Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_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: 5800122
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 26
Found at i:1714345 original size:39 final size:38
Alignment explanation
Indices: 1714264--1714362 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 38
1714254 GTTACGATTT
* * ***
1714264 TCATTTCGCGTTGCGATTTTCGTTTCGCGTTGCGATTT
1 TCATTTCACGTTGCGATTTTCATTTCGCGTTGCGACAG
* *
1714302 TCATTCTCTCGTTGCGATTTTCATTTCGTGTTGCGACAG
1 TCATT-TCACGTTGCGATTTTCATTTCGCGTTGCGACAG
1714341 TCATTTTTCACGTTGCGATTTT
1 TCA--TTTCACGTTGCGATTTT
1714363 AAGTTTCAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
38 5 0.10
39 30 0.59
40 14 0.27
41 2 0.04
ACGTcount: A:0.11, C:0.21, G:0.20, T:0.47
Consensus pattern (38 bp):
TCATTTCACGTTGCGATTTTCATTTCGCGTTGCGACAG
Found at i:1714839 original size:42 final size:42
Alignment explanation
Indices: 1714763--1714851 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
1714753 GACTCGCCTG
* *
1714763 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCTACCGTTCAAGAGGCCCCTA
* * * * *
1714805 TCATTCCTCGAGAGTCCCCTCCTACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCTACCGTTCAAGAGGCCCCTA
1714847 TCATC
1 TCATC
1714852 GTTGAAGAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.25
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCTACCGTTCAAGAGGCCCCTA
Found at i:1716250 original size:14 final size:14
Alignment explanation
Indices: 1716231--1716266 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1716221 ATTGTTTAAT
1716231 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1716245 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1716259 TGATTTGT
1 TGATTTGT
1716267 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1716410 original size:14 final size:14
Alignment explanation
Indices: 1716389--1716428 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1716379 ATGCGAAATG
* *
1716389 AAAATCGCAACTAG
1 AAAATCGCAACGAC
*
1716403 AGAATCGCAACGAC
1 AAAATCGCAACGAC
1716417 AAAATCGCAACG
1 AAAATCGCAACG
1716429 CGAAACTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1716441 original size:19 final size:19
Alignment explanation
Indices: 1716417--1716481 Score: 94
Period size: 19 Copynumber: 3.4 Consensus size: 19
1716407 TCGCAACGAC
1716417 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
**
1716436 AAAATCGCAATTCGAAACT
1 AAAATCGCAACGCGAAACT
*
1716455 AAAATTGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
*
1716474 AAATTCGC
1 AAAATCGC
1716482 GTTGCGATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.46, C:0.23, G:0.14, T:0.17
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:1716499 original size:19 final size:19
Alignment explanation
Indices: 1716477--1716613 Score: 114
Period size: 19 Copynumber: 7.7 Consensus size: 19
1716467 CGAAACTAAA
1716477 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1716496 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
1716511 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1716529 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1716544 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
1716562 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
** **
1716581 TTCGTATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
1716600 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
1716614 AGACATTAAG
Statistics
Matches: 91, Mismatches: 16, Indels: 21
0.71 0.12 0.16
Matches are distributed among these distances:
14 17 0.19
16 6 0.07
17 6 0.07
19 53 0.58
20 9 0.10
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1716523 original size:33 final size:33
Alignment explanation
Indices: 1716481--1716575 Score: 163
Period size: 33 Copynumber: 2.9 Consensus size: 33
1716471 ACTAAATTCG
*
1716481 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
1716514 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
1716547 CGTTGCGATTTTCATTTCGCGTTGCGATT
1 CGTTGCGATTTTCATTTCGCATTGCGATT
1716576 TTCATTTCGT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:1716659 original size:20 final size:19
Alignment explanation
Indices: 1716548--1716659 Score: 82
Period size: 19 Copynumber: 5.7 Consensus size: 19
1716538 CGATTCTCTC
** *
1716548 GTTGCGATTTTCATTTCGC
1 GTTGCGATAGTCATTTCGT
**
1716567 GTTGCGATTTTCATTTCGT
1 GTTGCGATAGTCATTTCGT
* *
1716586 ATTGCGATAGTCATTTCCGC
1 GTTGCGATAGTCATTT-CGT
* **
1716606 GTTGCGATAGACATTAAGAT
1 GTTGCGATAGTCATTTCG-T
1716626 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTT-CGT
1716647 GTTGCGATAGTCA
1 GTTGCGATAGTCA
1716660 AATAAATGCC
Statistics
Matches: 74, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
19 32 0.43
20 27 0.36
21 14 0.19
22 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (19 bp):
GTTGCGATAGTCATTTCGT
Found at i:1720952 original size:72 final size:72
Alignment explanation
Indices: 1720729--1720955 Score: 276
Period size: 76 Copynumber: 3.1 Consensus size: 72
1720719 TAAACTCGAG
* * ** *
1720729 TTTAGGATAATATTTTAAACATTATATTTTATCTTTGTATTTTAGTTTGAATAGGTTTTAGTATT
1 TTTAGGATATTATTTTAAATATTAT-TTTT-T-TAGGTATTTTAGTTTAAATAGGTTTTAGTATT
* *
1720794 TTAATTAAGT
63 TTAATTAGGA
* *
1720804 TTTAGGATATTATTTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATATTA-TTTTAAATATTA--TTT-TTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
1720869 TTTAATTAGGA
62 TTTAATTAGGA
* *
1720880 TTTAGAATATTATTTTAAATATTATTTTTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTT
1 TTTAGGATATTATTTTAAATATTATTTTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTT
1720944 AATTAGGA
65 AATTAGGA
1720952 TTTA
1 TTTA
1720956 AGATGTTTTA
Statistics
Matches: 134, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
71 5 0.04
72 42 0.31
73 3 0.02
75 21 0.16
76 57 0.43
77 3 0.02
78 3 0.02
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (72 bp):
TTTAGGATATTATTTTAAATATTATTTTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTA
ATTAGGA
Found at i:1721655 original size:20 final size:20
Alignment explanation
Indices: 1721610--1721679 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 20
1721600 TTAAAAACCT
1721610 TTTTA-TTTATTTATTAT-T-
1 TTTTATTTTA-TTATTATCTA
* * *
1721628 TATTATTTTATTATTTTCTC
1 TTTTATTTTATTATTATCTA
1721648 TTTTA-TTTATTATTATCTA
1 TTTTATTTTATTATTATCTA
1721667 TTTTATTTTATTA
1 TTTTATTTTATTA
1721680 AATCTTCTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 10 0.23
19 22 0.51
20 11 0.26
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATTTTATTATTATCTA
Found at i:1728756 original size:16 final size:16
Alignment explanation
Indices: 1728735--1728768 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1728725 ATTTTTGTTG
*
1728735 AATAAAAATATTTTTT
1 AATAAAAATATTATTT
*
1728751 AATAAATATATTATTT
1 AATAAAAATATTATTT
1728767 AA
1 AA
1728769 GGTTGGGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAAAAATATTATTT
Found at i:1733242 original size:5 final size:5
Alignment explanation
Indices: 1733232--1733280 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
1733222 TCAAATCCCA
1733232 CACAC CACAC CACAC CACAC CACAC CACAC CACAC CACAC CACAC CACA
1 CACAC CACAC CACAC CACAC CACAC CACAC CACAC CACAC CACAC CACA
1733281 AACCAAAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.41, C:0.59, G:0.00, T:0.00
Consensus pattern (5 bp):
CACAC
Found at i:1739568 original size:188 final size:182
Alignment explanation
Indices: 1739223--1739579 Score: 430
Period size: 188 Copynumber: 1.9 Consensus size: 182
1739213 ACATTTTATT
* *
1739223 AATAAAAATATTAACATTCTAGCAAACCTAATTTCTTAGTGAACCATGACATTCTTGGGAACAAC
1 AATAAAAATATTAACATTCTAACAAACCTAATTTCTTAGTAAACCATGACATTCTTGGGAACAAC
* * * ** ** *
1739288 CGTATTTATTATATATATTCATAACATTTTTAGTTTTTAACTTATTTTGTTATTGTCGGAAAATC
66 CATATTTATTATAGATATACATAACATTTCCAACTTTTAACTTATTTTGTTATCGTC-GAAAATC
* * *
1739353 TAAAGCTCAATCAGCTTAAACTCTAGTAACT-TTTTAGGCACAACCTATTTTAC
130 TAAAGCCCAATCAACTTAAAATCTAGTAA-TATTTTAGGCACAACCTATTTTAC
* * *
1739406 AATAAAAATATTAACATTCCATATCACACAACTTAATTTCTTAGTAAACTATGACATTCTTGGGC
1 AATAAAAATATTAACATT-C-TA--ACA-AACCTAATTTCTTAGTAAACCATGACATTCTTGGGA
* *
1739471 GCAACCATATTTATTATAGATATACATAACATTTCCAACTTTTAACTTATTTTGTTATCGT-GAG
61 ACAACCATATTTATTATAGATATACATAACATTTCCAACTTTTAACTTATTTTGTTATCGTCGAA
* * *
1739535 AATGCTGGAGGCCCCATCAACTTAAAATCTAGTAATATTTTAGGC
126 AAT-CT-AAAGCCCAATCAACTTAAAATCTAGTAATATTTTAGGC
1739580 GCAAACTAAA
Statistics
Matches: 145, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
183 18 0.12
184 1 0.01
185 2 0.01
186 5 0.03
187 5 0.03
188 114 0.79
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.37
Consensus pattern (182 bp):
AATAAAAATATTAACATTCTAACAAACCTAATTTCTTAGTAAACCATGACATTCTTGGGAACAAC
CATATTTATTATAGATATACATAACATTTCCAACTTTTAACTTATTTTGTTATCGTCGAAAATCT
AAAGCCCAATCAACTTAAAATCTAGTAATATTTTAGGCACAACCTATTTTAC
Found at i:1746575 original size:185 final size:183
Alignment explanation
Indices: 1746331--1746693 Score: 595
Period size: 185 Copynumber: 2.0 Consensus size: 183
1746321 TAAATTTTAA
