Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 312 of 333
Found at i:102200783 original size:12 final size:12
Alignment explanation
Indices: 102200768--102200798 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
102200758 TTCTCTTTTA
102200768 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
102200780 TTTTTCTTTCTC
1 TTTTTCTTTCCC
102200792 TTTTTCT
1 TTTTTCT
102200799 CCCCTGCTTC
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:102200843 original size:16 final size:17
Alignment explanation
Indices: 102200822--102200855 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
102200812 TTTTCAATTC
102200822 TGTTTCTAT-TCTCTTT
1 TGTTTCTATATCTCTTT
*
102200838 TGTTTCTTTATCTCTTT
1 TGTTTCTATATCTCTTT
102200855 T
1 T
102200856 ATATTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.06, C:0.18, G:0.06, T:0.71
Consensus pattern (17 bp):
TGTTTCTATATCTCTTT
Found at i:102201193 original size:15 final size:14
Alignment explanation
Indices: 102201175--102201205 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
102201165 TTAATTTATT
102201175 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
102201190 TAATAATAATCTAA
1 TAATAATAATCTAA
102201204 TA
1 TA
102201206 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:102201216 original size:21 final size:20
Alignment explanation
Indices: 102201192--102201260 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
102201182 AATGCTAATA
102201192 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
102201213 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
102201232 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
102201253 ATAATAAT
1 ATAATAAT
102201261 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:102204429 original size:22 final size:22
Alignment explanation
Indices: 102204395--102204458 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
102204385 TCAACATTTT
*
102204395 AATAAATCA-ATAAAAATTATCA
1 AATAAAT-ATATAAAAATTATAA
*
102204417 AATAAATATATAATAA-TATAA
1 AATAAATATATAAAAATTATAA
*
102204438 AATTACATTATATAAAAATTA
1 AA-TA-AATATATAAAAATTA
102204459 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 15 0.44
23 10 0.29
24 2 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAATATATAAAAATTATAA
Found at i:102204452 original size:15 final size:16
Alignment explanation
Indices: 102204432--102204463 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
102204422 ATATATAATA
102204432 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
102204447 ATATAAAAATTACATT
1 ATATAAAAATTACATT
102204463 A
1 A
102204464 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:102204661 original size:116 final size:115
Alignment explanation
Indices: 102204521--102205082 Score: 908
Period size: 114 Copynumber: 4.9 Consensus size: 115
102204511 ATACTAACAC
* * *
102204521 AAAATAACTATAAAATTATTTTTTT-AAATACATTACTAAAAAAAAATTCACAATACACTAATAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAAATTCACAATACACTAAT--
102204585 ACACTAAACCACTAAACACTAACAA-TATATAACCTAATCTTAAATTACTAAT
63 ACACTAAACCACTAAACACTAACAATTATATAACCTAATCTTAAATTACTAAT
102204637 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATTCACAATACACTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATTCACAATACACTAAT--A
102204702 CACTAAACCACTAAACACTAACAA-TATATAACCTAATCTTAAATTACTAAT
64 CACTAAACCACTAAACACTAACAATTATATAACCTAATCTTAAATTACTAAT
102204753 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAA-TCACAATACACTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATTCACAATACACTAATACA
*
102204817 CTAAACCACTAAACACTAACAATTTATATAACCTAACCTTAAATTACTAAT
66 CTAAACCACTAAACACTAACAA-TTATATAACCTAATCTTAAATTACTAAT
* *
102204868 AAAATAGCTACAAAAATATTTTTTTAAAATATATTACT-AAAAAAATT-ACAATATACTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATTCACAATACACTAATACA
102204931 CTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 CTAAACCACTAAACACTAACAA-TTATATAACCTAATCTTAAATTACTAAT
*
102204982 AAAATAGCTATAAAAATATTATTTTT-AAATATATTACT-AAAAAAA-TCACAATACAGTAATAC
1 AAAATAGCTATAAAAATATT-TTTTTAAAATATATTACTAAAAAAAATTCACAATACACTAATAC
*
102205044 ACTAAACTACTAAACACTAACAATTTATATAACCTAATC
65 ACTAAACCACTAAACACTAACAA-TTATATAACCTAATC
102205083 AACTATAAAA
Statistics
Matches: 429, Mismatches: 11, Indels: 14
0.94 0.02 0.03
Matches are distributed among these distances:
113 26 0.06
114 161 0.38
115 84 0.20
116 147 0.34
117 11 0.03
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (115 bp):
AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATTCACAATACACTAATACA
CTAAACCACTAAACACTAACAATTATATAACCTAATCTTAAATTACTAAT
Found at i:102204987 original size:229 final size:229
Alignment explanation
Indices: 102204521--102205080 Score: 925
Period size: 229 Copynumber: 2.4 Consensus size: 229
102204511 ATACTAACAC
* * *
102204521 AAAATAACTATAAAATTATTTTTTTAAATACATTACTAAAAAAAAATTCACAATACACTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAATATATTACT-AAAAAAAA-TCACAATACACTAAT--A
* *
102204586 CACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAATAAAATAGCTATA
62 CACTAAACCACTAAACACTAACAATTTATATAACCTAACCTTAAATTACTAATAAAATAGCTACA
102204649 AAAATATTTTTTTAAAATATATTACTAAAAAAAATTCACAATACACTAATACACACTAAACCACT
127 AAAATATTTTTTTAAAATATATTACTAAAAAAAATTCACAATACACTAATA-ACACTAAACCACT
102204714 AAACACTAACAATATATAACCTAATCTTAAATTACTAAT
191 AAACACTAACAATATATAACCTAATCTTAAATTACTAAT
102204753 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTT-AAATATATTACTAAAAAAAATCACAATACACTAATACAC
102204818 TAAACCACTAAACACTAACAATTTATATAACCTAACCTTAAATTACTAATAAAATAGCTACAAAA
65 TAAACCACTAAACACTAACAATTTATATAACCTAACCTTAAATTACTAATAAAATAGCTACAAAA
*
102204883 ATATTTTTTTAAAATATATTACT-AAAAAAATT-ACAATATACTAAT-ACACTAAACCACTAAAC
130 ATATTTTTTTAAAATATATTACTAAAAAAAATTCACAATACACTAATAACACTAAACCACTAAAC
102204945 ACTAACAATTTATATAACCTAATCTTAAATTACTAAT
195 ACTAACAA--TATATAACCTAATCTTAAATTACTAAT
*
102204982 AAAATAGCTATAAAAATATTATTTTTAAATATATTACT-AAAAAAATCACAATACAGTAATACAC
1 AAAATAGCTATAAAAATATT-TTTTTAAATATATTACTAAAAAAAATCACAATACACTAATACAC
*
102205046 TAAACTACTAAACACTAACAATTTATATAACCTAA
65 TAAACCACTAAACACTAACAATTTATATAACCTAA
102205081 TCAACTATAA
Statistics
Matches: 314, Mismatches: 8, Indels: 16
0.93 0.02 0.05
Matches are distributed among these distances:
227 25 0.08
228 59 0.19
229 96 0.31
230 14 0.04
231 78 0.25
232 31 0.10
233 11 0.04
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.31
Consensus pattern (229 bp):
AAAATAGCTATAAAAATATTTTTTTAAATATATTACTAAAAAAAATCACAATACACTAATACACT
AAACCACTAAACACTAACAATTTATATAACCTAACCTTAAATTACTAATAAAATAGCTACAAAAA
TATTTTTTTAAAATATATTACTAAAAAAAATTCACAATACACTAATAACACTAAACCACTAAACA
CTAACAATATATAACCTAATCTTAAATTACTAAT
Found at i:102205116 original size:114 final size:113
Alignment explanation
Indices: 102204521--102205154 Score: 848
Period size: 114 Copynumber: 5.7 Consensus size: 113
102204511 ATACTAACAC
* * *
102204521 AAAATAACTATAAAATTATTTTTTT-AAATACATTACTAAAAAAAAATTCACAATACACTAATAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAAA-TCACAATACACTAAT--
102204585 ACACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAAT
62 ACACTAAACCACTAAACACTAACAATTTATATAACCTAATC-T-AATTACTAAT
102204637 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATTCACAATACACTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAA-TCACAATACACTAAT--A
102204702 CACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAAT
63 CACTAAACCACTAAACACTAACAATTTATATAACCTAATC-T-AATTACTAAT
102204753 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
*
102204818 TAAACCACTAAACACTAACAATTTATATAACCTAACCTTAAATTACTAAT
66 TAAACCACTAAACACTAACAATTTATATAACCTAATC-T-AATTACTAAT
* * *
102204868 AAAATAGCTACAAAAATATTTTTTTAAAATATATTACT-AAAAAAATTACAATATACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
102204932 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 TAAACCACTAAACACTAACAATTTATATAACCTAATC-T-AATTACTAAT
*
102204982 AAAATAGCTATAAAAATATTATTTTT-AAATATATTACT-AAAAAAATCACAATACAGTAATACA
1 AAAATAGCTATAAAAATATT-TTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACA
*
102205045 CTAAACTACTAAACACTAACAATTTATATAACCTAATC--A--ACT-AT
65 CTAAACCACTAAACACTAACAATTTATATAACCTAATCTAATTACTAAT
* *
102205089 AAAAT---TAT-----TA-TTTTTAAATATATTATTACT-AAAAAAATCACAATACACTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAAATA-TATTACTAAAAAAAATCACAATACACTAATACA
102205144 CTAAA-CACTAA
65 CTAAACCACTAA
102205155 CAATTTGTAA
Statistics
Matches: 495, Mismatches: 17, Indels: 30
0.91 0.03 0.06
Matches are distributed among these distances:
97 4 0.01
98 10 0.02
99 38 0.08
104 3 0.01
107 7 0.01
108 3 0.01
110 1 0.00
113 25 0.05
114 163 0.33
115 83 0.17
116 147 0.30
117 11 0.02
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (113 bp):
AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAAATCACAATACACTAATACAC
TAAACCACTAAACACTAACAATTTATATAACCTAATCTAATTACTAAT
Found at i:102205361 original size:3 final size:3
Alignment explanation
Indices: 102205355--102205416 Score: 79
Period size: 3 Copynumber: 19.3 Consensus size: 3
102205345 CCTTTTTTTT
102205355 TTC TTC TTC TTC TTCC TTC TTC TTCC TTC TTC TTCC TTC TTC TTCC TTC
1 TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TT-C TTC TTC TT-C TTC
*
102205404 TTC TTC TCC TTC T
1 TTC TTC TTC TTC T
102205417 CCTTTCTCTC
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
3 41 0.77
4 12 0.23
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
TTC
Found at i:102205375 original size:10 final size:10
Alignment explanation
Indices: 102205355--102205409 Score: 103
Period size: 10 Copynumber: 5.6 Consensus size: 10
102205345 CCTTTTTTTT
102205355 TTCTT-CTTC
1 TTCTTCCTTC
102205364 TTCTTCCTTC
1 TTCTTCCTTC
102205374 TTCTTCCTTC
1 TTCTTCCTTC
102205384 TTCTTCCTTC
1 TTCTTCCTTC
102205394 TTCTTCCTTC
1 TTCTTCCTTC
102205404 TTCTTC
1 TTCTTC
102205410 TCCTTCTCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
9 5 0.11
10 40 0.89
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCCTTC
Found at i:102205953 original size:15 final size:15
Alignment explanation
Indices: 102205929--102205958 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
102205919 TATGGTATTG
*
102205929 AATTGCATTGAATTA
1 AATTGAATTGAATTA
102205944 AATTGAATTGAATTA
1 AATTGAATTGAATTA
102205959 TGAATATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.40
Consensus pattern (15 bp):
AATTGAATTGAATTA
Found at i:102207657 original size:31 final size:30
Alignment explanation
Indices: 102207600--102207661 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
102207590 TTTTAATTCC
*
102207600 TATACTTTTCAAATTGGTTAATTTTAGTCCT
1 TATACTTTTCAAATT-GTTAAATTTAGTCCT
102207631 TATACTTTTCAAAATT-TTAAAATTTAGTCCT
1 TATACTTTTC-AAATTGTT-AAATTTAGTCCT
102207662 GACCCAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 2 0.07
31 21 0.75
32 5 0.18
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.50
Consensus pattern (30 bp):
TATACTTTTCAAATTGTTAAATTTAGTCCT
Found at i:102208145 original size:32 final size:33
Alignment explanation
Indices: 102208086--102208154 Score: 131
Period size: 32 Copynumber: 2.1 Consensus size: 33
102208076 GGATAAGATA
102208086 TTGGTTCATAATTTTCCGACACTTTGCATTGCT
1 TTGGTTCATAATTTTCCGACACTTTGCATTGCT
102208119 TTGGTTCATAATTTTCC-ACACTTTGCATTGCT
1 TTGGTTCATAATTTTCCGACACTTTGCATTGCT
102208151 TTGG
1 TTGG
102208155 AACAAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 19 0.53
33 17 0.47
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.46
Consensus pattern (33 bp):
TTGGTTCATAATTTTCCGACACTTTGCATTGCT
Found at i:102208986 original size:30 final size:30
Alignment explanation
Indices: 102208899--102208987 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
102208889 TTTATTTCTG
* * *
102208899 TATAAATTAAA-TGTTAAGGGCTTATTTGAA
1 TATAAATTAAAGT-TTAAAGGATTATTTGGA
*
102208929 TATAAATTAAAGGTT-AAGGATTTATTTGGA
1 TATAAATTAAAGTTTAAAGGA-TTATTTGGA
*
102208959 TATCAATTAAAGTTTAAAGGATTATTTGG
1 TATAAATTAAAGTTTAAAGGATTATTTGG
102208988 GTGTAATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 3 0.06
30 42 0.84
31 5 0.10
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.40
Consensus pattern (30 bp):
TATAAATTAAAGTTTAAAGGATTATTTGGA
Found at i:102209396 original size:21 final size:23
Alignment explanation
Indices: 102209371--102209421 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
102209361 TAATATGATT
*
102209371 AAATT-TTTTAATTAAT-TAAAA
1 AAATTATTATAATTAATATAAAA
*
102209392 AAATTATTATATTTAATGATAAAA
1 AAATTATTATAATTAAT-ATAAAA
102209416 AAATTA
1 AAATTA
102209422 ATGGGTTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 9 0.36
24 11 0.44
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATTATTATAATTAATATAAAA
Found at i:102230291 original size:21 final size:22
Alignment explanation
Indices: 102230258--102230299 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
102230248 AGATAAAGCA
102230258 AGGGAAATAGAAGGAAAAGAGG
1 AGGGAAATAGAAGGAAAAGAGG
* *
102230280 AGGG-AATCGAAGGGAAAGAG
1 AGGGAAATAGAAGGAAAAGAG
102230300 ATCAAAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.50, C:0.02, G:0.43, T:0.05
Consensus pattern (22 bp):
AGGGAAATAGAAGGAAAAGAGG
Found at i:102231904 original size:20 final size:20
Alignment explanation
Indices: 102231879--102231916 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
102231869 GAGAATGATT
102231879 CTATAAATAATGTTGAAATC
1 CTATAAATAATGTTGAAATC
102231899 CTATAAATAATGTTGAAA
1 CTATAAATAATGTTGAAA
102231917 CTCTGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (20 bp):
CTATAAATAATGTTGAAATC
Found at i:102234376 original size:26 final size:28
Alignment explanation
Indices: 102234347--102234402 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
102234337 TTTTTACAAC
102234347 TTCAATGTTAAT-AAACATAT-TATTTA
1 TTCAATGTTAATAAAACATATATATTTA
* * *
102234373 TTCAGTTTTAATAAAATATATATATTTA
1 TTCAATGTTAATAAAACATATATATTTA
102234401 TT
1 TT
102234403 TGGGTAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.40
27 7 0.28
28 8 0.32
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (28 bp):
TTCAATGTTAATAAAACATATATATTTA
Found at i:102235189 original size:88 final size:89
Alignment explanation
Indices: 102235039--102235217 Score: 290
Period size: 88 Copynumber: 2.0 Consensus size: 89
102235029 GCTTAATTCT
* * *
102235039 TAAATAATTCATCATCTTTCTATGTGTTCCAAAACATAATTAGAACTTGCATGACTTCTAATGAC
1 TAAATAATTCATCATCTTTCTATGTATTCCAAAACATAATTAGAACCTGCATGACTTATAATGAC
102235104 GA-TTTCCCCCCGC-AGTTCCTAAG
66 GACTTTCCCCCC-CAAGTTCCTAAG
*
102235127 TAAATAATTCATCATCTTTCTATGTATTTCAAAACATAATTAGAACCTGCATGACTTATAATGAC
1 TAAATAATTCATCATCTTTCTATGTATTCCAAAACATAATTAGAACCTGCATGACTTATAATGAC
102235192 GACTTTTCCCCCCCAAGTTCCTAAG
66 GAC-TTTCCCCCCCAAGTTCCTAAG
102235217 T
1 T
102235218 TTGTTTATAT
Statistics
Matches: 84, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
88 63 0.75
89 1 0.01
90 20 0.24
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (89 bp):
TAAATAATTCATCATCTTTCTATGTATTCCAAAACATAATTAGAACCTGCATGACTTATAATGAC
GACTTTCCCCCCCAAGTTCCTAAG
Found at i:102239738 original size:19 final size:19
Alignment explanation
Indices: 102239710--102239747 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
102239700 TAAGCTCCTC
*
102239710 GTGCTTTTTTGAAATCCAT
1 GTGCTCTTTTGAAATCCAT
102239729 GTGCTCTTTTGAAATCCAT
1 GTGCTCTTTTGAAATCCAT
102239748 AAAGTATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (19 bp):
GTGCTCTTTTGAAATCCAT
Found at i:102244052 original size:4 final size:4
Alignment explanation
Indices: 102244037--102244091 Score: 101
Period size: 4 Copynumber: 13.8 Consensus size: 4
102244027 AACATATACA
*
102244037 TATG TCTG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
102244085 TATG TAT
1 TATG TAT
102244092 AAACTCCTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:102245546 original size:23 final size:21
Alignment explanation
Indices: 102245514--102245558 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
102245504 ACAGTTTATA
*
102245514 ATATGGTTGTATATCATGTATGT
1 ATATGATTGTATAT-AT-TATGT
*
102245537 ATATGATTGTTTATATTATGT
1 ATATGATTGTATATATTATGT
102245558 A
1 A
102245559 ACTGATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 12 0.60
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (21 bp):
ATATGATTGTATATATTATGT
Found at i:102247688 original size:33 final size:33
Alignment explanation
Indices: 102247650--102247746 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 33
102247640 GACTGAGTGG
* *
102247650 GAGTGTTTGGTTGCTGGACATGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
102247683 GAGTGTTTTGCTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* **
102247716 GGGTGTTTTGTTGCTAAACAGGAGCTGGAAT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAAT
102247747 ATCAAGAAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.20, C:0.10, G:0.38, T:0.32
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:102250438 original size:17 final size:18
Alignment explanation
Indices: 102250416--102250451 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
102250406 GATATGATAC
*
102250416 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
102250433 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
102250451 T
1 T
102250452 TAGGAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:102250777 original size:18 final size:19
Alignment explanation
Indices: 102250717--102250791 Score: 107
Period size: 19 Copynumber: 3.9 Consensus size: 19
102250707 AAATTAAATC
* *
102250717 TCTAAGATTACAAAATCATG
1 TCTAAGATTGC-ATATCATG
102250737 TCTAAGATTGCATATCATG
1 TCTAAGATTGCATATCATG
*
102250756 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATG
102250774 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
102250792 TGAAGATTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
18 17 0.33
19 24 0.47
20 10 0.20
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATG
Found at i:102250947 original size:21 final size:20
Alignment explanation
Indices: 102250910--102250948 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
102250900 TTGGACTTCG
**
102250910 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
102250930 TTTTCTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
102250949 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.05, G:0.13, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:102251196 original size:45 final size:45
Alignment explanation
Indices: 102251141--102251340 Score: 242
Period size: 45 Copynumber: 4.5 Consensus size: 45
102251131 AGAATGCGAT
* *
102251141 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* * *
102251186 ATCTGTTATCTTCGATCTGCTCACCGTCTAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* * * * *
102251231 ATCTGCT-TCTTCAATCTGCTCCTCATCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* * *
102251275 ATCTGTTATC-TCTAATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTC-GATCTGCTCCCCGTCTAATACAAAGACGCCAA
* *
102251320 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
102251341 TTGATGTAAA
Statistics
Matches: 131, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
44 38 0.29
45 92 0.70
46 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
Found at i:102251265 original size:89 final size:90
Alignment explanation
Indices: 102251141--102251324 Score: 246
Period size: 89 Copynumber: 2.1 Consensus size: 90
102251131 AGAATGCGAT
** * *
102251141 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCT-TCGATCTG
1 ATCTGCTATCTTCAATCTGCTCCCCATCTAATACAAAGACGCCAAATCTGTTATCTCT-AATCTG
*
102251205 CTCACCGTCTAATACAGAGACACCAA
65 CTCACCGTCTAATACAAAGACACCAA
* * *
102251231 ATCTGCT-TCTTCAATCTGCTCCTCATCTAATACAAAGATGCCAAATCTGTTATCTCTAATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCATCTAATACAAAGACGCCAAATCTGTTATCTCTAATCTGC
* **
102251295 TCCCCGTCTAATACAAAGATGCCAA
66 TCACCGTCTAATACAAAGACACCAA
102251320 ATCTG
1 ATCTG
102251325 TCATCTTGGA
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
89 74 0.90
90 8 0.10
