Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
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: 4970990
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 21
Found at i:1814137 original size:20 final size:20
Alignment explanation
Indices: 1814108--1814148 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1814098 ATCAGATTGT
* *
1814108 CCAGGTGGTACAGATTCCCC
1 CCAGGGGGTACAAATTCCCC
1814128 CCAGGGGGTACAAATTCCCC
1 CCAGGGGGTACAAATTCCCC
1814148 C
1 C
1814149 TGCAGGTTTT
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:0.22, C:0.37, G:0.24, T:0.17
Consensus pattern (20 bp):
CCAGGGGGTACAAATTCCCC
Found at i:1814218 original size:22 final size:21
Alignment explanation
Indices: 1814181--1814243 Score: 92
Period size: 22 Copynumber: 3.0 Consensus size: 21
1814171 AACAGATTGT
* *
1814181 CCAGGGGATACAGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
1814202 CCAAGGGGGTACCGATTCCCCC
1 CC-AGGGGGTACCGATTCCCCC
1814224 CCAGGGGGTA-CGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
1814244 TGTCTAATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
20 10 0.26
21 10 0.26
22 19 0.49
ACGTcount: A:0.19, C:0.40, G:0.27, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:1814224 original size:21 final size:21
Alignment explanation
Indices: 1814183--1814243 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
1814173 CAGATTGTCC
* *
1814183 AGGGGATACAGATTCCCCCCCA
1 AGGGGGTACCGATT-CCCCCCA
*
1814205 AGGGGGTACCGATTCCCCCCC
1 AGGGGGTACCGATTCCCCCCA
1814226 AGGGGGTA-CGATTCCCCC
1 AGGGGGTACCGATTCCCCC
1814244 TGTCTAATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 10 0.28
21 14 0.39
22 12 0.33
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.15
Consensus pattern (21 bp):
AGGGGGTACCGATTCCCCCCA
Found at i:1815718 original size:218 final size:218
Alignment explanation
Indices: 1815340--1815773 Score: 814
Period size: 218 Copynumber: 2.0 Consensus size: 218
1815330 AAGAAGAACT
*
1815340 AACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCCCAAGGTATCTTCTAACTCAGATGAATTTA
1 AACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCCCAAGGTATCTTCTAACTCAAATGAATTTA
1815405 ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
66 ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
1815470 AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAA
131 AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAA
1815535 AATAGATTTTGAAAGCCAAAACC
196 AATAGATTTTGAAAGCCAAAACC
* *
1815558 AACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCCCGAGGTATCTTCTAACTCAAATGAATTTA
1 AACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCCCAAGGTATCTTCTAACTCAAATGAATTTA
** *
1815623 ATTCATATATGTTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCTTG
66 ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
1815688 AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAA
131 AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAA
1815753 AATAGATTTTGAAAGCCAAAA
196 AATAGATTTTGAAAGCCAAAA
1815774 TGAAATTTTG
Statistics
Matches: 210, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
218 210 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (218 bp):
AACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCCCAAGGTATCTTCTAACTCAAATGAATTTA
ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAA
AATAGATTTTGAAAGCCAAAACC
Found at i:1815764 original size:19 final size:20
Alignment explanation
Indices: 1815740--1815787 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1815730 AATGATTTTC
*
1815740 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
1815759 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
1815779 TTTTGAAAA
1 TTTTGAAAA
1815788 AAGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:1817211 original size:20 final size:20
Alignment explanation
Indices: 1817182--1817222 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1817172 ATCAGATTGT
* *
1817182 CCAGGTGGTACAGATTCCCC
1 CCAGGGGGTACAAATTCCCC
1817202 CCAGGGGGTACAAATTCCCC
1 CCAGGGGGTACAAATTCCCC
1817222 C
1 C
1817223 TGCAGGTTTT
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:0.22, C:0.37, G:0.24, T:0.17
Consensus pattern (20 bp):
CCAGGGGGTACAAATTCCCC
Found at i:1817292 original size:22 final size:21
Alignment explanation
Indices: 1817255--1817317 Score: 92
Period size: 22 Copynumber: 3.0 Consensus size: 21
1817245 AACAGATTGT
* *
1817255 CCAGGGGATACAGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
1817276 CCAAGGGGGTACCGATTCCCCC
1 CC-AGGGGGTACCGATTCCCCC
1817298 CCAGGGGGTA-CGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
1817318 TGTCTAATCG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
20 10 0.26
21 10 0.26
22 19 0.49
ACGTcount: A:0.19, C:0.40, G:0.27, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:1817298 original size:21 final size:21
Alignment explanation
Indices: 1817257--1817317 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
1817247 CAGATTGTCC
* *
1817257 AGGGGATACAGATTCCCCCCCA
1 AGGGGGTACCGATT-CCCCCCA
*
1817279 AGGGGGTACCGATTCCCCCCC
1 AGGGGGTACCGATTCCCCCCA
1817300 AGGGGGTA-CGATTCCCCC
1 AGGGGGTACCGATTCCCCC
1817318 TGTCTAATCG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 10 0.28
21 14 0.39
22 12 0.33
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.15
Consensus pattern (21 bp):
AGGGGGTACCGATTCCCCCCA
Found at i:1818771 original size:216 final size:214
Alignment explanation
Indices: 1818346--1818778 Score: 753
Period size: 216 Copynumber: 2.0 Consensus size: 214
1818336 AAGAAAGAAG
* *
1818346 AAACTAACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCCCAAGGTATCTTAACTCAGATGAAT
1 AAACCAACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCCCAAGGTATCTTAACTCAAATGAAT
1818411 TTAATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACC
66 TTAATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACC
1818476 ATGAACACCAATATAAGAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAA
131 ATGAACACCAATATAAGAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAA
1818541 AAATAGATTTTGAAAGCCA
196 AAATAGATTTTGAAAGCCA
* *
1818560 AAACCAACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCCCGAGGTATCTTCTAACTCAAATGA
1 AAACCAACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCCCAAGGTATC-T-TAACTCAAATGA
**
1818625 ATTTAATTCATATATGTTTGATGAGTTACAAGATGCTTTTAATAGGTTATA-TCGGAGTTTGAGA
64 ATTTAATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGA
*
1818689 CCTTGAACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAA
129 CCATGAACACC-AATATAAG-AAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAA
1818754 ACAAAAATAGA-TTTGAAAGCCA
192 ACAAAAATAGATTTTGAAAGCCA
1818776 AAA
1 AAA
1818779 TGAATTTTGA
Statistics
Matches: 208, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
214 47 0.23
215 24 0.12
216 82 0.39
217 55 0.26
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (214 bp):
AAACCAACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCCCAAGGTATCTTAACTCAAATGAAT
TTAATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACC
ATGAACACCAATATAAGAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAA
AAATAGATTTTGAAAGCCA
Found at i:1820265 original size:20 final size:20
Alignment explanation
Indices: 1820237--1820286 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
1820227 CAGGGATACA
1820237 GATTCCCCCCAAGGGGGTACC
1 GATTCCCCCCAAGGGGGTA-C
*
1820258 GATTCCCCCCCAGGGGGTAC
1 GATTCCCCCCAAGGGGGTAC
1820278 GATTCCCCC
1 GATTCCCCC
1820287 TGTCATAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.16, C:0.42, G:0.26, T:0.16
Consensus pattern (20 bp):
GATTCCCCCCAAGGGGGTAC
Found at i:1821742 original size:218 final size:217
Alignment explanation
Indices: 1821364--1821796 Score: 794
Period size: 218 Copynumber: 2.0 Consensus size: 217
1821354 AAGAAGAAAT
* *
1821364 AACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCCCAAGGTATCTTCTAACTCAGATGAATTTA
1 AACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCACAAGGTATCTTCTAACTCAAATGAATTTA
1821429 ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
66 ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
*
1821494 AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAA
131 AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTAAAAATGA-TTTCTTTTGAAAACAAA
1821559 AATAGATTTTGAAAGCCAAAACC
195 AATAGATTTTGAAAGCCAAAACC
* *
1821582 AACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCACGAGGTATCTTCTAACTCAAATGAATTTA
1 AACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCACAAGGTATCTTCTAACTCAAATGAATTTA
**
1821647 ATTCATATATGTTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
66 ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
1821712 AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTAAAAATGATTTCTTTTGAAAACAAAA
131 AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTAAAAATGATTTCTTTTGAAAACAAAA
1821777 ATAGATTTTGAAAGCCAAAA
196 ATAGATTTTGAAAGCCAAAA
1821797 TGAAATTTTG
Statistics
Matches: 208, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
217 38 0.18
218 170 0.82
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (217 bp):
AACAAAGGTGGTGTCTCTAATGGCTCGTGATAAGCACAAGGTATCTTCTAACTCAAATGAATTTA
ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTAAAAATGATTTCTTTTGAAAACAAAA
ATAGATTTTGAAAGCCAAAACC
Found at i:1821787 original size:19 final size:20
Alignment explanation
Indices: 1821763--1821810 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1821753 AAATGATTTC
*
1821763 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
1821782 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
1821802 TTTTGAAAA
1 TTTTGAAAA
1821811 ACGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:1823280 original size:20 final size:20
Alignment explanation
Indices: 1823255--1823311 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
1823245 GAATGTCCAG
*
1823255 GGGGTACAGATTCCCCCCAA
1 GGGGTACCGATTCCCCCCAA
*
1823275 GGGGTACCGATTCCCCCCAG
1 GGGGTACCGATTCCCCCCAA
1823295 GGGGTACCGATTCCCCC
1 GGGGTACCGATTCCCCC
1823312 TGTCTAACGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.18, C:0.39, G:0.28, T:0.16
Consensus pattern (20 bp):
GGGGTACCGATTCCCCCCAA
Found at i:1828979 original size:33 final size:34
Alignment explanation
Indices: 1828875--1828979 Score: 95
Period size: 33 Copynumber: 3.0 Consensus size: 34
1828865 CAGCAAGATA
* *
1828875 ATAAATGTTGGGGCATTTTGAAGGCCCGTACCAG
1 ATAAATGTTGGGGCATTTTGAAGGCCCATATCAG
* ** * *
1828909 TATGGAATAATGTTGGGGTATTTTGAACACTCTTATCAG
1 -AT---A-AATGTTGGGGCATTTTGAAGGCCCATATCAG
1828948 -TAAATGTTGGGGCATTTTGAAGGCCCATATCA
1 ATAAATGTTGGGGCATTTTGAAGGCCCATATCA
1828980 TACAAGAATA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
33 25 0.45
34 1 0.02
35 2 0.04
37 1 0.02
38 1 0.02
39 25 0.45
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (34 bp):
ATAAATGTTGGGGCATTTTGAAGGCCCATATCAG
Found at i:1831817 original size:22 final size:20
Alignment explanation
Indices: 1831792--1831833 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
1831782 CCTAAAAATC
*
1831792 AATCTAATATCACCAATAAACT
1 AATCCAATAT-ACCAA-AAACT
1831814 AATCCAATATACCAAAAACT