* **
1746331 ATATATTATTATATATAACATATGGGTTCAACTGAAACCATTTAAAACCCAATTAATAATTTAAG
1 ATATATTATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAATTTAAG
*
1746396 ATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTTATTT
66 ATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTTATTT
*
1746461 TATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTAATTAAAAAATATT
131 TATAATTATATATTATTTAAATTAATTATAAAC---TTTTTTAATTAAAAAATATT
1746517 ATATA-TATTATATATAACATATGGGCT-AAGCCCAAACCATTTAAAACCCAATTAATAATTTAA
1 ATATATTATTATATATAACATATGGGCTCAA-CCCAAACCATTTAAAACCCAATTAATAATTTAA
* * *
1746580 GATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATCTGAAATTTTTATT
65 GATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTTATT
*
1746645 TTATAATTATATATTATTTAAATTAATTATTAACTTTTTTAATTAAAAA
130 TTATAATTATATATTATTTAAATTAATTATAAACTTTTTTAATTAAAAA
1746694 CATTTAATTT
Statistics
Matches: 167, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
182 15 0.09
184 2 0.01
185 145 0.87
186 5 0.03
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (183 bp):
ATATATTATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAATTTAAG
ATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTTATTT
TATAATTATATATTATTTAAATTAATTATAAACTTTTTTAATTAAAAAATATT
Found at i:1754654 original size:53 final size:53
Alignment explanation
Indices: 1754560--1754761 Score: 253
Period size: 53 Copynumber: 3.8 Consensus size: 53
1754550 TGGCGGGTCT
* **
1754560 GCTCCCTCTTG-TTCAGGGATTAAGGAACTCGAACAATCTTCTAAAAACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCTGCAAACGGGTTC
* * * ** *
1754614 GTTCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTCATGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * **
1754667 GCTCCCTCTTGCATCAGGGAGTAGAACTCGAACAAACTTCTGCCTACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCAAACGGGTTC
*
1754720 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAGCAATCTTCTG
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
1754762 GTGTGATTCT
Statistics
Matches: 127, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 108 0.85
54 10 0.08
55 9 0.07
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (53 bp):
GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCAAACGGGTTC
Found at i:1754726 original size:106 final size:107
Alignment explanation
Indices: 1754560--1754761 Score: 282
Period size: 106 Copynumber: 1.9 Consensus size: 107
1754550 TGGCGGGTCT
* * * *
1754560 GCTCCCTCTTGTTCAGGGATTAAGGAACTCGAACAATCTTCTAAAAACGGGTTCGTTCCCTATTG
1 GCTCCCTCTTGATCAGGGAGTAAGGAACTCGAACAAACTTCTAAAAACGGGTTCGCTCCCTATTG
*
1754625 CTTCAGGGAGTAGAACTCGAATAATCTTCTGCTCATGGGTTC
66 CTTCAGGGAGTAGAACTCGAACAATCTTCTGCTCATGGGTTC
**** *
1754667 GCTCCCTCTTGCATCAGGGAGT-A-GAACTCGAACAAACTTCTGCCTACGGGTTCGCTCCCTCTT
1 GCTCCCTCTTG-ATCAGGGAGTAAGGAACTCGAACAAACTTCTAAAAACGGGTTCGCTCCCTATT
*
1754730 GCTTCAGGGAGTAGAACTCGAGCAATCTTCTG
65 GCTTCAGGGAGTAGAACTCGAACAATCTTCTG
1754762 GTGTGATTCT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
106 63 0.76
107 12 0.14
108 8 0.10
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (107 bp):
GCTCCCTCTTGATCAGGGAGTAAGGAACTCGAACAAACTTCTAAAAACGGGTTCGCTCCCTATTG
CTTCAGGGAGTAGAACTCGAACAATCTTCTGCTCATGGGTTC
Found at i:1755274 original size:42 final size:42
Alignment explanation
Indices: 1755228--1755314 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
1755218 AAACTCACAA
1755228 ATGACCCGAAAGATTTAATCATCATGCTCAAAAGACTTACTG
1 ATGACCCGAAAGATTTAATCATCATGCTCAAAAGACTTACTG
* * *
1755270 ATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTG
1 ATGACCCGAAAGATTTAATCATCATGCTCAAAAGACTTACTG
1755312 ATG
1 ATG
1755315 GCACTTACTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGACCCGAAAGATTTAATCATCATGCTCAAAAGACTTACTG
Found at i:1755450 original size:80 final size:80
Alignment explanation
Indices: 1755317--1755567 Score: 421
Period size: 80 Copynumber: 3.1 Consensus size: 80
1755307 TACTGATGGC
*
1755317 ACTTACTGACGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
1755382 TATCATGCTCGAAAG
66 TATCATGCTCGAAAG
* * * *
1755397 ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGTCTTACAAATTACCCGAATGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
*
1755462 CATCATGCTCGAAAG
66 TATCATGCTCGAAAG
* *
1755477 ACTTACTGATGGGTTTGCTTTACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
1755542 TATCATGCTCGAAAG
66 TATCATGCTCGAAAG
*
1755557 ACTTATTGATG
1 ACTTACTGATG
1755568 ACCCGAAGGA
Statistics
Matches: 157, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 157 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (80 bp):
ACTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
TATCATGCTCGAAAG
Found at i:1755589 original size:42 final size:42
Alignment explanation
Indices: 1755526--1755623 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
1755516 CTTAAAAATT
* * * *
1755526 ACCCGAAGGATTTAATTATCATGCTCGAAAGACTTATTGATG
1 ACCCGAAGGACTTAATCATCATGCTCAAAAGACTTACTGATG
*
1755568 ACCCGAAGGACTTCATCATCATGCTCAAAAGACTTACTGATG
1 ACCCGAAGGACTTAATCATCATGCTCAAAAGACTTACTGATG
* *
1755610 GCCCAAAGGACTTA
1 ACCCGAAGGACTTA
1755624 CTTTGATAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (42 bp):
ACCCGAAGGACTTAATCATCATGCTCAAAAGACTTACTGATG
Found at i:1771573 original size:31 final size:32
Alignment explanation
Indices: 1771538--1771603 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
1771528 TTAAAAAATA
1771538 TAAGATATG-ATAATTTTT-GTTTTTATTTAAT
1 TAAGATA-GAATAATTTTTAGTTTTTATTTAAT
* *
1771569 TAAGATAGAATTATTTTTATTTTTTATTTAAT
1 TAAGATAGAATAATTTTTAGTTTTTATTTAAT
1771601 TAA
1 TAA
1771604 AAACTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 1 0.03
31 15 0.48
32 15 0.48
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (32 bp):
TAAGATAGAATAATTTTTAGTTTTTATTTAAT
Found at i:1774488 original size:21 final size:21
Alignment explanation
Indices: 1774451--1774490 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1774441 TCTGCTGAAA
**
1774451 CTCCACCTGTTTTGGAGTATG
1 CTCCACCTGTTGCGGAGTATG
1774472 CTCCACCTGTTGCGGAGTA
1 CTCCACCTGTTGCGGAGTA
1774491 CTACTTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.28, G:0.25, T:0.33
Consensus pattern (21 bp):
CTCCACCTGTTGCGGAGTATG
Found at i:1781184 original size:151 final size:150
Alignment explanation
Indices: 1780910--1781219 Score: 602
Period size: 151 Copynumber: 2.1 Consensus size: 150
1780900 AAAGGAGTAG
1780910 TATAGGTACCATTACTCAGAGTATCGGTACTACTAATGTAAGTAGTATCGATATCATATATGATA
1 TATAGGTACCATTACTCAGAGTATCGGTACTACTAATGTAAGTAGTATCGATATCATATATGATA
1780975 TCAGTACCATTCTAGCATTTTGTTTTGACAGTATCGATACTGCATCAGCAATATCGGTACTACTG
66 TCAGTACCATTCTAGCATTTTGTTTTGACAGTATCGATACTGCATCAGCAATATCGGTACTACTG
1781040 CTCTATGTAATATCAATATCA
131 CTCT-TGTAATATCAATATCA
1781061 TATAGGTACCATTACTCAGAGTATCGGTACTACTAATGTAAGTAGTATCGATATCATATATGATA
1 TATAGGTACCATTACTCAGAGTATCGGTACTACTAATGTAAGTAGTATCGATATCATATATGATA
1781126 TCAGTACCATTCTAGCATTTTGTTTTGACAGTATCGATACTGCATCAGCAATATCGGTACTACTG
66 TCAGTACCATTCTAGCATTTTGTTTTGACAGTATCGATACTGCATCAGCAATATCGGTACTACTG
1781191 CTCTTGTAATATCAATATCA
131 CTCTTGTAATATCAATATCA
1781211 TATATGGTA
1 TATA-GGTA
1781220 TCAGTACCAT
Statistics
Matches: 158, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
150 20 0.13
151 138 0.87
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (150 bp):
TATAGGTACCATTACTCAGAGTATCGGTACTACTAATGTAAGTAGTATCGATATCATATATGATA
TCAGTACCATTCTAGCATTTTGTTTTGACAGTATCGATACTGCATCAGCAATATCGGTACTACTG
CTCTTGTAATATCAATATCA
Found at i:1781343 original size:95 final size:95
Alignment explanation
Indices: 1781080--1781354 Score: 324
Period size: 94 Copynumber: 2.9 Consensus size: 95
1781070 CATTACTCAG
* * * *
1781080 AGTATCGGTACTACTAA-TGTAAGTAGTATCGATATCATATATGATATCAGTACCATTCTAGCAT
1 AGTATCGGTACTAC-AACTCTAAGTAGTATCAATATCATATATGGTATCAGTACAATT-TAGCAT
*
1781144 TTTGTTTTGACAGTATCGATACTGCATCAGCA
64 TCTGTTTTGACAGTATCGATACTGCATCAGCA
** * * * *
1781176 A-TATCGGTACTACTGCTCT-TGTAATATCAATATCATATATGGTATCAGTACCATTTTAGTATT
1 AGTATCGGTACTACAACTCTAAGTAGTATCAATATCATATATGGTATCAGTA-CAATTTAGCATT
* * *
1781239 CTGTTTTGACAGTATCGGTACTGCCTGAG-A
65 CTGTTTTGACAGTATCGATACTGCATCAGCA
* * * *
1781269 AGTATCGGTACTACAACTCTAAATAGTATCAATATCATATGTGGTATCGGTATCAATTTAACATT
1 AGTATCGGTACTACAACTCTAAGTAGTATCAATATCATATATGGTATCAGTA-CAATTTAGCATT
1781334 CTGTTTTGACAGTATCGATAC
65 CTGTTTTGACAGTATCGATAC
1781355 CATAACTTAG
Statistics
Matches: 149, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
93 2 0.01
94 74 0.50
95 72 0.48
96 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (95 bp):
AGTATCGGTACTACAACTCTAAGTAGTATCAATATCATATATGGTATCAGTACAATTTAGCATTC
TGTTTTGACAGTATCGATACTGCATCAGCA
Found at i:1782675 original size:63 final size:63
Alignment explanation
Indices: 1782600--1782739 Score: 192
Period size: 63 Copynumber: 2.2 Consensus size: 63
1782590 TTTGTTGAAG
* * *
1782600 GTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCAGTGCATCGATGCATAAGGA
1 GTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCAGTGCATCGATGCATAAGGA
