Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 240 of 292
Found at i:69700165 original size:64 final size:64
Alignment explanation
Indices: 69700086--69700213 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
69700076 TCATTCATGA
*
69700086 TACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 TACATCTAGTTAGGAGCATTTGATTCATTGCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * *
69700150 TACATCTAGTTAGGAGCATTTGATTCATTGCGATTATAGCATCCTAGTTATTTGGCATAAGCAT
1 TACATCTAGTTAGGAGCATTTGATTCATTGCGATCATAGCATCCTAATTATTTGACATAAGCAT
69700214 AGATACAGCA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (64 bp):
TACATCTAGTTAGGAGCATTTGATTCATTGCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:69700512 original size:83 final size:83
Alignment explanation
Indices: 69700281--69700867 Score: 872
Period size: 83 Copynumber: 7.0 Consensus size: 83
69700271 GGTGAATTCA
* * *
69700281 CAAGCCTTAACCCCCCAAGCAGTAGGGTAATAGGCTGGAAAATACAGATCTCCCCTAAACAGTAG
1 CAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
69700346 TGGAGCAGATCGAAGACAG
65 TGGAGCAGATCGAAGACAG
* * *
69700365 CAAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAATAGTAG
1 CAAGCCTTAACCCC-TAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
* *
69700430 TGGAACAGATCGAATACAG
65 TGGAGCAGATCGAAGACAG
69700449 CAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAGT
1 CAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAGT
* *
69700514 GGAGCAGATCAAAGACAT
66 GGAGCAGATCGAAGACAG
69700532 CAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAGT
1 CAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAGT
*
69700597 GGAACAGATCGAAGACAG
66 GGAGCAGATCGAAGACAG
*
69700615 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGGAAAATACAGATCTCCCCTAAACAGTAG
1 CAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
* *
69700680 TAGAGCAAATCGAAGACAG
65 TGGAGCAGATCGAAGACAG
* *
69700699 CAAGCCTTAACCCTTTAAGCA-TAGGGTAACAGGTTGGAAAATACAGATCTCCCCTAAACAGTAG
1 CAAGCCTTAACCC-CTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
*
69700763 TGGAGCAGATCGAAGACAA
65 TGGAGCAGATCGAAGACAG
* * * *
69700782 CAAGCCTTAACCCCTTAAGCAGTAGGGTAACA-AACTGGAAATTACAGATCTTATCTCCATAAGC
1 CAAGCCTTAACCCC-TAAGCAGTAGGGTAACAGGA-TGGAAAATACAGATC---TC-CCCTAAAC
*
69700846 AGTAGAGGAGCAGATCGAAGAC
60 AGTAGTGGAGCAGATCGAAGAC
69700868 GGGTTCCTAT
Statistics
Matches: 462, Mismatches: 31, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
83 237 0.51
84 196 0.42
87 2 0.00
88 27 0.06
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (83 bp):
CAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAGT
GGAGCAGATCGAAGACAG
Found at i:69700632 original size:167 final size:167
Alignment explanation
Indices: 69700281--69700867 Score: 892
Period size: 167 Copynumber: 3.5 Consensus size: 167
69700271 GGTGAATTCA
* * *
69700281 CAAGCCTTAACCCCCCAAGCAGTAGGGTAATAGGCTGGAAAATACAGATCTCCCCTAAACAGTAG
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
* *
69700346 TGGAGCAGATCGAAGACAGCAAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAGAAAATACA
66 TGGAGCAGATCGAAGACAGCAAGCCTTAACCCC-TAAGCAGTAGGGTAACAGGATGGAAAATACA
* *
69700411 GATCTCCCCTAAATAGTAGTGGAACAGATCGAATACAG
130 GATCTCCCCTAAACAGTAGTGGAACAGATCGAAGACAG
69700449 CAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
* *
69700513 TGGAGCAGATCAAAGACATCAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAG
66 TGGAGCAGATCGAAGACAGCAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAG
69700578 ATCTCCCCTAAACAGTAGTGGAACAGATCGAAGACAG
131 ATCTCCCCTAAACAGTAGTGGAACAGATCGAAGACAG
*
69700615 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGGAAAATACAGATCTCCCCTAAACAGTAG
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
* * * *
69700680 TAGAGCAAATCGAAGACAGCAAGCCTTAACCCTTTAAGCA-TAGGGTAACAGGTTGGAAAATACA
66 TGGAGCAGATCGAAGACAGCAAGCCTTAACCC-CTAAGCAGTAGGGTAACAGGATGGAAAATACA
* *
69700744 GATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAA
130 GATCTCCCCTAAACAGTAGTGGAACAGATCGAAGACAG
* * * * *
69700782 CAAGCCTTAACCCCTTAAGCAGTAGGGTAACA-AACTGGAAATTACAGATCTTATCTCCATAAGC
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGA-TGGAAAATACAGATC---TC-CCCTAAAC
*
69700846 AGTAGAGGAGCAGATCGAAGAC
61 AGTAGTGGAGCAGATCGAAGAC
69700868 GGGTTCCTAT
Statistics
Matches: 385, Mismatches: 27, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
166 75 0.19
167 267 0.69
168 16 0.04
170 2 0.01
171 25 0.06
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (167 bp):
CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
TGGAGCAGATCGAAGACAGCAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAG
ATCTCCCCTAAACAGTAGTGGAACAGATCGAAGACAG
Found at i:69700739 original size:250 final size:250
Alignment explanation
Indices: 69700280--69700832 Score: 894
Period size: 250 Copynumber: 2.2 Consensus size: 250
69700270 CGGTGAATTC
* * *
69700280 ACAAGCCTTAACCCCCCAAGCAGTAGGGTAATAGGCTGGAAAATACAGATCTCCCCTAAACAGTA
1 ACAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTA
* *
69700345 GTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAGAAAATAC
65 GTGGAACAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAAATAC
* * * *
69700410 AGATCTCCCCTAAATAGTAGTGGAACAGATCGAATACAGCAAGCCTTAACCCCTAAGCAGTAGGG
130 AGATCTCCCCTAAACAGTAGTAGAACAAATCGAAGACAGCAAGCCTTAACCCCTAAGCAGTAGGG
69700475 TAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCAAAGACA
195 TAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCAAAGACA
*
69700531 TCAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
1 ACAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
* *
69700596 TGGAACAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGGAAAATACA
66 TGGAACAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAAATACA
* *
69700661 GATCTCCCCTAAACAGTAGTAGAGCAAATCGAAGACAGCAAGCCTTAACCCTTTAAGCA-TAGGG
131 GATCTCCCCTAAACAGTAGTAGAACAAATCGAAGACAGCAAGCCTTAACCC-CTAAGCAGTAGGG
* *
69700725 TAACAGGTTGGAAAATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACA
195 TAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCAAAGACA
* *
69700781 ACAAGCCTTAACCCCTTAAGCAGTAGGGTAACA-AACTGGAAATTACAGATCT
1 ACAAGCCTTAACCCC-TAAGCAGTAGGGTAACAGGA-TGGAAAATACAGATCT
69700833 TATCTCCATA
Statistics
Matches: 280, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
250 232 0.83
251 48 0.17
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (250 bp):
ACAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGATGGAAAATACAGATCTCCCCTAAACAGTAG
TGGAACAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAAATACA
GATCTCCCCTAAACAGTAGTAGAACAAATCGAAGACAGCAAGCCTTAACCCCTAAGCAGTAGGGT
AACAGGATGGAAAATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCAAAGACA
Found at i:69703241 original size:127 final size:127
Alignment explanation
Indices: 69702983--69703294 Score: 400
Period size: 126 Copynumber: 2.5 Consensus size: 127
69702973 AACATAAGGA
* *
69702983 AATATTTCG-TGTTTGGGAGTTTGAGAGATCATGCCCAATCGTGCTGGGTTTCGATTTTTTTGCA
1 AATATTTCGATATTTGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGA--TTTTTGCA
* *
69703047 TTCGACTAAAATACAAAATATCCTTTTGAAATTTCGTCTATGCTTTCTTAAATTAAAACGAGGC
64 TTCGACTAAAATACAAAATATCCTTTTGAAATTTCATCCATGCTTTCTTAAATTAAAACGAGGC
69703111 AATATTTCGAT-TTTGGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTT-CAT
1 AATATTTCGATATTT-GGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTGCAT
* * ** * *
69703174 TCGATTAAAATGCGGAATATTCCTTTTGAAATTTCATCCATGTTTTCTTAAATTAAAATGAGGC
65 TCGACTAAAATACAAAATA-TCCTTTTGAAATTTCATCCATGCTTTCTTAAATTAAAACGAGGC
* * * * * *
69703238 AATA-TTC-AGTATTTAGAAGTTCGATAAATCGTGCGCAATCGTGCTGGGTTTCGATTT
1 AATATTTCGA-TATTTGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTT
69703295 ACTGTTTGGC
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
125 1 0.01
126 59 0.36
127 52 0.32
128 12 0.07
129 40 0.24
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (127 bp):
AATATTTCGATATTTGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTGCATT
CGACTAAAATACAAAATATCCTTTTGAAATTTCATCCATGCTTTCTTAAATTAAAACGAGGC
Found at i:69708424 original size:6 final size:6
Alignment explanation
Indices: 69708415--69708444 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
69708405 TTTGTTTTTT
*
69708415 TACTTC TACTCC TACTCC TACTCC TACTCC
1 TACTCC TACTCC TACTCC TACTCC TACTCC
69708445 ATTCAACTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.47, G:0.00, T:0.37
Consensus pattern (6 bp):
TACTCC
Found at i:69710403 original size:23 final size:24
Alignment explanation
Indices: 69710359--69710409 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
69710349 ATGGTTTTAG
* * *
69710359 ATTTTTTTTATTTAATTCTTAAACT
1 ATTTTTTTTACTTAA-TATTAAAAT
69710384 ATTTTTTTTACTTAA-ATTAAAAT
1 ATTTTTTTTACTTAATATTAAAAT
69710407 ATT
1 ATT
69710410 AAAGTTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 9 0.39
25 14 0.61
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTTTTTTTACTTAATATTAAAAT
Found at i:69715195 original size:40 final size:40
Alignment explanation
Indices: 69715130--69715205 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
69715120 GTATCGTATA
*
69715130 TAGCCGAAGCTATTCCAACTCGCACACTTAGTGCCATTTG
1 TAGCCGAAGCTATTCAAACTCGCACACTTAGTGCCATTTG
*
69715170 TAGCCGAAGCTATATTAAACT-GCACACTTAGTGCCA
1 TAGCCGAAGCTAT-TCAAACTCGCACACTTAGTGCCA
69715206 AGCATAGTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 28 0.85
41 5 0.15
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (40 bp):
