTAGCTTTAATCTATTCCACTAC-ACTTCAAGGAAATAAGACTCGCTACGATAGA-TTTAATC
1 TTGTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACTATGATA-ACTTCAATC
* * * * *
108905441 CGACCTACAGCAATTTTAGAAGTATAGGAT
65 CGTCC-ACTGCAACTTCAGAGGTATAGGAT
* * * ** * * * *
108905471 TTATCGCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTTAATC
1 TTGTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACTATGATA-ACTTCAATC
*
108905535 CGACCTACTGCAACTTCAGAGGTATAGGAT
65 CGTCC-ACTGCAACTTCAGAGGTATAGGAT
* * *
108905565 TTGTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCTCTATGTTGACTTCAATCC
1 TTGTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACTATGATAACTTCAATCC
* *
108905630 GTCTCACTGTAACTTCAGCGGTATAGGAT
66 GTC-CACTGCAACTTCAGAGGTATAGGAT
* *
108905659 TTGTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACCATGATAACTTCAATCT
1 TTGTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACTATGATAACTTCAATCC
* * * *
108905724 GTCCCACTACAACTTAAGGGGTATAAGAT
66 GT-CCACTGCAACTTCAGAGGTATAGGAT
108905753 TT
1 TT
108905755 ATAGTTTCTC
Statistics
Matches: 244, Mismatches: 36, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
93 22 0.09
94 220 0.90
95 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (93 bp):
TTGTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACTATGATAACTTCAATCC
GTCCACTGCAACTTCAGAGGTATAGGAT
Found at i:108910726 original size:12 final size:12
Alignment explanation
Indices: 108910709--108910733 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108910699 GTGGAACGAA
108910709 TTTTTTTTAATT
1 TTTTTTTTAATT
108910721 TTTTTTTTAATT
1 TTTTTTTTAATT
108910733 T
1 T
108910734 CGGCAGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTAATT
Found at i:108911366 original size:22 final size:22
Alignment explanation
Indices: 108911337--108911404 Score: 93
Period size: 22 Copynumber: 3.0 Consensus size: 22
108911327 TGCACAAACG
108911337 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
*
108911359 TACAGAGAGCAC-AAATGTGCTA
1 AACAGAGAGCACTAAA-GTGCTA
*
108911381 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
108911404 A
1 A
108911405 TAATAGAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
21 3 0.08
22 28 0.70
23 7 0.17
24 2 0.05
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:108912564 original size:7 final size:7
Alignment explanation
Indices: 108912554--108912642 Score: 64
Period size: 7 Copynumber: 13.3 Consensus size: 7
108912544 TACTTATGTT
108912554 TTATATA
1 TTATATA
108912561 -T-TATA
1 TTATATA
108912566 TTATATA
1 TTATATA
*
108912573 TAATATA
1 TTATATA
*
108912580 ATA-ATA
1 TTATATA
*
108912586 TGATATA
1 TTATATA
108912593 TTATATA
1 TTATATA
108912600 TTA-ATA
1 TTATATA
*
108912606 CTTAAATA
1 -TTATATA
108912614 TTA-A-A
1 TTATATA
108912619 TTAATATA
1 TT-ATATA
*
108912627 ATATATA
1 TTATATA
*
108912634 ATATATA
1 TTATATA
108912641 TT
1 TT
108912643 TTTATATTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 7 0.11
6 11 0.17
7 43 0.65
8 5 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (7 bp):
TTATATA
Found at i:108912591 original size:20 final size:20
Alignment explanation
Indices: 108912563--108912605 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
108912553 TTTATATATT
*
108912563 ATATTATATATAATATAATA
1 ATATGATATATAATATAATA
* *
108912583 ATATGATATATTATATATTA
1 ATATGATATATAATATAATA
108912603 ATA
1 ATA
108912606 CTTAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATGATATATAATATAATA
Found at i:108918762 original size:22 final size:22
Alignment explanation
Indices: 108918733--108918800 Score: 93
Period size: 22 Copynumber: 3.0 Consensus size: 22
108918723 TGCACAAACG
108918733 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
*
108918755 TACAGAGAGCAC-AAATGTGCTA
1 AACAGAGAGCACTAAA-GTGCTA