** ** *
1782663 GTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCAGTGCATCGATGCATCAGGA
1 GTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCAGTGCATCGATGCATAAGGA
1782726 GTGCATCGATGCAT
1 GTGCATCGATGCAT
1782740 GCCTCCATTA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 64 0.94
64 4 0.06
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCAGTGCATCGATGCATAAGGA
Found at i:1784080 original size:18 final size:18
Alignment explanation
Indices: 1784057--1784092 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1784047 AGGAATGATA
*
1784057 TGTGGTCTTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
1784075 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
1784093 ATATGTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.19, G:0.33, T:0.36
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:1784094 original size:62 final size:62
Alignment explanation
Indices: 1784028--1784215 Score: 135
Period size: 62 Copynumber: 3.1 Consensus size: 62
1784018 TGATCCCTAG
1784028 CATATGTATATGATTCTTAAGGAATGATATGTGGTCTTTCGGGACATTGTGGTCCTTCGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCTTTCGGGACATTGTGGTCCTTCGGGA
* * * * * * *
1784090 CATA--TATGT-ATTCTT-TGGAA-CATGTGTGAAGTCTGGT-GAGACACATACT-TGATCC--C
1 CATATGTATATGATTCTTAAGGAATGATATGTG--GTCT-TTCG-G-GACAT--TGTGGTCCTTC
**
1784146 TAG-
59 GGGA
* * *
1784149 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGAGACATTGTGGTCCTTTGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCTTTCGGGACATTGTGGTCCTTCGGGA
1784211 CATAT
1 CATAT
1784216 ATGTATTCTT
Statistics
Matches: 88, Mismatches: 21, Indels: 34
0.62 0.15 0.24
Matches are distributed among these distances:
57 6 0.07
58 5 0.06
59 20 0.23
60 12 0.14
61 10 0.11
62 24 0.27
63 5 0.06
64 6 0.07
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (62 bp):
CATATGTATATGATTCTTAAGGAATGATATGTGGTCTTTCGGGACATTGTGGTCCTTCGGGA
Found at i:1784113 original size:121 final size:121
Alignment explanation
Indices: 1783954--1784308 Score: 647
Period size: 121 Copynumber: 2.9 Consensus size: 121
1783944 CGAGGGTCTA
*
1783954 TGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* *
1784019 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCTTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGAGACAT
1784075 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1784140 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGAGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGAGACAT
* *
1784196 TGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* *
1784261 GATCCCTAGTATATGTATATGATTCTTACGGAATGATATGTGGTCCTT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTT
1784309 ATGGACATTA
Statistics
Matches: 227, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 227 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGAGACAT
Found at i:1784153 original size:59 final size:59
Alignment explanation
Indices: 1783969--1784278 Score: 159
Period size: 59 Copynumber: 5.2 Consensus size: 59
1783959 TCATTCGGGA
1783969 CATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
1 CATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
* * * * * * *
1784028 CATATGTATATGATTCTTAAGGAATGATATGTG--GTCT-TTCG-G-GACAT--TGTGGTCCTTC
1 CATA--TATGT-ATTCTT-TGGAA-CATGTGTGAAGTCTGGT-GAGACACATACT-TGATCC--C
**
1784086 GGG
57 TAG
1784089 ACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
1 -CATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
* * * * * *
1784149 CATATGTATATGATTCTTAAGGAATGATATGTG--GTCCT--TCGAG--ACAT--TGTGGTCCTT
1 CATA--TATGT-ATTCTT-TGGAA-CATGTGTGAAGT-CTGGT-GAGACACATACT-TGATCC-C
*
1784206 TGGG
57 T-AG
*
1784210 ACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTTGATCCCTAG
1 -CATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
1784270 --TATATGTAT
1 CATATATGTAT
1784279 ATGATTCTTA
Statistics
Matches: 182, Mismatches: 33, Indels: 74
0.63 0.11 0.26
Matches are distributed among these distances:
57 21 0.12
58 12 0.07
59 40 0.22
60 23 0.13
61 22 0.12
62 40 0.22
63 12 0.07
64 12 0.07
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (59 bp):
CATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
Found at i:1784374 original size:23 final size:23
Alignment explanation
Indices: 1784324--1784384 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
1784314 CATTATTATA
1784324 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* **
1784347 CGGCACTACGGTGCAATTCTATT
1 TGGCACTACGGTGCAATTCTACG
*
1784370 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
1784385 TTTATATGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:1788277 original size:63 final size:63
Alignment explanation
Indices: 1788202--1788360 Score: 189
Period size: 63 Copynumber: 2.5 Consensus size: 63
1788192 TTTGTTGAAG
* *
1788202 GTGCATCGATGCATATA-AAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGT-CGTC
1 GTGCATCGATGCATA-AGAAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAAT-TCCCTC
1788264 A
63 A
* * **
1788265 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTATAATAAAATGAACATCGAATTCCCTCA
1 GTGCATCGATGCATAAGAAGTGCATCGATGCATTAATAATAAAACAAACATCGAATTCCCTCA
* * *
1788328 GTGCATCGATGCATCAGGAGTGCATTGATGCAT
1 GTGCATCGATGCATAAGAAGTGCATCGATGCAT
1788361 GCCTCCATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
62 2 0.02
63 79 0.93
64 4 0.05
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (63 bp):
GTGCATCGATGCATAAGAAGTGCATCGATGCATTAATAATAAAACAAACATCGAATTCCCTCA
Found at i:1789701 original size:18 final size:18
Alignment explanation
Indices: 1789678--1789713 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1789668 AGGAATGATA
1789678 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
1789696 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
1789714 ATATGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:1789715 original size:62 final size:62
Alignment explanation
Indices: 1789649--1789836 Score: 146
Period size: 62 Copynumber: 3.1 Consensus size: 62
1789639 TGATCCCTAG
1789649 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
* * * * * *
1789711 CATA--TATGT-ATTCTT-TGGAA-CATGTGTGAAGT-CTGGT-GAGACACATACT-TGATCC--
1 CATATGTATATGATTCTTAAGGAATGATATGTG--GTCCT--TCG-G-GACAT--TGTGGTCCTT
**
1789766 CTAG-
58 CGGGA
*
1789770 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTTGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
1789832 CATAT
1 CATAT
1789837 ATGTATTCTT
Statistics
Matches: 90, Mismatches: 17, Indels: 38
0.62 0.12 0.26
Matches are distributed among these distances:
57 6 0.07
58 7 0.08
59 18 0.20
60 12 0.13
61 11 0.12
62 23 0.26
63 7 0.08
64 6 0.07
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (62 bp):
CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
Found at i:1789734 original size:121 final size:121
Alignment explanation
Indices: 1789575--1789938 Score: 674
Period size: 121 Copynumber: 3.0 Consensus size: 121
1789565 CGAGGGTCTA
*
1789575 TGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1789640 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
1789696 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1789761 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
* *
1789817 TGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* **
1789882 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
1789938 T
1 T
1789939 ATTATATGGC
Statistics
Matches: 237, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 237 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
Found at i:1789822 original size:18 final size:18
Alignment explanation
Indices: 1789799--1789834 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1789789 AGGAATGATA
1789799 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
*
1789817 TGTGGTCCTTTGGGACAT
1 TGTGGTCCTTCGGGACAT
1789835 ATATGTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.19, G:0.33, T:0.36
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:1790002 original size:23 final size:23
Alignment explanation
Indices: 1789949--1790005 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1789939 ATTATATGGC
*
1789949 ACTACGGTGCAATTCTACGCGGC
1 ACTACGGTGCAATTCTACGCGGA
* *
1789972 ACTACGGTGCAATTCTATGTGGA
1 ACTACGGTGCAATTCTACGCGGA
*
1789995 ACTTCGGTGCA
1 ACTACGGTGCA
1790006 TTTATATGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (23 bp):
ACTACGGTGCAATTCTACGCGGA
Found at i:1801538 original size:16 final size:16
Alignment explanation
Indices: 1801513--1801543 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1801503 ATATTTTTTA
*
1801513 AATAATTATAATAAAC
1 AATAAATATAATAAAC
1801529 AATAAATATAATAAA
1 AATAAATATAATAAA
1801544 AAAAATTATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAATATAATAAAC
Found at i:1807469 original size:21 final size:21
Alignment explanation
Indices: 1807445--1807531 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 21
1807435 AAATCGCGTT
1807445 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
** ** * ***
1807466 GCGAAATAGAA-AATCGCGTT
1 GCGATTTTCAACTATCGCAAC