TAGCCGAAGCTATTCAAACTCGCACACTTAGTGCCATTTG
Found at i:69722496 original size:40 final size:40
Alignment explanation
Indices: 69722430--69722505 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
69722420 GTATCGTATA
*
69722430 TAGCCGAAGCTATTCCAACTCACACACTTAGTGCCATTTG
1 TAGCCGAAGCTATTCAAACTCACACACTTAGTGCCATTTG
* *
69722470 TAGCCGAAGCTATATTAAACT-GCACACTTAGTGCCA
1 TAGCCGAAGCTAT-TCAAACTCACACACTTAGTGCCA
69722506 AGCATAGTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 27 0.84
41 5 0.16
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (40 bp):
TAGCCGAAGCTATTCAAACTCACACACTTAGTGCCATTTG
Found at i:69725198 original size:7 final size:6
Alignment explanation
Indices: 69725181--69725254 Score: 55
Period size: 6 Copynumber: 12.5 Consensus size: 6
69725171 TAAAATAATT
* * * *
69725181 GAAAAA GAAAAA GAAAAA GAAAAA -AGAAA GAAAGGAA GAACAA TAGAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAA--AA GAAAAA GAAAAA
* *
69725230 -AAAAA TAAAAA -AAAAA GAATAA GAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAA
69725255 GAAGGAGATG
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
5 13 0.24
6 37 0.67
8 5 0.09
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (6 bp):
GAAAAA
Found at i:69725198 original size:12 final size:12
Alignment explanation
Indices: 69725181--69725254 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 12
69725171 TAAAATAATT
69725181 GAAAAAGAAAAA
1 GAAAAAGAAAAA
69725193 GAAAAAGAAAAA
1 GAAAAAGAAAAA
*
69725205 -AGAAAGAAAGGAA
1 GAAAAAGAAA--AA
* * *
69725218 GAACAATAGAAA
1 GAAAAAGAAAAA
*
69725230 -AAAAATAAAAA
1 GAAAAAGAAAAA
*
69725241 -AAAAAGAATAA
1 GAAAAAGAAAAA
69725252 GAA
1 GAA
69725255 GAAGGAGATG
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
11 26 0.53
12 16 0.33
13 2 0.04
14 5 0.10
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (12 bp):
GAAAAAGAAAAA
Found at i:69727914 original size:40 final size:39
Alignment explanation
Indices: 69727832--69727963 Score: 117
Period size: 40 Copynumber: 3.3 Consensus size: 39
69727822 CTTGTAAAAC
* * *
69727832 AAACGTCGCAAAAGATC-ACTATTAGCGGCACA-TATGTAAA
1 AAACGCCGCAAAAG-TCAACCATTAGCGGCGCATTATG--AA
* *
69727872 AAACGCCGCAAAAGATCAAGCATTAGCGGCGC-TTCTTGAA
1 AAACGCCGCAAAAG-TCAACCATTAGCGGCGCATT-ATGAA
* * *
69727912 AAACGCCGCTATAAGTCGACCATTAGCGGTGCATTATGAA
1 AAACGCCGC-AAAAGTCAACCATTAGCGGCGCATTATGAA
69727952 AAACGCCGCAAA
1 AAACGCCGCAAA
69727964 TAAAATAAGC
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
39 2 0.03
40 54 0.71
41 18 0.24
42 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (39 bp):
AAACGCCGCAAAAGTCAACCATTAGCGGCGCATTATGAA
Found at i:69728113 original size:40 final size:38
Alignment explanation
Indices: 69728006--69728113 Score: 128
Period size: 38 Copynumber: 2.8 Consensus size: 38
69727996 AGCTTTAATG
* * *
69728006 GCATTAGCGACACTTTTGGAAAAACTCCGCTATAGATA
1 GCATTAGCGGCACTTTTTGAAAAACGCCGCTATAGATA
* *
69728044 GCATTAGCGGCGCTTTTAT-AAAAAAGCCGCTATAGATTAA
1 GCATTAGCGGCACTTTT-TGAAAAACGCCGCTATAGA-T-A
*
69728084 GCATTAGCGGCACTTTTTGAAACACGCCGC
1 GCATTAGCGGCACTTTTTGAAAAACGCCGC
69728114 AAAAAGTTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
38 30 0.52
39 2 0.03
40 26 0.45
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (38 bp):
GCATTAGCGGCACTTTTTGAAAAACGCCGCTATAGATA
Found at i:69728191 original size:7 final size:7
Alignment explanation
Indices: 69728162--69728304 Score: 51
Period size: 7 Copynumber: 20.4 Consensus size: 7
69728152 ATTATTGTCA
*
69728162 TTAGAGT
1 TTAGGGT
69728169 TTATGGG-
1 TTA-GGGT
*
69728176 TTATGGT
1 TTAGGGT
69728183 TTAGGGT
1 TTAGGGT
**
69728190 TTATAGT
1 TTAGGGT
**
69728197 TTATAGT
1 TTAGGGT
**
69728204 TTATTGT
1 TTAGGGT
* *
69728211 TTAGAGC
1 TTAGGGT
*
69728218 TTAGAGT
1 TTAGGGT
69728225 TTAGGGT
1 TTAGGGT
*
69728232 TTATGGT
1 TTAGGGT
**
69728239 TTATAGT
1 TTAGGGT
**
69728246 TT-GATAT
1 TTAG-GGT
*
69728253 TTATGGT
1 TTAGGGT
*
69728260 TTGGGGT
1 TTAGGGT
69728267 TTAGGGT
1 TTAGGGT
69728274 TTAGGGT
1 TTAGGGT
*
69728281 TT-GAGAT
1 TTAG-GGT
69728288 TTAGGG-
1 TTAGGGT
69728294 TTAGGGGT
1 TTA-GGGT
69728302 TTA
1 TTA
69728305 AAGATAAATA
Statistics
Matches: 104, Mismatches: 24, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
6 6 0.06
7 92 0.88
8 6 0.06
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (7 bp):
TTAGGGT
Found at i:69728193 original size:14 final size:14
Alignment explanation
Indices: 69728167--69728282 Score: 67
Period size: 14 Copynumber: 8.3 Consensus size: 14
69728157 TGTCATTAGA
69728167 GTTTATGGG-TTATG
1 GTTTA-GGGTTTATG
*
69728181 GTTTAGGGTTTATA
1 GTTTAGGGTTTATG
** *
69728195 GTTTATAGTTTATT
1 GTTTAGGGTTTATG
* *
69728209 GTTTAGAGCTTA-G
1 GTTTAGGGTTTATG
69728222 AGTTTAGGGTTTATG
1 -GTTTAGGGTTTATG
**
69728237 GTTTATAGTTTGAT-
1 GTTTAGGGTTT-ATG
* * **
69728251 ATTTATGGTTTGGG
1 GTTTAGGGTTTATG
*
69728265 GTTTAGGGTTTAGG
1 GTTTAGGGTTTATG
69728279 GTTT
1 GTTT
69728283 GAGATTTAGG
Statistics
Matches: 79, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
13 3 0.04
14 73 0.92
15 3 0.04
ACGTcount: A:0.18, C:0.01, G:0.30, T:0.51
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:69728200 original size:21 final size:21
Alignment explanation
Indices: 69728186--69728247 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
69728176 TTATGGTTTA
69728186 GGGTTTATAGTTTATAGTTTA
1 GGGTTTATAGTTTATAGTTTA
** * * *
69728207 TTGTTTAGAGCTTAGAGTTTA
1 GGGTTTATAGTTTATAGTTTA
*
69728228 GGGTTTATGGTTTATAGTTT
1 GGGTTTATAGTTTATAGTTT
69728248 GATATTTATG
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.52
Consensus pattern (21 bp):
GGGTTTATAGTTTATAGTTTA
Found at i:69728303 original size:21 final size:21
Alignment explanation
Indices: 69728252--69728299 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
69728242 TAGTTTGATA
* * *
69728252 TTTATGGTTTGGGGTTTAGGG
1 TTTAGGGTTTGAGATTTAGGG
69728273 TTTAGGGTTTGAGATTTAGGG
1 TTTAGGGTTTGAGATTTAGGG
69728294 -TTAGGG
1 TTTAGGG
69728300 GTTTAAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.44
Consensus pattern (21 bp):
TTTAGGGTTTGAGATTTAGGG
Found at i:69728686 original size:22 final size:21
Alignment explanation
Indices: 69728661--69728710 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
69728651 GAGTTACTAT
69728661 TTTAAGGTTTATTGAT-TATGGG
1 TTTAAGGTTTA-TGATGTAT-GG
*
69728683 TTTAAGGTTTATGGTGTATGG
1 TTTAAGGTTTATGATGTATGG
69728704 TTTAAGG
1 TTTAAGG
69728711 GTTGGAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (21 bp):
TTTAAGGTTTATGATGTATGG
Found at i:69729313 original size:114 final size:115
Alignment explanation
Indices: 69729168--69729581 Score: 470
Period size: 114 Copynumber: 3.6 Consensus size: 115
69729158 ATGACATCGT
*
69729168 TTTTTTTGGATTTTTAGTGGCGTTTTA-GGTTAAATCGCCGCAATAGGTTTG-ATTTAGCGGCGC
1 TTTTTATGGATTTTTAGTGGCGTTTTAGGGTTAAATCGCCGCAATAGGTTTGCATTTAGCGGCGC
*
69729231 TAGGTTATAAACGCCACTAATGATTATCT-TGTTTATATCAAAACGGTGTAG
66 TAGGATATAAACGCCACTAATG-TTAT-TATGTTTATATCAAAACGGTGTAG
* *
69729282 TTTTTATGGATTTTTAGTGGCGTTTT-TGGTTAAAACGCCGCAATAGGTTTG-ATTTAGCGGCGC
1 TTTTTATGGATTTTTAGTGGCGTTTTAGGGTTAAATCGCCGCAATAGGTTTGCATTTAGCGGCGC
* *
69729345 TAGGGTATAAACGCCACTAATGGTTATTATGTTTATATCAAAAAGGTGTAG
66 TAGGATATAAACGCCACTAAT-GTTATTATGTTTATATCAAAACGGTGTAG
* * * * **
69729396 -TTTTATTGGATTTTTAGTGGCATTTTAGGGTAAAAT-GCCGTAATAGTTTTGCCCTTAGCGGCG
1 TTTTTA-TGGATTTTTAGTGGCGTTTTAGGGTTAAATCGCCGCAATAGGTTTGCATTTAGCGGCG
* * * * * *
69729459 CTTGGAGATAAAACGCCACTAAATGTTATTCTGTTTATGTGAAAACGCCGTCGT-T
65 CTAGGATAT-AAACGCCACT-AATGTTATTATGTTTATATCAAAACG--GT-GTAG
* * * *
69729514 TTTTTTTGGATTTTTAGTGGTGTTTTAGGGTTAAA-CGCCGCAATAGATTTGTC-TTTAGTGGCG
1 TTTTTATGGATTTTTAGTGGCGTTTTAGGGTTAAATCGCCGCAATAGGTTTG-CATTTAGCGGCG
69729577 CTAGG
65 CTAGG
69729582 GTTTATTTTG
Statistics
Matches: 257, Mismatches: 29, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
113 6 0.02
114 137 0.53
115 22 0.09
116 29 0.11
117 3 0.01
118 53 0.21
119 7 0.03
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (115 bp):
TTTTTATGGATTTTTAGTGGCGTTTTAGGGTTAAATCGCCGCAATAGGTTTGCATTTAGCGGCGC
TAGGATATAAACGCCACTAATGTTATTATGTTTATATCAAAACGGTGTAG
Found at i:69729605 original size:100 final size:97
Alignment explanation
Indices: 69729484--69729678 Score: 239
Period size: 97 Copynumber: 2.0 Consensus size: 97
69729474 CCACTAAATG
* * * *
69729484 TTATTCTGTTTATGTGAAAACGCCGTCGTTTTTTTTTGGATTTTTAGTGGTGTTTTAGGGTT-AA
1 TTATTCTGTTTATATCAAAACGCCGTCG-TTTTGTTTGG-TTTTTAGTGGCG-TTTA-GGTTAAA
* *
69729548 ACGCCGCAATAGATTTGTCTTTAGTGGCGCTAGGGT
62 ACGCCGCAATAGATTTGCCTTTAGCGGCGCTAGGGT
* * * *
69729584 TTATTTTGTTTATATCAAAACGGCGTCGTTTTGTTTGGTTTTTAGTGGCGTTTATGTTAAAATGC
1 TTATTCTGTTTATATCAAAACGCCGTCGTTTTGTTTGGTTTTTAGTGGCGTTTAGGTTAAAACGC
* *
69729649 CGCAATTGGTTTGCCTTTAGCGGCGCTAGG
66 CGCAATAGATTTGCCTTTAGCGGCGCTAGG
69729679 AGAAAACACC
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
96 3 0.04
97 35 0.43
98 11 0.13
99 9 0.11
100 24 0.29
ACGTcount: A:0.18, C:0.13, G:0.26, T:0.44
Consensus pattern (97 bp):
TTATTCTGTTTATATCAAAACGCCGTCGTTTTGTTTGGTTTTTAGTGGCGTTTAGGTTAAAACGC
CGCAATAGATTTGCCTTTAGCGGCGCTAGGGT
Found at i:69729873 original size:57 final size:58
Alignment explanation
Indices: 69729767--69729879 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 58
69729757 ATTCATTTTC
** * * *
69729767 CCCCTTCTCCCTGGTTTATTTCCCCCATTTTCCCTACTTCGAATCCCTAAAATAATCA
1 CCCCTTCTCCCTAATTAATTTCCCCCATTTTCCCTAATTCGAAACCCTAAAATAATCA
69729825 CCCCTTCTCCCTAATTAATTTCCCCC-TTTTCCCTAATTCGAAACCCTAAAATAAT