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCATCTAATACAAAGACGCCAAATCTGTTATCTCTAATCTGC
TCACCGTCTAATACAAAGACACCAA
Found at i:102251578 original size:78 final size:78
Alignment explanation
Indices: 102251354--102251647 Score: 448
Period size: 78 Copynumber: 3.8 Consensus size: 78
102251344 ATGTAAACAC
* * *
102251354 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGTTTCCTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
102251419 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
102251432 ATGAAGGTCCA-ATCTGTTA-GTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
102251495 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
102251509 ATGAAGGTCAGATCAGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
102251574 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * * **
102251587 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
102251648 TGTTTCTTTG
Statistics
Matches: 196, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
76 2 0.01
77 67 0.34
78 125 0.64
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:102257856 original size:21 final size:21
Alignment explanation
Indices: 102257831--102257899 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
102257821 TATAATGATT
102257831 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
102257852 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
102257872 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
102257892 ATTATTAT
1 ATTATTAT
102257900 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:102257912 original size:15 final size:14
Alignment explanation
Indices: 102257886--102257916 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
102257876 TATGGTTTTA
102257886 TATTAGATTATTAT
1 TATTAGATTATTAT
102257900 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
102257915 TA
1 TA
102257917 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:102266158 original size:17 final size:18
Alignment explanation
Indices: 102266136--102266171 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
102266126 GATATGATAC
*
102266136 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
102266153 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
102266171 T
1 T
102266172 TAGGAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:102266467 original size:23 final size:21
Alignment explanation
Indices: 102266437--102266480 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
102266427 AAATTAAATC
102266437 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC--AATCATATCT
*
102266460 TCTAAGATTGCAATCATATCT
1 TCTAAGATTACAATCATATCT
102266481 AAGATTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
23 10 0.50
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (21 bp):
TCTAAGATTACAATCATATCT
Found at i:102266494 original size:17 final size:18
Alignment explanation
Indices: 102266460--102266503 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
102266450 AATCATATCT
102266460 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
102266478 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
102266495 TCTAAGATT
1 TCTAAGATT
102266504 ACATATCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:102268343 original size:26 final size:26
Alignment explanation
Indices: 102268314--102268367 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
102268304 AGAAGTCTGC
* *
102268314 ATGTATGTTTTGGTCCTACTAACCCA
1 ATGTATGTTTCGATCCTACTAACCCA
102268340 ATGTATGTTTCGATCCTACTAACCCA
1 ATGTATGTTTCGATCCTACTAACCCA
102268366 AT
1 AT
102268368 CCCATATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (26 bp):
ATGTATGTTTCGATCCTACTAACCCA
Found at i:102270400 original size:13 final size:13
Alignment explanation
Indices: 102270349--102270401 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
102270339 AGTTTGGCAA
*
102270349 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
*
102270362 TGCTCTTGAAAAG
1 TGCTTTTGAAAAG
*
102270375 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
102270388 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
102270401 T
1 T
102270402 TTGGTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 2 0.06
13 28 0.85
14 3 0.09
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:102271806 original size:17 final size:18
Alignment explanation
Indices: 102271786--102271819 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
102271776 TTTTAAGTGA
102271786 TTTTAACT-TTTAAAATG
1 TTTTAACTATTTAAAATG
*
102271803 TTTTAATTATTTAAAAT
1 TTTTAACTATTTAAAAT
102271820 TATATTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTTAACTATTTAAAATG
Found at i:102272025 original size:31 final size:29
Alignment explanation
Indices: 102271990--102272049 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
102271980 CTCAAAATTC
* *
102271990 TACATAAACTTTGATTTAATGTACAATTATA
1 TACATAAACTTTAATTT--GGTACAATTATA
*
102272021 TACATGAACTTTAATTTGGTACAATTATA
1 TACATAAACTTTAATTTGGTACAATTATA
102272050 CATGCGAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 11 0.42
31 15 0.58
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (29 bp):
TACATAAACTTTAATTTGGTACAATTATA
Found at i:102272169 original size:29 final size:28
Alignment explanation
Indices: 102272153--102272221 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 28
102272143 TTTTATAGTG
102272153 AATAAATATAATTATTTATGTAAATAAT
1 AATAAATATAATTATTTATGTAAATAAT
102272181 ATATAAATATAATTATTTATGTAAATAAT
1 A-ATAAATATAATTATTTATGTAAATAAT
*
102272210 ATATAAACATAA
1 A-ATAAATATAA
102272222 AATGATGTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
AATAAATATAATTATTTATGTAAATAAT
Found at i:102272178 original size:18 final size:18
Alignment explanation
Indices: 102272155--102272207 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
102272145 TTATAGTGAA
102272155 TAAATATAATTATTTATG
1 TAAATATAATTATTTATG
102272173 T-AA-ATAA-TA--TA--
1 TAAATATAATTATTTATG
102272184 TAAATATAATTATTTATG
1 TAAATATAATTATTTATG
102272202 TAAATA
1 TAAATA
102272208 ATATATAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
11 1 0.04
12 2 0.07
13 6 0.21
14 2 0.07
15 2 0.07
16 6 0.21
17 2 0.07
18 7 0.25
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (18 bp):
TAAATATAATTATTTATG
Found at i:102273054 original size:107 final size:107
Alignment explanation
Indices: 102272934--102273132 Score: 364
Period size: 107 Copynumber: 1.9 Consensus size: 107
102272924 GTTCTTTTAA
*
102272934 AATGATATTTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
1 AATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
102272999 TTGTTAATTAC-CTTGATAAAATTTTTGTTTAGTTAACAAAAC
66 TTGTTAATTACTC-TGATAAAATTTTTGTTTAGTTAACAAAAC
*
102273041 AATGATATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
1 AATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
102273106 TTGTTAATTACTCTGATAAAATTTTTG
66 TTGTTAATTACTCTGATAAAATTTTTG
102273133 AAGTGTTTTT
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 88 0.99
108 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (107 bp):
AATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
TTGTTAATTACTCTGATAAAATTTTTGTTTAGTTAACAAAAC
Found at i:102276059 original size:21 final size:21
Alignment explanation
Indices: 102276033--102276073 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
102276023 ATAGTCTAAT
*
102276033 GTGTGATTCGATGATGTCAAA
1 GTGTGATTCAATGATGTCAAA
102276054 GTGTGATTCAATGATGTCAA
1 GTGTGATTCAATGATGTCAA
102276074 GATGAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (21 bp):
GTGTGATTCAATGATGTCAAA
Found at i:102279060 original size:20 final size:20
Alignment explanation
Indices: 102279035--102279075 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
102279025 TTATATCAAT
* *
102279035 AAAATTAGCACATTTTTTTA
1 AAAATTAACACAATTTTTTA
102279055 AAAATTAACACAATTTTTTA
1 AAAATTAACACAATTTTTTA
102279075 A
1 A
102279076 GTCAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAATTAACACAATTTTTTA
Found at i:102279175 original size:33 final size:32
Alignment explanation
Indices: 102279138--102279199 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
102279128 CCTATATTTT
*
102279138 ATGCTTAGAGTTCAATTCAATGTGATAATTAAG
1 ATGCTTAGAGTTCAATTCAA-GTAATAATTAAG
*
102279171 ATGCTTAGAGTTCTATTCAAGTAATAATT
1 ATGCTTAGAGTTCAATTCAAGTAATAATT
102279200 CTATTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (32 bp):
ATGCTTAGAGTTCAATTCAAGTAATAATTAAG
Found at i:102281385 original size:124 final size:125
Alignment explanation
Indices: 102281221--102281499 Score: 481
Period size: 125 Copynumber: 2.2 Consensus size: 125
102281211 CTGTGTACCT
* * * *
102281221 CACACGGCTAAGACACAAGCCCGTGCCTCTTCTCGTGTGCTCAATTCTGAGCATTTTGTTTCTC-
1 CACACGGCTGAGACACACGCCCGTGTCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTCA
102281285 ATTTTAAGATGCAGGGGACACACAG-TCAGACTACACGCCCATGTACATGACCGTATGTCA
66 ATTTTAAGATGCAGGGGACACACAGCT-AGACTACACGCCCATGTACATGACCGTATGTCA
* *
102281345 CACATGGCTGAGACACACGCCTGTGTCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTCA
1 CACACGGCTGAGACACACGCCCGTGTCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTCA
102281410 ATTTTAAGATGCAGGGGACACACAGCTAGACTACACGCCCATGTACATGACCGTATGTCA
66 ATTTTAAGATGCAGGGGACACACAGCTAGACTACACGCCCATGTACATGACCGTATGTCA
102281470 CACACGGCTGAGACACACGCCCGTGTCTCT
1 CACACGGCTGAGACACACGCCCGTGTCTCT
102281500 ACCCATGTGG
Statistics
Matches: 145, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
124 58 0.40
125 86 0.59
126 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (125 bp):
CACACGGCTGAGACACACGCCCGTGTCTCTTCTCGTGTGCTCAATTCTGAGCATTCTGTTTCTCA
ATTTTAAGATGCAGGGGACACACAGCTAGACTACACGCCCATGTACATGACCGTATGTCA
Found at i:102284849 original size:19 final size:19
Alignment explanation
Indices: 102284825--102284861 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
102284815 TCAAAGAACA
*
102284825 ATGCAAATTAAGCTATCAT
1 ATGCAAATCAAGCTATCAT
*
102284844 ATGCAAATCATGCTATCA
1 ATGCAAATCAAGCTATCA