1807486 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
* *
1807507 GCGATTTTCAATTATCGTAAC
1 GCGATTTTCAACTATCGCAAC
1807528 GCGA
1 GCGA
1807532 AATACAACGT
Statistics
Matches: 47, Mismatches: 18, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
20 12 0.26
21 35 0.74
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (21 bp):
GCGATTTTCAACTATCGCAAC
Found at i:1807507 original size:41 final size:41
Alignment explanation
Indices: 1807414--1807510 Score: 176
Period size: 41 Copynumber: 2.4 Consensus size: 41
1807404 ACAACTGTAG
* *
1807414 ACTATCGCAACACGAAATGGAAAATCGCGTTGCGATTTTCA
1 ACTATCGCAACGCGAAATAGAAAATCGCGTTGCGATTTTCA
1807455 ACTATCGCAACGCGAAATAGAAAATCGCGTTGCGATTTTCA
1 ACTATCGCAACGCGAAATAGAAAATCGCGTTGCGATTTTCA
1807496 ACTATCGCAACGCGA
1 ACTATCGCAACGCGA
1807511 TTTTCAATTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATAGAAAATCGCGTTGCGATTTTCA
Found at i:1813103 original size:26 final size:26
Alignment explanation
Indices: 1813074--1813131 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
1813064 TTAAAAGCTA
1813074 TAATTTTTTATTATATTATAATCATT
1 TAATTTTTTATTATATTATAATCATT
** * * *
1813100 TAATCATTTATTATTTTATTATTATT
1 TAATTTTTTATTATATTATAATCATT
1813126 TAATTT
1 TAATTT
1813132 ATTAATTTTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (26 bp):
TAATTTTTTATTATATTATAATCATT
Found at i:1813145 original size:24 final size:23
Alignment explanation
Indices: 1813105--1813150 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
1813095 TCATTTAATC
1813105 ATTTATTATTTTATTATTATTTA
1 ATTTATTATTTTATTATTATTTA
*
1813128 ATTTATTAATTTTCTTATTATTT
1 ATTTATT-ATTTTATTATTATTT
1813151 TTTGCAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTATTATTTTATTATTATTTA
Found at i:1814003 original size:14 final size:13
Alignment explanation
Indices: 1813980--1814039 Score: 61
Period size: 14 Copynumber: 4.5 Consensus size: 13
1813970 GCCCTTTTTA
1813980 TGTTTCTATTTAAT
1 TGTTT-TATTTAAT
1813994 TGTTATTATTTAAT
1 TGTT-TTATTTAAT
*
1814008 TGTTTT-TATAA-
1 TGTTTTATTTAAT
1814019 TGTTTTTATTTAAT
1 TG-TTTTATTTAAT
*
1814033 TATTTTA
1 TGTTTTA
1814040 ATTTTTTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 2 0.05
12 8 0.21
13 11 0.28
14 17 0.44
15 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.67
Consensus pattern (13 bp):
TGTTTTATTTAAT
Found at i:1815074 original size:20 final size:20
Alignment explanation
Indices: 1815051--1815114 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
1815041 AAGGGGAACA
1815051 GATTCCCCCTGGGGGGTATC
1 GATTCCCCCTGGGGGGTATC
*
1815071 GATT-CCCC----GGG-AAC
1 GATTCCCCCTGGGGGGTATC
1815085 AGATTCCCCCTGGGGGGTATC
1 -GATTCCCCCTGGGGGGTATC
1815106 GATTCCCCC
1 GATTCCCCC
1815115 CTAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
14 2 0.06
15 7 0.20
16 4 0.11
19 4 0.11
20 16 0.46
21 2 0.06
ACGTcount: A:0.14, C:0.34, G:0.30, T:0.22
Consensus pattern (20 bp):
GATTCCCCCTGGGGGGTATC
Found at i:1815090 original size:35 final size:35
Alignment explanation
Indices: 1815044--1815113 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
1815034 TATGTGCAAG
1815044 GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
1815079 GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
1815114 CCTAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.20
Consensus pattern (35 bp):
GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
Found at i:1817815 original size:2 final size:2
Alignment explanation
Indices: 1817802--1817872 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
1817792 TATCATTGGA
*
1817802 AT AT AC 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
1817844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1817873 ATAATTGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1821237 original size:34 final size:36
Alignment explanation
Indices: 1821174--1821243 Score: 117
Period size: 34 Copynumber: 2.0 Consensus size: 36
1821164 TATGTGCAGG
1821174 GGGAACAGATTCCCCTCTGAGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCTCTGAGGGGTATCGATTCCCC
*
1821210 GGGAACAGA-TCCCC-CTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCTCTGAGGGGTATCGATTCCCC
1821244 CCTAAATGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 19 0.58
35 5 0.15
36 9 0.27
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.20
Consensus pattern (36 bp):
GGGAACAGATTCCCCTCTGAGGGGTATCGATTCCCC
Found at i:1821874 original size:15 final size:15
Alignment explanation
Indices: 1821856--1821941 Score: 82
Period size: 15 Copynumber: 5.3 Consensus size: 15
1821846 CGAGGGTATT
*
1821856 GTAGTCCTTCGAGAC
1 GTAGTCCTTCGGGAC
1821871 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
*
1821886 GTAATGGTCCTACGGGAC
1 GT-A--GTCCTTCGGGAC
* *
1821904 GTAGTGGTCCTACGAGAC
1 GTA---GTCCTTCGGGAC
1821922 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
1821937 GTAGT
1 GTAGT
1821942 GGTCCTACAA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
15 31 0.50
16 1 0.02
17 1 0.02
18 29 0.47
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.26
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:1821901 original size:18 final size:18
Alignment explanation
Indices: 1821874--1821949 Score: 86
Period size: 18 Copynumber: 4.4 Consensus size: 18
1821864 TCGAGACGTA
*
1821874 GTCCTTCGGGACGTAATG
1 GTCCTACGGGACGTAATG
*
1821892 GTCCTACGGGACGTAGTG
1 GTCCTACGGGACGTAATG
*
1821910 GTCCTACGAGACGT-A--
1 GTCCTACGGGACGTAATG
* *
1821925 GTCCTTCGGGACGTAGTG
1 GTCCTACGGGACGTAATG
1821943 GTCCTAC
1 GTCCTAC
1821950 AACATTGGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
15 12 0.26
18 35 0.74
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (18 bp):
GTCCTACGGGACGTAATG
Found at i:1824931 original size:6 final size:6
Alignment explanation
Indices: 1824920--1824948 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1824910 AGTCCTTAAA
1824920 CGACAG CGACAG CGACAG CGACAG CGACA
1 CGACAG CGACAG CGACAG CGACAG CGACA
1824949 ACGCTACGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.34, G:0.31, T:0.00
Consensus pattern (6 bp):
CGACAG
Found at i:1833833 original size:68 final size:68
Alignment explanation
Indices: 1833719--1833857 Score: 251
Period size: 68 Copynumber: 2.0 Consensus size: 68
1833709 CAGCGAACGA
*
1833719 TTACACTTGCCTTCTAGATTGGGTAATCACTGATTTATACATGCATTTTCATTTTCTTGCGTCTT
1 TTACACTTGCCTTCTAGATTGGGTAATCACTGATTTATACATGCATTTTCATTTCCTTGCGTCTT
1833784 TAT
66 TAT
* *
1833787 TTACTCTTGCCTTCTAGATTGGGTAATCACTGATTTATACATGCATTTTCATTTCCTTGTGTCTT
1 TTACACTTGCCTTCTAGATTGGGTAATCACTGATTTATACATGCATTTTCATTTCCTTGCGTCTT
1833852 TAT
66 TAT
1833855 TTA
1 TTA
1833858 GTACTTCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (68 bp):
TTACACTTGCCTTCTAGATTGGGTAATCACTGATTTATACATGCATTTTCATTTCCTTGCGTCTT
TAT
Found at i:1835207 original size:26 final size:28
Alignment explanation
Indices: 1835147--1835207 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 28
1835137 CCGCCTTTAG
* *
1835147 AACAAAGAACAAAAACAGCACCATCTTTA
1 AACAAA-AACAAAAACAGCACCAACTATA
*
1835176 AA-AAAAA-AAACACAGCACCAAC-ATA
1 AACAAAAACAAAAACAGCACCAACTATA
1835201 AACAAAA
1 AACAAAA
1835208 CTCACCAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 4 0.14
26 17 0.61
27 2 0.07
28 3 0.11
29 2 0.07
ACGTcount: A:0.64, C:0.23, G:0.05, T:0.08
Consensus pattern (28 bp):
AACAAAAACAAAAACAGCACCAACTATA
Found at i:1846053 original size:39 final size:39
Alignment explanation
Indices: 1845999--1846078 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
1845989 CGGTGGAGAT
1845999 GGAGAGAGGGAATTTCACGGCTGAGATGGAGAAAAGGTG
1 GGAGAGAGGGAATTTCACGGCTGAGATGGAGAAAAGGTG
1846038 GGAGAGAGGGAATTTCACGGCTGAGATGGAGAAAAGGTG
1 GGAGAGAGGGAATTTCACGGCTGAGATGGAGAAAAGGTG
1846077 GG
1 GG
1846079 GGGGGGGAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.33, C:0.07, G:0.45, T:0.15
Consensus pattern (39 bp):
GGAGAGAGGGAATTTCACGGCTGAGATGGAGAAAAGGTG
Found at i:1846810 original size:16 final size:14
Alignment explanation
Indices: 1846788--1846835 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
1846778 CAGAATTTTT
1846788 AAATTTTATTAAAAA
1 AAATTTT-TTAAAAA
*
1846803 ATAATTTTTTAAATA
1 A-AATTTTTTAAAAA
**
1846818 AAATTTTGAAAAAA
1 AAATTTTTTAAAAA
1846832 AAAT
1 AAAT
1846836 ATACTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 14 0.50
15 8 0.29
16 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
AAATTTTTTAAAAA
Found at i:1847802 original size:27 final size:27
Alignment explanation
Indices: 1847763--1847836 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
1847753 TCGGATATGT
* *
1847763 TAACAAAACCGGTAAAAT-GTCCAATAA
1 TAACAAAATCGGTAAAATACT-CAATAA
1847790 TAACAAAATCGGTAAAATACTCAATAA
1 TAACAAAATCGGTAAAATACTCAATAA
* *
1847817 TAATAAAATCGATAGAAATA
1 TAACAAAATCGGTA-AAATA
1847837 ATAATATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
27 35 0.85
28 6 0.15
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.22
Consensus pattern (27 bp):
TAACAAAATCGGTAAAATACTCAATAA
Found at i:1847842 original size:27 final size:27
Alignment explanation