1 CCCCTTCTCCCTAATTAATTTCCCCCATTTTCCCTAATTCGAAACCCTAAAATAAT
69729880 TACCTTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 27 0.54
58 23 0.46
ACGTcount: A:0.24, C:0.37, G:0.04, T:0.35
Consensus pattern (58 bp):
CCCCTTCTCCCTAATTAATTTCCCCCATTTTCCCTAATTCGAAACCCTAAAATAATCA
Found at i:69732457 original size:18 final size:19
Alignment explanation
Indices: 69732424--69732459 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
69732414 GATATGATAC
*
69732424 TAAAATTATTTAAAAAAAT
1 TAAAATTATATAAAAAAAT
69732443 TAAAA-TATATAAAAAAA
1 TAAAATTATATAAAAAAA
69732460 ATCAGGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATTATATAAAAAAAT
Found at i:69732750 original size:22 final size:21
Alignment explanation
Indices: 69732715--69732790 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
69732705 AAAAGGTATC
* *
69732715 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
69732736 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
69732759 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
69732778 TGC-AATCATATCT
1 TACAAATCATATCT
69732791 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:69732807 original size:35 final size:37
Alignment explanation
Indices: 69732744--69732841 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
69732734 ATTACAAAAT
69732744 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
69732780 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
69732815 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
69732842 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:69732849 original size:17 final size:19
Alignment explanation
Indices: 69732751--69732841 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
69732741 AATCATATCT
69732751 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
69732770 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
69732788 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
69732805 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
69732824 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
69732842 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:69734040 original size:10 final size:9
Alignment explanation
Indices: 69734027--69734073 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
69734017 TTTATATTTA
69734027 ATTTATCAAT
1 ATTT-TCAAT
*
69734037 ATTTTAAAT
1 ATTTTCAAT
69734046 ATATTTCAAT
1 AT-TTTCAAT
69734056 A-TTTCAAT
1 ATTTTCAAT
69734064 ATTTATCAAT
1 ATTT-TCAAT
69734074 TAATATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 8 0.25
9 8 0.25
10 16 0.50
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (9 bp):
ATTTTCAAT
Found at i:69734451 original size:9 final size:9
Alignment explanation
Indices: 69734439--69734469 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
69734429 ATATCATATA
69734439 ATAACTTAC
1 ATAACTTAC
69734448 ATAACTTAC
1 ATAACTTAC
*
69734457 AAAACTTAC
1 ATAACTTAC
69734466 ATAA
1 ATAA
69734470 TACATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:69734490 original size:13 final size:13
Alignment explanation
Indices: 69734472--69734557 Score: 70
Period size: 13 Copynumber: 6.3 Consensus size: 13
69734462 TTACATAATA
69734472 CATAAATATATAT
1 CATAAATATATAT
69734485 CATAAATATATAT
1 CATAAATATATAT
* *
69734498 CATATCATA-ACTTACA
1 CATA-AATATA--TA-T
69734514 CAACTAACATA-ATA-
1 C-A-TAA-ATATATAT
69734528 CATAAATATATAT
1 CATAAATATATAT
69734541 CATAAATATATAT
1 CATAAATATATAT
69734554 CATA
1 CATA
69734558 TACTAACTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
11 3 0.05
12 6 0.10
13 36 0.59
14 4 0.07
15 2 0.03
16 3 0.05
17 1 0.02
18 6 0.10
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:69734508 original size:56 final size:56
Alignment explanation
Indices: 69734447--69734656 Score: 368
Period size: 56 Copynumber: 3.8 Consensus size: 56
69734437 TAATAACTTA
*
69734447 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
*
69734503 CATAACTTACACAACTAACATAATACATAAATATATATCATAAATATATATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
* *
69734559 -ACTAACTTACACAACTTACATAATACATAAATATATATCGTAAATATATATCTTAT
1 CA-TAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
69734615 CATAACTTACACAACTTACATAATACATAAATATATATCATA
1 CATAACTTACACAACTTACATAATACATAAATATATATCATA
69734657 TCATAACTTA
Statistics
Matches: 146, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
55 1 0.01
56 144 0.99
57 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.33
Consensus pattern (56 bp):
CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
Found at i:69734588 original size:43 final size:44
Alignment explanation
Indices: 69734541--69734680 Score: 140
Period size: 56 Copynumber: 3.0 Consensus size: 44
69734531 AAATATATAT
69734541 CATAAATATATATCATATAC-TAACTTACACAACTTACATAATA
1 CATAAATATATATCATATACATAACTTACACAACTTACATAATA
69734584 CATAAATATATATCGTAAATATATATCTTATCATAACTTACACAACTTACATAATA
1 CATAAATATATATC--------ATA---TA-CATAACTTACACAACTTACATAATA
* *
69734640 CATAAATATATATCATAT-CATAACTTACATACCTTACATAA
1 CATAAATATATATCATATACATAACTTACACAACTTACATAA
69734681 ATGTATATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 26
0.75 0.02 0.24
Matches are distributed among these distances:
43 35 0.43
45 1 0.01
48 3 0.04
51 3 0.04
54 2 0.02
55 1 0.01
56 37 0.45
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (44 bp):
CATAAATATATATCATATACATAACTTACACAACTTACATAATA
Found at i:69734604 original size:13 final size:13
Alignment explanation
Indices: 69734586--69734610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69734576 ACATAATACA
69734586 TAAATATATATCG
1 TAAATATATATCG
69734599 TAAATATATATC
1 TAAATATATATC
69734611 TTATCATAAC
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:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
TAAATATATATCG
Found at i:69734670 original size:9 final size:9
Alignment explanation
Indices: 69734658--69734730 Score: 51
Period size: 9 Copynumber: 8.1 Consensus size: 9
69734648 TATATCATAT
69734658 CATAACTTA
1 CATAACTTA
*
69734667 CATACCTTA
1 CATAACTTA
*
69734676 CATAAATGTA
1 CATAACT-TA
* * *
69734686 TATCA-TAA
1 CATAACTTA
69734694 CATAACTTA
1 CATAACTTA
*
69734703 CATAACTGA
1 CATAACTTA
69734712 CA-AAGCTTA
1 CATAA-CTTA
*
69734721 CTTAACTTA
1 CATAACTTA
69734730 C
1 C
69734731 GTAATCCATA
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
8 6 0.12
9 35 0.73
10 7 0.15
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:69734688 original size:36 final size:36
Alignment explanation
Indices: 69734638--69734706 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
69734628 ACTTACATAA
*
69734638 TACATAAATATATATCATATCATAACTTACATACCT
1 TACATAAATATATATCATAACATAACTTACATACCT
*
69734674 TACATAAATGTATATCATAACATAACTTACATA
1 TACATAAATATATATCATAACATAACTTACATA
69734707 ACTGACAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.35
Consensus pattern (36 bp):
TACATAAATATATATCATAACATAACTTACATACCT
Found at i:69734947 original size:15 final size:15
Alignment explanation
Indices: 69734927--69734967 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
69734917 GGAGTACAAA
69734927 CTTTTCTAAATTTTG
1 CTTTTCTAAATTTTG
69734942 CTTTTCTAAATTTTG
1 CTTTTCTAAATTTTG
* *
69734957 CATTTCAAAAT
1 CTTTTCTAAAT
69734968 GCAAGCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.27, C:0.15, G:0.05, T:0.54
Consensus pattern (15 bp):
CTTTTCTAAATTTTG
Found at i:69739859 original size:13 final size:14
Alignment explanation
Indices: 69739843--69739871 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
69739833 TTATAAATAT
69739843 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
69739856 TTATAATGGTTTAA
1 TTATAATGGTTTAA
69739870 TT
1 TT
69739872 CATCGTTAGT
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:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:69740600 original size:31 final size:31
Alignment explanation
Indices: 69740558--69740623 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
69740548 TGTATTTTTT
* *
69740558 ATGCTACATTTGCTGTTTTTAGTTGGATTTC
1 ATGCTACATTTGCTGCTTTTAGTTGGATTTA
* *
69740589 ATGCTATATTTGCTGCTTTTGGTTGGATTTA
1 ATGCTACATTTGCTGCTTTTAGTTGGATTTA
69740620 ATGC
1 ATGC
69740624 AGGAAATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.21, T:0.50
Consensus pattern (31 bp):
ATGCTACATTTGCTGCTTTTAGTTGGATTTA
Found at i:69740822 original size:42 final size:42
Alignment explanation
Indices: 69740758--69740865 Score: 189
Period size: 42 Copynumber: 2.6 Consensus size: 42
69740748 AGCCATGGCA
*
69740758 CTTCCCCACAAACGCTGCTAAAAGCCATGACTTTTAGCGGCG
1 CTTCCCCACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCG
*
69740800 CTTCCCCACAAACGCCGTTAAAAGCCATGACTTTTAGCGGCG
1 CTTCCCCACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCG
*
69740842 CTTCCCCACAAACGCCACTAAAAG
1 CTTCCCCACAAACGCCGCTAAAAG
69740866 TCTTGATCTT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (42 bp):
CTTCCCCACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCG
Found at i:69754155 original size:23 final size:23
Alignment explanation
Indices: 69754129--69754213 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
69754119 ACAAAAAAAG
69754129 AAAATATAATAATAATAATAGTA
1 AAAATATAATAATAATAATAGTA
* * * *
69754152 AAAACACAATAGTAATAATAATGA
1 AAAATATAATAATAATAATAGT-A
* *
69754176 AAAGGTATTATAAT-ATAATAGTA
1 AAA-ATATAATAATAATAATAGTA
* *
69754199 ATAATGATGATAATA
1 AAAAT-ATAATAATA
69754214 GTGGTATTAG
Statistics
Matches: 45, Mismatches: 13, Indels: 7
0.69 0.20 0.11