102284862 ATTACTTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (19 bp):
ATGCAAATCAAGCTATCAT
Found at i:102287820 original size:3 final size:3
Alignment explanation
Indices: 102287812--102287848 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
102287802 AGTGATTTTA
102287812 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
102287849 ATTTATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:102287863 original size:14 final size:14
Alignment explanation
Indices: 102287809--102287865 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 14
102287799 CTGAGTGATT
102287809 TTAA-TTATTATTA
1 TTAATTTATTATTA
102287822 TT-A-TTATTATTA
1 TTAATTTATTATTA
102287834 TT-A-TTATTATTA
1 TTAATTTATTATTA
102287846 TTAATTTATTCATT-
1 TTAATTTATT-ATTA
102287860 TTAATT
1 TTAATT
102287866 ATTTAAAAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
12 24 0.59
13 3 0.07
14 11 0.27
15 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TTAATTTATTATTA
Found at i:102300047 original size:21 final size:20
Alignment explanation
Indices: 102300022--102300065 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
102300012 ATAAAAGGGT
*
102300022 AAAT-ATAACAAGAAGATATTA
1 AAATAATAA-AAGAA-ATAATA
102300043 AAATAATAAAAGAAATAATA
1 AAATAATAAAAGAAATAATA
102300063 AAA
1 AAA
102300066 CTACAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 9 0.43
22 4 0.19
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (20 bp):
AAATAATAAAAGAAATAATA
Found at i:102300183 original size:3 final size:3
Alignment explanation
Indices: 102300175--102300234 Score: 111
Period size: 3 Copynumber: 19.7 Consensus size: 3
102300165 AAGATGAAGA
102300175 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
102300223 AAT AAT AGAT AA
1 AAT AAT A-AT AA
102300235 ATACAAGTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:102303611 original size:42 final size:42
Alignment explanation
Indices: 102303552--102303633 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
102303542 TAAGTTTTTG
* * * *
102303552 TTTAACCCTAATAGGTTTTCGTTTAGCTCTTTTGAGCTTCAA
1 TTTAACCCTAATAGGTTTCCATTCAGCTCTTATGAGCTTCAA
* *
102303594 TTTAACCTTTATAGGTTTCCATTCAGCTCTTATGAGCTTC
1 TTTAACCCTAATAGGTTTCCATTCAGCTCTTATGAGCTTC
102303634 CGCTCAACTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (42 bp):
TTTAACCCTAATAGGTTTCCATTCAGCTCTTATGAGCTTCAA
Found at i:102305355 original size:48 final size:48
Alignment explanation
Indices: 102305284--102305381 Score: 171
Period size: 48 Copynumber: 2.0 Consensus size: 48
102305274 ATTTCTATCT
*
102305284 AAACATCAAGTAAATTTAACATTTCT-TGCCATGAATCAAACTCAAACC
1 AAACATCAAGTAAATTTAACATTT-TGTGCAATGAATCAAACTCAAACC
102305332 AAACATCAAGTAAATTTAACATTTTGTGCAATGAATCAAACTCAAACC
1 AAACATCAAGTAAATTTAACATTTTGTGCAATGAATCAAACTCAAACC
102305380 AA
1 AA
102305382 GTCATTTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 1 0.02
48 47 0.98
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (48 bp):
AAACATCAAGTAAATTTAACATTTTGTGCAATGAATCAAACTCAAACC
Found at i:102316313 original size:42 final size:46
Alignment explanation
Indices: 102316252--102316465 Score: 232
Period size: 42 Copynumber: 4.7 Consensus size: 46
102316242 CTTCGTTTTC
* **
102316252 TCGATGCCGTAGTTCAACTATGGTCTTACAC-AT-C-T-TCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACGATACATATCACAT-A
102316295 T-GATGCCATAGCCCAACTATGGTCTTACAC-AT--AT-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACGATACATATCACATA
*
102316336 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACG--AT-ACATATCACATA
* * *
102316385 ACGATGCCATAAG-CCAGCTATGGTCTTATACGGATCACATATCACATA
1 TCGATGCCAT-AGCCCAACTATGGTCTTACAC-GAT-ACATATCACATA
102316433 TCGATGCCATAGCCCAACTATGGTCTTACACGA
1 TCGATGCCATAGCCCAACTATGGTCTTACACGA
102316466 ATCAAATATC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
41 2 0.01
42 63 0.42
43 1 0.01
45 2 0.01
47 4 0.03
48 42 0.28
49 33 0.22
50 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACGATACATATCACATA
Found at i:102316441 original size:48 final size:48
Alignment explanation
Indices: 102316322--102316580 Score: 281
Period size: 48 Copynumber: 5.2 Consensus size: 48
102316312 TATGGTCTTA
* *
102316322 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTATACG-GAT
*
102316372 CACATATCACATAACGATGCCATAAG-CCAGCTATGGTCTTATACGGAT
1 CACATATCACATATCGATGCCAT-AGCCCAGCTATGGTCTTATACGGAT
* * *
102316420 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTATACGGAT
* * * * * *
102316468 CAAATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTATACGG-AT
* *
102316515 CACATAATCACATCTCTCTGATGCCATAGCCCTGCTATGGTCTTATACGGAAAT
1 CACAT-ATCACA--TATC-GATGCCATAGCCCAGCTATGGTCTTATACGG--AT
102316569 CACATATCACAT
1 CACATATCACAT
102316581 GTTGCTATGG
Statistics
Matches: 177, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
46 26 0.15
47 8 0.05
48 57 0.32
49 34 0.19
50 8 0.05
51 3 0.02
53 34 0.19
54 7 0.04
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTATACGGAT
Found at i:102316536 original size:53 final size:53
Alignment explanation
Indices: 102316473--102316580 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
102316463 CGAATCAAAT
*
102316473 ATCTCACTGATGCCATATCCCAGATATGGTCTTATACGG-AAGCACATAATCAC
1 ATCTCACTGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACAT-ATCAC
* * * *
102316526 ATCTCTCTGATGCCATAGCCCTGCTATGGTCTTATACGGAAATCACATATCAC
1 ATCTCACTGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCAC
102316579 AT
1 AT
102316581 GTTGCTATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
53 42 0.86
54 7 0.14
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (53 bp):
ATCTCACTGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCAC
Found at i:102319617 original size:23 final size:23
Alignment explanation
Indices: 102319587--102319632 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
102319577 ATCAATTCAT
*
102319587 AAAAAAAATCATTTTTCTCTCTA
1 AAAAAAAATCAATTTTCTCTCTA
102319610 AAAAAAAATCAATTTTCTCTCTA
1 AAAAAAAATCAATTTTCTCTCTA
102319633 TCTTATTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAAAAAATCAATTTTCTCTCTA
Found at i:102320555 original size:17 final size:17
Alignment explanation
Indices: 102320498--102320556 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
102320488 GCACTTTTAC
*
102320498 TACAACACGCATGTTAA
1 TACAACTCGCATGTTAA
** * *
102320515 CGCAACTCGCATATTGA
1 TACAACTCGCATGTTAA
* *
102320532 TATAACTCGCATGTCAA
1 TACAACTCGCATGTTAA
102320549 TACAACTC
1 TACAACTC
102320557 ATAGATTTAC
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (17 bp):
TACAACTCGCATGTTAA
Found at i:102320746 original size:34 final size:34
Alignment explanation
Indices: 102320702--102320887 Score: 194
Period size: 34 Copynumber: 5.5 Consensus size: 34
102320692 TGACAAAGCC
* *
102320702 AGCTCTCATATAAACACAACTCATATATAAACAT
1 AGCTCGCATATAAACACAACTCACATATAAACAT
** ** *
102320736 AGCTAACATATAAACACAACTTGCATATAAACAC
1 AGCTCGCATATAAACACAACTCACATATAAACAT
*
102320770 AGCTCGCATATAAACACAAGTCACATATAAACAT
1 AGCTCGCATATAAACACAACTCACATATAAACAT
* *
102320804 AGCTCGCATTTAAACAAAACT-AGCATATAAACAT
1 AGCTCGCATATAAACACAACTCA-CATATAAACAT
* * * * ** *
102320838 AGCTCGTATATAAATATAGCTTGCTTATAAACAT
1 AGCTCGCATATAAACACAACTCACATATAAACAT
*
102320872 AGCTCACATATAAACA
1 AGCTCGCATATAAACA
102320888 TATATATAAG
Statistics
Matches: 125, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
33 1 0.01
34 124 0.99
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.25
Consensus pattern (34 bp):
AGCTCGCATATAAACACAACTCACATATAAACAT
Found at i:102320774 original size:68 final size:68
Alignment explanation
Indices: 102320701--102320887 Score: 218
Period size: 68 Copynumber: 2.8 Consensus size: 68
102320691 TTGACAAAGC
* * *
102320701 CAGCTCTCATATAAACACAACTCATATATAAACATAGCTAACATATAAACACAACTTGCATATAA
1 CAGCTCTCATATAAACACAACTCATATATAAACATAGCTCACATATAAACAAAACTAGCATATAA
102320766 ACA
66 ACA
* * * * *
102320769 CAGCTCGCATATAAACACAAGTCACATATAAACATAGCTCGCATTTAAACAAAACTAGCATATAA
1 CAGCTCTCATATAAACACAACTCATATATAAACATAGCTCACATATAAACAAAACTAGCATATAA
102320834 ACA
66 ACA
* * * *
102320837 TAGCTCGT-ATATAAATATAGCTTGC-T-TATAAACATAGCTCACATATAAACA
1 CAGCTC-TCATATAAACACAAC-T-CATATATAAACATAGCTCACATATAAACA
102320888 TATATATAAG
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
68 97 0.98
69 1 0.01
70 1 0.01
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (68 bp):
CAGCTCTCATATAAACACAACTCATATATAAACATAGCTCACATATAAACAAAACTAGCATATAA
ACA
Found at i:102320784 original size:51 final size:51
Alignment explanation
Indices: 102320708--102320889 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 51
102320698 AGCCAGCTCT
* * * *
102320708 CATATAAACACAACTCATATATAAACATAGCTAACATATAAACACAACTTG
1 CATATAAACACAACTCACATATAAACATAGCTCACATATAAACATAGCTTG
* * * *
102320759 CATATAAACACAGCTCGCATATAAACACAAG-TCACATATAAACATAGCTCG
1 CATATAAACACAACTCACATATAAACA-TAGCTCACATATAAACATAGCTTG
* * ** *
102320810 CATTTAAACAAAACT-AGCATATAAACATAGCTCGTATATAAATATAGCTTG
1 CATATAAACACAACTCA-CATATAAACATAGCTCACATATAAACATAGCTTG
* * *
102320861 CTTATAAACATAGCTCACATATAAACATA
1 CATATAAACACAACTCACATATAAACATA
102320890 TATATAAGTA
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
50 2 0.02
51 101 0.95
52 3 0.03
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.25
Consensus pattern (51 bp):
CATATAAACACAACTCACATATAAACATAGCTCACATATAAACATAGCTTG
Found at i:102320848 original size:17 final size:17
Alignment explanation
Indices: 102320702--102320889 Score: 162
Period size: 17 Copynumber: 11.1 Consensus size: 17
102320692 TGACAAAGCC
* *
102320702 AGCTCTCATATAAACAC
1 AGCTCGCATATAAACAT
* **
102320719 AACTCATATATAAACAT
1 AGCTCGCATATAAACAT
** *
102320736 AGCTAACATATAAACAC
1 AGCTCGCATATAAACAT
* * *
102320753 AACTTGCATATAAACAC
1 AGCTCGCATATAAACAT
*
102320770 AGCTCGCATATAAACACA
1 AGCTCGCATATAAACA-T
*
102320788 AG-TCACATATAAACAT
1 AGCTCGCATATAAACAT
* *
102320804 AGCTCGCATTTAAACAA
1 AGCTCGCATATAAACAT
* *
102320821 AACTAGCATATAAACAT
1 AGCTCGCATATAAACAT
* *
102320838 AGCTCGTATATAAATAT