Indices: 1847784--1847842 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
1847774 GTAAAATGTC
* *
1847784 CAATAATAACAAAATCGGTAAAATACT
1 CAATAATAACAAAATCGATAAAATAAT
*
1847811 CAATAATAATAAAATCGATAGAAATAAT
1 CAATAATAACAAAATCGATA-AAATAAT
1847839 -AATA
1 CAATA
1847843 TTTCCAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (27 bp):
CAATAATAACAAAATCGATAAAATAAT
Found at i:1851809 original size:13 final size:13
Alignment explanation
Indices: 1851791--1851817 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1851781 AATCTAAACC
1851791 ACTCATTAAAATA
1 ACTCATTAAAATA
1851804 ACTCATTAAAATA
1 ACTCATTAAAATA
1851817 A
1 A
1851818 TCACTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
ACTCATTAAAATA
Found at i:1861428 original size:24 final size:24
Alignment explanation
Indices: 1861401--1861462 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
1861391 GTTCGTGAAC
* *
1861401 GTTCGGTTATGTTCGCTCGGTTAT
1 GTTCGTTTATGTTCGCTCGATTAT
*
1861425 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGCTCGATTAT
1861449 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
1861463 ATTCATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.52
Consensus pattern (24 bp):
GTTCGTTTATGTTCGCTCGATTAT
Found at i:1861455 original size:14 final size:14
Alignment explanation
Indices: 1861400--1861455 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
1861390 CGTTCGTGAA
1861400 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
1861414 CGCTCGGTTATGTT
1 CGTTCGGTTATGTT
1861428 CG-T---TTATGTT
1 CGTTCGGTTATGTT
*
1861438 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
1861452 CGTT
1 CGTT
1861456 TATGTTCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.50
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:1861472 original size:24 final size:24
Alignment explanation
Indices: 1861401--1861475 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
1861391 GTTCGTGAAC
* ** *
1861401 GTTCGGTTATGTTCGCTCGGTTAT
1 GTTCGTTTATGTTCATTCGATTAT
*
1861425 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCATTCGATTAT
1861449 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCATTCGA-TTAT
1861473 GTT
1 GTT
1861476 TAACACAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.12, C:0.13, G:0.21, T:0.53
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCGATTAT
Found at i:1862648 original size:16 final size:14
Alignment explanation
Indices: 1862618--1862662 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
1862608 AACAAAATTT
*
1862618 TGTTTGTTTGTTTA
1 TGTTCGTTTGTTTA
1862632 TGTTCGTATTCGTTTA
1 TGTTCGT-TT-GTTTA
1862648 TGTTCGTTTGTTTA
1 TGTTCGTTTGTTTA
1862662 T
1 T
1862663 TAAATGAACG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 12 0.43
15 4 0.14
16 12 0.43
ACGTcount: A:0.09, C:0.07, G:0.20, T:0.64
Consensus pattern (14 bp):
TGTTCGTTTGTTTA
Found at i:1867669 original size:5 final size:5
Alignment explanation
Indices: 1867659--1867689 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
1867649 TATTATTATT
1867659 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG T
1867690 TTCTAAGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:1867875 original size:2 final size:2
Alignment explanation
Indices: 1867868--1867924 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1867858 CCCTTACCCC
1867868 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
1867910 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1867925 GAAAAAAGGG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1869293 original size:18 final size:18
Alignment explanation
Indices: 1869270--1869305 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1869260 AGGTGCTAGA
1869270 TTTGAAGTTTTCAGATTT
1 TTTGAAGTTTTCAGATTT
1869288 TTTGAAGTTTTCAGATTT
1 TTTGAAGTTTTCAGATTT
1869306 ACAGAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.17, T:0.56
Consensus pattern (18 bp):
TTTGAAGTTTTCAGATTT
Found at i:1875558 original size:15 final size:16
Alignment explanation
Indices: 1875540--1875569 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1875530 TTTTGTAATT
1875540 TATTTTTTAT-TTTAG
1 TATTTTTTATATTTAG
1875555 TATTTTTTATATTTA
1 TATTTTTTATATTTA
1875570 ATTTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
TATTTTTTATATTTAG
Found at i:1875568 original size:28 final size:28
Alignment explanation
Indices: 1875522--1875576 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1875512 AATATATATA
*
1875522 TTTACTATTTTTGTAATTTATTTTTTAT
1 TTTACTATTTTTGTAATTTAATTTTTAT
*
1875550 TTTAGTATTTTT-TATATTTAATTTTTA
1 TTTACTATTTTTGTA-ATTTAATTTTTA
1875577 AAAATACTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (28 bp):
TTTACTATTTTTGTAATTTAATTTTTAT
Found at i:1876793 original size:25 final size:27
Alignment explanation
Indices: 1876741--1876794 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
1876731 CTTTACTTAT
* * *
1876741 TAAAATATTTTATTTATTTAAAGGATA
1 TAAAATATTTAATATATTTAAAGAATA
1876768 TAAAAT-TTTAATATATTTAAA-AATA
1 TAAAATATTTAATATATTTAAAGAATA
1876793 TA
1 TA
1876795 GATAAAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.21
26 13 0.54
27 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (27 bp):
TAAAATATTTAATATATTTAAAGAATA
Found at i:1877835 original size:9 final size:9
Alignment explanation
Indices: 1877821--1877896 Score: 62
Period size: 10 Copynumber: 7.8 Consensus size: 9
1877811 GGCTGCTGGA
1877821 AACCGGTTT
1 AACCGGTTT
1877830 AACCGGTTTT
1 AACCGG-TTT
1877840 CAACCGGTTGT
1 -AACCGGTT-T
* *
1877851 GATCGGTTT
1 AACCGGTTT
*
1877860 GACCGGTTTT
1 AACCGG-TTT
*
1877870 CAACCGGTTCG
1 -AACCGGTT-T
1877881 AACCGGTTT
1 AACCGGTTT
1877890 AACCGGT
1 AACCGGT
1877897 CTGAACCGAC
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
9 19 0.35
10 24 0.44
11 12 0.22
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (9 bp):
AACCGGTTT
Found at i:1877846 original size:11 final size:10
Alignment explanation
Indices: 1877821--1877896 Score: 59
Period size: 9 Copynumber: 7.7 Consensus size: 10
1877811 GGCTGCTGGA
1877821 AACCGG-TTT
1 AACCGGTTTT
1877830 AACCGGTTTT
1 AACCGGTTTT
*
1877840 CAACCGGTTGT
1 -AACCGGTTTT
* *
1877851 GATCGG-TTT
1 AACCGGTTTT
*
1877860 GACCGGTTTT
1 AACCGGTTTT
**
1877870 CAACCGGTTCG
1 -AACCGGTTTT
1877881 AACCGG-TTT
1 AACCGGTTTT
1877890 AACCGGT
1 AACCGGT
1877897 CTGAACCGAC
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
9 20 0.38
10 16 0.31
11 16 0.31
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (10 bp):
AACCGGTTTT
Found at i:1877888 original size:30 final size:30
Alignment explanation
Indices: 1877821--1877896 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 30
1877811 GGCTGCTGGA
1877821 AACCGGTTTAACCGGTTTTCAACCGGTTGT
1 AACCGGTTTAACCGGTTTTCAACCGGTTGT
* * *
1877851 GATCGGTTTGACCGGTTTTCAACCGGTTCG-
1 AACCGGTTTAACCGGTTTTCAACCGGTT-GT
1877881 AACCGGTTTAACCGGT
1 AACCGGTTTAACCGGT
1877897 CTGAACCGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (30 bp):
AACCGGTTTAACCGGTTTTCAACCGGTTGT
Found at i:1877902 original size:19 final size:19
Alignment explanation
Indices: 1877821--1877904 Score: 80
Period size: 20 Copynumber: 4.3 Consensus size: 19
1877811 GGCTGCTGGA
*
1877821 AACCGGTTTAACCGGTTTTC
1 AACCGGTTTAACCGG-TTTG
* *
1877841 AACCGGTTGTGATCGGTTTG
1 AACCGGTT-TAACCGGTTTG
*
1877861 -ACCGGTTTTCAACCGGTTCG
1 AACCGG-TTT-AACCGGTTTG
*
1877881 AACCGGTTTAACCGGTCTG
1 AACCGGTTTAACCGGTTTG
1877900 AACCG
1 AACCG
1877905 ACCCGACCCG
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
19 19 0.37
20 23 0.44
21 10 0.19
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (19 bp):
AACCGGTTTAACCGGTTTG
Found at i:1877931 original size:22 final size:22
Alignment explanation
Indices: 1877903--1877945 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1877893 CGGTCTGAAC
*
1877903 CGACCCGACCCGACTGTTGACT
1 CGACCCGACCCGACCGTTGACT
1877925 CGACCCGACCCGACCGTTGAC
1 CGACCCGACCCGACCGTTGAC
1877946 CGTTGACCGT
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:0.19, C:0.44, G:0.23, T:0.14
Consensus pattern (22 bp):
CGACCCGACCCGACCGTTGACT
Found at i:1885067 original size:9 final size:9
Alignment explanation
Indices: 1885053--1885148 Score: 66
Period size: 10 Copynumber: 9.8 Consensus size: 9
1885043 GGCTGCTGGA
1885053 AACCGGTTT
1 AACCGGTTT
1885062 AACCGGTTTT
1 AACCGG-TTT
1885072 CAACCGGTTCT
1 -AACCGGTT-T
* *
1885083 GACCAGTTT
1 AACCGGTTT
*
1885092 GACCGGTTT
1 AACCGGTTT
1885101 CAACCGGTTCT
1 -AACCGGTT-T
*
1885112 GACCGGTTTT
1 AACCGG-TTT
*
1885122 CAACCGGTTCG
1 -AACCGGTT-T
1885133 AACCGGTTT
1 AACCGGTTT
*
1885142 GACCGGT
1 AACCGGT
1885149 CTGACTCGAC
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
9 21 0.30
10 34 0.49
11 15 0.21
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (9 bp):
AACCGGTTT
Found at i:1885108 original size:10 final size:10
Alignment explanation
Indices: 1885053--1885141 Score: 62
Period size: 9 Copynumber: 8.9 Consensus size: 10
1885043 GGCTGCTGGA
1885053 AACCGGTTT-
1 AACCGGTTTC
1885062 AACCGGTTTTC
1 AACCGG-TTTC
1885073 AACCGG-TTC
1 AACCGGTTTC
* *
1885082 TGACCAGTTT-
1 -AACCGGTTTC