Matches are distributed among these distances:
22 1 0.02
23 28 0.62
24 11 0.24
25 5 0.11
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.29
Consensus pattern (23 bp):
AAAATATAATAATAATAATAGTA
Found at i:69754201 original size:33 final size:38
Alignment explanation
Indices: 69754159--69754240 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 38
69754149 GTAAAAACAC
69754159 AATAGTAATAATAATGA-AA-A-GGTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
*
69754192 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAG-GGTATTAGTAATAAT
*
69754231 AATAATAATA
1 AATAGTAATA
69754241 GAAAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 1 0.02
37 7 0.17
38 4 0.10
39 11 0.27
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.34
Consensus pattern (38 bp):
AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
Found at i:69754249 original size:19 final size:18
Alignment explanation
Indices: 69754225--69754266 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
69754215 TGGTATTAGT
*
69754225 AATAATAATAATAATAGAA
1 AATAATAACAATAATA-AA
*
69754244 AATAATAACAATATTAAA
1 AATAATAACAATAATAAA
69754262 AATAA
1 AATAA
69754267 CACTCTCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAATAACAATAATAAA
Found at i:69754530 original size:22 final size:22
Alignment explanation
Indices: 69754499--69754554 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
69754489 TTTGTAGGCA
69754499 AGTGGAGTGGTTGG-GATGGTTT
1 AGTGGAGTGGTTGGAG-TGGTTT
*
69754521 AGTGGGGTGGTTGGAGTGGTTT
1 AGTGGAGTGGTTGGAGTGGTTT
69754543 AGTGGAGTGGTT
1 AGTGGAGTGGTT
69754555 TAGTGGGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.12, C:0.00, G:0.52, T:0.36
Consensus pattern (22 bp):
AGTGGAGTGGTTGGAGTGGTTT
Found at i:69754531 original size:13 final size:13
Alignment explanation
Indices: 69754510--69754567 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 13
69754500 GTGGAGTGGT
*
69754510 TGGGATGGTTTAG
1 TGGGGTGGTTTAG
69754523 TGGGGTGG--T--
1 TGGGGTGGTTTAG
*
69754532 TGGAGTGGTTTAG
1 TGGGGTGGTTTAG
*
69754545 TGGAGTGGTTTAG
1 TGGGGTGGTTTAG
69754558 TGGGGTGGTT
1 TGGGGTGGTT
69754568 GGAGTGAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 7 0.18
11 2 0.05
13 29 0.76
ACGTcount: A:0.10, C:0.00, G:0.52, T:0.38
Consensus pattern (13 bp):
TGGGGTGGTTTAG
Found at i:69755306 original size:206 final size:206
Alignment explanation
Indices: 69755065--69755942 Score: 1623
Period size: 206 Copynumber: 4.3 Consensus size: 206
69755055 CAAATCTGCT
* *
69755065 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCGGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
* *
69755130 ATCTGAAAGCTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
69755195 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
*
69755260 AATCAGCTATA
196 AATCAGCTATG
69755271 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
* *
69755336 ATCTGAAGGCCAAATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGAATTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
*
69755401 TTTTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
69755466 AATCAGCTATG
196 AATCAGCTATG
69755477 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
*
69755542 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
*
69755607 TTCTCTGACAATACAGAGATTCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
69755672 AATCAGCTATG
196 AATCAGCTATG
* *
69755683 TCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
69755748 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
*
69755813 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGTGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
69755878 AATCAGCTATG
196 AATCAGCTATG
*
69755889 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC-TGCTT
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
69755943 TAGCCAGATC
Statistics
Matches: 651, Mismatches: 21, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
205 5 0.01
206 646 0.99
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (206 bp):
TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
AATCAGCTATG
Found at i:69757519 original size:45 final size:45
Alignment explanation
Indices: 69757420--69757546 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
69757410 TTTTCTCAAA
* *
69757420 TCACCGGCATT-TCGTCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAATATCAGT
* *
69757462 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
* * *
69757506 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAATA
69757547 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 10 0.14
43 13 0.18
44 8 0.11
45 39 0.55
46 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:69757978 original size:43 final size:43
Alignment explanation
Indices: 69757876--69758006 Score: 189
Period size: 41 Copynumber: 3.1 Consensus size: 43
69757866 CTGGCATTAC
*
69757876 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGG--CGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
69757917 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
* * * *
69757960 GCCTGCTAGGCACAAAGGCCCGAATATA-AT-ACCAGCACTAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
69758001 GCCTGC
1 GCCTGC
69758007 GGGATTTATC
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
41 52 0.63
42 2 0.02
43 29 0.35
ACGTcount: A:0.30, C:0.34, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
Found at i:69764275 original size:21 final size:21
Alignment explanation
Indices: 69764249--69764289 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
69764239 AGCTACCCAT
69764249 TCGGGGTATTTCACTTCTTGG
1 TCGGGGTATTTCACTTCTTGG
69764270 TCGGGGTATTTCACTTCTTG
1 TCGGGGTATTTCACTTCTTG
69764290 TAAGAACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.20, G:0.27, T:0.44
Consensus pattern (21 bp):
TCGGGGTATTTCACTTCTTGG
Found at i:69772923 original size:23 final size:23
Alignment explanation
Indices: 69772897--69772981 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
69772887 ACAAAAAAAG
69772897 AAAATATAATAATAATAATAGTA
1 AAAATATAATAATAATAATAGTA
* * * *
69772920 AAAACACAATAGTAATAATAATGA
1 AAAATATAATAATAATAATAGT-A
* *
69772944 AAAGGTATTATAAT-ATAATAGTA
1 AAA-ATATAATAATAATAATAGTA
* *
69772967 ATAATGATGATAATA
1 AAAAT-ATAATAATA
69772982 GTGGTATTAG
Statistics
Matches: 45, Mismatches: 13, Indels: 7
0.69 0.20 0.11
Matches are distributed among these distances:
22 1 0.02
23 28 0.62
24 11 0.24
25 5 0.11
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.29
Consensus pattern (23 bp):
AAAATATAATAATAATAATAGTA
Found at i:69772969 original size:33 final size:38
Alignment explanation
Indices: 69772927--69773008 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 38
69772917 GTAAAAACAC
69772927 AATAGTAATAATAATGA-AA-A-GGTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
*
69772960 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAG-GGTATTAGTAATAAT
*
69772999 AATAATAATA
1 AATAGTAATA
69773009 GAAAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 1 0.02
37 7 0.17
38 4 0.10
39 11 0.27
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.34
Consensus pattern (38 bp):
AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
Found at i:69773318 original size:13 final size:13
Alignment explanation
Indices: 69773285--69773324 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
69773275 GTGGTTAGGA
69773285 TGGTTTAGTGGGG
1 TGGTTTAGTGGGG
69773298 TGG--T--TGGGG
1 TGGTTTAGTGGGG
69773307 TGGTTTAGTGGGG
1 TGGTTTAGTGGGG
69773320 TGGTT
1 TGGTT
69773325 GGAGTGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
9 8 0.35
11 2 0.09
13 13 0.57
ACGTcount: A:0.05, C:0.00, G:0.55, T:0.40
Consensus pattern (13 bp):
TGGTTTAGTGGGG
Found at i:69773325 original size:22 final size:22
Alignment explanation
Indices: 69773269--69773326 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
69773259 TTTGTAGACA
* *
69773269 AGTGGAGTGGTTAGGATGGTTT
1 AGTGGGGTGGTTGGGATGGTTT
*
69773291 AGTGGGGTGGTTGGGGTGGTTT
1 AGTGGGGTGGTTGGGATGGTTT
69773313 AGTGGGGTGGTTGG
1 AGTGGGGTGGTTGG
69773327 AGTGAAGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.10, C:0.00, G:0.55, T:0.34
Consensus pattern (22 bp):
AGTGGGGTGGTTGGGATGGTTT
Found at i:69774448 original size:5 final size:5
Alignment explanation
Indices: 69774438--69774464 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
69774428 TTATATAAAT
69774438 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
69774465 ATTATATGAT
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:69775092 original size:29 final size:29
Alignment explanation
Indices: 69775033--69775094 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
69775023 ACATTGATAG
* **
69775033 TTTAAAGATGCAATTAAAATGTTTTGCAA
1 TTTAAAGATGCAATTAAAATATTTTAAAA
* *
69775062 TTTAAGGATGTAATTAAAATATTTTAAAA
1 TTTAAAGATGCAATTAAAATATTTTAAAA
69775091 TTTA
1 TTTA
69775095 GAGACCAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (29 bp):
TTTAAAGATGCAATTAAAATATTTTAAAA
Found at i:69776612 original size:15 final size:15
Alignment explanation
Indices: 69776592--69776621 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
69776582 AAAATTGTCT
69776592 GGTTTTAAGACATCC
1 GGTTTTAAGACATCC
69776607 GGTTTTAAGACATCC
1 GGTTTTAAGACATCC
69776622 TCCACACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
GGTTTTAAGACATCC
Found at i:69789015 original size:27 final size:27
Alignment explanation
Indices: 69788977--69789032 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