1 AATCCAATATACCAAAAACT
1831834 GATTGGTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 5 0.26
22 9 0.47
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (20 bp):
AATCCAATATACCAAAAACT
Found at i:1832477 original size:62 final size:61
Alignment explanation
Indices: 1832397--1832675 Score: 267
Period size: 62 Copynumber: 4.4 Consensus size: 61
1832387 GATTGTGGCA
* * *
1832397 TGACTTCCTCATGAAGAGAAGTCAACATTTTTTATTTCTGACTCCCCAGTAGAGTCAATCCT
1 TGACTTTCTCATGAAGAGAAGTCAAC-TTTGTTATTTCTGACTCCCCAATAGAGTCAATCCT
* * * *
1832459 TGATTTTCTCTTGAAGAGAAGTCTATCTTTGTTATTTCTGACTCCCTCGTAAAGAGAAGTCAATT
1 TGACTTTCTCATGAAGAGAAGTC-AACTTTGTTATTTCTGACTCCC-C---AATAG-AGTCAA-T
**
1832524 TTT
59 CCT
* * * *
1832527 TGACTTTCTCGTGAAAAGAAGTCAA-TTT-TTATTATCACTGACTCCCCAATAAAGTCAATCAT
1 TGACTTTCTCATGAAGAGAAGTCAACTTTGTTATT-T--CTGACTCCCCAATAGAGTCAATCCT
* * * *
1832589 TGACTTTCTCATGAAGAGAATTCAACCTTTGTTATTTTTTACTCCTCAATAGAGTCAATCCT
1 TGACTTTCTCATGAAGAGAAGTCAA-CTTTGTTATTTCTGACTCCCCAATAGAGTCAATCCT
1832651 TGAC-TTCTTCATGAAGAGAAGTCAA
1 TGACTTTC-TCATGAAGAGAAGTCAA
1832676 TATTGCAAAT
Statistics
Matches: 177, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
61 3 0.02
62 102 0.58
63 9 0.05
64 7 0.04
65 10 0.06
66 7 0.04
67 8 0.05
68 31 0.18
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (61 bp):
TGACTTTCTCATGAAGAGAAGTCAACTTTGTTATTTCTGACTCCCCAATAGAGTCAATCCT
Found at i:1832531 original size:30 final size:30
Alignment explanation
Indices: 1832497--1832556 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1832487 TTGTTATTTC
1832497 TGACTCCCTCGT-AAAGAGAAGTCAATTTTT
1 TGACTCCCTCGTGAAA-AGAAGTCAATTTTT
**
1832527 TGACTTTCTCGTGAAAAGAAGTCAATTTTT
1 TGACTCCCTCGTGAAAAGAAGTCAATTTTT
1832557 ATTATCACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (30 bp):
TGACTCCCTCGTGAAAAGAAGTCAATTTTT
Found at i:1832894 original size:89 final size:86
Alignment explanation
Indices: 1832684--1832976 Score: 316
Period size: 89 Copynumber: 3.4 Consensus size: 86
1832674 AATATTGCAA
* * * *
1832684 ATTTGGTCTTCCTGGCAAAGTAGTGAACCAAATCAACCTCATGTCTGATCTCCATCGAAGAGTAG
1 ATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAACCTCA-GTCTGATCTCCA-CGAAGAGTAG
*
1832749 TGGAATAGATTCTTCTCATCCCAT
64 TGGAA-AGATTCTTCTCATCCCAG
* * ** * *
1832773 ATTTGGTCTTCCTGGCAAAGCAGCGAATCAAATCAGCCTCGAGTCTGATCTCCACGTAAGAGTAG
1 ATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAACCTC-AGTCTGATCTCCACG-AAGAGTAG
1832838 TGGAACAGATTCTTCTCATCCCAG
64 TGGAA-AGATTCTTCTCATCCCAG
* * *
1832862 ATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAATCTAAG-C----CTTCACGGAAGAGTAGT
1 ATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAACCTCAGTCTGATCTCCAC-GAAGAGTAGT
*
1832922 --AAAGCA--ATTCTCATCCCAG
65 GGAAAG-ATTCTTCTCATCCCAG
1832941 ATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAA
1 ATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAA
1832977 TATAAGCCTT
Statistics
Matches: 184, Mismatches: 16, Indels: 18
0.84 0.07 0.08
Matches are distributed among these distances:
79 48 0.26
80 2 0.01
81 3 0.02
83 14 0.08
84 1 0.01
87 1 0.01
88 4 0.02
89 110 0.60
90 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (86 bp):
ATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAACCTCAGTCTGATCTCCACGAAGAGTAGTG
GAAAGATTCTTCTCATCCCAG
Found at i:1832965 original size:79 final size:79
Alignment explanation
Indices: 1832850--1833007 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
1832840 GAACAGATTC
*
1832850 TTCTCATCCCAGATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAATCTAAGCCTTCACGGAA
1 TTCTCATCCCAGATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAATATAAGCCTTCACGGAA
1832915 GAGTAGTAAAGCAA
66 GAGTAGTAAAGCAA
1832929 TTCTCATCCCAGATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAATATAAGCCTTCACGGAA
1 TTCTCATCCCAGATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAATATAAGCCTTCACGGAA
1832994 GAGTAGTAAAGCAA
66 GAGTAGTAAAGCAA
1833008 ATCAATCTAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (79 bp):
TTCTCATCCCAGATTTGGTCTTCCTAGCAAAGAAATGAAGCAAATCAATATAAGCCTTCACGGAA
GAGTAGTAAAGCAA
Found at i:1833013 original size:36 final size:36
Alignment explanation
Indices: 1832964--1833341 Score: 551
Period size: 36 Copynumber: 10.4 Consensus size: 36
1832954 AGCAAAGAAA
*
1832964 TGAAGCAAATCAATATAAGCCTTCACGGAAGAGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
* ** *
1833000 TAAAGCAAATCAATCTAAGCCTTCATTGAAGAATAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
* * *
1833036 CGAAGCAAACCAATCTAATCCTTCACGGAAGAGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
* *
1833072 TGAAGCAAATCAATGTAAGCCTTCACAGAAGAGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
*
1833108 TGAAACAAATCAATCTAAGCCTTCACGGAAGAGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
* *
1833144 TGAAGCAAATCAATTTTAAGCCTTCATGGAAGAGTAG
1 TGAAGCAAATCAA-TCTAAGCCTTCACGGAAGAGTAG
1833181 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
* **
1833217 TGAAGCAAATCAATTTAAGTATTCACGGAAGAGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
*
1833253 TGAAGCAATTCAATCTTAAGCCTTCACGGAAGAGTAG
1 TGAAGCAAATCAATC-TAAGCCTTCACGGAAGAGTAG
1833290 TGAAGCAAATCAATCTTAAGCCTTCA-GGAAGAGTAG
1 TGAAGCAAATCAATC-TAAGCCTTCACGGAAGAGTAG
* *
1833326 GGAAACAAATCAATCT
1 TGAAGCAAATCAATCT
1833342 CGAGTCTTAT
Statistics
Matches: 305, Mismatches: 35, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
35 1 0.00
36 226 0.74
37 78 0.26
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.22
Consensus pattern (36 bp):
TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
Found at i:1833212 original size:109 final size:109
Alignment explanation
Indices: 1832964--1833341 Score: 555
Period size: 109 Copynumber: 3.5 Consensus size: 109
1832954 AGCAAAGAAA
* **
1832964 TGAAGCAAATCAATATAAGCCTTCACGGAAGAGTAGT-AAAGCAAATCAATCTAAGCCTTCATTG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGTGAAA-CAAATCAATCTAAGCCTTCACGG
* * * * *
1833028 AAGAATAGCGAAGCAAACCAA-TCTAATCCTTCACGGAAGAGTAG
65 AAGAGTAGTGAAGCAAATCAATTTTAAGCCTTCACGGAAGAGTAG
* *
1833072 TGAAGCAAATCAATGTAAGCCTTCACAGAAGAGTAGTGAAACAAATCAATCTAAGCCTTCACGGA
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGTGAAACAAATCAATCTAAGCCTTCACGGA
*
1833137 AGAGTAGTGAAGCAAATCAATTTTAAGCCTTCATGGAAGAGTAG
66 AGAGTAGTGAAGCAAATCAATTTTAAGCCTTCACGGAAGAGTAG
* * **
1833181 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCAATTTAAGTATTCACGGA
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGTGAAACAAATCAATCTAAGCCTTCACGGA
* *
1833246 AGAGTAGTGAAGCAATTCAATCTTAAGCCTTCACGGAAGAGTAG
66 AGAGTAGTGAAGCAAATCAATTTTAAGCCTTCACGGAAGAGTAG
*
1833290 TGAAGCAAATCAATCTTAAGCCTTCA-GGAAGAGTAGGGAAACAAATCAATCT
1 TGAAGCAAATCAATC-TAAGCCTTCACGGAAGAGTAGTGAAACAAATCAATCT
1833342 CGAGTCTTAT
Statistics
Matches: 245, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
108 74 0.30
109 161 0.66
110 10 0.04
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.22
Consensus pattern (109 bp):
TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGTGAAACAAATCAATCTAAGCCTTCACGGA
AGAGTAGTGAAGCAAATCAATTTTAAGCCTTCACGGAAGAGTAG
Found at i:1833427 original size:55 final size:55
Alignment explanation
Indices: 1833339--1833546 Score: 225
Period size: 55 Copynumber: 3.9 Consensus size: 55
1833329 AACAAATCAA
* * *
1833339 TCTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATC
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCAAAGATC
* *
1833394 TCTCGAGTCTTATCTCCCTGAAAGAATAATGGAGCAGATTCGTCTTCC------C
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCAAAGATC
* * * * * * * *
1833443 T-TGGA-TCTTATCTCCCTAAAAGAAGAGTGGAGTAGATACATTTTACAAAGATT
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCAAAGATC
* *
1833496 TCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCATATTCGTCTTCCAAA
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCAAA
1833547 ATAGATCTGA
Statistics
Matches: 121, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
47 33 0.27
48 3 0.02
49 2 0.02
53 1 0.01
54 3 0.02
55 79 0.65
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (55 bp):
TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCAAAGATC
Found at i:1833522 original size:102 final size:102
Alignment explanation
Indices: 1833346--1833543 Score: 315
Period size: 102 Copynumber: 1.9 Consensus size: 102
1833336 CAATCTCGAG
* * * * *
1833346 TCTTATCTCCTTGAAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATCTCTCGAGTCTTATCTCC
1 TCTTATCTCCCTAAAAGAAGAGTGGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCC
1833411 CTGAAAGAATAATGGAGCAGATTCGTCTTCCCTTGGA
66 CTGAAAGAATAATGGAGCAGATTCGTCTTCCCTTGGA
* *
1833448 TCTTATCTCCCTAAAAGAAGAGTGGAGTAGATACATTTTACAAAGATTTCTCGAGTCTTATCTCC
1 TCTTATCTCCCTAAAAGAAGAGTGGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCC
* *
1833513 CTGAAAGAATAGTGGAGCATATTCGTCTTCC
66 CTGAAAGAATAATGGAGCAGATTCGTCTTCC
1833544 AAAATAGATC
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 87 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (102 bp):
TCTTATCTCCCTAAAAGAAGAGTGGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCC
CTGAAAGAATAATGGAGCAGATTCGTCTTCCCTTGGA
Found at i:1833571 original size:102 final size:102
Alignment explanation
Indices: 1833359--1833571 Score: 270
Period size: 102 Copynumber: 2.1 Consensus size: 102
1833349 TATCTCCTTG
* * *
1833359 AAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAAT
1 AAAGAAGAGTGGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAAT
** * * *
1833424 GGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCCTA
66 GGAGCAGATTCGTCTTCCAATAGATCTAATCACCCTA
* * *
1833461 AAAGAAGAGTGGAGTAGATACATTTTACAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGT
1 AAAGAAGAGTGGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAAT
*
1833526 GGAGCATATTCGTCTTCCAAAATAGATCTGAAT-ACCC-A
66 GGAGCAGATTCGTCTTCC--AATAGATCT-AATCACCCTA
1833564 AAA-AAGAG
1 AAAGAAGAG
1833572 GCACAAATCA
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
102 81 0.84
103 4 0.04
104 9 0.09
105 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (102 bp):
AAAGAAGAGTGGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAAT
GGAGCAGATTCGTCTTCCAATAGATCTAATCACCCTA
Found at i:1833737 original size:3 final size:3
Alignment explanation
Indices: 1833729--1833796 Score: 129
Period size: 3 Copynumber: 23.0 Consensus size: 3
1833719 TTTGTCCCGT
1833729 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1833776 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
1833797 ATAATTACAA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1837553 original size:7 final size:7
Alignment explanation
Indices: 1837538--1837595 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 7
1837528 TTTAAAATCG
1837538 TATTTTT
1 TATTTTT
*
1837545 TATTATT
1 TATTTTT
1837552 TACTTTAATT
1 TA-TTT--TT
*
1837562 TAATTTT
1 TATTTTT
1837569 TATTTTT
1 TATTTTT
1837576 TATTTTT
1 TATTTTT
*
1837583 TAATTTGT
1 T-ATTTTT
1837591 TATTT
1 TATTT
1837596 CATATAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 28 0.67
8 8 0.19
9 2 0.05
10 4 0.10
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (7 bp):