*
108918777 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
108918800 A
1 A
108918801 TAATAGAACG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
21 3 0.08
22 28 0.70
23 7 0.17
24 2 0.05
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:108920029 original size:39 final size:39
Alignment explanation
Indices: 108919975--108920100 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
108919965 TTCAGTGATG
*
108919975 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
108920014 TATATCTGGACTTAGGATCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
108920053 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
108920092 TATGTCCGG
1 TATATCCGG
108920101 GCTAAAGTCT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:108920127 original size:78 final size:78
Alignment explanation
Indices: 108919975--108920138 Score: 172
Period size: 78 Copynumber: 2.1 Consensus size: 78
108919965 TTCAGTGATG
* ** * * * * *
108919975 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAATTATATCTGGACTTAGGATCCGCAGGC
1 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTAAAGATCCGCAGGC
*
108920040 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * *
108920053 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATATGTCCGGGCTAAAG-TCTCGTAGG
1 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTAAAGATC-CGCAGG
*
108920117 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
108920131 TATA-CCGG
1 TATATCCGG
108920139 GTTTAAATTC
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
77 7 0.10
78 64 0.90
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTAAAGATCCGCAGGC
TATGAGCTGGAAT
Found at i:108922019 original size:7 final size:7
Alignment explanation
Indices: 108922009--108922105 Score: 71
Period size: 7 Copynumber: 14.4 Consensus size: 7
108921999 TACTTATGTT
108922009 TTATATA
1 TTATATA
108922016 -T-TATA
1 TTATATA
108922021 TTATATA
1 TTATATA
*
108922028 TAATATA
1 TTATATA
*
108922035 ATA-ATA
1 TTATATA
*
108922041 TGATATA
1 TTATATA
108922048 TTATATA
1 TTATATA
108922055 TTA-ATA
1 TTATATA
*
108922061 CTTAAATA
1 -TTATATA
108922069 TTA-A-A
1 TTATATA
108922074 TTAATATA
1 TT-ATATA
*
108922082 ATATATA
1 TTATATA
*
108922089 ATATATA
1 TTATATA
*
108922096 TTTTATA
1 TTATATA
108922103 TTA
1 TTA
108922106 AAAATATCTT
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
5 7 0.10
6 11 0.15
7 49 0.68
8 5 0.07
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (7 bp):
TTATATA
Found at i:108922046 original size:20 final size:20
Alignment explanation
Indices: 108922018--108922060 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
108922008 TTTATATATT
*
108922018 ATATTATATATAATATAATA
1 ATATGATATATAATATAATA
* *
108922038 ATATGATATATTATATATTA
1 ATATGATATATAATATAATA
108922058 ATA
1 ATA
108922061 CTTAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATGATATATAATATAATA
Found at i:108930323 original size:12 final size:12
Alignment explanation
Indices: 108930308--108930333 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
108930298 CTAAAAATAA
108930308 AAATAAACAAAT
1 AAATAAACAAAT
108930320 AAATAAACAAAT
1 AAATAAACAAAT
108930332 AA
1 AA
108930334 TCTCTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAACAAAT
Found at i:108937806 original size:27 final size:27
Alignment explanation
Indices: 108937751--108937815 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
108937741 AGTATAGTTT
* *
108937751 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
* * *
108937778 CCAGTAACAGTGAATGTGACATAGTCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
108937805 CCAGT-ACAGTA
1 CCAGTAACAGTA
108937816 CTTCCTTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGACAAAGCCA
Found at i:108937993 original size:27 final size:26