1 AGCTCGCATATAAACAT
* *
102320855 AGCTTGCTTATAAACAT
1 AGCTCGCATATAAACAT
*
102320872 AGCTCACATATAAACAT
1 AGCTCGCATATAAACAT
102320889 A
1 A
102320890 TATATAAGTA
Statistics
Matches: 135, Mismatches: 34, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
16 2 0.01
17 131 0.97
18 2 0.01
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (17 bp):
AGCTCGCATATAAACAT
Found at i:102332842 original size:22 final size:22
Alignment explanation
Indices: 102332804--102332858 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
102332794 ATAATCATTT
102332804 ATTTACTTTCTAATTTTATCA-TAA
1 ATTTA-TTT-TAATTTT-TCATTAA
*
102332828 ATTTATTTTAATTTTTTATTAA
1 ATTTATTTTAATTTTTCATTAA
102332850 ATTT-TTTTA
1 ATTTATTTTA
102332859 TCTTTTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 7 0.24
22 14 0.48
23 3 0.10
24 5 0.17
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTATTTTAATTTTTCATTAA
Found at i:102332864 original size:22 final size:22
Alignment explanation
Indices: 102332825--102332867 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
102332815 AATTTTATCA
102332825 TAAATTTATTTTAATTTTTTAT
1 TAAATTTATTTTAATTTTTTAT
*
102332847 TAAATTT-TTTTATCTTTTTTA
1 TAAATTTATTTTA-ATTTTTTA
102332868 GTTCGTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
TAAATTTATTTTAATTTTTTAT
Found at i:102340937 original size:16 final size:17
Alignment explanation
Indices: 102340918--102340957 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
102340908 GAATTTATTT
102340918 ATATATAAAT-TCAAAA
1 ATATATAAATATCAAAA
* *
102340934 ATATTTAAATATTAAAA
1 ATATATAAATATCAAAA
102340951 ATATATA
1 ATATATA
102340958 TAAATTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATATAAATATCAAAA
Found at i:102342469 original size:31 final size:32
Alignment explanation
Indices: 102342434--102342496 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
102342424 AGTTTATATG
102342434 TTTATAATTTTTAAAATATTAAA-T-TAATTTT
1 TTTATAATTTTTAAAA-ATTAAAGTGTAATTTT
*
102342465 TTTATCATTTTTAAAAATTAAAGTGTAATTTT
1 TTTATAATTTTTAAAAATTAAAGTGTAATTTT
102342497 ACCAATACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 6 0.21
31 16 0.55
32 7 0.24
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.56
Consensus pattern (32 bp):
TTTATAATTTTTAAAAATTAAAGTGTAATTTT
Found at i:102350576 original size:3 final size:3
Alignment explanation
Indices: 102350570--102350615 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
102350560 TATTAGACTT
*
102350570 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
102350616 GAAATGATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:102353428 original size:31 final size:31
Alignment explanation
Indices: 102353393--102353457 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
102353383 ATATAGTAGA
102353393 ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
1 ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
102353424 ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
1 ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
102353455 ATG
1 ATG
102353458 TGGTTTGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.23, C:0.09, G:0.35, T:0.32
Consensus pattern (31 bp):
ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
Found at i:102353718 original size:31 final size:31
Alignment explanation
Indices: 102353683--102353747 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
102353673 ATATAGTAGA
102353683 ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
1 ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
*
102353714 ATGAGGGGTTTTGGAGGTCACTCTTAGAAGT
1 ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
102353745 ATG
1 ATG
102353748 TGGTTTGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.09, G:0.34, T:0.32
Consensus pattern (31 bp):
ATGAGAGGTTTTGGAGGTCACTCTTAGAAGT
Found at i:102353757 original size:290 final size:290
Alignment explanation
Indices: 102353237--102353822 Score: 1118
Period size: 290 Copynumber: 2.0 Consensus size: 290
102353227 TCTCTAAGAT
102353237 AATGGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGC
1 AATGGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGC
102353302 CTAAAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTGAAGCTAAAC
66 CTAAAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTGAAGCTAAAC
*
102353367 ATGAATAAAGAAAACGATATAGTAGAATGAGGGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGG
131 ATGAATAAAGAAAACGATATAGTAGAATGAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGG
102353432 TTTTGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGT
196 TTTTGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGT
* *
102353497 GTAAATACAGTTTCCTACACTTTTATCATC
261 ATAAATACAGTTTCCTACACTTTTATCATA
*
102353527 AATGGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACATAGTGCCTTTGTGC
1 AATGGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGC
*
102353592 CTAAAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTGAAGTTAAAC
66 CTAAAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTGAAGCTAAAC
102353657 ATGAATAAAGAAAACGATATAGTAGAATGAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGG
131 ATGAATAAAGAAAACGATATAGTAGAATGAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGG
102353722 TTTTGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGT
196 TTTTGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGT
*
102353787 ATAAATACATTTTCCTACACTTTTATCATA
261 ATAAATACAGTTTCCTACACTTTTATCATA
102353817 AATGGT
1 AATGGT
102353823 AAGCCAAGTA
Statistics
Matches: 290, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
290 290 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (290 bp):
AATGGTGAACAAAATAAAGGGTTTCTTTGGGGATATCATTACTAAACAACAGAGTGCCTTTGTGC
CTAAAAGAAAAATCCTCAAATTGAAGAAAAAAGGGAAAATATCTGAAGTTGTTTTGAAGCTAAAC
ATGAATAAAGAAAACGATATAGTAGAATGAGAGGTTTTGGAGGTCACTCTTAGAAGTATGAGGGG
TTTTGGAGGTCACTCTTAGAAGTATGTGGTTTGATCAGATTTGGGTGGGGTGAATAATGGAATGT
ATAAATACAGTTTCCTACACTTTTATCATA
Found at i:102372273 original size:16 final size:16
Alignment explanation
Indices: 102372254--102372290 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
102372244 AAATTTGGTT
*
102372254 CATAAATATATATATA
1 CATAAATATATATAAA
*
102372270 CATATATATATATAAA
1 CATAAATATATATAAA
102372286 CATAA
1 CATAA
102372291 CCATTCAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (16 bp):
CATAAATATATATAAA
Found at i:102377410 original size:2 final size:2
Alignment explanation
Indices: 102377403--102377442 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
102377393 GAAAAGTTCA
102377403 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
102377443 CTTAAGAGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:102379090 original size:15 final size:16
Alignment explanation
Indices: 102379070--102379107 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
102379060 GTAACTTCAG
102379070 ACAATTATGTAC-CAT
1 ACAATTATGTACACAT
*
102379085 ACAATTATTTACACAT
1 ACAATTATGTACACAT
*
102379101 TCAATTA
1 ACAATTA
102379108 AGTGAAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (16 bp):
ACAATTATGTACACAT
Found at i:102382120 original size:27 final size:27
Alignment explanation
Indices: 102382078--102382131 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
102382068 CGAAATTATG
*
102382078 GTGCAAAGCAATTAGCTTACTATTCAT
1 GTGCAAAGCAACTAGCTTACTATTCAT
*
102382105 GTGCAAAGCAACTAGCTTATTATTCAT
1 GTGCAAAGCAACTAGCTTACTATTCAT
102382132 AGTAGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (27 bp):
GTGCAAAGCAACTAGCTTACTATTCAT
Found at i:102386964 original size:12 final size:12
Alignment explanation
Indices: 102386947--102386971 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102386937 AGGATATGAC
102386947 TAAAGCTAAAGA
1 TAAAGCTAAAGA
102386959 TAAAGCTAAAGA
1 TAAAGCTAAAGA
102386971 T
1 T
102386972 GAAGACTTTG
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:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (12 bp):
TAAAGCTAAAGA
Found at i:102387278 original size:16 final size:16
Alignment explanation
Indices: 102387259--102387292 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
102387249 AAGCTGAATG
*
102387259 AAATGTGAGCTCATCA
1 AAATGCGAGCTCATCA
*
102387275 AAATGCGATCTCATCA
1 AAATGCGAGCTCATCA
102387291 AA
1 AA
102387293 GTACAAGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.24
Consensus pattern (16 bp):
AAATGCGAGCTCATCA
Found at i:102387924 original size:20 final size:20
Alignment explanation
Indices: 102387852--102387927 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
102387842 TGATTGACTC
* *
102387852 AATTCTTTTGTTGTTTGAATC
1 AATTC-TTTATTGTTTGAATA
* * * * *
102387873 CATTGTTTATTATTTGACTT
1 AATTCTTTATTGTTTGAATA
*
102387893 AATTCATTATTGTTTGAATA
1 AATTCTTTATTGTTTGAATA
102387913 AATTCTTTATTGTTT
1 AATTCTTTATTGTTT
102387928 AGCTCAATTT
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
20 39 0.93
21 3 0.07
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.58
Consensus pattern (20 bp):
AATTCTTTATTGTTTGAATA
Found at i:102403795 original size:104 final size:105
Alignment explanation
Indices: 102403549--102403816 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
102403539 TTGTATATAA
** *
102403549 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
102403613 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
102403654 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
102403719 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
102403758 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
102403817 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 85 0.55
105 68 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:102406053 original size:5 final size:5
Alignment explanation
Indices: 102406043--102406070 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
102406033 CCAATTTGTG
102406043 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
102406071 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:102406467 original size:30 final size:30