*
1885092 GACCGGTTTC
1 AACCGGTTTC
1885102 AACCGG-TTC
1 AACCGGTTTC
*
1885111 TGACCGGTTTTC
1 -AACCGG-TTTC
1885123 AACCGG-TTC
1 AACCGGTTTC
1885132 GAACCGGTTT
1 -AACCGGTTT
1885142 GACCGGTCTG
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
9 23 0.36
10 23 0.36
11 15 0.23
12 3 0.05
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (10 bp):
AACCGGTTTC
Found at i:1885124 original size:21 final size:21
Alignment explanation
Indices: 1885091--1885141 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1885081 CTGACCAGTT
1885091 TGACCGG-TTTCAACCGGTTC
1 TGACCGGTTTTCAACCGGTTC
1885111 TGACCGGTTTTCAACCGGTTC
1 TGACCGGTTTTCAACCGGTTC
1885132 -GAACCGGTTT
1 TG-ACCGGTTT
1885142 GACCGGTCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.16, C:0.27, G:0.25, T:0.31
Consensus pattern (21 bp):
TGACCGGTTTTCAACCGGTTC
Found at i:1885127 original size:50 final size:49
Alignment explanation
Indices: 1885053--1885148 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 49
1885043 GGCTGCTGGA
1885053 AACCGGTTTAACCGGTTTTCAACCGGTTCTG-ACCAGTTTGACCGGTTTC
1 AACCGGTTTAACCGGTTTTCAACCGGTTC-GAACCAGTTTGACCGGTTTC
* *
1885102 AACCGGTTCTGACCGGTTTTCAACCGGTTCGAACCGGTTTGACCGGT
1 AACCGGTT-TAACCGGTTTTCAACCGGTTCGAACCAGTTTGACCGGT
1885149 CTGACTCGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
49 9 0.21
50 34 0.79
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (49 bp):
AACCGGTTTAACCGGTTTTCAACCGGTTCGAACCAGTTTGACCGGTTTC
Found at i:1885175 original size:17 final size:17
Alignment explanation
Indices: 1885150--1885188 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
1885140 TTGACCGGTC
*
1885150 TGACTCGACCCGACCGT
1 TGACCCGACCCGACCGT
1885167 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
1885184 TGACC
1 TGACC
1885189 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.15
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:1887572 original size:13 final size:12
Alignment explanation
Indices: 1887554--1887656 Score: 50
Period size: 14 Copynumber: 8.0 Consensus size: 12
1887544 TCTATATGGA
1887554 TATTTTATTCATT
1 TATTTTATT-ATT
1887567 TATTTTTATTATT
1 TA-TTTTATTATT
*
1887580 CATTTTATTA-T
1 TATTTTATTATT
*
1887591 TATTATATGTATAT
1 TATTTTAT-TAT-T
* *
1887605 ATATATATATTAAAT
1 -TAT-TTTATT-ATT
1887620 TATTTTCATTTATT
1 TATTTT-A-TTATT
*
1887634 TA-TTT-TTACTA
1 TATTTTATTA-TT
1887645 TATTTTATTATT
1 TATTTTATTATT
1887657 ATTATATATA
Statistics
Matches: 70, Mismatches: 8, Indels: 25
0.68 0.08 0.24
Matches are distributed among these distances:
10 3 0.04
11 10 0.14
12 14 0.20
13 14 0.20
14 16 0.23
15 7 0.10
16 6 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TATTTTATTATT
Found at i:1887588 original size:18 final size:17
Alignment explanation
Indices: 1887554--1887596 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1887544 TCTATATGGA
1887554 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
1887570 TTTTATTATTCATTTTAT
1 TATTATTATTCA-TTTAT
1887588 TATTATTAT
1 TATTATTAT
1887597 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 7 0.30
18 13 0.57
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:1887908 original size:14 final size:15
Alignment explanation
Indices: 1887884--1887913 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1887874 TTTCGTTTTT
1887884 TATTCATTATTATTA
1 TATTCATTATTATTA
1887899 TATT-ATTATTATTA
1 TATTCATTATTATTA
1887913 T
1 T
1887914 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTCATTATTATTA
Found at i:1888106 original size:2 final size:2
Alignment explanation
Indices: 1888099--1888133 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1888089 TAATACTTTG
1888099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1888134 TTTTTCCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1888210 original size:18 final size:18
Alignment explanation
Indices: 1888178--1888255 Score: 70
Period size: 18 Copynumber: 4.4 Consensus size: 18
1888168 ATTACTTTAC
*
1888178 TATTTTTTTTC-TTATCT
1 TATTTATTTTCTTTATCT
* *
1888195 TATTTATTTTATTTATTT
1 TATTTATTTTCTTTATCT
**
1888213 TATTT-TTCCCTTGTATCT
1 TATTTATTTTCTT-TATCT
*
1888231 TATTTATTTTCTTTACCT
1 TATTTATTTTCTTTATCT
*
1888249 TGTTTAT
1 TATTTAT
1888256 CTAACACATT
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
17 13 0.28
18 29 0.62
19 5 0.11
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.71
Consensus pattern (18 bp):
TATTTATTTTCTTTATCT
Found at i:1888256 original size:27 final size:27
Alignment explanation
Indices: 1888178--1888257 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
1888168 ATTACTTTAC
* * * *
1888178 TATTTTTTTTC-TTATCTTATTTATTT
1 TATTTATTTTCTTTACCTTGTTTATCT
* *
1888204 TATTTATTTTATTTTTCCCTTG--TATCT
1 TATTTA-TTT-TCTTTACCTTGTTTATCT
1888231 TATTTATTTTCTTTACCTTGTTTATCT
1 TATTTATTTTCTTTACCTTGTTTATCT
1888258 AACACATTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
25 9 0.22
26 8 0.20
27 18 0.44
28 1 0.02
29 5 0.12
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.70
Consensus pattern (27 bp):
TATTTATTTTCTTTACCTTGTTTATCT
Found at i:1891635 original size:25 final size:25
Alignment explanation
Indices: 1891598--1891658 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
1891588 CTTATGCGTG
1891598 AACATTTTTAAGTCACTTGACGTTTA
1 AACA-TTTTAAGTCACTTGACGTTTA
1891624 AACATTTTAAGTCACTTGACGTTTA
1 AACATTTTAAGTCACTTGACGTTTA
1891649 AACATTTTAA
1 AACATTTTAA
1891659 ATAAAATACT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 31 0.89
26 4 0.11
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (25 bp):
AACATTTTAAGTCACTTGACGTTTA
Found at i:1892453 original size:183 final size:183
Alignment explanation
Indices: 1892140--1892675 Score: 950
Period size: 183 Copynumber: 2.9 Consensus size: 183
1892130 ATTAAATCCG
*
1892140 TAAAGCTGAGCTATTCCA-TAAGGCAATTGGTTATAAAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
1892204 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCATTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
1892269 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
1892322 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTAGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1892387 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
1892452 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
1892505 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * *
1892570 ATAGATTACATTCAAA-TCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTACT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
* *
1892634 TTTGTCAGGTCAAAGACTTTGTAATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
1892676 TAAACCTGAT
Statistics
Matches: 339, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
182 19 0.06
183 320 0.94
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:1893886 original size:36 final size:36
Alignment explanation
Indices: 1893846--1893962 Score: 99
Period size: 36 Copynumber: 3.1 Consensus size: 36
1893836 ATACTTTGTC
*
1893846 TCACTTGAGACTGTTTTTCTCGAAAGAAGATTTATT
1 TCACTTGAGACTGTTTTTCTCAAAAGAAGATTTATT
** * * * * *
1893882 TCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTC
1 TCACTTGAGACTGTTTTTCTCAAAAGAAGATTTATT
* * *
1893918 TCGCTTGAGACCGTTTTCACTCAAAAGAAGGCATTTTATT
1 TCACTTGAGACTGTTTT-TCTCAAAAGAA-G-A-TTTATT
1893958 TCACT
1 TCACT
1893963 CAAGGCTGTT
Statistics
Matches: 58, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
36 40 0.69
37 8 0.14
38 1 0.02
39 1 0.02
40 8 0.14
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (36 bp):
TCACTTGAGACTGTTTTTCTCAAAAGAAGATTTATT
Found at i:1893897 original size:72 final size:76
Alignment explanation
Indices: 1893805--1893979 Score: 202
Period size: 72 Copynumber: 2.4 Consensus size: 76
1893795 ATGCAGATGA
* * * * *
1893805 TTATCTCACTCAA-ATTTGTTTTTCTTAAAGCATA-CTTTGTCTCACTTGAGACTGTTTT-TCTC
1 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTC
*
1893867 GAAAGAA-G-A-T
64 AAAAGAAGGCATT
*
1893877 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCAA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCAA
1893942 AAGAAGGCATT
66 AAGAAGGCATT
**
1893953 TTATTTCACTCAAGGCTGTTTTT-TTAA
1 TTATTTCACTCAAGATTGTTTTTCTTAA
1893980 GAAGATTTTA
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
71 1 0.01
72 49 0.56
73 10 0.11
74 1 0.01
75 5 0.06
76 22 0.25
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (76 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCAA
AAGAAGGCATT
Found at i:1894130 original size:39 final size:39
Alignment explanation
Indices: 1894073--1894147 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
1894063 CCTTGAAATT
* *
1894073 AATTTTTTCTCTCCTGAGATAGTTTCACTCGAAACAGAA
1 AATTTTGTCTCTCCTGAGACAGTTTCACTCGAAACAGAA
* *
1894112 AATTTTGTCTC-CCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCTCC-TGAGACAGTTTCACTCGAAACA
1894148 TAAACATTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37
Consensus pattern (39 bp):
AATTTTGTCTCTCCTGAGACAGTTTCACTCGAAACAGAA
Found at i:1894254 original size:106 final size:104
Alignment explanation
Indices: 1894050--1894250 Score: 273