TATTTTT
Found at i:1838787 original size:12 final size:10
Alignment explanation
Indices: 1838756--1838789 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
1838746 ATAAATAAAT
1838756 AAAATGCAAAA
1 AAAATG-AAAA
1838767 AAAATGAAAA
1 AAAATGAAAA
1838777 AAAATGAGAAA
1 AAAATGA-AAA
1838788 AA
1 AA
1838790 TGAGGGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 11 0.50
11 11 0.50
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (10 bp):
AAAATGAAAA
Found at i:1838929 original size:12 final size:10
Alignment explanation
Indices: 1838898--1838931 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
1838888 ATAAATAAAT
1838898 AAAATGCAAAA
1 AAAATG-AAAA
1838909 AAAATGAAAA
1 AAAATGAAAA
1838919 AAAATGAGAAA
1 AAAATGA-AAA
1838930 AA
1 AA
1838932 TGAGGGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 11 0.50
11 11 0.50
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (10 bp):
AAAATGAAAA
Found at i:1839044 original size:142 final size:142
Alignment explanation
Indices: 1838742--1839026 Score: 570
Period size: 142 Copynumber: 2.0 Consensus size: 142
1838732 ATAATGAAAC
1838742 AAAGATAAATAAATAAAATGCAAAAAAAATGAAAAAAAATGAGAAAAATGAGGGGAAAGAGAAAA
1 AAAGATAAATAAATAAAATGCAAAAAAAATGAAAAAAAATGAGAAAAATGAGGGGAAAGAGAAAA
1838807 AAAAGAAGAAATATATGTATACATACATTAACTTGTAGACTATAAAGATATTAAGAAATAAAATG
66 AAAAGAAGAAATATATGTATACATACATTAACTTGTAGACTATAAAGATATTAAGAAATAAAATG
1838872 GTAGATATATAT
131 GTAGATATATAT
1838884 AAAGATAAATAAATAAAATGCAAAAAAAATGAAAAAAAATGAGAAAAATGAGGGGAAAGAGAAAA
1 AAAGATAAATAAATAAAATGCAAAAAAAATGAAAAAAAATGAGAAAAATGAGGGGAAAGAGAAAA
1838949 AAAAGAAGAAATATATGTATACATACATTAACTTGTAGACTATAAAGATATTAAGAAATAAAATG
66 AAAAGAAGAAATATATGTATACATACATTAACTTGTAGACTATAAAGATATTAAGAAATAAAATG
1839014 GTAGATATATAT
131 GTAGATATATAT
1839026 A
1 A
1839027 TAATATATAT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 143 1.00
ACGTcount: A:0.60, C:0.04, G:0.15, T:0.21
Consensus pattern (142 bp):
AAAGATAAATAAATAAAATGCAAAAAAAATGAAAAAAAATGAGAAAAATGAGGGGAAAGAGAAAA
AAAAGAAGAAATATATGTATACATACATTAACTTGTAGACTATAAAGATATTAAGAAATAAAATG
GTAGATATATAT
Found at i:1839074 original size:2 final size:2
Alignment explanation
Indices: 1839069--1839118 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
1839059 AAGTAAAAAA
1839069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1839111 AT A- AT AT A
1 AT AT AT AT A
1839119 ACATATAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1840343 original size:2 final size:2
Alignment explanation
Indices: 1840336--1840376 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
1840326 TATTTATACA
*
1840336 AT AT AT AT A- AT -T AT AT AT AT AT AT AT A- AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1840375 AT
1 AT
1840377 TTCGGTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1840351 original size:23 final size:25
Alignment explanation
Indices: 1840315--1840378 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 25
1840305 TAGTTTTAGA
*
1840315 AATA-ATAATAATATTTATACA-AT
1 AATATATAATTATATTTATACATAT
* *
1840338 -ATATATAATTATATATATATATAT
1 AATATATAATTATATTTATACATAT
*
1840362 AATATATAAATATATTT
1 AATATATAATTATATTT
1840379 CGGTTGTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 3 0.09
23 14 0.42
24 2 0.06
25 14 0.42
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AATATATAATTATATTTATACATAT
Found at i:1840352 original size:10 final size:9
Alignment explanation
Indices: 1840330--1840376 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
1840320 TAATAATATT
*
1840330 TATACAATA
1 TATATAATA
1840339 TATATAAT-
1 TATATAATA
1840347 TATATATATA
1 TATATA-ATA
1840357 TATATAATA
1 TATATAATA
1840366 TATA-AATA
1 TATATAATA
1840374 TAT
1 TAT
1840377 TTCGGTTGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
8 13 0.37
9 16 0.46
10 6 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (9 bp):
TATATAATA
Found at i:1841115 original size:106 final size:103
Alignment explanation
Indices: 1840833--1841355 Score: 561
Period size: 99 Copynumber: 5.1 Consensus size: 103
1840823 TGAAATCCTG
* * * * * *
1840833 GTGAAGTTGAAATTGGTTCTG-GACTGGGAAATTGTTTGTTGACAGTCAATTGCCCCTTCGCCGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGG-AA-T-TTTGTTGACAGTCAGTCGCCCCTTCGCTGT
*
1840897 GAAGTTGAGCTTGTGCTGTCTTGAGACCAATACCCTTCGTT
63 GAAGTTGAGCTTGTGCTGTCTTGAGTCCAATACCCTTCGTT
* * * * *
1840938 GTGAAGTTGAAATTGACTCTG-AA-T-GAAATTTTATTGACAATCAGCCGCCCCTTCG-TCGTGA
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTGTTGACAGTCAGTCGCCCCTTCGCT-GTGA
* * *
1840999 AGTTGAGCTTGTGTTGTCTTTG-GTCCAATATCCTTCGCT
65 AGTTGAGCTTGTGCTGTC-TTGAGTCCAATACCCTTCGTT
* * *
1841038 GAGAAGTTGAAATTGGCACTGAAATTGGGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAA--T-TTTGTTGACAGTCAGTCGCCCCTTCGCTGT
* *
1841103 GAAGTTGAGCTTGTGTTGTCTTGAGTCCAATACCCTTCATT
63 GAAGTTGAGCTTGTGCTGTCTTGAGTCCAATACCCTTCGTT
* * *
1841144 GTGAATTTAAAATTGGCTCTGAAATTGGGAA----GTTGACAGTCAGTCGCCCTTTCGCTGTGAA
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAA
* * *
1841205 GTTGAGCTTGTGCTGTCTTGAGTCTAATATCCTTTGTT
66 GTTGAGCTTGTGCTGTCTTGAGTCCAATACCCTTCGTT
* *
1841243 GTGAAGTTGAAATTGGCTTTGAAATT-GGAA---AGTTGACAGTCAGTCGCCCCTTCGCTGTGAA
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAA
* * * *
1841304 GTTGAGCTTGTGCTGTCTTGTGTGCATGATTCCCTTCGTC
66 GTTGAGCTTGTGCTGTCTTGAGTCCA--ATACCCTTCGTT
*
1841344 ATGAAGTTGAAA
1 GTGAAGTTGAAA
1841356 CAGCGGGTTG
Statistics
Matches: 359, Mismatches: 46, Indels: 30
0.83 0.11 0.07
Matches are distributed among these distances:
98 4 0.01
99 136 0.38
100 74 0.21
101 25 0.07
102 3 0.01
103 4 0.01
104 1 0.00
105 24 0.07
106 87 0.24
107 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (103 bp):
GTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAA
GTTGAGCTTGTGCTGTCTTGAGTCCAATACCCTTCGTT
Found at i:1842436 original size:15 final size:15
Alignment explanation
Indices: 1842416--1842466 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
1842406 CCTTATATTC
*
1842416 TTTTCTTTTTCTTGT
1 TTTTCTTTTTCTTCT
1842431 TTTTCTCTTTT-TTCT
1 TTTTCT-TTTTCTTCT
* *
1842446 CTTTTCCTTTTCTTTT
1 -TTTTCTTTTTCTTCT
1842462 TTTTC
1 TTTTC
1842467 AATTTAGGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTCTTTTTCTTCT
Found at i:1846338 original size:36 final size:36
Alignment explanation
Indices: 1846289--1846667 Score: 569
Period size: 36 Copynumber: 10.4 Consensus size: 36
1846279 AGCAAAGCAA
1846289 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
* ** *
1846325 TAAAGCAAATCAATCTAAGCCTTCATTGAAGAATAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
** *
1846361 TGAAGCAACCCAATCTAAGCCTTCACAGAAGAGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
* * *
1846397 TGAAGCAAATCAATGTAAACCTTCACAGAAGAGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
*
1846433 TGAAACAAATCAATCTAAGCCTTCACGGAAGAGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
1846469 TGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
1 TGAAGCAAATCAATC-TAAGCCTTCACGGAAGAGTAG
*
1846506 TGAAGCAAATCAATCTAAGCCTTCACGGAAGTGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
* *
1846542 TGAAGCAAATCAATTTAAGCATTCACGGAAGAGTAG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
*
1846578 TGAAGCAATTCAATCTTAAGCCTTCACGGAAGAGTAG
1 TGAAGCAAATCAATC-TAAGCCTTCACGGAAGAGTAG
*
1846615 TGAAGCAAATCAATCTTAAGCCTTCATGGAAGAGTAG
1 TGAAGCAAATCAATC-TAAGCCTTCACGGAAGAGTAG
* *
1846652 GGAAACAAATCAATCT
1 TGAAGCAAATCAATCT
1846668 CGAGTCTTAT
Statistics
Matches: 311, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
36 207 0.67
37 104 0.33
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (36 bp):
TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAG
Found at i:1846542 original size:109 final size:109
Alignment explanation
Indices: 1846289--1846667 Score: 582
Period size: 109 Copynumber: 3.5 Consensus size: 109
1846279 AGCAAAGCAA
**
1846289 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGT-AAAGCAAATCAATCTAAGCCTTCATTG
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGTGAAA-CAAATCAATCTAAGCCTTCACGG
* ** *
1846353 AAGAATAGTGAAGCAACCCAATC-TAAGCCTTCACAGAAGAGTAG
65 AAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
* * *
1846397 TGAAGCAAATCAATGTAAACCTTCACAGAAGAGTAGTGAAACAAATCAATCTAAGCCTTCACGGA
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGTGAAACAAATCAATCTAAGCCTTCACGGA
1846462 AGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
66 AGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
* * * *
1846506 TGAAGCAAATCAATCTAAGCCTTCACGGAAGTGTAGTGAAGCAAATCAATTTAAGCATTCACGGA
1 TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGTGAAACAAATCAATCTAAGCCTTCACGGA
*
1846571 AGAGTAGTGAAGCAATTCAATCTTAAGCCTTCACGGAAGAGTAG
66 AGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
* *
1846615 TGAAGCAAATCAATCTTAAGCCTTCATGGAAGAGTAGGGAAACAAATCAATCT
1 TGAAGCAAATCAATC-TAAGCCTTCACGGAAGAGTAGTGAAACAAATCAATCT
1846668 CGAGTCTTAT
Statistics
Matches: 246, Mismatches: 22, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
108 75 0.30
109 139 0.57
110 32 0.13
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (109 bp):
TGAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGTGAAACAAATCAATCTAAGCCTTCACGGA
AGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
Found at i:1846751 original size:55 final size:55
Alignment explanation
Indices: 1846665--1846872 Score: 207
Period size: 55 Copynumber: 3.9 Consensus size: 55
1846655 AACAAATCAA
* *
1846665 TCTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAGATTCGTTTTCCAAAGATC
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCAAAGATC
*
1846720 TCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCGTCTTCC------C
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCAAAGATC
* * * * * * * * * *
1846769 T-TGGA-TCTTATATCCCTAAAAGAAGAGTAGAGTAGATACATTTTACAAAGATT
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCAAAGATC
* * * *
1846822 TCTCGAGTCTTATTTCTCTGAAAGAATAATGGAGCAGATTCGTCTTCCAAA
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCAAA
1846873 ATAGATCTGA
Statistics
Matches: 119, Mismatches: 26, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
47 32 0.27
48 3 0.03
49 2 0.02
53 1 0.01
54 3 0.03
55 78 0.66
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (55 bp):
TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCAAAGATC
Found at i:1846848 original size:102 final size:102
Alignment explanation
Indices: 1846685--1846869 Score: 289
Period size: 102 Copynumber: 1.8 Consensus size: 102
1846675 TATCTCCTTG
* * * * *
1846685 AAAGAAGAGTGGAGCAGATTCGTTTTCCAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAGT
1 AAAGAAGAGTAGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAAT
1846750 GGAGCAGATTCGTCTTCCCTTGGATCTTATATCCCTA
66 GGAGCAGATTCGTCTTCCCTTGGATCTTATATCCCTA
* * * *
1846787 AAAGAAGAGTAGAGTAGATACATTTTACAAAGATTTCTCGAGTCTTATTTCTCTGAAAGAATAAT
1 AAAGAAGAGTAGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAAT
1846852 GGAGCAGATTCGTCTTCC
66 GGAGCAGATTCGTCTTCC
1846870 AAAATAGATC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 74 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (102 bp):
AAAGAAGAGTAGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAAT
GGAGCAGATTCGTCTTCCCTTGGATCTTATATCCCTA
Found at i:1846897 original size:102 final size:102
Alignment explanation
Indices: 1846685--1846897 Score: 261
Period size: 102 Copynumber: 2.1 Consensus size: 102
1846675 TATCTCCTTG
* * * * *
1846685 AAAGAAGAGTGGAGCAGATTCGTTTTCCAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAGT
1 AAAGAAGAGTAGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAAT
** * *
1846750 GGAGCAGATTCGTCTTCCCTTGGATCTTATATCCCTA
66 GGAGCAGATTCGTCTTCCAATAGATCTAATATCCCTA
* * * *
1846787 AAAGAAGAGTAGAGTAGATACATTTTACAAAGATTTCTCGAGTCTTATTTCTCTGAAAGAATAAT
1 AAAGAAGAGTAGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAAT
1846852 GGAGCAGATTCGTCTTCCAAAATAGATCTGAATA-CCC-A
66 GGAGCAGATTCGTCTTCC--AATAGATCT-AATATCCCTA
1846890 AAA-AAGAG
1 AAAGAAGAG
1846898 GCACAAATCA
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
102 79 0.83
103 4 0.04
104 9 0.09
105 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (102 bp):
AAAGAAGAGTAGAGCAGATACATTTTACAAAGATCTCTCGAGTCTTATCTCCCTGAAAGAATAAT
GGAGCAGATTCGTCTTCCAATAGATCTAATATCCCTA
Found at i:1847064 original size:3 final size:3
Alignment explanation
Indices: 1847056--1847165 Score: 213
Period size: 3 Copynumber: 37.0 Consensus size: 3
1847046 TTTATCCCGT
1847056 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1847103 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1847151 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
1847166 AATAATTACA
Statistics
Matches: 106, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 104 0.98
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1848179 original size:15 final size:15
Alignment explanation
Indices: 1848159--1848201 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 15
1848149 TTTTTATCTT
1848159 TTAAAATTATTTTTA
1 TTAAAATTATTTTTA
1848174 TTAAAAATTA-TTTTA
1 TT-AAAATTATTTTTA
1848189 --AAAATTATTTTTA
1 TTAAAATTATTTTTA
1848202 GATATTCGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.27
13 5 0.19
15 7 0.27
16 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAAAATTATTTTTA
Found at i:1848200 original size:13 final size:13
Alignment explanation
Indices: 1848152--1848201 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 13
1848142 ATCAAATTTT
1848152 TTATCTTTT-AAAA
1 TTAT-TTTTAAAAA
1848165 TTATTTTTATTAAAAA
1 TTA--TTT-TTAAAAA
1848181 TTA-TTTTAAAAA
1 TTATTTTTAAAAA
1848193 TTATTTTTA
1 TTATTTTTA
1848202 GATATTCGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 10 0.31
13 10 0.31
14 2 0.06
15 3 0.09
16 7 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATTTTTAAAAA
Found at i:1854517 original size:14 final size:15
Alignment explanation
Indices: 1854421--1854523 Score: 100
Period size: 15 Copynumber: 6.5 Consensus size: 15
1854411 TAATGAGGTT
1854421 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
1854436 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
1854451 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
1854466 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
1854485 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
1854503 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
1854517 ATTTATT
1 ATTTATT
1854524 AGTATGAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
14 12 0.16
15 41 0.56
16 4 0.05
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 4 0.05
22 6 0.08
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:1854542 original size:22 final size:22
Alignment explanation
Indices: 1854526--1854568 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1854516 AATTTATTAG
1854526 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
1854548 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
1854569 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:1854568 original size:54 final size:54
Alignment explanation
Indices: 1854503--1855209 Score: 815
Period size: 54 Copynumber: 13.1 Consensus size: 54
1854493 TTTTAAAATA
*
1854503 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1854557 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1854611 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1854665 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1854719 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1854773 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * **
1854827 ATTTA--TT--AT--TGTAGTT-GTATGAATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * *
1854876 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTT-AAATA---ATTT
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *
1854925 A-TTAGTATGAATTGATTTATTTTAAAATATTGATTGATTTATTTTAAAATATGGATTG
1 ATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAATATGGATTG
* *
1854983 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * **
1855033 A-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGCATGGATTG
1 ATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTATT-TT-AAAAT--ATGGATTG
1855095 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1855149 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1855203 ATTTATT
1 ATTTATT
1855210 ATTGTAGTTG
Statistics
Matches: 567, Mismatches: 50, Indels: 72
0.82 0.07 0.10
Matches are distributed among these distances:
47 5 0.01
48 28 0.05
49 15 0.03
50 22 0.04
51 1 0.00
52 4 0.01
53 7 0.01
54 413 0.73
55 10 0.02
56 4 0.01
57 4 0.01
58 31 0.05
59 4 0.01
60 2 0.00
62 14 0.02
63 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:1854605 original size:22 final size:22
Alignment explanation
Indices: 1854580--1854622 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1854570 AATTTATTAG
1854580 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1854602 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1854623 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1854659 original size:22 final size:22
Alignment explanation
Indices: 1854634--1854676 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1854624 AATTTATTAG
1854634 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1854656 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1854677 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1854713 original size:22 final size:22
Alignment explanation
Indices: 1854688--1854730 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1854678 AATTTATTAG
1854688 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
1854710 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
1854731 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:1854767 original size:22 final size:22
Alignment explanation
Indices: 1854742--1854784 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1854732 AATTTATTAG
1854742 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1854764 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1854785 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1854885 original size:134 final size:130
Alignment explanation
Indices: 1854688--1855026 Score: 579
Period size: 134 Copynumber: 2.6 Consensus size: 130
1854678 AATTTATTAG
*
1854688 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1854753 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
66 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
*** *
1854818 TATGGATTGATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1854883 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
62 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
1854948 AAAA
127 AAAA
* *
1854952 TATTGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1855017 TTATTTTAAA
66 TTATTTTAAA
1855027 TAATTTATTA
Statistics
Matches: 194, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
130 64 0.33
131 3 0.02
132 4 0.02
133 3 0.02
134 120 0.62
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (130 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
Found at i:1854901 original size:22 final size:22
Alignment explanation
Indices: 1854876--1854918 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1854866 AATTTATTAG
1854876 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1854898 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1854919 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1854960 original size:22 final size:22
Alignment explanation
Indices: 1854930--1854994 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
1854920 AATTTATTAG
*
1854930 TATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
1854952 TATTGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1854974 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1854995 TAATTTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1855002 original size:14 final size:14
Alignment explanation
Indices: 1854983--1855035 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
1854973 ATATGGATTG
1854983 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
1854997 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
1855015 ATTTATTTTAAATA
1 ATTTATTTTAAATA
1855029 ATTTATT
1 ATTTATT
1855036 AGTATGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 16 0.52
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.29
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:1855020 original size:18 final size:18
Alignment explanation
Indices: 1854997--1855053 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
1854987 ATTTTAAATA
1854997 ATTTATTAGTATAGATTG
1 ATTTATTAGTATAGATTG
* *
1855015 ATTTATT--T-TA-AATA
1 ATTTATTAGTATAGATTG
1855029 ATTTATTAGTAT-GAATTG
1 ATTTATTAGTATAG-ATTG
1855047 ATTTATT
1 ATTTATT
1855054 TTAAAATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
14 9 0.30
15 2 0.07
16 2 0.07
17 1 0.03
18 16 0.53
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATAGATTG
Found at i:1855128 original size:32 final size:32
Alignment explanation
Indices: 1855087--1855193 Score: 144
Period size: 32 Copynumber: 3.7 Consensus size: 32
1855077 TTGTAGTTGC
1855087 ATGGATTGATTTATTTTAAATAATTTATTAGT
1 ATGGATTGATTTATTTTAAATAATTTATTAGT
1855119 ATGGATTGATTTA-TTT---TAA---A--A-T
1 ATGGATTGATTTATTTTAAATAATTTATTAGT
1855141 ATGGATTGATTTATTTTAAATAATTTATTAGT
1 ATGGATTGATTTATTTTAAATAATTTATTAGT
1855173 ATGGATTGATTTATTTTAAAT
1 ATGGATTGATTTATTTTAAAT
1855194 TATGGATTGA
Statistics
Matches: 65, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
22 14 0.22
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 35 0.54
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
ATGGATTGATTTATTTTAAATAATTTATTAGT
Found at i:1855143 original size:22 final size:22
Alignment explanation
Indices: 1855118--1855160 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1855108 AATTTATTAG
1855118 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1855140 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1855161 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1855156 original size:134 final size:134
Alignment explanation
Indices: 1855010--1855343 Score: 632
Period size: 134 Copynumber: 2.5 Consensus size: 134
1855000 TATTAGTATA