Alignment explanation
Indices: 102406433--102406493 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
102406423 CATCTAGCTT
102406433 GGTGTGATTGCTTCTTTGGTTTGACCATTG
1 GGTGTGATTGCTTCTTTGGTTTGACCATTG
102406463 GGTGTGATTGCTTCTTTGGTTTGACCATTG
1 GGTGTGATTGCTTCTTTGGTTTGACCATTG
102406493 G
1 G
102406494 AGCCCATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.10, C:0.13, G:0.31, T:0.46
Consensus pattern (30 bp):
GGTGTGATTGCTTCTTTGGTTTGACCATTG
Found at i:102407706 original size:21 final size:21
Alignment explanation
Indices: 102407680--102407720 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102407670 TTAAGATACT
*
102407680 TTACTTGAATAGTTGTATCTC
1 TTACTTGAATAGTTATATCTC
*
102407701 TTACTTTAATAGTTATATCT
1 TTACTTGAATAGTTATATCT
102407721 TTTTAAAAGA
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:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (21 bp):
TTACTTGAATAGTTATATCTC
Found at i:102408490 original size:15 final size:15
Alignment explanation
Indices: 102408470--102408499 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
102408460 GGAAACTGTT
*
102408470 TGTAATTGCAGGCAA
1 TGTAATAGCAGGCAA
102408485 TGTAATAGCAGGCAA
1 TGTAATAGCAGGCAA
102408500 AGGAAACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (15 bp):
TGTAATAGCAGGCAA
Found at i:102430075 original size:27 final size:27
Alignment explanation
Indices: 102430052--102430110 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
102430042 TTTAAATTTA
*
102430052 GAAAAT-ATTAAATAATTTAAAAATAT
1 GAAAATCATTAAAAAATTTAAAAATAT
*
102430078 GGAAATCATTAAAAAATTTAAAAATAT
1 GAAAATCATTAAAAAATTTAAAAATAT
*
102430105 TAAAAT
1 GAAAAT
102430111 TGTAAAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (27 bp):
GAAAATCATTAAAAAATTTAAAAATAT
Found at i:102430076 original size:18 final size:18
Alignment explanation
Indices: 102430046--102430109 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 18
102430036 GTAATTTTTA
102430046 AATTTAGAAAATATTAAAT
1 AATTTA-AAAATATTAAAT
*
102430065 AATTTAAAAATATGGAAAT
1 AATTTAAAAATAT-TAAAT
* *
102430084 CATTAAAAAAT-TTAAA-
1 AATTTAAAAATATTAAAT
102430100 AATATTAAAA
1 AAT-TTAAAA
102430110 TTGTAAAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.05
17 8 0.22
18 8 0.22
19 19 0.51
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (18 bp):
AATTTAAAAATATTAAAT
Found at i:102430446 original size:20 final size:19
Alignment explanation
Indices: 102430409--102430461 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
102430399 ATTTGCAATC
*
102430409 TTTAATATTTTTAAAAATT
1 TTTAATATTTTCAAAAATT
*
102430428 TTTAATGATTTTCACAAATT
1 TTTAAT-ATTTTCAAAAATT
*
102430448 TTTACATTTTTTCA
1 TTTA-ATATTTTCA
102430462 TTTTACAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.21
20 21 0.72
21 2 0.07
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTAATATTTTCAAAAATT
Found at i:102430474 original size:25 final size:26
Alignment explanation
Indices: 102430435--102430483 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
102430425 ATTTTTAATG
*
102430435 ATTTTCACAAATTTTTACATTTTTTC
1 ATTTTCACAAATTTTAACATTTTTTC
* *
102430461 ATTTT-ACAATTTTTAATATTTTT
1 ATTTTCACAAATTTTAACATTTTT
102430484 AATAATTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTCACAAATTTTAACATTTTTTC
Found at i:102431800 original size:22 final size:21
Alignment explanation
Indices: 102431774--102431856 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 21
102431764 ATATTCAAAC
**
102431774 AATAACAACAAAATAGTAGTA
1 AATAACAACAAAATAGTAACA
* **
102431795 ATATAATAGTAAAATAGTAACAA
1 A-ATAACAACAAAATAGTAAC-A
* * *
102431818 AATAACATCAAAATGGCAACA
1 AATAACAACAAAATAGTAACA
*
102431839 AATAACAACAAAACAGTA
1 AATAACAACAAAATAGTA
102431857 GTAAACATCA
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
21 16 0.35
22 28 0.61
23 2 0.04
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.18
Consensus pattern (21 bp):
AATAACAACAAAATAGTAACA
Found at i:102441914 original size:33 final size:28
Alignment explanation
Indices: 102441854--102441909 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
102441844 AACCCGGAAG
102441854 CTCGGATACCAATTTGTGAAAAATAAAA
1 CTCGGATACCAATTTGTGAAAAATAAAA
102441882 CTCGGATACCAATTTGTGAAAAATAAAA
1 CTCGGATACCAATTTGTGAAAAATAAAA
102441910 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (28 bp):
CTCGGATACCAATTTGTGAAAAATAAAA
Found at i:102442410 original size:32 final size:32
Alignment explanation
Indices: 102442368--102442439 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
102442358 TGTTAAATTT
* **
102442368 CTAATCAATCCTAATTTTTTCAAGGGTTTGTA
1 CTAATCAATCCCAATTTTTTCAAGAATTTGTA
* *
102442400 TTAATCAATCCCATTTTTTTCAAGAATTTGTA
1 CTAATCAATCCCAATTTTTTCAAGAATTTGTA
102442432 CTAATCAA
1 CTAATCAA
102442440 CTTCTAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (32 bp):
CTAATCAATCCCAATTTTTTCAAGAATTTGTA
Found at i:102442981 original size:23 final size:23
Alignment explanation
Indices: 102442951--102443000 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
102442941 TTGGTACTAC
* *
102442951 AAAATACTACAAGCTGTATTGTG
1 AAAATACTACAAACTGTATTGTA
*
102442974 AAAATACTTCAAACTGTATTGTA
1 AAAATACTACAAACTGTATTGTA
102442997 AAAA
1 AAAA
102443001 ATGCGATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (23 bp):
AAAATACTACAAACTGTATTGTA
Found at i:102443596 original size:10 final size:10
Alignment explanation
Indices: 102443581--102443626 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
102443571 TCTAGCTTTG
102443581 ATCTTTATTT
1 ATCTTTATTT
* *
102443591 ATCTTTAATC
1 ATCTTTATTT
102443601 ATCTTTATTT
1 ATCTTTATTT
102443611 AT-TTGTATTT
1 ATCTT-TATTT
102443621 ATCTTT
1 ATCTTT
102443627 TAGAATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 2 0.07
10 26 0.87
11 2 0.07
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (10 bp):
ATCTTTATTT
Found at i:102446368 original size:54 final size:54
Alignment explanation
Indices: 102446300--102446782 Score: 285
Period size: 54 Copynumber: 8.9 Consensus size: 54
102446290 TCGGTGAGCA
** * * *
102446300 GCAAGATTCAAAAAATCTTGTAAGTATAAGGTTGTGATCTTAAATCTACAAATC
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
* * * * * * * *
102446354 GCAATATTTGAAAAATCCTGTAGGTATAAGGCTACGATATTAAAT-TGGCGAGCC
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCT-ACAAACC
* * * * * *
102446408 GCAATACTT-AGAAAATATTGTAAGTATAAGGTTGCGATATTAAATC-ATCTAACC
1 GCAAGATTTGA-AAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTA-CAAACC
* * * * * * * *
102446462 GCAAGA-TTCAGAAAATCTTATAAGTATAAGGCTGTGATCTTAAATTTGCGAGCT
1 GCAAGATTTGA-AAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
* * *
102446516 GGAAGATTT-AAAAAGTCTTGTAAGTATAAGGTTGCAATCTTAAAT-TGACAAACC
1 GCAAGATTTGAAAAA-TCTTGTAAGTATAAGGCTGCGATCTTAAATCT-ACAAACC
* * * * * * *
102446570 TCAAGATTTGAAAAATCCTGTAAATATAAGGGTGCGATCTTAAATCAACAAGCT
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
* ** * *** * **** * *
102446624 GAAAGATTAAAAAAATCTTGTAAATATAAGGCTTAAATATTAAATCGGTGAGCT
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
* * * ** ** * ***
102446678 ACAAGATTCGAAAAATCTTGTAAGTATAAGACTGTAATCTTAAATCGGCGAGTT
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
* * *
102446732 GCAAAATTCGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGACAA
1 GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAA
102446783 GCCCGTTCCT
Statistics
Matches: 335, Mismatches: 83, Indels: 22
0.76 0.19 0.05
Matches are distributed among these distances:
53 9 0.03
54 319 0.95
55 7 0.02
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (54 bp):
GCAAGATTTGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCTACAAACC
Found at i:102446465 original size:108 final size:107
Alignment explanation
Indices: 102446272--102446777 Score: 362
Period size: 108 Copynumber: 4.7 Consensus size: 107
102446262 CAAACGACCC
* * * * * *
102446272 TAAGGCTGAGATTTTAAATCGGTGAGCAGCAAGA-TTCAAAAAATCTTGTAAGTATAAGGTTGTG
1 TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTT--AAAAATCTTGTAAGTATAAGGTTGCG
* * *
102446336 ATCTTAAATC-TACAAATCGCAATATTTGAAAAATCCTGTAGGTA
64 ATCTTAAATCAT-CAAACCGCAAGATTTGAAAAATCCTGTAAGTA
* * * *
102446380 TAAGGCTACGATATTAAATTGGCGAGCCGCAATACTTAGAAAATATTGTAAGTATAAGGTTGCGA
1 TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTTA-AAAATCTTGTAAGTATAAGGTTGCGA
* * * * *
102446445 TATTAAATCATCTAACCGCAAGA-TTCAGAAAATCTTATAAGTA
65 TCTTAAATCATCAAACCGCAAGATTTGA-AAAATCCTGTAAGTA
* * * * * *
102446488 TAAGGCTGTGATCTTAAATTTGCGAGCTGGAAGATTTAAAAAGTCTTGTAAGTATAAGGTTGCAA
1 TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTTAAAAA-TCTTGTAAGTATAAGGTTGCGA
* * *
102446553 TCTTAAATTGA-CAAACCTCAAGATTTGAAAAATCCTGTAAATA
65 TCTTAAA-TCATCAAACCGCAAGATTTGAAAAATCCTGTAAGTA
* *** * * * * *
102446596 TAAGGGTGCGATCTTAAATCAACAAGCTGAAAGA-TTAAAAAAATCTTGTAAATATAAGGCTT-A
1 TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTT--AAAAATCTTGTAAGTATAAGG-TTGC
* * * * * ** * *
102446659 AATATTAAATCGGT-GAGCTACAAGATTCGAAAAATCTTGTAAGTA
63 GATCTTAAATC-ATCAAACCGCAAGATTTGAAAAATCCTGTAAGTA
* ** * ** * *
102446704 TAAGACTGTAATCTTAAATCGGCGAGTTGCAA-AATTCGAAAAATCTTGTAAGTATAAGGCTGCG
1 TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTT--AAAAATCTTGTAAGTATAAGGTTGCG
102446768 ATCTTAAATC
64 ATCTTAAATC
102446778 GACAAGCCCG
Statistics
Matches: 314, Mismatches: 70, Indels: 28
0.76 0.17 0.07
Matches are distributed among these distances:
107 13 0.04
108 286 0.91
109 15 0.05
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (107 bp):
TAAGGCTGCGATCTTAAATTGGCGAGCCGCAAGACTTAAAAATCTTGTAAGTATAAGGTTGCGAT
CTTAAATCATCAAACCGCAAGATTTGAAAAATCCTGTAAGTA
Found at i:102446561 original size:162 final size:159
Alignment explanation
Indices: 102446300--102446785 Score: 440
Period size: 162 Copynumber: 3.0 Consensus size: 159
102446290 TCGGTGAGCA
* * ** *
102446300 GCAAGATTCAAAAAATCTTGTAAGTATAAGGTTGTGATCTTAAATCTAC-AAATCGCAATATTTG