Period size: 106 Copynumber: 1.9 Consensus size: 104
1894040 ACAGTTTCAC
1894050 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCACTCGAAACAGAAAAT
1 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCACTCGAAACAGAAAAT
* ** *
1894115 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
66 TTTGTCTCCCTTGAAACAGTAACTATTGAAACATAAACA
* * * *
1894154 TTGAAAACATTTCCTTTGAAA-TAATTTTTTTTTCTCTCTTGATATAGTTTCCCTCGAAACAGAA
1 TTGAAAACATTTCCCTTGAAATTAA---TTTTTTCTCTCCTGAGATAGTTTCACTCGAAACAGAA
1894218 AATTTTGTCTCCCTTGAAACA-TAAAC-ATTGAAA
63 AATTTTGTCTCCCTTGAAACAGT-AACTATTGAAA
1894251 ACATTTCCCT
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
103 3 0.04
104 20 0.24
105 7 0.08
106 55 0.65
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.38
Consensus pattern (104 bp):
TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCACTCGAAACAGAAAAT
TTTGTCTCCCTTGAAACAGTAACTATTGAAACATAAACA
Found at i:1894264 original size:106 final size:104
Alignment explanation
Indices: 1894035--1894265 Score: 261
Period size: 106 Copynumber: 2.2 Consensus size: 104
1894025 TTCGTCTCCC
* *
1894035 TTGAGACAGTTTCACTTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCA
1 TTGAAACA-TTTCCCTTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCA
* ** *
1894100 CTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCTC
65 CTCGAAACAGAAAATTTTGTCTCCCTTGAAACAGTAACTA
*** * * * *
1894140 TTGAAACATAAACATTGAAAACATTTCCTTTGAAA-TAATTTTTTTTTCTCTCTTGATATAGTTT
1 TTGAAACATTTCCCTTGAAAACATTTCCCTTGAAATTAA---TTTTTTCTCTCCTGAGATAGTTT
*
1894204 CCCTCGAAACAGAAAATTTTGTCTCCCTTGAAACA-TAAAC-A
63 CACTCGAAACAGAAAATTTTGTCTCCCTTGAAACAGT-AACTA
1894245 TTGAAAACATTTCCCTTGAAA
1 TTG-AAACATTTCCCTTGAAA
1894266 TGAATTTTAT
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
103 3 0.03
104 21 0.20
105 11 0.11
106 68 0.66
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (104 bp):
TTGAAACATTTCCCTTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCAC
TCGAAACAGAAAATTTTGTCTCCCTTGAAACAGTAACTA
Found at i:1894301 original size:36 final size:36
Alignment explanation
Indices: 1894254--1894329 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
1894244 ATTGAAAACA
* * *
1894254 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
1894290 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
1894326 TTTC
1 TTTC
1894330 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:1894723 original size:105 final size:105
Alignment explanation
Indices: 1894529--1894801 Score: 447
Period size: 105 Copynumber: 2.6 Consensus size: 105
1894519 ATATCGTGAC
* * * * *
1894529 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGCTTGTCAAC-AACAACTTCTC
1894594 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1894635 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTTAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGCTTGTCAACAACAACTTCTCA
1894700 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1894740 ACTTCAGACAATGCAAGTTCAACTTCACGACGGAGGGACGGCTGCTTGTCAACAACAACTTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGCTTGTCAACAACAACTTC
1894802 ACAACGAAGG
Statistics
Matches: 155, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
105 109 0.70
106 46 0.30
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGCTTGTCAACAACAACTTCTCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:1894762 original size:43 final size:42
Alignment explanation
Indices: 1894714--1894854 Score: 125
Period size: 43 Copynumber: 3.5 Consensus size: 42
1894704 CAGAGCCAAT
*
1894714 TTCAACTTCACAACGAAGGATATTGGACTTCAGACAATGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAA-GCAAG
* * * * ** *
1894757 TTCAACTTCACGACGGAGG-GA-CGG-CTGCTTGTCAA-CAA-
1 TTCAACTTCACAACGAAGGATATTGGACT-CCAGACAAGCAAG
1894795 --CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAA-GCAAG
*
1894836 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
1894855 GACCGCTGCT
Statistics
Matches: 73, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
36 15 0.21
37 1 0.01
38 7 0.10
39 5 0.07
40 5 0.07
41 6 0.08
42 1 0.01
43 33 0.45
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (42 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAAGCAAG
Found at i:1894847 original size:79 final size:79
Alignment explanation
Indices: 1894716--1894880 Score: 294
Period size: 79 Copynumber: 2.1 Consensus size: 79
1894706 GAGCCAATTT
* * * *
1894716 CAACTTCACAACGAAGGATATTGGACTTCAGACAATGCAAGTTCAACTTCACGACGGAGGGACGG
1 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
1894781 CTGCTTGTCAACAA
66 CTGCTTGTCAACAA
1894795 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
1 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
1894860 CTGCTTGTCAACAA
66 CTGCTTGTCAACAA
1894874 CAACTTC
1 CAACTTC
1894881 CCAATCTCAG
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (79 bp):
CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
CTGCTTGTCAACAA
Found at i:1894920 original size:184 final size:184
Alignment explanation
Indices: 1894611--1894975 Score: 649
Period size: 184 Copynumber: 2.0 Consensus size: 184
1894601 GAGCCAATTT
1894611 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
1 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* * * *
1894676 CTGCTTGTTAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
66 CTGCTTGTCAACAACAACTTCCCAATCTCAGAGACAATTTCAACTTCACAACGAAGGATATTGGA
* * * * *
1894741 CTTCAGACAATGCAAGTTCAACTTCACGACGGAGGGACGGCTGCTTGTCAACAA
131 CTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAACAA
1894795 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
1 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
1894860 CTGCTTGTCAACAACAACTTCCCAATCTCAGAGACAATTTCAACTTCACAACGAAGGATATTGGA
66 CTGCTTGTCAACAACAACTTCCCAATCTCAGAGACAATTTCAACTTCACAACGAAGGATATTGGA
1894925 CTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAA
131 CTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAA
1894976 AAAAATTCAT
Statistics
Matches: 172, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
184 172 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (184 bp):
CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
CTGCTTGTCAACAACAACTTCCCAATCTCAGAGACAATTTCAACTTCACAACGAAGGATATTGGA
CTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAACAA
Found at i:1895058 original size:99 final size:102
Alignment explanation
Indices: 1894795--1895132 Score: 448
Period size: 99 Copynumber: 3.3 Consensus size: 102
1894785 TTGTCAACAA
1894795 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
1 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
*
1894860 CTGCTTGTCAACAACAACTTCCCAATCTCAGAGACAATTT
66 CTGCTTGTCAACAA-AAATT-CCAAT-TCAGAGACAATTT
*
1894900 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCG
1 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
*
1894965 CTGCTTGTCAA-AAAAATT-C-ATTCAGAGTCAATTT
66 CTGCTTGTCAACAAAAATTCCAATTCAGAGACAATTT
* * * * * * *
1894999 CAACTTCACAGCGAAAGATATTGGACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGG
1 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* ** *
1895064 CTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTT
66 CTGCTTGTCAACAAA-AA-TT-CCAATT-CAGAGACAATTT
* *
1895105 CAACTTCACGACGGAGGATATTGGACTC
1 CAACTTCACAACGAAGGATATTGGACTC
1895133 GGAACAATGC
Statistics
Matches: 208, Mismatches: 18, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
99 79 0.38
100 5 0.02
101 3 0.01
102 2 0.01
103 4 0.02
104 3 0.01
105 77 0.37
106 35 0.17
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (102 bp):
CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
CTGCTTGTCAACAAAAATTCCAATTCAGAGACAATTT
Found at i:1895769 original size:37 final size:37
Alignment explanation
Indices: 1895675--1895771 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
1895665 CATTTTCGTC
1895675 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
1895712 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
1895749 CTACTAAGATTTAAATTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
1895772 GATATGATCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:1896687 original size:2 final size:2
Alignment explanation
Indices: 1896680--1896719 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1896670 TAATACTTTG
* *
1896680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1896720 TTTTTTCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:1897600 original size:2 final size:2
Alignment explanation
Indices: 1897587--1897642 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
1897577 TAGATAAGGG
*
1897587 GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1897629 GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA
1897643 AGGGGAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1906485 original size:3 final size:3
Alignment explanation
Indices: 1906477--1906504 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1906467 TCTTTTAATT
1906477 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1906505 AGTATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:1908209 original size:2 final size:2