*
1855010 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1855075 TATTGTAGTTGCATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
66 TATTGTAGTTGCATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1855140 TATG
131 TATG
*
1855144 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATTATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
* *
1855209 TATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
66 TATTGTAGTTGCATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1855274 TATG
131 TATG
1855278 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1855343 T
66 T
1855344 TTAAAGAGAA
Statistics
Matches: 195, Mismatches: 5, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
134 195 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (134 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
TATTGTAGTTGCATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
TATG
Found at i:1855197 original size:22 final size:23
Alignment explanation
Indices: 1855171--1855241 Score: 90
Period size: 22 Copynumber: 3.0 Consensus size: 23
1855161 TAATTTATTA
1855171 GTATGGATTGATTTATTTTAAAT
1 GTATGGATTGATTTATTTTAAAT
**
1855194 -TATGGATTGATTTATTATTGTAGTT
1 GTATGGATTGATTTA-T-TT-TAAAT
1855219 GTATGGATTGATTTATTTTAAAT
1 GTATGGATTGATTTATTTTAAAT
1855242 AATTTATTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 14 0.35
23 4 0.10
24 4 0.10
25 4 0.10
26 14 0.35
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (23 bp):
GTATGGATTGATTTATTTTAAAT
Found at i:1855224 original size:80 final size:80
Alignment explanation
Indices: 1855140--1855289 Score: 282
Period size: 80 Copynumber: 1.9 Consensus size: 80
1855130 TATTTTAAAA
*
1855140 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATTATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1855205 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
1855220 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1855285 TTATT
66 TTATT
1855290 TTAAATAATT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:1855277 original size:22 final size:22
Alignment explanation
Indices: 1855252--1855294 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1855242 AATTTATTTG
1855252 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1855274 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1855295 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1855291 original size:54 final size:54
Alignment explanation
Indices: 1854844--1855348 Score: 377
Period size: 54 Copynumber: 9.4 Consensus size: 54
1854834 ATTGTAGTTG
* *
1854844 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
* *
1854898 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
* * * * ** * * *
1854952 TATTGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA--TT--AG
1 TATGGATTGATTTATTTT-AAATA---ATTTATTTGTATGGATTGATTTATTTTAAAA
* * *
1855006 TATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
* * *
1855060 TATGGATTGATTTA--TT--AT--TGTAGTTGCATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTA-TTT---TAA---A--A
* * * ** * * *
1855117 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA--TT--AG
1 -TATGGATTGATTTATTTT-AAATA---ATTTATTTGTATGGATTGATTTATTTTAAAA
* * * * ***
1855172 TATGGATTGATTTATTTT--A-AA-TTA--TGGATTGATTTA-TTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTA-AAA
1855220 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
*
1855274 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
1855328 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1855349 GAGAAAATAA
Statistics
Matches: 357, Mismatches: 54, Indels: 80
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.01
44 6 0.02
45 1 0.00
46 2 0.01
47 1 0.00
48 36 0.10
49 3 0.01
50 20 0.06
51 3 0.01
52 10 0.03
53 5 0.01
54 202 0.57
55 13 0.04
56 2 0.01
57 2 0.01
58 30 0.08
60 2 0.01
62 1 0.00
63 2 0.01
65 1 0.00
68 12 0.03
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
Found at i:1855331 original size:22 final size:22
Alignment explanation
Indices: 1855306--1855348 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1855296 AATTTATTAG
1855306 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1855328 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1855349 GAGAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1855335 original size:242 final size:239
Alignment explanation
Indices: 1854503--1855348 Score: 1026
Period size: 242 Copynumber: 3.5 Consensus size: 239
1854493 TTTTAAAATA
1854503 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT-AAATATGGATTGATTTATTTTAA
1854568 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
65 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1854633 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
130 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
1854698 TTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
195 TTTATTTTAAAATATGGATTGATTTA---T---T-ATTTATT-GTATGGATTG
* * * * * * *
1854751 ATTTATTTTAAAATATGGATTGATTTA-TTTTAAATAATTTA--TT-AGTATGAATTGATTTATT
1 ATTTATTTT-AAATA---ATTTA-TTAGTATGAATTGATTTATTTTAAATATGGATTGATTTATT
* * * * *** *
1854812 TT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATGAATTGATTTATTTTAAATAATT
61 TTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATT
1854870 TATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGA
125 TATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGA
* ***
1854935 ATTGATTTATTTTAAAATATTGATTGATTTA-T-TTTAAAATATGGATTG
190 ATTGATTTATTTTAAAATATGGATTGATTTATTATTTATTGTATGGATTG
* * *
1854983 ATTTATTTTAAATAATTTATTAGTAT-AGATTGATTTATTTTAAATA---ATTTA-TTAGTATGA
1 ATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAATATGGATTGATTTA-TTTTA
* * * * **
1855043 ATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGCATGGATTGATTTATTTTAAAT
64 AATAATTTA--TT--AGTATGGATTGATTTATT-TT-AAAAT--ATGGATTGATTTATTTTAAAT
1855108 AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
121 AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
* *
1855173 ATGGATTGATTTATTTTAAATTATGGATTGATTTATTATTGTAGTTGTATGGATTG
186 ATGAATTGATTTATTTTAAAATATGGATTGATTTATTATT-TA-TTGTATGGATTG
* *
1855229 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT-AAATATGGATTGATTTATTTTAA
1855294 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
65 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
1855349 GAGAAAATAA
Statistics
Matches: 505, Mismatches: 56, Indels: 80
0.79 0.09 0.12
Matches are distributed among these distances:
227 7 0.01
228 19 0.04
229 1 0.00
230 3 0.01
231 8 0.02
232 20 0.04
233 4 0.01
235 2 0.00
238 7 0.01
239 5 0.01
240 2 0.00
241 7 0.01
242 265 0.52
243 2 0.00
244 6 0.01
245 4 0.01
246 66 0.13
247 7 0.01
248 29 0.06
249 5 0.01
250 16 0.03
251 3 0.01
252 14 0.03
253 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (239 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATATGGATTGATTTATTTTAAA
TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
TTATTTTAAAATATGGATTGATTTATTATTTATTGTATGGATTG
Found at i:1855546 original size:21 final size:21
Alignment explanation
Indices: 1855494--1855546 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
1855484 GTTTCCAGAT
1855494 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTGGACTA
*
1855515 TCGTAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTGGACTA
*
1855536 TCGCAATGCGA
1 TCGCAACGCGA
1855547 TAGTTGAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (21 bp):
TCGCAACGCGAACTTGGACTA
Found at i:1855566 original size:21 final size:21
Alignment explanation
Indices: 1855542--1855690 Score: 82
Period size: 21 Copynumber: 7.3 Consensus size: 21
1855532 ACTATCGCAA
1855542 TGCGATAGTTGAAGTTCGCGT
1 TGCGATAGTTGAAGTTCGCGT
* * *
1855563 TGCGAT-TTTCCAAATT--CGT
1 TGCGATAGTT-GAAGTTCGCGT
* *
1855582 TGCGATTGTCGAAGTTCGCGT
1 TGCGATAGTTGAAGTTCGCGT
* * *
1855603 TGCGAT-TTTCCAAATT--CGT
1 TGCGATAGTT-GAAGTTCGCGT
*
1855622 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTTGAAGTTCGCGT
* *
1855643 TGCGATTTA-TTCCAAATT--CGT
1 TGCGA--TAGTT-GAAGTTCGCGT
*
1855664 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTTGAAGTTCGCGT
1855685 TGCGAT
1 TGCGAT
1855691 TTTCCAAATT
Statistics
Matches: 93, Mismatches: 21, Indels: 28
0.65 0.15 0.20
Matches are distributed among these distances:
19 32 0.34
20 6 0.06
21 48 0.52
22 1 0.01
23 6 0.06
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (21 bp):
TGCGATAGTTGAAGTTCGCGT
Found at i:1855597 original size:40 final size:40
Alignment explanation
Indices: 1855542--1855709 Score: 300
Period size: 40 Copynumber: 4.2 Consensus size: 40
1855532 ACTATCGCAA
*
1855542 TGCGATAGTTGAAGTTCGCGTTGCGATTTTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGT
*
1855582 TGCGATTGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGT
1855622 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGT
1855664 TGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGT
1855704 TGCGAT
1 TGCGAT
1855710 TTATTCCAAA
Statistics
Matches: 123, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
40 81 0.66
41 4 0.03
42 38 0.31
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (40 bp):
TGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGT
Found at i:1855665 original size:61 final size:60
Alignment explanation
Indices: 1855542--1855822 Score: 205
Period size: 61 Copynumber: 4.6 Consensus size: 60
1855532 ACTATCGCAA
** * ** * * *
1855542 TGCGATAGTTGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGA-TT-GTCGAAGTTCGCGT
1 TGCGATAGTCCAAATTC-CGTTGCGATAGTCCAAATTCGTTGCGATTTATTCCAAATT--CGT
** * *
1855603 TGCGATTTTCCAAATT-CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCCAAATTCCGTTGCGATAGTCCAAATT--CGTTGCGATTTATTCCAAATTCGT
* * **
1855664 TGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCCAAATTC-CGTTGCGATAGTCCAAATTCGTTGCGATTTATTCCAAATTCGT
* * * * *
1855725 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGA--TAGTCCAAGTTTGCGT
1 TGCGATAGTCCAAATTC-CGTTGCGA--TAGTCCAAATTCGTTGCGATTTATTCCAA-ATT-CGT
*
1855788 TGCGATTTATTCCAAATT-CGTTGCGATAGTCCAAA
1 TGCGA--TAGTCCAAATTCCGTTGCGATAGTCCAAA
1855823 ATCGCAACGA
Statistics
Matches: 181, Mismatches: 27, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
59 15 0.08
61 99 0.55
62 4 0.02
63 55 0.30
65 8 0.04
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (60 bp):
TGCGATAGTCCAAATTCCGTTGCGATAGTCCAAATTCGTTGCGATTTATTCCAAATTCGT
Found at i:1855680 original size:82 final size:80
Alignment explanation
Indices: 1855542--1855709 Score: 300
Period size: 82 Copynumber: 2.1 Consensus size: 80
1855532 ACTATCGCAA
* *
1855542 TGCGATAGTTGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATTGTCGAAGTTCGCGTTGCG
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCG
1855607 ATTTTCCAAATTCGT
66 ATTTTCCAAATTCGT
1855622 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTG
1 TGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTG
1855687 CGATTTTCCAAATTCGT
64 CGATTTTCCAAATTCGT
1855704 TGCGAT
1 TGCGAT
1855710 TTATTCCAAA
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
80 25 0.30
81 2 0.02
82 57 0.68
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (80 bp):
TGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCG
ATTTTCCAAATTCGT
Found at i:1855702 original size:21 final size:19
Alignment explanation
Indices: 1855560--1855814 Score: 186
Period size: 21 Copynumber: 12.5 Consensus size: 19
1855550 TTGAAGTTCG
1855560 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
* * *
1855579 CGTTGCGATTGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
1855598 CGCGTTGCGATTTTCCAAATT
1 --CGTTGCGATTTTCCAAATT
** * *
1855619 CGTTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
1855638 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGA-TT-TTCCAAATT
** * *
1855661 CGTTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
1855680 CGCGTTGCGATTTTCCAAATT
1 --CGTTGCGATTTTCCAAATT
1855701 CGTTGCGATTTATTCCAAATT
1 CGTTGCGA-TT-TTCCAAATT
** * *
1855722 CGTTGCGATAGTCGAAGTT
1 CGTTGCGATTTTCCAAATT
1855741 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGA-TT-TTCCAAATT
** *
1855764 CGTTGCGATAGTCCAAGTTT
1 CGTTGCGATTTTCCAA-ATT
1855784 GCGTTGCGATTTATTCCAAATT
1 -CGTTGCGA-TT-TTCCAAATT
1855806 CGTTGCGAT
1 CGTTGCGAT
1855815 AGTCCAAAAT
Statistics
Matches: 182, Mismatches: 36, Indels: 35
0.72 0.14 0.14
Matches are distributed among these distances:
19 56 0.31
20 8 0.04
21 96 0.53
22 5 0.03
23 17 0.09
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:1855728 original size:103 final size:104
Alignment explanation
Indices: 1855600--1855814 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 104
1855590 TCGAAGTTCG
1855600 CGTTGCGA-TTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
1 CGTTGCGATTTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
*
1855664 TGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
66 TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1855701 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 CGTTGCGATTT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
1855766 TTGCGATAGTCCAAGTTTGCGTTGCGATTTATTCCAAATT
65 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1855806 CGTTGCGAT
1 CGTTGCGAT
1855815 AGTCCAAAAT
Statistics
Matches: 108, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
101 8 0.07
102 2 0.02
103 78 0.72
104 2 0.02
105 18 0.17
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (104 bp):
CGTTGCGATTTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:1855751 original size:42 final size:42
Alignment explanation
Indices: 1855701--1855821 Score: 224
Period size: 42 Copynumber: 2.9 Consensus size: 42
1855691 TTTCCAAATT
*
1855701 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
*
1855743 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTTG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
1855785 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
1855822 AATCGCAACG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (42 bp):
CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
Found at i:1856397 original size:21 final size:21
Alignment explanation
Indices: 1856373--1856547 Score: 119
Period size: 21 Copynumber: 8.4 Consensus size: 21
1856363 AAATAAATCA
1856373 CAACGCGAACTTCGACTATCG
1 CAACGCGAACTTCGACTATCG
* *
1856394 CAA--CGAACTTGGAATAAATCG
1 CAACGCGAACTTCGACT--ATCG
* * *
1856415 CAACGCGAAGTTCAACTATTG
1 CAACGCGAACTTCGACTATCG
* * *
1856436 CAA--CGAATTTGGAATAAATCG
1 CAACGCGAACTTCGACT--ATCG
1856457 CAACGCGAACTTCGACTATCG
1 CAACGCGAACTTCGACTATCG
* * * **
1856478 CAA--TGAATTTGGAAAATCG
1 CAACGCGAACTTCGACTATCG
*
1856497 CAACGCGAATTTCGACTATCG
1 CAACGCGAACTTCGACTATCG
*
1856518 CAACGCGAACTTGGACTATCG
1 CAACGCGAACTTCGACTATCG
* *
1856539 TAATGCGAA
1 CAACGCGAA
1856548 TATGTAAATC
Statistics
Matches: 116, Mismatches: 28, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
19 32 0.28
21 67 0.58
23 17 0.15
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (21 bp):
CAACGCGAACTTCGACTATCG
Found at i:1856410 original size:42 final size:42
Alignment explanation
Indices: 1856344--1856522 Score: 272
Period size: 42 Copynumber: 4.3 Consensus size: 42
1856334 TGCGATTTTG
* *
1856344 GACTATCGCAACGAATTTGAAATAAATCACAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
1856386 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAGTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
1856428 AACTATTGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
1856470 GACTATCGCAATGAATTTGG-A-AAATCGCAACGCGAATTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1856510 GACTATCGCAACG
1 GACTATCGCAACG
1856523 CGAACTTGGA
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 30 0.24
41 1 0.01
42 93 0.75
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:1856785 original size:32 final size:32
Alignment explanation
Indices: 1856747--1856827 Score: 153
Period size: 32 Copynumber: 2.5 Consensus size: 32
1856737 TTAAAATATA
1856747 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
*
1856779 GATTGATTTATTTTAAATAATTTATTTGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
1856811 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
1856828 ATATGGATTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (32 bp):
GATTGATTTATTTTAAATAATTTATTAGTATG
Found at i:1856858 original size:26 final size:25
Alignment explanation
Indices: 1856804--1856950 Score: 108
Period size: 26 Copynumber: 5.8 Consensus size: 25
1856794 AATAATTTAT
1856804 TTGTATGGATTGATTTA-T-TT-TA
1 TTGTATGGATTGATTTATTATTGTA
***
1856826 AAATATGGATTGATTTATTATTGTA
1 TTGTATGGATTGATTTATTATTGTA
*
1856851 GTTGTATGGATTGATTTATTTTAAATAATTTA
1 -TTGTATGGATTGATTTA--TT--AT--TGTA
1856883 TTAGTATGGATTGATTTA-T-TT-TA
1 TT-GTATGGATTGATTTATTATTGTA
***
1856906 AAATATGGATTGATTTATTATTGTA
1 TTGTATGGATTGATTTATTATTGTA
1856931 GTTGTATGGATTGATTTATT
1 -TTGTATGGATTGATTTATT
1856951 TTAAATAATT
Statistics
Matches: 97, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
22 28 0.29
23 4 0.04
24 5 0.05
25 4 0.04
26 31 0.32
28 2 0.02
29 1 0.01
30 2 0.02
31 2 0.02
32 18 0.19
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (25 bp):
TTGTATGGATTGATTTATTATTGTA
Found at i:1856878 original size:80 final size:80
Alignment explanation
Indices: 1856774--1857004 Score: 453
Period size: 80 Copynumber: 2.9 Consensus size: 80
1856764 TAATTTATTA
1856774 GTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGA
1856839 TTTATTATTGTAGTT
66 TTTATTATTGTAGTT
*
1856854 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGA
1856919 TTTATTATTGTAGTT
66 TTTATTATTGTAGTT
1856934 GTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGA
1856999 TTTATT
66 TTTATT
1857005 TTAAATAATT
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 149 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (80 bp):
GTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGA
TTTATTATTGTAGTT
Found at i:1856901 original size:18 final size:18
Alignment explanation
Indices: 1856878--1856925 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
1856868 ATTTTAAATA
*
1856878 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
1856896 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
1856918 ATTTATTA
1 ATTTATTA
1856926 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:1856979 original size:18 final size:18
Alignment explanation
Indices: 1856932--1856983 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
1856922 ATTATTGTAG
1856932 TTGTATGGATTGATTTAT
1 TTGTATGGATTGATTTAT
* *
1856950 TT-TA---AATAATTTAT
1 TTGTATGGATTGATTTAT
1856964 TTGTATGGATTGATTTAT
1 TTGTATGGATTGATTTAT
1856982 TT
1 TT
1856984 TAAAATATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
14 10 0.38
15 2 0.08
17 2 0.08
18 12 0.46
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (18 bp):
TTGTATGGATTGATTTAT
Found at i:1856992 original size:22 final size:22
Alignment explanation
Indices: 1856967--1857009 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1856957 AATTTATTTG
1856967 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1856989 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1857010 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1857069 original size:31 final size:31
Alignment explanation
Indices: 1857034--1857092 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1857024 AGTTGTATGG
* *
1857034 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
1857065 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
1857093 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:1857662 original size:4 final size:4
Alignment explanation
Indices: 1857648--1857735 Score: 51
Period size: 4 Copynumber: 21.8 Consensus size: 4
1857638 AATATTAGAT
* *
1857648 AATA AAT- AATA AATA AAT- ATTA AATA AATCA AAGGA AA-A AATAA AATA
1 AATA AATA AATA AATA AATA AATA AATA AAT-A AA-TA AATA AAT-A AATA
* *
1857696 AA-A AATA AATCA AAGGA AAAA AATA AA-A AATTA AATA AAT
1 AATA AATA AAT-A AA-TA AATA AATA AATA AA-TA AATA AAT
1857736 CAAAGGGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
3 14 0.21
4 34 0.51
5 19 0.28
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:1857691 original size:17 final size:17
Alignment explanation
Indices: 1857669--1857722 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
1857659 AATAAATATT
1857669 AAATAAATCAAAGGAAA
1 AAATAAATCAAAGGAAA
*
1857686 AAAT--A--AAA-TAAA
1 AAATAAATCAAAGGAAA
1857698 AAATAAATCAAAGGAAAA
1 AAATAAATCAAAGG-AAA
1857716 AAATAAA
1 AAATAAA
1857723 AAATTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 1 0.03
15 1 0.03
16 3 0.10
17 4 0.14
18 10 0.34
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (17 bp):
AAATAAATCAAAGGAAA
Found at i:1857718 original size:25 final size:27
Alignment explanation
Indices: 1857669--1857731 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 27
1857659 AATAAATATT
1857669 AAATAAATCAAAGGAAAAAATAAAATAAA
1 AAATAAATCAAAGG--AAAATAAAATAAA
1857698 AAATAAATCAAAGG-AAA-AAAATAAA
1 AAATAAATCAAAGGAAAATAAAATAAA
1857723 AAATTAAAT
1 AAA-TAAAT
1857732 AAATCAAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
25 11 0.33
26 8 0.24
29 14 0.42
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (27 bp):
AAATAAATCAAAGGAAAATAAAATAAA
Found at i:1857719 original size:30 final size:29
Alignment explanation
Indices: 1857669--1857758 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 29
1857659 AATAAATATT
1857669 AAATAAATCAAAGGAAAAAATAAAATAAA
1 AAATAAATCAAAGGAAAAAATAAAATAAA
*
1857698 AAATAAATCAAAGGAAAAAAATAAAA-AATT
1 AAATAAATCAAAGG-AAAAAATAAAATAA-A
*
1857728 AAATAAATCAAAGGGAAAAAACAAAATAAA
1 AAATAAATCAAA-GGAAAAAATAAAATAAA
1857758 A
1 A
1857759 TAAAAATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
29 16 0.30
30 34 0.63
31 4 0.07
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.13
Consensus pattern (29 bp):
AAATAAATCAAAGGAAAAAATAAAATAAA
Found at i:1857793 original size:6 final size:6
Alignment explanation
Indices: 1857784--1857818 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1857774 TTAAAAGTAA
* *
1857784 AAAAAT AAAAAA AAAAAC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
1857819 ACATACTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:1857799 original size:12 final size:12