69788967 AACGAGTCAA
69788977 TACTATAAAGAGTATTGCCTCAAGACT
1 TACTATAAAGAGTATTGCCTCAAGACT
69789004 TACTATAAAGAGTATTGCCTCAAGACT
1 TACTATAAAGAGTATTGCCTCAAGACT
69789031 TA
1 TA
69789033 TATTGCTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (27 bp):
TACTATAAAGAGTATTGCCTCAAGACT
Found at i:69796598 original size:3 final size:3
Alignment explanation
Indices: 69796585--69796616 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
69796575 CACAAAATCC
*
69796585 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
69796617 AACATCATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:69798030 original size:11 final size:11
Alignment explanation
Indices: 69798014--69798039 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
69798004 AATACATCAA
69798014 AAAATAAATTT
1 AAAATAAATTT
69798025 AAAATAAATTT
1 AAAATAAATTT
69798036 AAAA
1 AAAA
69798040 AATATGCATA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATAAATTT
Found at i:69802491 original size:49 final size:51
Alignment explanation
Indices: 69802436--69802533 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 51
69802426 CTTGGATATA
* * *
69802436 GTTGGAGTTAACATTAATCTTT-T-TGTATGAAAAAACAGAGGGCCAAAGT
1 GTTGGAGTCAACATTAATCTTTCTATGCATGAAAAAACAGAGGACCAAAGT
* *
69802485 GTTGGAGTCAACATTAATCTTTCTATGCGTGAAAAAACAGTGGACCAAA
1 GTTGGAGTCAACATTAATCTTTCTATGCATGAAAAAACAGAGGACCAAA
69802534 TATAACTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 21 0.50
50 1 0.02
51 20 0.48
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (51 bp):
GTTGGAGTCAACATTAATCTTTCTATGCATGAAAAAACAGAGGACCAAAGT
Found at i:69811518 original size:19 final size:17
Alignment explanation
Indices: 69811496--69811539 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
69811486 TAACAACATA
69811496 AATAATAAAATGAAATTAC
1 AATAATAAAATG-AA-TAC
**
69811515 AATAATATGATGAATAC
1 AATAATAAAATGAATAC
69811532 AATAATAA
1 AATAATAA
69811540 TAAATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 10 0.45
18 2 0.09
19 10 0.45
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (17 bp):
AATAATAAAATGAATAC
Found at i:69812178 original size:17 final size:19
Alignment explanation
Indices: 69812142--69812178 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
69812132 GACTTGCAAG
*
69812142 GAAATTAAAATTATAAGAT
1 GAAATTAAAATTAAAAGAT
69812161 GAAA-TAAAA-TAAAAGAT
1 GAAATTAAAATTAAAAGAT
69812178 G
1 G
69812179 CAGGACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (19 bp):
GAAATTAAAATTAAAAGAT
Found at i:69821563 original size:16 final size:17
Alignment explanation
Indices: 69821532--69821564 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
69821522 TTCATAAGTA
69821532 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
69821549 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
69821565 GCTCCATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:69822001 original size:25 final size:25
Alignment explanation
Indices: 69821973--69822048 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
69821963 GTCTTACACA
69821973 TTTCATATCATGTTGCTATGGTATC
1 TTTCATATCATGTTGCTATGGTATC
* * *
69821998 TTTCA-ACCATGGT-CT-T-GCA-C
1 TTTCATATCATGTTGCTATGGTATC
*
69822018 GTTTCATATCATGTTGCCATGGTATC
1 -TTTCATATCATGTTGCTATGGTATC
69822044 TTTCA
1 TTTCA
69822049 ATCTTTCAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
20 1 0.03
21 7 0.18
22 7 0.18
23 3 0.08
24 7 0.18
25 12 0.32
26 1 0.03
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (25 bp):
TTTCATATCATGTTGCTATGGTATC
Found at i:69822077 original size:54 final size:54
Alignment explanation
Indices: 69821995--69822103 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
69821985 TTGCTATGGT
* * *
69821995 ATCTTTCAACCATGGTCTTGCACGTTTCATATCATGTTGCCATGGTATCTTTCA
1 ATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
69822049 ATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
1 ATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
69822103 A
1 A
69822104 CCATGGTCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (54 bp):
ATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
Found at i:69822122 original size:46 final size:46
Alignment explanation
Indices: 69821843--69822124 Score: 332
Period size: 46 Copynumber: 6.0 Consensus size: 46
69821833 TATTTATCGA
* * * * * *
69821843 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
** ***
69821889 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
69821935 CATGTTGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
69821981 CATGTTGCTATGGTATCTTTCAACCATGGTCTTGCACGTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
69822027 CATGTTGCCATGGTATCTTTCAATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGG------T--ATCTTTCAACCATGGTCTTACACATTTCATAT
*
69822081 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
69822125 TTCAAAGAGC
Statistics
Matches: 209, Mismatches: 18, Indels: 18
0.85 0.07 0.07
Matches are distributed among these distances:
45 4 0.02
46 161 0.77
48 1 0.00
52 1 0.00
54 42 0.20
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:69830972 original size:18 final size:19
Alignment explanation
Indices: 69830939--69830975 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
69830929 TATATATATA
69830939 AGTAAAAACTTTACAAATT
1 AGTAAAAACTTTACAAATT
*
69830958 AGTAAATAC-TTACAAATT
1 AGTAAAAACTTTACAAATT
69830976 TTTAAAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
AGTAAAAACTTTACAAATT
Found at i:69836971 original size:2 final size:2
Alignment explanation
Indices: 69836964--69837000 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
69836954 AAGATAATAC
*
69836964 TA TA TA TA TA TA TA TA TA TA TA TA TA -A CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
69837001 CTAATATGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:69837825 original size:11 final size:11
Alignment explanation
Indices: 69837809--69837835 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
69837799 AAAAGGTCAA
69837809 TTTTTTTCTTT
1 TTTTTTTCTTT
69837820 TTTTTTTCTTT
1 TTTTTTTCTTT
69837831 TTTTT
1 TTTTT
69837836 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:69838852 original size:39 final size:39
Alignment explanation
Indices: 69838798--69838875 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
69838788 TGTATAATTT
*
69838798 CCAAATACTTTGGGGTATTATAGATGGAGATTTGCAAAA
1 CCAAATACTTTGGGGTATTATAGATGGAGATTTACAAAA
69838837 CCAAATACTTTGGGGTATTATAGATGGAGATTTACAAAA
1 CCAAATACTTTGGGGTATTATAGATGGAGATTTACAAAA
69838876 GTTTTATTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (39 bp):
CCAAATACTTTGGGGTATTATAGATGGAGATTTACAAAA
Found at i:69846506 original size:24 final size:25
Alignment explanation
Indices: 69846458--69846521 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
69846448 ATTATTTTGG
* *
69846458 AATGTTTCTTTATATTATATTATTT-
1 AATGTTT-TATATATTATATCATTTA
* *
69846483 TATGTTTTATATATTATCTCATTTA
1 AATGTTTTATATATTATATCATTTA
69846508 AATGTTTTTATATA
1 AATG-TTTTATATA
69846522 ATAGTACGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 14 0.44
25 9 0.28
26 9 0.28
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (25 bp):
AATGTTTTATATATTATATCATTTA
Found at i:69850102 original size:26 final size:26
Alignment explanation
Indices: 69850068--69850175 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
69850058 TGAAATTCCC
69850068 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
69850094 ATCACGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
69850120 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
69850146 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
69850172 ATCA
1 ATCA
69850176 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
25 3 0.04
26 67 0.93
27 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:69850155 original size:52 final size:52
Alignment explanation
Indices: 69850068--69850175 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
69850058 TGAAATTCCC
*
69850068 ATCATGGAACATTTACCTAAACCATTATCACGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAAACCATTATCACGGAACATTTACCTAACCCATT
* * * *
69850120 ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCACGGAACATTTACCTAACCCATT
69850172 ATCA
1 ATCA
69850176 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCACGGAACATTTACCTAACCCATT
Found at i:69857100 original size:26 final size:26
Alignment explanation
Indices: 69857069--69857177 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
69857059 TGAAATTCCC
69857069 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
69857095 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
69857121 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
69857147 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
69857173 ATCAT
1 ATCAT
69857178 TTTGTATCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 4 0.05
26 68 0.91
27 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:69868274 original size:3 final size:3
Alignment explanation
Indices: 69868257--69868471 Score: 102
Period size: 3 Copynumber: 71.7 Consensus size: 3
69868247 ATATATATGT
* * * * *
69868257 TAA TAA TGA TGA TAA TAA TAA TAG TAA TAGA AAA TAA -AA AAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * * * * * *
69868301 TAA TAA TAG CAA TAG CAA TAA AAA TAA AAA TAA TAG TCA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
69868349 TAA TAGA -AA TAA TAG TAA AAA TAAA GAA TACA TTAA TAA TAA TAA -AA