Alignment explanation
Indices: 108937951--108938071 Score: 143
Period size: 27 Copynumber: 4.5 Consensus size: 26
108937941 ATGCATAATT
**
108937951 GTTATTTTACCGTACAAGGATATTACG
1 GTTATTTTACC-TACAAGGGCATTACG
* *
108937978 GTTATTTTATCCTACAGGGGTATTACG
1 GTTATTTTA-CCTACAAGGGCATTACG
* *
108938005 GTCATTTTACCCTATAAGGGCATTACG
1 GTTATTTTA-CCTACAAGGGCATTACG
*
108938032 GTCATTTTACCCTACAAGGGCATTACG
1 GTTATTTTA-CCTACAAGGGCATTACG
108938059 GTTATTTTACCTA
1 GTTATTTTACCTA
108938072 TTTTAAGGTT
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.05
27 78 0.93
28 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (26 bp):
GTTATTTTACCTACAAGGGCATTACG
Found at i:108939465 original size:31 final size:32
Alignment explanation
Indices: 108939425--108939492 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
108939415 TTTTGGCTTT
108939425 AAAGA-GAAAG-AAAAAAATACCAAAGCAAGG
1 AAAGATGAAAGAAAAAAAATACCAAAGCAAGG
108939455 AAAGATGAAAGAAAAAAAATACCAAAGCAAGG
1 AAAGATGAAAGAAAAAAAATACCAAAGCAAGG
108939487 AAAGAT
1 AAAGAT
108939493 CGAAGCCCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 5 0.14
31 5 0.14
32 26 0.72
ACGTcount: A:0.66, C:0.09, G:0.19, T:0.06
Consensus pattern (32 bp):
AAAGATGAAAGAAAAAAAATACCAAAGCAAGG
Found at i:108948004 original size:56 final size:55
Alignment explanation
Indices: 108947927--108948093 Score: 183
Period size: 56 Copynumber: 3.0 Consensus size: 55
108947917 TTTAGATTTT
* * * * *
108947927 TATAGTTTTTCCCCTATTTTTCAAATTTTACAATTTTACCATTATTTTTCAAAATC
1 TATAGTTTTGCCACTATTTTTCAGATTTTATAATTTTACCCTTATTTTT-AAAATC
* * * * *
108947983 TATAGTTTTGCCACTGA-TTTTCAGATTTTATAGTTTTGCCCTTACTTTTTAGATTT
1 TATAGTTTTGCCACT-ATTTTTCAGATTTTATAATTTTACCCTTA-TTTTTAAAATC
* *
108948039 TACAGTTTTGCCATTATTTTTCAGATTTTATAATTTTACCCTTATTTTTTAAAAT
1 TATAGTTTTGCCACTATTTTTCAGATTTTATAATTTTACCCTTA-TTTTTAAAAT
108948094 TCATATTTTT
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
55 1 0.01
56 84 0.92
57 6 0.07
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (55 bp):
TATAGTTTTGCCACTATTTTTCAGATTTTATAATTTTACCCTTATTTTTAAAATC
Found at i:108948075 original size:28 final size:28
Alignment explanation
Indices: 108947884--108948087 Score: 164
Period size: 28 Copynumber: 7.2 Consensus size: 28
108947874 GTGTGTCCCC
* *
108947884 TATTTTTCAGATTTTACAGGTTTT--CTT
1 TATTTTTCAGATTTTATA-GTTTTGCCAT
* * **
108947911 CTATTTTTTAGATTTTTATAGTTTTTCCCC
1 -TATTTTTCAGA-TTTTATAGTTTTGCCAT
* * * *
108947941 TATTTTTCAAATTTTACAATTTTACCAT
1 TATTTTTCAGATTTTATAGTTTTGCCAT
* * *
108947969 TATTTTTCAAAATCTATAGTTTTGCCACT
1 TATTTTTCAGATTTTATAGTTTTGCCA-T
* *
108947998 GA-TTTTCAGATTTTATAGTTTTGCCCT
1 TATTTTTCAGATTTTATAGTTTTGCCAT
*
108948025 TACTTTTT-AGATTTTACAGTTTTGCCAT
1 TA-TTTTTCAGATTTTATAGTTTTGCCAT
* * *
108948053 TATTTTTCAGATTTTATAATTTTACCCT
1 TATTTTTCAGATTTTATAGTTTTGCCAT
108948081 TATTTTT
1 TATTTTT
108948088 TAAAATTCAT
Statistics
Matches: 141, Mismatches: 28, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
27 7 0.05
28 112 0.79
29 21 0.15
30 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (28 bp):
TATTTTTCAGATTTTATAGTTTTGCCAT
Found at i:108950224 original size:5 final size:5
Alignment explanation
Indices: 108950214--108950240 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
108950204 TAAATGTTTG
108950214 TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TT
108950241 ATCATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:108953899 original size:11 final size:10
Alignment explanation
Indices: 108953870--108953903 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
108953860 ATTAATTTTT
108953870 AAAATTTTAA
1 AAAATTTTAA
108953880 AAAATTTTAA
1 AAAATTTTAA
108953890 AAAATATTTAA
1 AAAAT-TTTAA
108953901 AAA
1 AAA