Alignment explanation
Indices: 1857782--1857819 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
1857772 TTTTAAAAGT
*
1857782 AAAAAAATAAAA
1 AAAAAAACAAAA
1857794 AAAAAAACAAAA
1 AAAAAAACAAAA
*
1857806 ACAAAAACAAAA
1 AAAAAAACAAAA
1857818 AA
1 AA
1857820 CATACTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:1858972 original size:9 final size:9
Alignment explanation
Indices: 1858960--1858990 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1858950 ATAAATAAGC
*
1858960 AATAATATA
1 AATAATAAA
1858969 AATAATAAA
1 AATAATAAA
1858978 AATAATAAA
1 AATAATAAA
1858987 AATA
1 AATA
1858991 TTATTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AATAATAAA
Found at i:1859095 original size:44 final size:40
Alignment explanation
Indices: 1859047--1859288 Score: 253
Period size: 38 Copynumber: 6.2 Consensus size: 40
1859037 TTTTAAAACC
*
1859047 ATATAT-TATATATTTTCAAAAT-GTTTTCAAAAACTATAT
1 ATATATATATATATTTTCAAAATAATTTTC-AAAACTATAT
* *
1859086 AT-TATATATATGTTTTCAAAAT-GTTTTCAAAACTATA-
1 ATATATATATATATTTTCAAAATAATTTTCAAAACTATAT
1859123 ATATATATATATA--TTCAAAAATAATTTTCAAAACTATAAT
1 ATATATATATATATTTTC-AAAATAATTTTCAAAACTAT-AT
*
1859163 ATATATATATATATATATTCAAAATTCATTTTCAAAAC--TAT
1 ATATATATATATAT-T-TTCAAAA-TAATTTTCAAAACTATAT
1859204 ATA-ATATATATATTTTCAAAAATAATTTTCAAAACTATAT
1 ATATATATATATATTTTC-AAAATAATTTTCAAAACTATAT
*
1859244 A-ATATATAT-T-TTTTCAAAA-AACGTTTTCATAACTATAT
1 ATATATATATATATTTTCAAAATAA--TTTTCAAAACTATAT
1859282 A-ATATAT
1 ATATATAT
1859289 TTTCAAAAAT
Statistics
Matches: 180, Mismatches: 6, Indels: 35
0.81 0.03 0.16
Matches are distributed among these distances:
36 5 0.03
37 11 0.06
38 75 0.42
39 31 0.17
40 33 0.18
41 5 0.03
42 1 0.01
43 4 0.02
44 15 0.08
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (40 bp):
ATATATATATATATTTTCAAAATAATTTTCAAAACTATAT
Found at i:1859234 original size:120 final size:115
Alignment explanation
Indices: 1859047--1859289 Score: 296
Period size: 120 Copynumber: 2.1 Consensus size: 115
1859037 TTTTAAAACC
* * * *
1859047 ATATATTATATATTTTCAAAATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAATGTTT
1 ATATATTATATATATTCAAAATATTTTCAAAAACTATATA-TATATATATATTTTCAAAATATTT
1859112 TCAAAACTATA-ATATATATATATATTCAAAAATA-ATTTTCAAAACTATAATA
65 TCAAAACTATATA-ATATATATATATTCAAAAA-ACATTTTCAAAACTAT-ATA
1859164 TATATATATATATATATTCAAAATTCATTTTC-AAAACTATATA-ATATATATATTTTCAAAAAT
1 -ATATAT-TATATATATTCAAAA-T-ATTTTCAAAAACTATATATATATATATATTTTC-AAAAT
* * * *
1859227 AATTTTCAAAACTATATAATATATATTTTTTCAAAAAACGTTTTCATAACTATATA
61 -ATTTTCAAAACTATATAATATATATATATTCAAAAAACATTTTCAAAACTATATA
1859283 ATATATT
1 ATATATT
1859290 TTCAAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
117 1 0.01
118 25 0.23
119 23 0.21
120 55 0.50
121 6 0.05
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (115 bp):
ATATATTATATATATTCAAAATATTTTCAAAAACTATATATATATATATATTTTCAAAATATTTT
CAAAACTATATAATATATATATATTCAAAAAACATTTTCAAAACTATATA
Found at i:1860261 original size:85 final size:85
Alignment explanation
Indices: 1860105--1860305 Score: 244
Period size: 85 Copynumber: 2.4 Consensus size: 85
1860095 CTATGTCATC
* * * * *
1860105 GAGCTGAATGGAATCGAACTCGACATTTTTTGTTGACATATAGCTTTTCTCGACTTAACTTATGC
1 GAGCTGAATGTAATCGAACTCGAAAGTTTTTGTTGACAGATAGCTTTTCTCGACATAACTTATGC
1860170 TATAAATTTGATATGCCCTT
66 TATAAATTTGATATGCCCTT
* * *
1860190 GAGCTGAATGTAATCGAACTCGAAAGTTTTTGTTTACAGATAG-TCTTTCTTGCCATAAGC-TAT
1 GAGCTGAATGTAATCGAACTCGAAAGTTTTTGTTGACAGATAGCT-TTTCTCGACATAA-CTTAT
* * *
1860253 GTTGTAAATTTGATATGTCCTT
64 GCTATAAATTTGATATGCCCTT
* * *
1860275 AAGCTGAATGTAATAGAACTCGAAGGTTTTT
1 GAGCTGAATGTAATCGAACTCGAAAGTTTTT
1860306 TGCTGGTAGA
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
84 1 0.01
85 98 0.98
86 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (85 bp):
GAGCTGAATGTAATCGAACTCGAAAGTTTTTGTTGACAGATAGCTTTTCTCGACATAACTTATGC
TATAAATTTGATATGCCCTT
Found at i:1865977 original size:17 final size:17
Alignment explanation
Indices: 1865955--1866006 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
1865945 AATAAATATT
1865955 AAATAAATCAATGGAAA
1 AAATAAATCAATGGAAA
1865972 AAAT-AA--AAT--AAA
1 AAATAAATCAATGGAAA
*
1865984 TAAATAAATCAAAGGAAA
1 -AAATAAATCAATGGAAA
1866002 AAATA
1 AAATA
1866007 TATTAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 12
0.68 0.02 0.29
Matches are distributed among these distances:
12 3 0.11
13 4 0.14
14 5 0.18
16 4 0.14
17 9 0.32
18 3 0.11
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.17
Consensus pattern (17 bp):
AAATAAATCAATGGAAA
Found at i:1865990 original size:30 final size:30
Alignment explanation
Indices: 1865954--1866045 Score: 111
Period size: 30 Copynumber: 3.1 Consensus size: 30
1865944 AAATAAATAT
*
1865954 TAAATAAATCAATGGAAAAAATAAAATAAA
1 TAAATAAATCAAAGGAAAAAATAAAATAAA
*
1865984 TAAATAAATCAAAGGAAAAAAT---AT-AT
1 TAAATAAATCAAAGGAAAAAATAAAATAAA
*
1866010 TAAATAAAACAAAGGGAAAAAATAAAATAAAA
1 TAAATAAATCAAA-GGAAAAAATAAAAT-AAA
1866042 TAAA
1 TAAA
1866046 AATGTTAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
26 13 0.25
27 11 0.21
30 23 0.44
32 5 0.10
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (30 bp):
TAAATAAATCAAAGGAAAAAATAAAATAAA
Found at i:1866089 original size:9 final size:8
Alignment explanation
Indices: 1866075--1866125 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
1866065 TAAAAGTAAT
1866075 AAAATAAA
1 AAAATAAA
1866083 AATAAT-AA
1 AA-AATAAA
* *
1866091 GAAGTAAA
1 AAAATAAA
1866099 AAAATAAA
1 AAAATAAA
1866107 ACAAATAAA
1 A-AAATAAA
1866116 AAAATTAAA
1 AAAA-TAAA
1866125 A
1 A
1866126 GGGAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
7 2 0.06
8 17 0.49
9 16 0.46
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (8 bp):
AAAATAAA
Found at i:1866115 original size:17 final size:17
Alignment explanation
Indices: 1866080--1866125 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
1866070 GTAATAAAAT
* *
1866080 AAAAATAATAAGAAGTAA
1 AAAAATAA-AACAAATAA
1866098 AAAAATAAAACAAATAA
1 AAAAATAAAACAAATAA
1866115 AAAAATTAAAA
1 AAAAA-TAAAA
1866126 GGGAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAAATAAAACAAATAA
Found at i:1867300 original size:23 final size:24
Alignment explanation
Indices: 1867269--1867317 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
1867259 TAAATAAGCA
1867269 ATAATATAAAAAATAA-AAAATAAT
1 ATAATAT-AAAAATAATAAAATAAT
*
1867293 ATAA-ATAATAATAATAAAATAAT
1 ATAATATAAAAATAATAAAATAAT
1867316 AT
1 AT
1867318 TATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 12 0.52
24 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
ATAATATAAAAATAATAAAATAAT
Found at i:1867306 original size:34 final size:33
Alignment explanation
Indices: 1867241--1867316 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 33
1867231 GACTTGAAAG
* *
1867241 AAAAAAATTAAAATTAAATAAATAAGCAATAAT
1 AAAAAAATAAAAAATAAATAAATAAGCAATAAT
*
1867274 ATAAAAAATAAAAAATAATATAAATAA-TAATAAT
1 A-AAAAAATAAAAAATAA-ATAAATAAGCAATAAT
*
1867308 AAAATAATA
1 AAAAAAATA
1867317 TTATTTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 8 0.22
34 21 0.57
35 8 0.22
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (33 bp):
AAAAAAATAAAAAATAAATAAATAAGCAATAAT
Found at i:1867442 original size:38 final size:37
Alignment explanation
Indices: 1867331--1867530 Score: 214
Period size: 38 Copynumber: 5.4 Consensus size: 37
1867321 TTAATATATA
* * *
1867331 TATATATATTATTTTTATTTTCCAAAATGTTTTTAAAAC
1 TATATATA-TATATATATTTT-CAAAATGTTTTCAAAAC
*
1867370 CATATAT-T-T-TATATTTTCAAAATGTTTTCAAAAAC
1 TATATATATATATATATTTTCAAAATGTTTTC-AAAAC
*
1867405 TATATTATATATATATATATTCAAAATGTTTTCAAAAC
1 TATA-TATATATATATATTTTCAAAATGTTTTCAAAAC
* *
1867443 TATA-ATAAATATATATTTTCAAAACTAATTTTCAAAAC
1 TATATATATATATATATTTTCAAAA-T-GTTTTCAAAAC
*
1867481 TATATA-ATATATATCTTTTCAAAAATCGTTTTCAAAAC
1 TATATATATATATATATTTTC-AAAAT-GTTTTCAAAAC
1867519 TATATA-ATATAT
1 TATATATATATAT
1867531 TTTCAAAAAC
Statistics
Matches: 140, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
34 11 0.08
35 15 0.11
36 22 0.16
37 3 0.02
38 59 0.42
39 30 0.21
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.46
Consensus pattern (37 bp):
TATATATATATATATATTTTCAAAATGTTTTCAAAAC
Found at i:1867475 original size:13 final size:13
Alignment explanation
Indices: 1867457--1867482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1867447 ATAAATATAT
1867457 ATTTTCAAAACTA
1 ATTTTCAAAACTA
1867470 ATTTTCAAAACTA
1 ATTTTCAAAACTA
1867483 TATAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTTCAAAACTA
Found at i:1867551 original size:76 final size:76
Alignment explanation
Indices: 1867353--1867538 Score: 219
Period size: 75 Copynumber: 2.5 Consensus size: 76
1867343 TTTTATTTTC
* * * * *
1867353 CAAAATGTTTTTAAAACCAT-ATATTTTATATTTTCAAAA-T-GTTTTCAAAAACTATATTATAT
1 CAAAATGTTTTCAAAACTATAATAATATATATTTTCAAAACTAATTTTCAAAAACTATATTATAT
1867415 ATATATATATT
66 ATATATATATT
1867426 CAAAATGTTTTCAAAACTATAATAAATATATATTTTCAAAACTAATTTTC-AAAACTATA-TA-A
1 CAAAATGTTTTCAAAACTATAAT-AATATATATTTTCAAAACTAATTTTCAAAAACTATATTATA
* *
1867488 TATATATCTTTT
65 TATATATATATT
1867500 CAAAAATCGTTTTCAAAACTAT-AT-A-ATATATTTTCAAAA
1 C-AAAAT-GTTTTCAAAACTATAATAATATATATTTTCAAAA
1867539 ACCGATTTTT
Statistics
Matches: 100, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
72 14 0.14
73 19 0.19
74 14 0.14
75 24 0.24
76 24 0.24
77 5 0.05
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.42
Consensus pattern (76 bp):
CAAAATGTTTTCAAAACTATAATAATATATATTTTCAAAACTAATTTTCAAAAACTATATTATAT
ATATATATATT
Found at i:1868402 original size:20 final size:19
Alignment explanation
Indices: 1868359--1868404 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
1868349 AAAAATGTAT
1868359 AATATATATAGTTTTTCAA
1 AATATATATAGTTTTTCAA
* *
1868378 TATATAGTATAGTTTTTGAA
1 AATATA-TATAGTTTTTCAA
1868398 AATATAT
1 AATATAT
1868405 TTTTGAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (19 bp):
AATATATATAGTTTTTCAA
Found at i:1868409 original size:14 final size:14
Alignment explanation
Indices: 1868385--1868418 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1868375 CAATATATAG
1868385 TATAGTTTTTGAAAA
1 TATA-TTTTTGAAAA
1868400 TATATTTTTGAAAA
1 TATATTTTTGAAAA
*
1868414 CATAT
1 TATAT
1868419 AATATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (14 bp):
TATATTTTTGAAAA
Found at i:1868482 original size:74 final size:73
Alignment explanation
Indices: 1868377--1868653 Score: 391
Period size: 74 Copynumber: 3.8 Consensus size: 73
1868367 TAGTTTTTCA
* * *
1868377 ATATATAGTATAGTTTTTGAAAATATATTTTTGAAAACATATAATATAAAGTTTTAAAATGATTT
1 ATATATAATATAGTTTTTGAAAATATATTTTTGAAAACATATAATATATAGTTTTAAAACGATTT
1868442 TTGAAAAC
66 TTGAAAAC
* *
1868450 ATATATAATATAGTTTTTTGAAAATATCTTTTTGAAAACATATAATATATAGTTTTAAAACAATT
1 ATATATAATATAG-TTTTTGAAAATATATTTTTGAAAACATATAATATATAGTTTTAAAACGATT
1868515 TTTGAAAAC
65 TTTGAAAAC
* * *
1868524 ATATATAATATAGTTTTTGAAAACA-ACTTTTTTAAAAACATATAATATATAGTTTTTTAAACGA
1 ATATATAATATAGTTTTTGAAAATATA--TTTTTGAAAACATATAATATATAG-TTTTAAAACGA
1868588 -TTTTGAAAAC
63 TTTTTGAAAAC
1868598 ATATATAATATAGTTTTTGAAAATATATAATTTTTGAAAAC--ATAATATATAGTTTT