1 TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TA-A -TAA TAA TAA TAA TAA
* * * * * * *
69868396 TCAG GAA TAA TAA TAA TAA CAA CAA TAG T-A TAA -AA AAA TAA TAG
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
69868440 TGA TAA TGAA -AA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA
69868472 TGTAAAGAAT
Statistics
Matches: 156, Mismatches: 42, Indels: 28
0.69 0.19 0.12
Matches are distributed among these distances:
2 12 0.08
3 132 0.85
4 10 0.06
5 2 0.01
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:69868315 original size:35 final size:36
Alignment explanation
Indices: 69868276--69868344 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 36
69868266 TGATAATAAT
*
69868276 AATAGTAATAGAAAATAAAAA-AATA-TAATAATAGC
1 AATAGCAATA-AAAATAAAAATAATAGTAATAATAGC
*
69868311 AATAGCAATAAAAATAAAAATAATAGTCATAATA
1 AATAGCAATAAAAATAAAAATAATAGTAATAATA
69868345 ATAATAATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 10 0.33
35 13 0.43
36 7 0.23
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.23
Consensus pattern (36 bp):
AATAGCAATAAAAATAAAAATAATAGTAATAATAGC
Found at i:69868388 original size:45 final size:44
Alignment explanation
Indices: 69868317--69868468 Score: 116
Period size: 45 Copynumber: 3.4 Consensus size: 44
69868307 TAGCAATAGC
*
69868317 AATAAAAATAAAAATAATAGTCATAATAATAATAATAGAAATAAT
1 AATAAAAATAAAAATAATA-TAATAATAATAATAATAGAAATAAT
* *
69868362 AGTAAAAATAAAGAATACAT-TAATAATAATAA-AATCAGGAATAAT
1 AATAAAAATAAA-AATA-ATATAATAATAATAATAAT-AGAAATAAT
* * * * * *
69868407 AATAATAACAACAATAGTATAA-AAAAATAATAGT-GATAATGAA-
1 AATAAAAATAAAAATAATATAATAATAATAATAATAGA-AAT-AAT
* *
69868450 AATAATAATAATAATAATA
1 AATAAAAATAAAAATAATA
69868469 ATATGTAAAG
Statistics
Matches: 86, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 27 0.31
44 14 0.16
45 38 0.44
46 4 0.05
47 2 0.02
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (44 bp):
AATAAAAATAAAAATAATATAATAATAATAATAATAGAAATAAT
Found at i:69868661 original size:16 final size:15
Alignment explanation
Indices: 69868635--69868664 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
69868625 CAAATTTAAA
69868635 ATAAAAAATAAACAT
1 ATAAAAAATAAACAT
69868650 ATAAAGAAATAAACA
1 ATAAA-AAATAAACA
69868665 AATGAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (15 bp):
ATAAAAAATAAACAT
Found at i:69868736 original size:21 final size:22
Alignment explanation
Indices: 69868712--69868752 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
69868702 ATAACAATCT
69868712 ATAAA-GGTTGAAATT-AAATGA
1 ATAAAGGGTT-AAATTGAAATGA
69868733 ATAAAGGGTTAAATTGAAAT
1 ATAAAGGGTTAAATTGAAAT
69868753 TTGAAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (22 bp):
ATAAAGGGTTAAATTGAAATGA
Found at i:69869842 original size:21 final size:22
Alignment explanation
Indices: 69869818--69869859 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
69869808 CTTTTATTTA
*
69869818 GGTTTGGGT-TAATTGGGCTAG
1 GGTTTAGGTCTAATTGGGCTAG
*
69869839 GGTTTAGGTCTAGTTGGGCTA
1 GGTTTAGGTCTAATTGGGCTA
69869860 AGTCTGTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.38
Consensus pattern (22 bp):
GGTTTAGGTCTAATTGGGCTAG
Found at i:69869929 original size:31 final size:31
Alignment explanation
Indices: 69869879--69869964 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
69869869 GGTTTGGGTA
* * *
69869879 TTGGGTTTTCATGGATTTAGGGATTTAGGTT
1 TTGGGTTGTAATGGGTTTAGGGATTTAGGTT
*
69869910 TTGGGTTGTAATGGGTTTAGGGATTTGGGTT
1 TTGGGTTGTAATGGGTTTAGGGATTTAGGTT
*
69869941 TTGAGTTGTAATGGGTTTAGGGAT
1 TTGGGTTGTAATGGGTTTAGGGAT
69869965 AAATTGGGCC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.16, C:0.01, G:0.37, T:0.45
Consensus pattern (31 bp):
TTGGGTTGTAATGGGTTTAGGGATTTAGGTT
Found at i:69870659 original size:75 final size:76
Alignment explanation
Indices: 69870528--69870732 Score: 245
Period size: 75 Copynumber: 2.7 Consensus size: 76
69870518 GACTAAAAGA
* * * * * * *
69870528 CTCAACTCACTTCTCGCAATATGAGTCGATTTT-TGGAGAA-TAGAAACTAAAAATACCTCAGCG
1 CTCAACTCACCTCTCACAATATGAGTTGATTTTCTTGA-AAGCAGAAATTAAAAATACCTCAACG
69870591 TGTGACCCGAGG
65 TGTGACCCGAGG
* * * * *
69870603 CTCAACTTACCTCTCATAATATGAGTTGATTTTTTTG-AAGCATAAATTAAAGATACCTCAACGT
1 CTCAACTCACCTCTCACAATATGAGTTGATTTTCTTGAAAGCAGAAATTAAAAATACCTCAACGT
69870667 GTGACCCGAGG
66 GTGACCCGAGG
* *
69870678 GTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTAAAAA
1 CTCAACTCACCTCTCACAATATGAGTTGATTTTCTTG-AAAGCAGAAATTAAAAA
69870733 ATAGAAATTG
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
74 2 0.02
75 90 0.83
76 2 0.02
77 14 0.13
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (76 bp):
CTCAACTCACCTCTCACAATATGAGTTGATTTTCTTGAAAGCAGAAATTAAAAATACCTCAACGT
GTGACCCGAGG
Found at i:69870838 original size:64 final size:64
Alignment explanation
Indices: 69870732--69870923 Score: 258
Period size: 64 Copynumber: 3.0 Consensus size: 64
69870722 GAAATTAAAA
* * * * * *
69870732 AATAGAAATTGAAAATATCTCGGCATGTGGCCCGAGGGTCAACTCACCTCTCGCAATATGAGTT
1 AATAGAAACTAAAAATATCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
69870796 AATAGAAACTAAAAATATCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTT
1 AATAGAAACTAAAAATATCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * * * *
69870860 GATAGAAACTAAAAATACCTCAGAGTGTGATCCGGGGCTCAACTCACCTCTCACTATATGAGTT
1 AATAGAAACTAAAAATATCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
69870924 GATTTTTTTT
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 113 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (64 bp):
AATAGAAACTAAAAATATCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
Found at i:69883052 original size:3 final size:3
Alignment explanation
Indices: 69883006--69883278 Score: 186
Period size: 3 Copynumber: 91.7 Consensus size: 3
69882996 ATATATATGT
* * * * * *
69883006 TAA TAA TGA TGA TAA TGA TAA TAG TAA TAGA AAA TAA -AA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * * * * * *
69883051 T-A TAA TAT TAG CAA TAG CAA TAA AAA T-A TAAA TAA TAG TCA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * * *
69883095 TAA TAA TAG TAGA -AA TAA TAG TAA AAA TAAA GAA TACA TTAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TA-A -TAA TAA TAA
* * * *
69883143 TAA -AA TCAG GAA TAA TAA TAA TAA TAA CAA TAG T-A TAA -AA -AA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
69883185 TAA TAA TAG TGA TAA TGA CAA TAA -AA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
69883232 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
69883279 TCAATAAATA
Statistics
Matches: 207, Mismatches: 48, Indels: 30
0.73 0.17 0.11
Matches are distributed among these distances:
2 16 0.08
3 180 0.87
4 9 0.04
5 2 0.01
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:69883482 original size:16 final size:15
Alignment explanation
Indices: 69883456--69883485 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
69883446 CAAATTTAAA
69883456 ATAAAAAATAAACAT
1 ATAAAAAATAAACAT
69883471 ATAAAGAAATAAACA
1 ATAAA-AAATAAACA
69883486 AATGAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (15 bp):
ATAAAAAATAAACAT
Found at i:69884731 original size:31 final size:31
Alignment explanation
Indices: 69884696--69884789 Score: 152
Period size: 31 Copynumber: 3.0 Consensus size: 31
69884686 GTCTGTTGGG
* * * *
69884696 TTTGGGTATTGGGTTTTCATGGATTTAGGGA
1 TTTGGGTTTTGGGTTGTAATGGGTTTAGGGA
69884727 TTTGGGTTTTGGGTTGTAATGGGTTTAGGGA
1 TTTGGGTTTTGGGTTGTAATGGGTTTAGGGA
69884758 TTTGGGTTTTGGGTTGTAATGGGTTTAGGGA
1 TTTGGGTTTTGGGTTGTAATGGGTTTAGGGA
69884789 T
1 T
69884790 AAATTGGGCC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.14, C:0.01, G:0.39, T:0.46
Consensus pattern (31 bp):
TTTGGGTTTTGGGTTGTAATGGGTTTAGGGA
Found at i:69884751 original size:17 final size:17
Alignment explanation
Indices: 69884729--69884783 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
69884719 TTTAGGGATT
69884729 TGGGTTTTGGGTTGTAA
1 TGGGTTTTGGGTTGTAA
* *
69884746 TGGGTTTAGGGAT-T--
1 TGGGTTTTGGGTTGTAA
69884760 TGGGTTTTGGGTTGTAA
1 TGGGTTTTGGGTTGTAA
69884777 TGGGTTT
1 TGGGTTT
69884784 AGGGATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 11 0.35
15 1 0.03
16 1 0.03
17 18 0.58
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (17 bp):
TGGGTTTTGGGTTGTAA
Found at i:69886761 original size:25 final size:25
Alignment explanation
Indices: 69886710--69886762 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
69886700 TCTCTAGGTT
* *
69886710 AAACAGAGTTTAAGTGGGAAACTAG
1 AAACAGAGTTTAAGTAGGAAACAAG
* * *
69886735 AAACAGAGTTTAATTAGGAGAGAAG
1 AAACAGAGTTTAAGTAGGAAACAAG
69886760 AAA
1 AAA
69886763 ATCAAAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.19
Consensus pattern (25 bp):
AAACAGAGTTTAAGTAGGAAACAAG
Found at i:69887130 original size:5 final size:5
Alignment explanation
Indices: 69887120--69887151 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
69887110 AAAAATTAAC
69887120 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA AT
1 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA AT
69887152 CTATATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTCA
Found at i:69887526 original size:35 final size:35
Alignment explanation
Indices: 69887487--69887556 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
69887477 GTTTTTTATG
69887487 ATTGAATTATTTATTTAAAAAATTACTTTCATTCT
1 ATTGAATTATTTATTTAAAAAATTACTTTCATTCT
*
69887522 ATTGAATTCTTTATTTAAAAAATTACTTTCATTCT
1 ATTGAATTATTTATTTAAAAAATTACTTTCATTCT
69887557 CCTTTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (35 bp):