108953904 TAATTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:108953928 original size:29 final size:28
Alignment explanation
Indices: 108953891--108953967 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
108953881 AAATTTTAAA
*
108953891 AAATATTTAAAAATAATTTTAGTAATTTT
1 AAATTTTTAAAAATAATTTTA-TAATTTT
* **
108953920 TAATTTTTAAAAATGGTTTTTATAATTTT
1 AAATTTTTAAAAAT-AATTTTATAATTTT
*
108953949 AAATTTTAAAAAATTAATT
1 AAATTTTTAAAAA-TAATT
108953968 AAATGCTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 32 0.84
30 6 0.16
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
AAATTTTTAAAAATAATTTTATAATTTT
Found at i:108955676 original size:55 final size:57
Alignment explanation
Indices: 108955618--108955872 Score: 191
Period size: 62 Copynumber: 4.3 Consensus size: 57
108955608 ACCTTAACCT
* *
108955618 TCAACTATTAAAGAGCCTAACC-TTTAACTCCCAACTAAATCTTTAATCCTAACT-T-
1 TCAACTA-TAAAGAGCCTAACCTTTTAACTCTCAACTAAATCTCTAATCCTAACTATC
* * * * *
108955673 TCAATTATAAAAGAGCTTAAGCC---TATCTCTCAAGTAAATCTGTAACTCTCTAACCTTAACTC
1 TCAACTAT-AAAGAGCCTAA-CCTTTTAACTCTCAACTAAATCTCTAA-TC-CTAA-C-T-A-TC
* *
108955735 TCAACTATAAAGAAGCCTAGCCTTTTAACTCTCAACTAAATCCCTAATCCTAACCTTAACTC
1 TCAACTATAAAG-AGCCTAACCTTTTAACTCTCAACTAAATCTCTAATCCTAA-C-T-A-TC
* * * *
108955797 TCAACTATAAATAAGCCTAGCCTTTTAACTCTCAACTAAATCCCTAATCCTAACTCTC
1 TCAACTATAAA-GAGCCTAACCTTTTAACTCTCAACTAAATCTCTAATCCTAACTATC
* *
108955855 ACAAATA-AAAGAGCCTAA
1 TCAACTATAAAGAGCCTAA
108955873 TCCTAATACT
Statistics
Matches: 166, Mismatches: 19, Indels: 29
0.78 0.09 0.14
Matches are distributed among these distances:
54 19 0.11
55 18 0.11
56 12 0.07
57 4 0.02
58 8 0.05
60 1 0.01
61 8 0.05
62 76 0.46
63 2 0.01
64 18 0.11
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.30
Consensus pattern (57 bp):
TCAACTATAAAGAGCCTAACCTTTTAACTCTCAACTAAATCTCTAATCCTAACTATC
Found at i:108955765 original size:31 final size:31
Alignment explanation
Indices: 108955728--108955834 Score: 130
Period size: 31 Copynumber: 3.5 Consensus size: 31
108955718 CTCTCTAACC
*
108955728 TTAACTCTCAACTATAAAGAAGCCTAGCCTT
1 TTAACTCTCAACTATAAATAAGCCTAGCCTT
* * *
108955759 TTAACTCTCAACTA-AATCCCTAATCCTAACC--
1 TTAACTCTCAACTATAA---ATAAGCCTAGCCTT
108955790 TTAACTCTCAACTATAAATAAGCCTAGCCTT
1 TTAACTCTCAACTATAAATAAGCCTAGCCTT
108955821 TTAACTCTCAACTA
1 TTAACTCTCAACTA
108955835 AATCCCTAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
29 9 0.14
30 2 0.03
31 42 0.67
32 2 0.03
33 8 0.13
ACGTcount: A:0.36, C:0.29, G:0.05, T:0.31
Consensus pattern (31 bp):
TTAACTCTCAACTATAAATAAGCCTAGCCTT
Found at i:108955863 original size:56 final size:59
Alignment explanation
Indices: 108955699--108955871 Score: 192
Period size: 62 Copynumber: 2.8 Consensus size: 59
108955689 TTAAGCCTAT
* ** *
108955699 CTCTCAAGTAAATCTGTAACTCTCTAACCTTAACTCTCAACTATAAAGAAGCCTAGCCTTTTAA
1 CTCTCAACTAAATCCCTAA-TC-CTAACCTT-ACTCACAAC-ATAAA-AAGCCTAGCCTTTTAA
*
108955763 CTCTCAACTAAATCCCTAATCCTAACCTTAACTCTCAACTATAAATAAGCCTAGCCTTTTAA
1 CTCTCAACTAAATCCCTAATCCTAACCTT-ACTCACAAC-ATAAA-AAGCCTAGCCTTTTAA
108955825 CTCTCAACTAAATCCCTAATCCTAA-C-T-CTCACAA-ATAAAAGAGCCTA
1 CTCTCAACTAAATCCCTAATCCTAACCTTACTCACAACATAAAA-AGCCTA
108955872 ATCCTAATAC
Statistics
Matches: 103, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
55 1 0.01
56 11 0.11
58 6 0.06
60 1 0.01
61 1 0.01
62 65 0.63
63 2 0.02
64 16 0.16
ACGTcount: A:0.36, C:0.29, G:0.05, T:0.29
Consensus pattern (59 bp):
CTCTCAACTAAATCCCTAATCCTAACCTTACTCACAACATAAAAAGCCTAGCCTTTTAA
Found at i:108968485 original size:27 final size:25
Alignment explanation
Indices: 108968447--108968508 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
108968437 ATATATGTAG
108968447 ATATAGTA-ATACATAATATAGTTAAAA
1 ATATA-TATATACAT-ATAT-GTTAAAA
*
108968474 ATATATATATACATATATGTTGAAA