1 ATATATAATATAGTTTTTG-AAA-ATAT-ATTTTTGAAAACATATAATATATAGTTTT
1868654 TGAAAATATA
Statistics
Matches: 184, Mismatches: 12, Indels: 16
0.87 0.06 0.08
Matches are distributed among these distances:
73 27 0.15
74 132 0.72
75 12 0.07
76 12 0.07
78 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (73 bp):
ATATATAATATAGTTTTTGAAAATATATTTTTGAAAACATATAATATATAGTTTTAAAACGATTT
TTGAAAAC
Found at i:1868489 original size:39 final size:38
Alignment explanation
Indices: 1868377--1868663 Score: 298
Period size: 35 Copynumber: 7.7 Consensus size: 38
1868367 TAGTTTTTCA
*
1868377 ATATATAGTATAGTTTTTGAAAATATATTTTTGAAAAC
1 ATATATAATATAGTTTTTGAAAATATATTTTTGAAAAC
* *
1868415 ATATA-ATATAAAG-TTTT-AAAAT-GATTTTTGAAAAC
1 ATATATA-ATATAGTTTTTGAAAATATATTTTTGAAAAC
*
1868450 ATATATAATATAGTTTTTTGAAAATATCTTTTTGAAAAC
1 ATATATAATATAG-TTTTTGAAAATATATTTTTGAAAAC
*
1868489 ATATA-ATATATAG-TTTT-AAAACA-ATTTTTGAAAAC
1 ATATATA-ATATAGTTTTTGAAAATATATTTTTGAAAAC
* *
1868524 ATATATAATATAGTTTTTGAAAACA-ACTTTTTTAAAAAC
1 ATATATAATATAGTTTTTGAAAATATA--TTTTTGAAAAC
* **
1868563 ATATA-ATATATAGTTTTT-TAAA-CGA-TTTTGAAAAC
1 ATATATA-ATATAGTTTTTGAAAATATATTTTTGAAAAC
1868598 ATATATAATATAGTTTTTGAAAATATATAATTTTTGAAAAC
1 ATATATAATATAGTTTTTG-AAA-ATAT-ATTTTTGAAAAC
1868639 ATA-AT-ATATAGTTTTTGAAAATATA
1 ATATATAATATAGTTTTTGAAAATATA
1868664 ATATAGTTTT
Statistics
Matches: 213, Mismatches: 15, Indels: 44
0.78 0.06 0.16
Matches are distributed among these distances:
35 69 0.32
36 18 0.08
37 26 0.12
38 24 0.11
39 60 0.28
40 3 0.01
41 13 0.06
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (38 bp):
ATATATAATATAGTTTTTGAAAATATATTTTTGAAAAC
Found at i:1868493 original size:37 final size:36
Alignment explanation
Indices: 1868379--1868663 Score: 241
Period size: 37 Copynumber: 7.7 Consensus size: 36
1868369 GTTTTTCAAT
*
1868379 ATATAGTATAGTTTTTGAAAATATATTTTTGAAAAC
1 ATATAATATAGTTTTTGAAAATATATTTTTGAAAAC
*
1868415 ATATAATATAAAG-TTTT-AAAAT-GATTTTTGAAAAC
1 ATATAATAT--AGTTTTTGAAAATATATTTTTGAAAAC
*
1868450 ATATATAATATAGTTTTTTGAAAATATCTTTTTGAAAAC
1 --ATATAATATAG-TTTTTGAAAATATATTTTTGAAAAC
*
1868489 ATATAATATA-TAGTTTT-AAAACA-ATTTTTGAAAAC
1 ATATAATATAGT--TTTTGAAAATATATTTTTGAAAAC
* *
1868524 ATATATAATATAGTTTTTGAAAACA-ACTTTTTTAAAAAC
1 --ATATAATATAGTTTTTGAAAATATA--TTTTTGAAAAC
* **
1868563 ATATAATATATAGTTTTT-TAAA-CGA-TTTTGAAAAC
1 ATAT-A-ATATAGTTTTTGAAAATATATTTTTGAAAAC
1868598 ATATATAATATAGTTTTTGAAAATATATAATTTTTGAAAAC
1 --ATATAATATAGTTTTTG-AAA-ATAT-ATTTTTGAAAAC
1868639 ATA-ATATATAGTTTTTGAAAATATA
1 ATATA-ATATAGTTTTTGAAAATATA
1868664 ATATAGTTTT
Statistics
Matches: 208, Mismatches: 13, Indels: 56
0.75 0.05 0.20
Matches are distributed among these distances:
35 46 0.22
36 24 0.12
37 62 0.30
38 18 0.09
39 47 0.23
40 1 0.00
41 10 0.05
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (36 bp):
ATATAATATAGTTTTTGAAAATATATTTTTGAAAAC
Found at i:1868631 original size:17 final size:17
Alignment explanation
Indices: 1868605--1868663 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 17
1868595 AACATATATA
*
1868605 ATATAGTTTTTGAAAAT
1 ATATAATTTTTGAAAAT
1868622 ATATAATTTTTGAAAACAT
1 ATATAATTTTTG-AAA-AT
1868641 AATATATAGTTTTTGAAAAT
1 -ATATA-A-TTTTTGAAAAT
1868661 ATA
1 ATA
1868664 ATATAGTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 11 0.31
18 3 0.08
19 5 0.14
20 7 0.19
21 4 0.11
22 6 0.17
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (17 bp):
ATATAATTTTTGAAAAT
Found at i:1868669 original size:20 final size:20
Alignment explanation
Indices: 1868600--1868674 Score: 102
Period size: 20 Copynumber: 3.8 Consensus size: 20
1868590 TTGAAAACAT
1868600 ATATAATATAGTTTTTGAAA
1 ATATAATATAGTTTTTGAAA
1868620 ATAT-ATA-A-TTTTTGAAA
1 ATATAATATAGTTTTTGAAA
*
1868637 ACATAATATATAGTTTTTGAAA
1 ATAT-A-ATATAGTTTTTGAAA
1868659 ATATAATATAGTTTTT
1 ATATAATATAGTTTTT
1868675 ATTATATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
17 12 0.25
18 1 0.02
19 3 0.06
20 18 0.38
21 2 0.04
22 12 0.25
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (20 bp):
ATATAATATAGTTTTTGAAA
Found at i:1868680 original size:17 final size:18
Alignment explanation
Indices: 1868660--1868716 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
1868650 TTTTTGAAAA
1868660 TATAATATAGTT-TTTAT
1 TATAATATAGTTATTTAT
*
1868677 TATATTATATGTTATTTAT
1 TATAATATA-GTTATTTAT
* *
1868696 TATTATATA-TTGTTTAT
1 TATAATATAGTTATTTAT
1868713 TATA
1 TATA
1868717 TTTTTATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 18 0.55
18 3 0.09
19 12 0.36
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TATAATATAGTTATTTAT
Found at i:1868681 original size:19 final size:19
Alignment explanation
Indices: 1868659--1868717 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
1868649 GTTTTTGAAA
1868659 ATATAATATAGTT-TTTATT
1 ATAT-ATATAGTTATTTATT
1868678 ATAT-TATATGTTATTTATT
1 ATATATATA-GTTATTTATT
*
1868697 AT-TATATA-TTGTTTATT
1 ATATATATAGTTATTTATT
1868714 ATAT
1 ATAT
1868718 TTTTATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 14 0.40
18 5 0.14
19 16 0.46
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
ATATATATAGTTATTTATT
Found at i:1868686 original size:39 final size:37
Alignment explanation
Indices: 1868598--1868686 Score: 90
Period size: 39 Copynumber: 2.3 Consensus size: 37
1868588 TTTTGAAAAC
*
1868598 ATATATAATATAGTTTTTGAAAATATATAATTTTTGAAA
1 ATATATTATATAGTTTTTGAAAATATATAATTTTT--AA
* *
1868637 ACATAATATATAGTTTTTGAAAATATAATATAGTTTTT-A
1 ATATATTATATAGTTTTTGAAAATAT-ATA-A-TTTTTAA
*
1868676 TTATATTATAT
1 ATATATTATAT
1868687 GTTATTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
39 32 0.78
40 3 0.07
41 1 0.02
42 5 0.12
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (37 bp):
ATATATTATATAGTTTTTGAAAATATATAATTTTTAA
Found at i:1869382 original size:15 final size:15
Alignment explanation
Indices: 1869358--1869395 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
1869348 CAACCAAACC
*
1869358 ATAAGTATCACAAAA
1 ATAAGCATCACAAAA
1869373 ATAAGCATCACAAAA
1 ATAAGCATCACAAAA
1869388 ATAAGCAT
1 ATAAGCAT
1869396 AAAAAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.58, C:0.16, G:0.08, T:0.18
Consensus pattern (15 bp):
ATAAGCATCACAAAA
Found at i:1869402 original size:15 final size:15
Alignment explanation
Indices: 1869369--1869402 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1869359 TAAGTATCAC
* *
1869369 AAAAATAAGCATCAC
1 AAAAATAAGCATAAA
1869384 AAAAATAAGCATAAA
1 AAAAATAAGCATAAA
1869399 AAAA
1 AAAA
1869403 CAAGGGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.12, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAAATAAGCATAAA
Found at i:1869999 original size:29 final size:31
Alignment explanation
Indices: 1869967--1870025 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
1869957 ATTAAATCTT
1869967 TTAATTTAAATTT-TTTTATTTT-ATATTTC
1 TTAATTTAAATTTGTTTTATTTTAATATTTC
* *
1869996 TTAATTTAATTTTGTTTTGTTTTAATATTT
1 TTAATTTAAATTTGTTTTATTTTAATATTT
1870026 AACACTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 8 0.31
31 6 0.23
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.69
Consensus pattern (31 bp):
TTAATTTAAATTTGTTTTATTTTAATATTTC
Found at i:1873806 original size:24 final size:24
Alignment explanation
Indices: 1873745--1873817 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
1873735 TCAAGGAGAC
*
1873745 TCATCTGCTACAAAAGCACAAGTT
1 TCATCTGCTACAAAAGCACAAGCT
* * * *
1873769 TTATATGTTGCAAAAGCACAAGCT
1 TCATCTGCTACAAAAGCACAAGCT
*
1873793 TCATCGGCTACAAAAGCACAAGCT
1 TCATCTGCTACAAAAGCACAAGCT
1873817 T
1 T
1873818 TTGTAACTAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (24 bp):
TCATCTGCTACAAAAGCACAAGCT
Found at i:1878979 original size:20 final size:18
Alignment explanation
Indices: 1878937--1878981 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1878927 AAAAATATAT
1878937 AATATATAAAGTTTTTAA
1 AATATATAAAGTTTTTAA
* *
1878955 TATATAGTATAGTTTTTGAA
1 AATATA-TAAAGTTTTT-AA
1878975 AATATAT
1 AATATAT
1878982 TTTGAAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 5 0.23
19 10 0.45
20 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (18 bp):
AATATATAAAGTTTTTAA
Found at i:1879000 original size:22 final size:22
Alignment explanation
Indices: 1878981--1879087 Score: 82
Period size: 22 Copynumber: 5.4 Consensus size: 22
1878971 TGAAAATATA
1878981 TTTTGAAAACATATATAATAGT
1 TTTTGAAAACATATATAATAGT
1879003 TTTTGAAAAC----AT-AT--T
1 TTTTGAAAACATATATAATAGT
1879018 TTTTGAAAACATATATAGTATAGT
1 TTTTGAAAACATATATA--ATAGT
1879042 TTTTG--AA-A-ATAT-A-A-T
1 TTTTGAAAACATATATAATAGT
1879057 TTTTGAAAACATAT-TATATAGT
1 TTTTGAAAACATATATA-ATAGT
1879079 TTTTGAAAA
1 TTTTGAAAA
1879088 TTTAATATAG
Statistics
Matches: 68, Mismatches: 0, Indels: 34
0.67 0.00 0.33
Matches are distributed among these distances:
15 17 0.25
16 1 0.01
17 5 0.07
18 4 0.06
19 4 0.06
20 5 0.07
21 2 0.03
22 24 0.35
24 6 0.09
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (22 bp):
TTTTGAAAACATATATAATAGT
Found at i:1879034 original size:39 final size:38
Alignment explanation
Indices: 1878954--1879087 Score: 197
Period size: 37 Copynumber: 3.6 Consensus size: 38
1878944 AAAGTTTTTA
*
1878954 ATATATAGTATAGTTTTTG-AAAATATATTTTGAAAAC
1 ATATATAGTATAGTTTTTGAAAAATATTTTTTGAAAAC
1878991 ATATATA--ATAGTTTTTGAAAACATATTTTTTGAAAAC
1 ATATATAGTATAGTTTTTGAAAA-ATATTTTTTGAAAAC
*
1879028 ATATATAGTATAGTTTTTGAAAATATAATTTTTGAAAAC
1 ATATATAGTATAGTTTTTGAAAA-ATATTTTTTGAAAAC
1879067 ATAT-TA-TATAGTTTTTGAAAA
1 ATATATAGTATAGTTTTTGAAAA
1879088 TTTAATATAG
Statistics
Matches: 90, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
35 10 0.11
36 3 0.03
37 43 0.48
38 2 0.02
39 32 0.36
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (38 bp):
ATATATAGTATAGTTTTTGAAAAATATTTTTTGAAAAC
Found at i:1879059 original size:15 final size:15
Alignment explanation
Indices: 1879036--1879065 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1879026 ACATATATAG
*
1879036 TATAGTTTTTGAAAA
1 TATAATTTTTGAAAA
1879051 TATAATTTTTGAAAA
1 TATAATTTTTGAAAA
1879066 CATATTATAT
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:0.00, G:0.10, T:0.47
Consensus pattern (15 bp):
TATAATTTTTGAAAA
Found at i:1879096 original size:22 final size:22
Alignment explanation
Indices: 1879050--1879096 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1879040 GTTTTTGAAA
*
1879050 ATATAATTTTTGAAAACATATT
1 ATATAATTTTTGAAAACATAAT
* **
1879072 ATATAGTTTTTGAAAATTTAAT
1 ATATAATTTTTGAAAACATAAT
1879094 ATA
1 ATA
1879097 GTTTTTTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (22 bp):
ATATAATTTTTGAAAACATAAT
Found at i:1879097 original size:20 final size:23
Alignment explanation
Indices: 1879049--1879102 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 23
1879039 AGTTTTTGAA
*
1879049 AATATAATTTTTGAAAACATATT
1 AATATAGTTTTTGAAAACATATT
1879072 -ATATAGTTTTTG-AAA-AT-TT
1 AATATAGTTTTTGAAAACATATT
1879091 AATATAGTTTTT
1 AATATAGTTTTT
1879103 TATATTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.07
20 13 0.45
21 3 0.10
22 11 0.38
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (23 bp):
AATATAGTTTTTGAAAACATATT
Done.