ATTGAATTATTTATTTAAAAAATTACTTTCATTCT
Found at i:69893059 original size:14 final size:16
Alignment explanation
Indices: 69893028--69893059 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
69893018 ATAGTTGTAC
69893028 TTAATTGTTGGATTTA
1 TTAATTGTTGGATTTA
69893044 TTAATTG-TGG-TTTA
1 TTAATTGTTGGATTTA
69893058 TT
1 TT
69893060 GTACTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (16 bp):
TTAATTGTTGGATTTA
Found at i:69894239 original size:25 final size:25
Alignment explanation
Indices: 69894176--69894242 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
69894166 CTCTGTTATT
*
69894176 TTATGTATATAGTTTCTTTTAAATCTA
1 TTATGTATATAG-TT-TATTAAATCTA
*
69894203 -T-T-TATATAGTTTATTAAATTTA
1 TTATGTATATAGTTTATTAAATCTA
69894225 TTATGTATATAGTTTATT
1 TTATGTATATAGTTTATT
69894243 TTTTAAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 9 0.26
23 3 0.09
24 8 0.23
25 14 0.40
26 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.58
Consensus pattern (25 bp):
TTATGTATATAGTTTATTAAATCTA
Found at i:69895954 original size:99 final size:99
Alignment explanation
Indices: 69895783--69895969 Score: 320
Period size: 99 Copynumber: 1.9 Consensus size: 99
69895773 TAAAAATTTC
* * *
69895783 TCCTTGCATTTTGGATCGAGCCTCCATTGTTGGGAAGTCTCCACCTAATTCTTCACTAAATTTGG
1 TCCTTGCATTTTGGATCGAGCCTCCATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
69895848 TACATTTAAGTCTCCTTTTTTTAGTAAGACTTTT
66 TACATTTAAGTCTCCTTTTTTTAGTAAGACTTTT
* *
69895882 TCCTTGCATTTTGGATTGAGCCTCGATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
1 TCCTTGCATTTTGGATCGAGCCTCCATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
*
69895947 TACATTTAAGTCTCTTTTTTTTA
66 TACATTTAAGTCTCCTTTTTTTA
69895970 TATTTTATCT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 82 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (99 bp):
TCCTTGCATTTTGGATCGAGCCTCCATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
TACATTTAAGTCTCCTTTTTTTAGTAAGACTTTT
Found at i:69896476 original size:30 final size:30
Alignment explanation
Indices: 69896440--69896496 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
69896430 AATGTGTCAG
69896440 TGATCAACTTGTAACTTTCAAATAGTTCAA
1 TGATCAACTTGTAACTTTCAAATAGTTCAA
69896470 TGATCAACTTGTAACTTTCAAATAGTT
1 TGATCAACTTGTAACTTTCAAATAGTT
69896497 TGGTGACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (30 bp):
TGATCAACTTGTAACTTTCAAATAGTTCAA
Found at i:69898423 original size:16 final size:16
Alignment explanation
Indices: 69898402--69898432 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69898392 ACATTAATGA
*
69898402 TTAATGGCAGACAATT
1 TTAATGGCAAACAATT
69898418 TTAATGGCAAACAAT
1 TTAATGGCAAACAAT
69898433 CCAAGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TTAATGGCAAACAATT
Found at i:69901264 original size:21 final size:21
Alignment explanation
Indices: 69901230--69901270 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
69901220 AGACAAGCGA
* * *
69901230 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTCGAGTG
69901251 TACTCCAAAACAGGTCGAGT
1 TACTCCAAAACAGGTCGAGT
69901271 TTGAGCAGAT
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:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTCGAGTG
Found at i:69903211 original size:16 final size:16
Alignment explanation
Indices: 69903192--69903222 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69903182 ACATTAATGA
*
69903192 TTAATGGCAGACAATT
1 TTAATGGCAAACAATT
69903208 TTAATGGCAAACAAT
1 TTAATGGCAAACAAT
69903223 CCAAGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TTAATGGCAAACAATT
Found at i:69906080 original size:46 final size:46
Alignment explanation
Indices: 69906028--69906295 Score: 342
Period size: 46 Copynumber: 5.8 Consensus size: 46
69906018 AGTGTGCTCT
*
69906028 CTGATAT-AGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGA-AATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
69906074 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
69906120 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACAATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
69906166 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATTCCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
69906212 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
69906259 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
69906296 TATGACATCA
Statistics
Matches: 199, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
46 157 0.79
47 42 0.21
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:69907269 original size:19 final size:22
Alignment explanation
Indices: 69907230--69907269 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
69907220 AGAAACCCAA
69907230 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
69907252 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
69907270 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:69907392 original size:27 final size:26
Alignment explanation
Indices: 69907330--69907498 Score: 203
Period size: 27 Copynumber: 6.3 Consensus size: 26
69907320 AGCATGGCTG
* *
69907330 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
69907356 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
69907384 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
69907411 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
69907438 CCAGATCAGATATTTATGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
69907465 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
69907492 CCAGAAC
1 CCAGAAC
69907499 GCTTCCTCCA
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
26 4 0.03
27 110 0.85
28 16 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:69907448 original size:81 final size:81
Alignment explanation
Indices: 69907330--69907498 Score: 241
Period size: 81 Copynumber: 2.1 Consensus size: 81
69907320 AGCATGGCTG
* * *
69907330 CCAGAACAGATAATGTGACAGAGTCACTAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCACCAGAACAGAT
69907395 ATATGTGGCAGAGCCA
66 ATATGTGGCAGAGCCA
* * * *
69907411 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTATGGCAGAGCCACCAGATCAGA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCACCAGAACAGA
* *
69907475 TATTTGTGGCATAGCCA
65 TATATGTGGCAGAGCCA
69907492 CCAGAAC
1 CCAGAAC
69907499 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 61 0.78
82 17 0.22
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (81 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCACCAGAACAGAT
ATATGTGGCAGAGCCA
Found at i:69907628 original size:26 final size:27
Alignment explanation
Indices: 69907599--69907672 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 27
69907589 AAAATTAACC
*
69907599 CTAGGGGTATAACAGTAATTTTGCA-A
1 CTAGGGGTATAACAGTAATTTTCCATA
69907625 CTAGGGGTATAACAGTAA-TTTCCATA
1 CTAGGGGTATAACAGTAATTTTCCATA
* *
69907651 CATAGGGGTATTATAGTAATTT
1 C-TAGGGGTATAACAGTAATTT
69907673 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 5 0.12
26 20 0.48
27 15 0.36
28 2 0.05
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.34
Consensus pattern (27 bp):
CTAGGGGTATAACAGTAATTTTCCATA
Found at i:69909152 original size:26 final size:26
Alignment explanation
Indices: 69909116--69909222 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
69909106 GAAATTCTTC
69909116 TCATGAAACATTTACCTAACCCATTA
1 TCATGAAACATTTACCTAACCCATTA
69909142 TCATGAAACATTTACCTAACCCATTA
1 TCATGAAACATTTACCTAACCCATTA
* * *
69909168 TCATGGAATATTTACCTAATCCATTA
1 TCATGAAACATTTACCTAACCCATTA
*
69909194 TCATGGAACATTTACCTAACCCATTA
1 TCATGAAACATTTACCTAACCCATTA
69909220 TCA
1 TCA
69909223 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TCATGAAACATTTACCTAACCCATTA
Found at i:69912009 original size:37 final size:37
Alignment explanation
Indices: 69911959--69912033 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
69911949 AGGTAAGGAA
69911959 CAAAGAATTAGTGGCCAAAAGATATGATGTTTGATTT
1 CAAAGAATTAGTGGCCAAAAGATATGATGTTTGATTT
69911996 CAAAGAATTAGTGGCCAAAAGATATGATGTTTGATTT
1 CAAAGAATTAGTGGCCAAAAGATATGATGTTTGATTT
69912033 C
1 C
69912034 TTTGTTAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.32
Consensus pattern (37 bp):
CAAAGAATTAGTGGCCAAAAGATATGATGTTTGATTT
Found at i:69915583 original size:22 final size:22
Alignment explanation
Indices: 69915528--69915583 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
69915518 ATGACTTAAT
*
69915528 TATGGAAATTATAAATTAAAAA
1 TATGAAAATTATAAATTAAAAA
* *
69915550 T-TGGAGATTTATAAATTAAAAA
1 TAT-GAAAATTATAAATTAAAAA
69915572 TATGAAAATTAT
1 TATGAAAATTAT
69915584 GGTATAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.36
Consensus pattern (22 bp):
TATGAAAATTATAAATTAAAAA
Found at i:69916249 original size:26 final size:24
Alignment explanation
Indices: 69916219--69916268 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
69916209 AAATAAAAAA
*
69916219 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
69916245 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
69916269 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:69916288 original size:21 final size:21
Alignment explanation
Indices: 69916239--69916297 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
69916229 ATAATAAATC
*
69916239 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
69916259 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
69916281 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