1 ATATATATATACATATATGTTAAAA
*
108968499 ATAAATATAT
1 ATATATATAT
108968509 GGTGATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 15 0.47
26 6 0.19
27 11 0.34
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.37
Consensus pattern (25 bp):
ATATATATATACATATATGTTAAAA
Found at i:108968506 original size:25 final size:27
Alignment explanation
Indices: 108968455--108968508 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 27
108968445 AGATATAGTA
*
108968455 ATACATAATATAGTTAAAAATATATAT
1 ATACATAATATAGTTAAAAATAAATAT
*
108968482 ATACAT-ATAT-GTTGAAAATAAATAT
1 ATACATAATATAGTTAAAAATAAATAT
108968507 AT
1 AT
108968509 GGTGATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 15 0.60
26 4 0.16
27 6 0.24
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.37
Consensus pattern (27 bp):
ATACATAATATAGTTAAAAATAAATAT
Found at i:108982935 original size:31 final size:31
Alignment explanation
Indices: 108982900--108982982 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
108982890 CTTCTTGCCT
* *
108982900 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
108982931 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
108982962 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
108982983 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:108983238 original size:21 final size:21
Alignment explanation
Indices: 108983214--108983286 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
108983204 TCTGCTGCCA
108983214 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
*
108983235 TCGCT-CGTGCCTTTGCCTCCC
1 TCGCTGC-TGCCTCTGCCTCCC
* * *
108983256 TCGCTGATGTCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
108983277 TCGCTGCTGC
1 TCGCTGCTGC
108983287 TGCCTCTTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.02
21 42 0.98
ACGTcount: A:0.01, C:0.47, G:0.22, T:0.30
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:108983759 original size:13 final size:14
Alignment explanation
Indices: 108983734--108983762 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
108983724 TGATGAATTG
108983734 AATTAAACAATTAT
1 AATTAAACAATTAT
108983748 AATTAAAC-ATTAT
1 AATTAAACAATTAT
108983761 AA
1 AA
108983763 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:108988894 original size:9 final size:9
Alignment explanation
Indices: 108988880--108988935 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
108988870 AAGGAAGCTT
108988880 TGTAAGTTA
1 TGTAAGTTA
108988889 TGTAAGTTA
1 TGTAAGTTA
* *
108988898 TGTTA-TGA
1 TGTAAGTTA
* *
108988906 TATATATTTA
1 TGTA-AGTTA
*
108988916 TGTAAGGTA
1 TGTAAGTTA
108988925 TGTAAGTTA
1 TGTAAGTTA
108988934 TG
1 TG
108988936 ATATGATATA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
8 4 0.11
9 27 0.75
10 5 0.14
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:108988927 original size:36 final size:36
Alignment explanation
Indices: 108988880--108988951 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
108988870 AAGGAAGCTT
* *
108988880 TGTAAGTTATGTAAGTTATGTTATGATATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
108988916 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
108988952 AGATATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGATATATATTTA
Found at i:108988958 original size:13 final size:13
Alignment explanation
Indices: 108988940--108988964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108988930 GTTATGATAT
108988940 GATATATATTTAA
1 GATATATATTTAA
108988953 GATATATATTTA
1 GATATATATTTA
108988965 TGTATTTTGT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GATATATATTTAA
Found at i:108989026 original size:52 final size:52
Alignment explanation
Indices: 108988953--108989072 Score: 231
Period size: 52 Copynumber: 2.3 Consensus size: 52
108988943 ATATATTTAA