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGTGATCTTAAATCTGCGAGCT-GCAAGATTT-
* * * * *
102446364 AAAAATCCTGTAGGTATAAGGCTACGATATTAAATTGGCGAGCCGCAATACTTAGAAAATATTGT
64 AAAAATCTTGTAAGTATAAGGCTGCAATCTTAAATTGGCGAGCCGCAA-A-TTAGAAAATATTGT
* * *
102446429 AAGTATAAGGTTGCGATATTAAATCATCTAA-CC
127 AAGTATAAGGCTGCGATCTTAAATCAAC-AAGCC
* * * *
102446462 GCAAGATTCAGAAAATCTTATAAGTATAAGGCTGTGATCTTAAATTTGCGAGCTGGAAGATTTAA
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGTGATCTTAAATCTGCGAGCTGCAAGATTTAA
* * * * * *
102446527 AAAGTCTTGTAAGTATAAGGTTGCAATCTTAAATTGACAAACCTCAAGATTTGAAAA-ATCCTGT
66 AAA-TCTTGTAAGTATAAGGCTGCAATCTTAAATTGGCGAGCCGCAA-ATTAGAAAATAT--TGT
* * *
102446591 AAATATAAGGGTGCGATCTTAAATCAACAAGCT
127 AAGTATAAGGCTGCGATCTTAAATCAACAAGCC
* * * * * * * * *
102446624 GAAAGATTAAAAAAATCTTGTAAATATAAGGCT-TAAATATTAAATCGGTGAGCTACAAGATTCG
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGT-GATCTTAAATCTGCGAGCTGCAAGATT-T
* * * ** * *
102446688 AAAAATCTTGTAAGTATAAGACTGTAATCTTAAATCGGCGAGTTGCAAAATTCGAAAAATCTTGT
64 AAAAATCTTGTAAGTATAAGGCTGCAATCTTAAATTGGCGAGCCGC-AAATTAG-AAAATATTGT
*
102446753 AAGTATAAGGCTGCGATCTTAAATCGACAAGCC
127 AAGTATAAGGCTGCGATCTTAAATCAACAAGCC
102446786 CGTTCCTCAG
Statistics
Matches: 259, Mismatches: 55, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
160 2 0.01
161 15 0.06
162 228 0.88
163 13 0.05
164 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (159 bp):
GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGTGATCTTAAATCTGCGAGCTGCAAGATTTAA
AAATCTTGTAAGTATAAGGCTGCAATCTTAAATTGGCGAGCCGCAAATTAGAAAATATTGTAAGT
ATAAGGCTGCGATCTTAAATCAACAAGCC
Found at i:102447143 original size:18 final size:18
Alignment explanation
Indices: 102447107--102447145 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
102447097 GAAATATTTA
*
102447107 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
102447125 TTTTGATGTATTATA-TAT
1 TTTTGATGT-TTATAGTAT
102447143 TTT
1 TTT
102447146 AAAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:102447167 original size:12 final size:12
Alignment explanation
Indices: 102447146--102447179 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
102447136 TATATATTTT
*
102447146 AAAATTATATAA
1 AAAATAATATAA
102447158 AAAATAATATAA
1 AAAATAATATAA
*
102447170 AAATTAATAT
1 AAAATAATAT
102447180 GGGCGGCCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:102447447 original size:54 final size:54
Alignment explanation
Indices: 102447346--102447450 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
102447336 CAAGATTCAA
* * * *
102447346 AAAATCCTGTAAGTATAAGGCTGCGATATTAAATTAGCGAGTCGCAAGATTTGG
1 AAAATCCTGTAAGTATAAGGCTGCGATATTAAATGACCAACTCGCAAGATTTGG
* * *
102447400 AAAATCTTGTAAGTATAAGGTTGCGATTTTAAATCGACCAACT-GCAAGATT
1 AAAATCCTGTAAGTATAAGGCTGCGATATTAAAT-GACCAACTCGCAAGATT
102447451 AAATTTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 39 0.91
55 4 0.09
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (54 bp):
AAAATCCTGTAAGTATAAGGCTGCGATATTAAATGACCAACTCGCAAGATTTGG
Found at i:102449122 original size:42 final size:42
Alignment explanation
Indices: 102449071--102449357 Score: 477
Period size: 42 Copynumber: 6.8 Consensus size: 42
102449061 GTTTACAAAC
* *
102449071 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
102449113 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
102449155 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
102449197 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* * * *
102449239 AAAAATGCCACTAAAGACCACGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
102449281 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
102449323 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
102449358 TTTTTTTTTC
Statistics
Matches: 231, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
41 1 0.00
42 230 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:102449389 original size:44 final size:42
Alignment explanation
Indices: 102449073--102449453 Score: 192
Period size: 42 Copynumber: 9.1 Consensus size: 42
102449063 TTACAAACAA
* * * * **** *
102449073 AAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
* * * **** *
102449115 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
* * * **** *
102449157 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
* * * **** *
102449199 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
* * * * * * **** *
102449241 AAATGCCACTAAAGACCACGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
* *****
102449283 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGGA-
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCG-TTTTTTTAC
* * *
102449325 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTTC
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCG-TTTTTTTAC
* *
102449368 TAATCGCCGCTAAAGAACATGTTCTTTAGTGGC--ATTTTTAC
1 -AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
* * *
102449409 AAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTATAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
102449451 AAA
1 AAA
102449454 AACGCCACTA
Statistics
Matches: 303, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
40 30 0.10
41 6 0.02
42 234 0.77
43 4 0.01
44 29 0.10
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
Found at i:102449535 original size:14 final size:14
Alignment explanation
Indices: 102449512--102449545 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
102449502 GCCCTCCTGT
*
102449512 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
102449526 AGCAACATTTCAAA
1 AGCAACATTTCAAA
102449540 AGCAAC
1 AGCAAC
102449546 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:102449837 original size:21 final size:21
Alignment explanation
Indices: 102449769--102449839 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
102449759 TTTTGCTCTG
* *
102449769 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
102449790 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
102449811 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
102449832 CTCTGCTT
1 CTCTGCTT
102449840 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:102451249 original size:13 final size:13
Alignment explanation
Indices: 102451231--102451275 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
102451221 ATTTATAATT
102451231 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
102451244 ATTTAAGTAACAT
1 ATTTAAGTAATAA
102451257 ATTTAAGTAATAA
1 ATTTAAGTAATAA
102451270 ATTTAA
1 ATTTAA
102451276 ACAAATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:102451283 original size:23 final size:25
Alignment explanation
Indices: 102451231--102451289 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
102451221 ATTTATAATT
*
102451231 ATTTAAGTAATAAATTTAAGTAACAT
1 ATTTAAGTAATAAATTTAAG-AACAA
102451257 ATTTAAGTAATAAATTT-A-AACAA
1 ATTTAAGTAATAAATTTAAGAACAA
*
102451280 ATTTTAGTAA
1 ATTTAAGTAA
102451290 GTAATGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 13 0.42
25 1 0.03
26 17 0.55
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (25 bp):
ATTTAAGTAATAAATTTAAGAACAA
Found at i:102451302 original size:17 final size:17
Alignment explanation
Indices: 102451280--102451323 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
102451270 ATTTAAACAA
102451280 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
102451297 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
102451314 ATTTTAGTAA
1 ATTTTAGTAA
102451324 TAAATTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:102451330 original size:13 final size:13
Alignment explanation
Indices: 102451231--102451330 Score: 53
Period size: 13 Copynumber: 7.3 Consensus size: 13
102451221 ATTTATAATT
*
102451231 ATTTAAGTAATAA
1 ATTTTAGTAATAA
* * *
102451244 ATTTAAGTAACAT
1 ATTTTAGTAATAA
*
102451257 ATTTAAGTAATAA
1 ATTTTAGTAATAA
*
102451270 A-TTTA--AACAA
1 ATTTTAGTAATAA
102451280 ATTTTAGTAAGTAA
1 ATTTTAGTAA-TAA
102451294 TGTATTTTAGTAAGTAA
1 ---ATTTTAGTAA-TAA
102451311 TGTATTTTAGTAATAA
1 ---ATTTTAGTAATAA
102451327 ATTT
1 ATTT
102451331 AACATTCAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
10 5 0.07
11 4 0.05
12 3 0.04
13 29 0.40
14 2 0.03
16 3 0.04
17 27 0.37
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (13 bp):
ATTTTAGTAATAA
Found at i:102454233 original size:115 final size:114
Alignment explanation
Indices: 102454095--102454411 Score: 553
Period size: 115 Copynumber: 2.8 Consensus size: 114
102454085 AATAAACACC
102454095 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
* *
102454160 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGTAACATATTT
66 TAACA-TTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
* *
102454210 TGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGTAAACACATA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGTAAACACAAA
* * *
102454275 ATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTT
65 ATAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
102454325 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
102454390 TAACATTTTTGCGGCGTTTTAA
66 TAACATTTTTGCGGCGTTTTAA
102454412 TAAAAACGCC
Statistics
Matches: 190, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
114 50 0.26
115 105 0.55
116 35 0.18
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (114 bp):
TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
TAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
Found at i:102454238 original size:40 final size:40
Alignment explanation
Indices: 102454160--102454238 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
102454150 AAACACAAAA
* * * * * *
102454160 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
102454200 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
102454239 TACATAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (40 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
Found at i:102454353 original size:40 final size:39
Alignment explanation
Indices: 102454276--102454353 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