69916298 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:69916374 original size:15 final size:16
Alignment explanation
Indices: 69916344--69916376 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
69916334 AAATGGTTAT
69916344 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
69916361 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
69916376 A
1 A
69916377 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:69918489 original size:141 final size:141
Alignment explanation
Indices: 69918229--69918490 Score: 488
Period size: 141 Copynumber: 1.9 Consensus size: 141
69918219 ATAATTTCCA
69918229 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
1 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
* *
69918294 AGGGGGAAATGATTTTAGGGATGTCTCTTTGCAGGGATTTAAGAGCCCCCCCCCCAAAAAAAAAA
66 ACGGGGAAATGATTTTAGGGATGTCTCTCTGCAGGGATTTAAGAGCCCCCCCCCCAAAAAAAAAA
69918359 AAAAAAAACCC
131 AAAAAAAACCC
69918370 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
1 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
*
69918435 ACGGGGAAATGATTTTAGGGATGTCTCTCTGCAGGGATTTAAGACCCCCGCCCCCC
66 ACGGGGAAATGATTTTAGGGATGTCTCTCTGCAGGGATTTAAGAGCCCC-CCCCCC
69918491 CCCAAACCCC
Statistics
Matches: 117, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
141 111 0.95
142 6 0.05
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (141 bp):
AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
ACGGGGAAATGATTTTAGGGATGTCTCTCTGCAGGGATTTAAGAGCCCCCCCCCCAAAAAAAAAA
AAAAAAAACCC
Found at i:69929500 original size:42 final size:43
Alignment explanation
Indices: 69929397--69929555 Score: 162
Period size: 42 Copynumber: 3.7 Consensus size: 43
69929387 TATGTGTTCT
** ** *
69929397 CGTGTAAGACCACATCTGGGATGTTGGCATCGATTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTTA
69929441 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTA
* * * *
69929483 CGTGTAAGACTC-TGTCTGGGACAGTGGAATCG-ATATTTAGTTA
1 CGTGTAAGAC-CATGTCTGGGACATTGGCATCGTATA-TGATTTA
* * *
69929526 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
69929556 TTTACGAGCT
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
41 3 0.03
42 33 0.34
43 33 0.34
44 28 0.29
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTA
Found at i:69938741 original size:20 final size:19
Alignment explanation
Indices: 69938718--69938790 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
69938708 AAAAATACAA
69938718 AAAAAATTAAAAATAATTTT
1 AAAAAATTAAAAAT-ATTTT
*
69938738 AAAAAATTCAAAATATTTT
1 AAAAAATTAAAAATATTTT
** * *
69938757 TTAAAATTGAAATTATTTAT
1 AAAAAATTAAAAATATTT-T
69938777 AAAAAATCTAAAAA
1 AAAAAAT-TAAAAA
69938791 ATATATAGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
19 19 0.45
20 19 0.45
21 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (19 bp):
AAAAAATTAAAAATATTTT
Found at i:69938741 original size:21 final size:20
Alignment explanation
Indices: 69938718--69938790 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
69938708 AAAAATACAA
69938718 AAAAAATTAAAAATAATTTT
1 AAAAAATTAAAAATAATTTT
*
69938738 AAAAAATTCAAAAT-ATTTT
1 AAAAAATTAAAAATAATTTT
** * *
69938757 TTAAAATT-GAAATTATTTAT
1 AAAAAATTAAAAATAATTT-T
69938777 AAAAAATCTAAAAA
1 AAAAAAT-TAAAAA
69938791 ATATATAGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 4 0.10
19 15 0.36
20 19 0.45
21 1 0.02
22 3 0.07
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (20 bp):
AAAAAATTAAAAATAATTTT
Found at i:69952164 original size:10 final size:10
Alignment explanation
Indices: 69952149--69952174 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
69952139 CTATATACCT
69952149 ACACACCCAC
1 ACACACCCAC
69952159 ACACACCCAC
1 ACACACCCAC
69952169 ACACAC
1 ACACAC
69952175 ATATACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.58, G:0.00, T:0.00
Consensus pattern (10 bp):
ACACACCCAC
Found at i:69955810 original size:25 final size:25
Alignment explanation
Indices: 69955698--69955827 Score: 122
Period size: 25 Copynumber: 5.2 Consensus size: 25
69955688 CATAGCTCTT
* *
69955698 ATGAGCTTCCCGATAGTT-AGCTCGC
1 ATGAGCTTCCCGTTA-TTCAGCTCAC
*
69955723 ATGAGCTTGCCGTTACTT-AGCTCAC
1 ATGAGCTTCCCGTTA-TTCAGCTCAC
* *
69955748 ATGAGCTTCTCGTTATTCAGCTTAC
1 ATGAGCTTCCCGTTATTCAGCTCAC
* * *
69955773 ATGAGTTTTCCGTTATTCAGCTCAG
1 ATGAGCTTCCCGTTATTCAGCTCAC
* * *
69955798 AGGAGCTTCCCGTT-TACAGCTCAT
1 ATGAGCTTCCCGTTATTCAGCTCAC
69955822 ATGAGC
1 ATGAGC
69955828 ATATATGAAT
Statistics
Matches: 86, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
24 15 0.17
25 71 0.83
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCAC
Found at i:69956778 original size:14 final size:14
Alignment explanation
Indices: 69956759--69956787 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
69956749 AAAATAATAG
69956759 TATATGTATATATA
1 TATATGTATATATA
69956773 TATATGTATATATA
1 TATATGTATATATA
69956787 T
1 T
69956788 TTATCCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TATATGTATATATA
Found at i:69959797 original size:20 final size:17
Alignment explanation
Indices: 69959772--69959824 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 17
69959762 TTCTTTATTA
69959772 AATATTGTTATTATTATTC
1 AATATT-TTATTATTA-TC
*
69959791 TAATATTATTAATATTATC
1 -AATATT-TTATTATTATC
69959810 AATATATTTATTATT
1 AATAT-TTTATTATT
69959825 TTTAGTGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 12 0.41
19 3 0.10
20 14 0.48
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (17 bp):
AATATTTTATTATTATC
Found at i:69960201 original size:28 final size:28
Alignment explanation
Indices: 69960167--69960236 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 28
69960157 TTAAATACTC
*
69960167 TTATATTATGTATAT-TATTCTTTTTATA
1 TTATATTATCTATATATATT-TTTTTATA
*
69960195 TTATATTTTCTATATACATATTTTTTTATA
1 TTATATTATCTATAT--ATATTTTTTTATA
69960225 TTATATATATCT
1 TTATAT-TATCT
69960237 TTTAATATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 13 0.37
30 14 0.40
31 8 0.23
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (28 bp):
TTATATTATCTATATATATTTTTTTATA
Found at i:69960210 original size:16 final size:15
Alignment explanation
Indices: 69960177--69960230 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
69960167 TTATATTATG
69960177 TATATTAT-TCTTTT-
1 TATATTATAT-TTTTA
69960191 TATATTATATTTTCTA
1 TATATTATATTTT-TA
* *
69960207 TATA-CATATTTTTT
1 TATATTATATTTTTA
69960221 TATATTATAT
1 TATATTATAT
69960231 ATATCTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 16 0.48
15 13 0.39
16 4 0.12
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
TATATTATATTTTTA
Found at i:69960344 original size:15 final size:15
Alignment explanation
Indices: 69960324--69960353 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
69960314 TTATGTTATG
69960324 TTTTTAATACCATAT
1 TTTTTAATACCATAT
69960339 TTTTTAATACCATAT
1 TTTTTAATACCATAT
69960354 ATATTGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTTAATACCATAT
Found at i:69960761 original size:43 final size:43
Alignment explanation
Indices: 69960713--69960947 Score: 344
Period size: 43 Copynumber: 5.4 Consensus size: 43
69960703 TTATTTGAAA
** *
69960713 AAACGCCGCTAAAAATAATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
* *
69960756 AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTATCCCAC
1 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
* * *
69960799 AAACGCCACTAAAGGTCATGACATTTAGCGGCGCTTATCCCAC
1 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
*
69960842 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
* * *
69960885 AAACGCAGTTAAAGGTCATGACTTTTAGCGGCGTTTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCG-CTTTTCCCAC
*
69960929 AAACGCCGCTAAATGTCAT
1 AAACGCCGCTAAAGGTCAT
69960948 AAATTCAAAA
Statistics
Matches: 172, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
43 148 0.86
44 24 0.14
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
Found at i:69963828 original size:58 final size:58
Alignment explanation
Indices: 69963753--69963868 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
69963743 TATCATTGCA
*
69963753 TAGTTCCAGTAACATAAAGTTAGACCTTAAATGTTATTTAAACCATCCCACTGACAAT
1 TAGTCCCAGTAACATAAAGTTAGACCTTAAATGTTATTTAAACCATCCCACTGACAAT
*
69963811 TAGTCCCAGTAACATAAAGTTAGACCTTAAATGTTATTTAAACCATCGCACTGACAAT
1 TAGTCCCAGTAACATAAAGTTAGACCTTAAATGTTATTTAAACCATCCCACTGACAAT
69963869 GAGGAAAACT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (58 bp):
TAGTCCCAGTAACATAAAGTTAGACCTTAAATGTTATTTAAACCATCCCACTGACAAT
Found at i:69966503 original size:24 final size:26
Alignment explanation
Indices: 69966467--69966515 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
69966457 TCAAACATGC
69966467 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
69966492 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
69966516 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:69968038 original size:26 final size:26
Alignment explanation
Indices: 69968002--69968136 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
69967992 CATGATATTC
69968002 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
69968028 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
69968054 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
69968080 TTATCATG-AACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
69968105 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
69968131 TTATCA
1 TTATCA
69968137 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.23
26 79 0.77
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Done.