108988953 GATATATATTTATGTATTTTGTAAGGTATATAAGTTACGTAAGTTATTATAT
1 GATATATATTTATGTATTTTGTAAGGTATATAAGTTACGTAAGTTATTATAT
*
108989005 GATATATATTTATGTATTTTGTAAGGTATATAAGTTATGTAAGTTATTATAT
1 GATATATATTTATGTATTTTGTAAGGTATATAAGTTACGTAAGTTATTATAT
108989057 GATATATATTTATGTA
1 GATATATATTTATGTA
108989073 AGTTATTATA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (52 bp):
GATATATATTTATGTATTTTGTAAGGTATATAAGTTACGTAAGTTATTATAT
Found at i:108989103 original size:29 final size:27
Alignment explanation
Indices: 108988953--108989095 Score: 145
Period size: 27 Copynumber: 5.4 Consensus size: 27
108988943 ATATATTTAA
* *
108988953 GATATATATTTATGT-A-TT-TTGTAA
1 GATATATATTTATGTAAGTTATTATAT
* * *
108988977 GGTATATAAGTTACGTAAGTTATTATAT
1 GATATAT-ATTTATGTAAGTTATTATAT
* *
108989005 GATATATATTTATGT-A-TT-TTGTAA
1 GATATATATTTATGTAAGTTATTATAT
* *
108989029 GGTATATAAGTTATGTAAGTTATTATAT
1 GATATAT-ATTTATGTAAGTTATTATAT
108989057 GATATATATTTATGTAAGTTATTATAT
1 GATATATATTTATGTAAGTTATTATAT
108989084 GATATATATTTA
1 GATATATATTTA
108989096 ACATTAAGAT
Statistics
Matches: 95, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
24 16 0.17
25 15 0.16
26 3 0.03
27 41 0.43
28 20 0.21
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.50
Consensus pattern (27 bp):
GATATATATTTATGTAAGTTATTATAT
Found at i:108991825 original size:21 final size:21
Alignment explanation
Indices: 108991785--108991825 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
108991775 GCAGTTTTAG
* *
108991785 ATAACAATAATAGTAGTAATA
1 ATAACAACAATAGTAATAATA
*
108991806 ATAACAACAATATTAATAAT
1 ATAACAACAATAGTAATAAT
108991826 TTATTTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (21 bp):
ATAACAACAATAGTAATAATA
Found at i:108993451 original size:14 final size:14
Alignment explanation
Indices: 108993416--108993452 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
108993406 TATTATCTCT
108993416 TAAATAATTTAATC
1 TAAATAATTTAATC
108993430 TAAA-AATTTAATC
1 TAAATAATTTAATC
108993443 TAAATAATTT
1 TAAATAATTT
108993453 CATTTTTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATTTAATC
Found at i:108993590 original size:7 final size:7
Alignment explanation
Indices: 108993559--108993777 Score: 81
Period size: 7 Copynumber: 31.0 Consensus size: 7
108993549 ACTAATTTAT
108993559 CTAAACC
1 CTAAACC
*
108993566 CTAATACT
1 CTAA-ACC
**
108993574 CTAATTC
1 CTAAACC
108993581 CTAAACC
1 CTAAACC
*
108993588 CTAAAATC
1 CT-AAACC
108993596 C-ATAACC
1 CTA-AACC
*
108993603 CTACA-C
1 CTAAACC
*
108993609 ATAAACC
1 CTAAACC
*
108993616 ATAAACC
1 CTAAACC
*
108993623 CCAAACC
1 CTAAACC
108993630 CGT-AACC
1 C-TAAACC
* *
108993637 CGTAATCA
1 C-TAAACC
* *
108993645 TTAACCC
1 CTAAACC
108993652 CTAAACC
1 CTAAACC
*
108993659 TTAAACC
1 CTAAACC
*
108993666 C-CAACC
1 CTAAACC
108993672 CTTAAACC
1 C-TAAACC
***
108993680 CTATTTC
1 CTAAACC
*
108993687 ATAAACC
1 CTAAACC
**
108993694 CTAAAAT
1 CTAAACC
108993701 CTAAACCC
1 CTAAA-CC
108993709 CT-AACC
1 CTAAACC
*
108993715 CTATACC
1 CTAAACC
108993722 CTAAACC
1 CTAAACC
108993729 CTAAACC
1 CTAAACC
*
108993736 ATAAAACC
1 CT-AAACC
*
108993744 ATAAACC
1 CTAAACC
* *
108993751 TTACA-C
1 CTAAACC
*
108993757 ATAAACC
1 CTAAACC
*
108993764 ATAAACC
1 CTAAACC
108993771 CTAAACC
1 CTAAACC
108993778 TATAACTCGT
Statistics
Matches: 154, Mismatches: 45, Indels: 26
0.68 0.20 0.12
Matches are distributed among these distances:
6 18 0.12
7 108 0.70
8 28 0.18
ACGTcount: A:0.42, C:0.37, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:108993694 original size:43 final size:41
Alignment explanation
Indices: 108993610--108993725 Score: 103
Period size: 42 Copynumber: 2.8 Consensus size: 41
108993600 ACCCTACACA
* *
108993610 TAAACCATAAACCCCAAACCCGT-AACCCGTAATCATTAACCCC