102454266 AAACACATAA
* * *
102454276 TAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAG
1 TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
*
102454315 TAACATCTTTTGCGGCGTTTTAACAA-AAACGCCACTAAA
1 TAACAT-TTTTGCGGCATTTTAA-AAGAAACGCCACTAAA
102454354 TACATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 6 0.18
40 25 0.76
41 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (39 bp):
TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
Found at i:102454502 original size:75 final size:74
Alignment explanation
Indices: 102454315--102454486 Score: 308
Period size: 75 Copynumber: 2.3 Consensus size: 74
102454305 GCCGCTAAAG
102454315 TAACATCTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
1 TAACAT-TTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
102454380 AAACACAAAA
65 AAACACAAAA
*
102454390 TAACATTTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGT
1 TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGT
102454455 AAACACAAAA
65 AAACACAAAA
*
102454465 TAACATTCTTGCGGCGTTTTAA
1 TAACATTTTTGCGGCGTTTTAA
102454487 GATAAGCGCC
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
74 36 0.38
75 58 0.62
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (74 bp):
TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTA
AACACAAAA
Found at i:102454527 original size:189 final size:189
Alignment explanation
Indices: 102454200--102454578 Score: 589
Period size: 189 Copynumber: 2.0 Consensus size: 189
102454190 GCCGCTAAAG
102454200 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * * *
102454265 TAAACACATAATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTTTGCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
* * *
102454330 CGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACAT-AAAAACGATCACGTTTCGGTAAACACAAAA
* *
102454390 TAACAT-TTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * *
102454454 TAAACACAAAATAACATTCTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGCAAGATCTTTTCCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
** *
102454519 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATTTCGTTTCGGTCAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
102454578 T
1 T
102454579 CCAACAAAAC
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
188 26 0.15
189 140 0.81
190 6 0.03
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (189 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
Found at i:102454775 original size:113 final size:115
Alignment explanation
Indices: 102454638--102454859 Score: 306
Period size: 114 Copynumber: 1.9 Consensus size: 115
102454628 TTTCCAACGC
* * *
102454638 AGCGCCGCTAAAGGCTGACGTTTT-CGGCGTTTTACAAAAAACGCCACTAATAAATCCTACACCA
1 AGCGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAGAAATCCTACACAA
* * *
102454702 CGGCAGCG-TTTTATTAAAACAGAATCACATTTTGCGGCGTTTTTGACAT
66 CGACAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACAT
* * * *
102454751 AGCGCCGCTAAAGGATGATC-TTTTCCGGCGTTTTACCAAAAACGCCAGTAAGAAATCTTACAGA
1 AGCGCCGCTAAAGGATGA-CGTTTTCCGGCGTTTTACAAAAAACGCCACTAAGAAATCCTACACA
* *
102454815 ACGACAACGTTTTTATTGAAACAAAATCACATTTTGCGGTGTTTT
65 ACGACAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTT
102454860 ACCCAAAACG
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
113 21 0.22
114 41 0.44
115 32 0.34
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (115 bp):
AGCGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAGAAATCCTACACAA
CGACAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACAT
Found at i:102455376 original size:7 final size:7
Alignment explanation
Indices: 102455364--102455537 Score: 60
Period size: 7 Copynumber: 25.1 Consensus size: 7
102455354 ACTAATCAAT
102455364 CTAAACC
1 CTAAACC
*
102455371 CTAAACA
1 CTAAACC
102455378 C-ATAACC
1 CTA-AACC
102455385 CTTAAATCC
1 C-TAAA-CC
102455394 CTTAAACC
1 C-TAAACC
102455402 CTAAACC
1 CTAAACC
*
102455409 C-AAATC
1 CTAAACC
* *
102455415 ATAATCC
1 CTAAACC
102455422 CTAAA-C
1 CTAAACC
*
102455428 CT--AGC
1 CTAAACC
*
102455433 CTAGACC
1 CTAAACC
*
102455440 CTGAACC
1 CTAAACC
102455447 CT-AACC
1 CTAAACC
102455453 CGTAAACC
1 C-TAAACC
*
102455461 TTAAACC
1 CTAAACC
*
102455468 C-CAACC
1 CTAAACC
*
102455474 C-CAACC
1 CTAAACC
102455480 CGTAAACC
1 C-TAAACC
*
102455488 TTAAACC
1 CTAAACC
*
102455495 C-CAACTC
1 CTAAAC-C
*
102455502 ATAAACC
1 CTAAACC
*
102455509 CTAAACT
1 CTAAACC
*
102455516 GTAAACC
1 CTAAACC
* * *
102455523 ATAATCA
1 CTAAACC
102455530 CTAAACC
1 CTAAACC
102455537 C
1 C
102455538 ATAATTTGCA
Statistics
Matches: 123, Mismatches: 30, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
4 1 0.01
5 3 0.02
6 27 0.22
7 67 0.54
8 16 0.13
9 9 0.07
ACGTcount: A:0.40, C:0.39, G:0.03, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:102455479 original size:27 final size:27
Alignment explanation
Indices: 102455443--102455499 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
102455433 CTAGACCCTG
*
102455443 AACCCTAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
102455470 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
102455497 AAC
1 AAC
102455500 TCATAAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.46, G:0.04, T:0.12
Consensus pattern (27 bp):
AACCCCAACCCGTAAACCTTAAACCCC
Found at i:102456064 original size:73 final size:72
Alignment explanation
Indices: 102455969--102456106 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 72
102455959 AAAGACTCGA
102455969 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCG-CTTTTACAAAAACGCCACTAA
1 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTA-AAAAACGCCACTAA
102456033 AGCCTCCC
65 AGCCTCCC
* * * * * *
102456041 AAACTAAGAAAAACGATGTCGTTGGGCTTCGGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAA
1 AAACTAAG-AAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAA
102456106 A
65 A
102456107 ACATTGAGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 8 0.14
73 45 0.78
74 5 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (72 bp):
AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAAA
GCCTCCC
Found at i:102456160 original size:114 final size:114
Alignment explanation
Indices: 102456006--102456332 Score: 372
Period size: 113 Copynumber: 2.9 Consensus size: 114
102455996 TAGGCTTTTT
** * ** *
102456006 GCGGCGCTTTTACAAAAACGCCACTAAAGCCTCCCAAACTAAGAAAAACGATGTCGTTGGGCTTC
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * * *
102456071 GGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAAAACATTGAGCATTA
66 GGTTTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAACACTGAGAATTA
* *
102456120 GCGGCGCTTTCCCGAAAACGCCACCAAAGCCTCGAAAACTAAG-AAAATGATGTCGTTGGGCTTA
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * * *
102456184 GGTCTTTTGCGGCGCTTTTTAAGAAACGCTGCTAAAGCCCTGAGAATTA
66 GGTTTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAACACTGAGAATTA
* * * * * *
102456233 -CTTGCAC-TTCTCAAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGACGTCGTTTGGTT
1 GC-GGCGCTTTC-CCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCT
* * *
102456296 TAGGTTTTTAGCGGCGCTTTTTAAGAAACACCGCTAA
64 TAGGTTTTTTGCGGCGCTTTTTAAAAAACGCCGCTAA
102456333 TGCTCATTAT
Statistics
Matches: 180, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
112 4 0.02
113 91 0.51
114 85 0.47
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
GGTTTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAACACTGAGAATTA
Found at i:102456424 original size:40 final size:39
Alignment explanation
Indices: 102456300--102456451 Score: 144
Period size: 39 Copynumber: 3.8 Consensus size: 39
102456290 TTGGTTTAGG
* * * *
102456300 TTTTTAGCGGCGCTTTT-TAAGAAACACCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTTGTAA-AATCGCCGCTAATGCTAA
* * * * *
102456339 TTATTAGCGGCGTTTTTGTAAAAGCGCCGGTAATACTGA
1 TTTTTAGCGGCGTTTTTGTAAAATCGCCGCTAATGCTAA
* * *
102456378 TATTTAGCGGCGTTTTTTTTAAATCGCCGCTAATGCTTAA
1 TTTTTAGCGGCGTTTTTGTAAAATCGCCGCTAATGC-TAA
**
102456418 TTTTTAGCGGCGTTTGTTGTCCAATCGCCGCTAA
1 TTTTTAGCGGCGTTT-TTGTAAAATCGCCGCTAA
102456452 AAGCGCCGCT
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
39 57 0.63
40 19 0.21
41 15 0.16
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTGTAAAATCGCCGCTAATGCTAA
Found at i:102456707 original size:16 final size:16
Alignment explanation
Indices: 102456686--102456727 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
102456676 AGTTAGGGAA
102456686 GGTGGCGAGCAAGCGG
1 GGTGGCGAGCAAGCGG
102456702 GGTGGCGAGCAAGCGG
1 GGTGGCGAGCAAGCGG
*
102456718 AGTGGCGAGC
1 GGTGGCGAGC
102456728 TAGATGACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.55, T:0.07
Consensus pattern (16 bp):
GGTGGCGAGCAAGCGG
Found at i:102457900 original size:12 final size:12
Alignment explanation
Indices: 102457869--102457905 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
102457859 TGTGTGGAAT
*
102457869 AATAGTAATCAA
1 AATAGTTATCAA
102457881 AATA-TTATCAA
1 AATAGTTATCAA
102457892 AATAGTTAT-AA
1 AATAGTTATCAA
102457903 AAT
1 AAT
102457906 TGAGTTGCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (12 bp):
AATAGTTATCAA
Found at i:102460700 original size:17 final size:17
Alignment explanation
Indices: 102460678--102460711 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
102460668 TTATATAAAA
102460678 AAAATTTAAAAAAATAT
1 AAAATTTAAAAAAATAT
**
102460695 AAAATTTTTAAAAATAT
1 AAAATTTAAAAAAATAT
102460712 TTTTGGAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATTTAAAAAAATAT
Found at i:102461592 original size:19 final size:19
Alignment explanation
Indices: 102461570--102461626 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
102461560 ATTTTAACTT
*
102461570 TTTATATATTTTTTTGAAA
1 TTTATATATTATTTTGAAA
* * *
102461589 TTTAAAAATTATTTTGAAT
1 TTTATATATTATTTTGAAA
*
102461608 TTTTTATAATTATTTTGAA
1 TTTATAT-ATTATTTTGAA
102461627 TTATTTTGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTATATATTATTTTGAAA
Done.