1 TAAACCTTAAACCCCAAACCC-TAAACCC-TAATCA-TAAACCC
*
108993653 TAAACCTTAAACCCC-AACCCTTAAACCCTATTTCATAAACCC
1 TAAACCTTAAACCCCAAACCC-TAAACCCTA-ATCATAAACCC
* * *
108993695 TAAA-ATCTAAACCCCTAACCCTATACCCTAA
1 TAAACCT-TAAACCCCAAACCCTAAACCCTAA
108993726 ACCCTAAACC
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.02
42 34 0.55
43 27 0.44
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.21
Consensus pattern (41 bp):
TAAACCTTAAACCCCAAACCCTAAACCCTAATCATAAACCC
Found at i:108993915 original size:21 final size:21
Alignment explanation
Indices: 108993886--108993926 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108993876 AACCCTTAAC
* *
108993886 CATATACCCTAATCTATAAAT
1 CATAAACCCTAAACTATAAAT
108993907 CATAAACCCTAAACTATAAA
1 CATAAACCCTAAACTATAAA
108993927 GATAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (21 bp):
CATAAACCCTAAACTATAAAT
Found at i:108994047 original size:7 final size:7
Alignment explanation
Indices: 108994025--108994061 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
108994015 TAATCAAAAT
*
108994025 CCTAAAC
1 CCTAATC
108994032 CCATAATC
1 CC-TAATC
108994040 CCTAATC
1 CCTAATC
108994047 CCTAATC
1 CCTAATC
108994054 CCTAATC
1 CCTAATC
108994061 C
1 C
108994062 ATAAACCCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.32, C:0.43, G:0.00, T:0.24
Consensus pattern (7 bp):
CCTAATC
Found at i:108994157 original size:35 final size:35
Alignment explanation
Indices: 108994091--108994157 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 35
108994081 ACATAAATTC
* * *
108994091 TAAACCCCTAACCCCTGACCCTTAACCATAATCTT
1 TAAACCCCTAACCCCTAAACCTTAACAATAATCTT
*
108994126 TAAACCCCATAATCCCTAAACCTTAA-AATAAT
1 TAAACCCC-TAACCCCTAAACCTTAACAATAAT
108994158 AACTCATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 13 0.48
36 14 0.52
ACGTcount: A:0.39, C:0.34, G:0.01, T:0.25
Consensus pattern (35 bp):
TAAACCCCTAACCCCTAAACCTTAACAATAATCTT
Found at i:108995003 original size:18 final size:18
Alignment explanation
Indices: 108994980--108995019 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
108994970 TTACCTTTGT
108994980 TATTATTATTTTATTATC
1 TATTATTATTTTATTATC
* *
108994998 TATTATTGTTTTATTATT
1 TATTATTATTTTATTATC
108995016 TATT
1 TATT
108995020 CATTCATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
TATTATTATTTTATTATC
Found at i:108995331 original size:24 final size:24
Alignment explanation
Indices: 108995291--108995336 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
108995281 TCAAACGTTA
* *
108995291 TATTATTTATTTTATTATTTTTAC
1 TATTATTTATTTCATTACTTTTAC
108995315 TATTA-TTATTGTCATTACTTTT
1 TATTATTTATT-TCATTACTTTT
108995337 GAACATATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTATTTATTTCATTACTTTTAC
Found at i:108995399 original size:27 final size:27
Alignment explanation
Indices: 108995368--108995457 Score: 78
Period size: 27 Copynumber: 3.3 Consensus size: 27
108995358 ATTGTTATCA
108995368 ATTTTAAATATTTTATATGTATCATTT
1 ATTTTAAATATTTTATATGTATCATTT
* * *
108995395 ATTTTAAACTA--TCATACGTAACATTT
1 ATTTTAAA-TATTTTATATGTATCATTT
* * *
108995421 ATCTTGAAAT-TTTTATATGCATCTTTGT
1 AT-TTTAAATATTTTATATGTATCATT-T
108995449 ATTTTAAAT
1 ATTTTAAAT
108995458 TAATATATAT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
26 15 0.31
27 28 0.58
28 5 0.10
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (27 bp):
ATTTTAAATATTTTATATGTATCATTT
Found at i:108995569 original size:3 final size:3
Alignment explanation
Indices: 108995561--108995636 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
108995551 TTTAAAATAT
*
108995561 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
108995609 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
108995637 GTAGTCATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:108995736 original size:23 final size:23
Alignment explanation
Indices: 108995704--108995755 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
108995694 TAGGTTTTCA
* * *
108995704 CTTATAATATTATTATTGTCATT
1 CTTATTATATGATTATTATCATT
*
108995727 CTTATTATATGGTTATTATCATT
1 CTTATTATATGATTATTATCATT
*
108995750 ATTATT
1 CTTATT
108995756 CTCACCATCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.58
Consensus pattern (23 bp):
CTTATTATATGATTATTATCATT
Found at i:108996501 original size:260 final size:261
Alignment explanation
Indices: 108996034--108996517 Score: 760
Period size: 260 Copynumber: 1.9 Consensus size: 261
108996024 TAAAAAAGAA
* *
108996034 TTTTTTTAACATAAAGGCAAAATTCCGTTGTTTGAAAATTTCGAGAAAGTCGTGCCCTACGTCTT
1 TTTTTTTAACAAAAAGGCAAAATTCCATTGTTTGAAAATTTCGAGAAAGTCGTGCCCTACGTCTT
*
108996099 GGGTTTCGATTTATTGTTTGACCGAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTT
66 GGGTTTCGATTTATCGTTTGACCGAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTT
* *
108996164 GGAAATTATGAGATGATTTTGATATCGAAGGTTTGAAATATCGTGTCCTACATGTTGGATGTGAT
131 AGAAATTATGAGATGATTTTGATATCGAAGGTTTGAAATATCGTGTCCTACATGCTGGATGTGAT
*
108996229 ATTTCGTTTCTTCAAAACAAGAGAATCTTGATCGTTTCATATTGTTGCATTTTTACTCAAGACTT
196 ATTTCATTTCTTCAAAACAAGAGAATCTTGATCGTTTCATATTGTTGCATTTTTACTCAAGACTT
108996294 T
261 T
* * *
108996295 TTTTTTTAA-AAAAAGGGCAATATTCCATTGTTT-AGAATTTTCGAGAAA-TTGTGCCCTACGTG
1 TTTTTTTAACAAAAA-GGCAAAATTCCATTGTTTGA-AAATTTCGAGAAAGTCGTGCCCTACGT-
* *
108996357 C-TGGGTTTCGATTTATCGTTTGACCGAGCGACCGAATGTCCTTCTTAAAATTTCAATACATAAA
63 CTTGGGTTTCGATTTATCGTTTGACCGAACGACCGAATATCCTTCTTAAAATTTCAATACATAAA
* * * *
108996421 TTTAGAAATTATGAGATGATTTTGATATCGAAGGTTTGAAATGTTGTGTCGTACGTGCTGGATGT
128 TTTAGAAATTATGAGATGATTTTGATATCGAAGGTTTGAAATATCGTGTCCTACATGCTGGATGT
* *
108996486 GATATTTTATTTCTTCGAAACAAGAGAATCTT
193 GATATTTCATTTCTTCAAAACAAGAGAATCTT
108996518 AATATCCACT
Statistics
Matches: 203, Mismatches: 17, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
260 165 0.81
261 38 0.19
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (261 bp):
TTTTTTTAACAAAAAGGCAAAATTCCATTGTTTGAAAATTTCGAGAAAGTCGTGCCCTACGTCTT
GGGTTTCGATTTATCGTTTGACCGAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTT
AGAAATTATGAGATGATTTTGATATCGAAGGTTTGAAATATCGTGTCCTACATGCTGGATGTGAT
ATTTCATTTCTTCAAAACAAGAGAATCTTGATCGTTTCATATTGTTGCATTTTTACTCAAGACTT
T
Found at i:108997990 original size:21 final size:21
Alignment explanation
Indices: 108997964--108998051 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 21
108997954 ACCCTAATGG
108997964 GTTTCAGTTCAACTCTTACGA
1 GTTTCAGTTCAACTCTTACGA
* *
108997985 GTTTCAGTTTAAC-CCTACTG-
1 GTTTCAGTTCAACTCTTAC-GA
* *
108998005 GTTTTTC-GTTCATCTCTTATGA
1 G--TTTCAGTTCAACTCTTACGA
* * *
108998027 GCTTCTGTTCAACCCTTACGA
1 GTTTCAGTTCAACTCTTACGA
108998048 GTTT
1 GTTT
108998052 TTGTTAGCAC
Statistics
Matches: 50, Mismatches: 11, Indels: 12
0.68 0.15 0.16
Matches are distributed among these distances:
20 8 0.16
21 34 0.68
22 8 0.16
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (21 bp):
GTTTCAGTTCAACTCTTACGA
Found at i:108998000 original size:42 final size:42
Alignment explanation
Indices: 108997942--108998042 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
108997932 TAATTTATAT
*
108997942 GAGTTTCA-ATTAACCCTAATGG-GTTTCAGTTCAACTCTTAC
1 GAGTTTCAGTTTAACCCTAATGGTGTTTC-GTTCAACTCTTAC
* * * *
108997983 GAGTTTCAGTTTAACCCTACTGGTTTTTCGTTCATCTCTTAT
1 GAGTTTCAGTTTAACCCTAATGGTGTTTCGTTCAACTCTTAC
* * *
108998025 GAGCTTCTGTTCAACCCT
1 GAGTTTCAGTTTAACCCT
108998043 TACGAGTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 8 0.16
42 38 0.76
43 4 0.08
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (42 bp):
GAGTTTCAGTTTAACCCTAATGGTGTTTCGTTCAACTCTTAC
Done.