Alignment explanation
Indices: 1908202--1908226 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1908192 ATCCTAACCT
1908202 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1908227 GGTCAGGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1908791 original size:31 final size:31
Alignment explanation
Indices: 1908754--1908813 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1908744 AGTTGTATGG
* *
1908754 ATTATTTAAATATCAGTATTGTAAAACTAAA
1 ATTATTTAAATATCAATATTGCAAAACTAAA
*
1908785 ATTATTTAAATTTCAATATTGCAAAACTA
1 ATTATTTAAATATCAATATTGCAAAACTA
1908814 TTTTAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (31 bp):
ATTATTTAAATATCAATATTGCAAAACTAAA
Found at i:1915435 original size:2 final size:2
Alignment explanation
Indices: 1915428--1915461 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1915418 CAAATCTTTC
1915428 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
1915462 TAATATGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1916897 original size:3 final size:3
Alignment explanation
Indices: 1916889--1916941 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
1916879 ATTGATAATT
* * * *
1916889 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA -AA TAT TAT TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1916936 TAA TAA
1 TAA TAA
1916942 ATAAAAAAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 1 0.02
3 44 0.98
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1917487 original size:2 final size:2
Alignment explanation
Indices: 1917482--1917527 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
1917472 TTTTTTAGTG
1917482 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT -T AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1917521 AT AT AT A
1 AT AT AT A
1917528 AAATTAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1917535 original size:19 final size:19
Alignment explanation
Indices: 1917499--1917549 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
1917489 TATATATATA
*
1917499 TATATATATATATATAATTAT
1 TATATATA-AAATATAATT-T
1917520 TATATATAAAAT-TAATTT
1 TATATATAAAATATAATTT
*
1917538 TTTATTATAAAA
1 TATA-TATAAAA
1917550 AATTTAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.15
19 12 0.44
20 3 0.11
21 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATATAAAATATAATTT
Found at i:1919590 original size:21 final size:22
Alignment explanation
Indices: 1919548--1919591 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
1919538 ATTGTCATAG
*
1919548 GGGAACCGATTCCCCTGATACA
1 GGGAACCGATTACCCTGATACA
*
1919570 GGGAACCGA-TACCCTGCTACA
1 GGGAACCGATTACCCTGATACA
1919591 G
1 G
1919592 TACTTCCGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.27, C:0.32, G:0.25, T:0.16
Consensus pattern (22 bp):
GGGAACCGATTACCCTGATACA
Found at i:1921368 original size:76 final size:75
Alignment explanation
Indices: 1921277--1921441 Score: 233
Period size: 76 Copynumber: 2.2 Consensus size: 75
1921267 TTAAACTCAA
* *
1921277 ATTTAGGAAAATATTTTAAACATTATAT-TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGT
1 ATTTAGGATATTATTTT-AACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGG-TTTTAGT
1921341 ATTTTAATTAAG
64 ATTTTAATTAAG
* * * *
1921353 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
1 ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
*
1921418 TTTAATTAGG
66 TTTAATTAAG
*
1921428 ATTTAGAATATTAT
1 ATTTAGGATATTAT
1921442 ATTATTTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 37 0.47
76 42 0.53
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (75 bp):
ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
TTTAATTAAG
Found at i:1921427 original size:19 final size:19
Alignment explanation
Indices: 1921399--1921461 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
1921389 TGTATTTTAG
*
1921399 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
1921418 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* **
1921437 ATTATATTATTTTTTAGGTAT
1 TTTA-ATTAGGTTTTA-GTAT
1921458 TTTA
1 TTTA
1921462 GTTTAAATAG
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 8 0.24
21 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:1923916 original size:15 final size:15
Alignment explanation
Indices: 1923898--1923940 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
1923888 TAAAAAGATA
1923898 CACATCAGGAAGACG
1 CACATCAGGAAGACG
1923913 CACATCAGGAAGACG
1 CACATCAGGAAGACG
*
1923928 CACATCAGAAAGA
1 CACATCAGGAAGA
1923941 ACAAGAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.44, C:0.26, G:0.23, T:0.07
Consensus pattern (15 bp):
CACATCAGGAAGACG
Found at i:1927860 original size:21 final size:20
Alignment explanation
Indices: 1927836--1927883 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1927826 CATTTCGTTA
*
1927836 TATTTTTGTTTTTATTTTTTT
1 TATTTTTG-TTTTATTTTCTT
*
1927857 TATTTTCGTTTTATTTTCTT
1 TATTTTTGTTTTATTTTCTT
1927877 TATTTTT
1 TATTTTT
1927884 TAGCGAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.81
Consensus pattern (20 bp):
TATTTTTGTTTTATTTTCTT
Found at i:1927868 original size:11 final size:11
Alignment explanation
Indices: 1927828--1927882 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 11
1927818 AGGTAACCCA
*
1927828 TTTCGTTATAT
1 TTTCGTTTTAT
*
1927839 TTTTGTTTTTAT
1 TTTCG-TTTTAT
1927851 TTT--TTTTAT
1 TTTCGTTTTAT
1927860 TTTCGTTTTAT
1 TTTCGTTTTAT
1927871 TTTC--TTTAT
1 TTTCGTTTTAT
1927880 TTT
1 TTT
1927883 TTAGCGAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 17 0.44
11 14 0.36
12 8 0.21
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.78
Consensus pattern (11 bp):
TTTCGTTTTAT
Found at i:1928055 original size:12 final size:12
Alignment explanation
Indices: 1928038--1928062 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1928028 CAAATAATGC
1928038 AGTGCAGAAAAA
1 AGTGCAGAAAAA
1928050 AGTGCAGAAAAA
1 AGTGCAGAAAAA
1928062 A
1 A
1928063 CAGATTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.24, T:0.08
Consensus pattern (12 bp):
AGTGCAGAAAAA
Found at i:1929815 original size:19 final size:19
Alignment explanation
Indices: 1929787--1929849 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
1929777 TGTATTTTAG
*
1929787 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
1929806 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* **
1929825 ATTATATTATTTTTTAGTTAT
1 TTTA-ATTAGGTTTTAG-TAT
1929846 TTTA
1 TTTA
1929850 GTTTAAATAG
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:1930519 original size:23 final size:23
Alignment explanation
Indices: 1930477--1930526 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1930467 CTTTAGTTTG
*
1930477 TTTATTTAATTATTTCTTTTTCT
1 TTTATTTAATTATTTCTTTTTAT
*
1930500 TTTATTTAATTCTTAT-TTTTTAT
1 TTTATTTAATTATT-TCTTTTTAT
1930523 TTTA
1 TTTA
1930527 ACCACAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTATTTAATTATTTCTTTTTAT
Found at i:1930598 original size:21 final size:21
Alignment explanation
Indices: 1930568--1930609 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1930558 TATTTATTAC
*
1930568 TATTAATATTTATTATTATAT
1 TATTAATATTTATTAATATAT
* *
1930589 TATTATTATTTTTTAATATAT
1 TATTAATATTTATTAATATAT
1930610 CTTTTTAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTAATATTTATTAATATAT
Found at i:1933427 original size:18 final size:18
Alignment explanation
Indices: 1933404--1933439 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1933394 AGGGATTTAC
*
1933404 AGTGGTCCTCCGGGACAT
1 AGTGGTCATCCGGGACAT
*
1933422 AGTGGTCATTCGGGACAT
1 AGTGGTCATCCGGGACAT
1933440 TTCATAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.33, T:0.25
Consensus pattern (18 bp):
AGTGGTCATCCGGGACAT
Found at i:1933449 original size:23 final size:24
Alignment explanation
Indices: 1933419--1933471 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 24
1933409 TCCTCCGGGA
1933419 CATAGTGGTCATTCGGGAC-ATTT
1 CATAGTGGTCATTCGGGACAATTT
1933442 CATAGTGGTCATTCGGGACAAATTT
1 CATAGTGGTCATTCGGGAC-AATTT
1933467 CATAG
1 CATAG
1933472 CCCCTAATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 19 0.68
25 9 0.32
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (24 bp):
CATAGTGGTCATTCGGGACAATTT
Found at i:1936308 original size:19 final size:19
Alignment explanation
Indices: 1936284--1936335 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
1936274 AATGCATTTC
1936284 ATGCATCGATGCACATACA
1 ATGCATCGATGCACATACA
1936303 ATGCATCGATGCACATACA
1 ATGCATCGATGCACATACA
1936322 ATGCATCGATGCAC
1 ATGCATCGATGCAC
1936336 TCAGAGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (19 bp):
ATGCATCGATGCACATACA
Found at i:1936392 original size:19 final size:19
Alignment explanation
Indices: 1936368--1936438 Score: 124
Period size: 19 Copynumber: 3.7 Consensus size: 19
1936358 AATGCATTTG
1936368 ATGCATCGATGCACCAGCC
1 ATGCATCGATGCACCAGCC
* *
1936387 ATGCATCGATACACTAGCC
1 ATGCATCGATGCACCAGCC
1936406 ATGCATCGATGCACCAGCC
1 ATGCATCGATGCACCAGCC
1936425 ATGCATCGATGCAC
1 ATGCATCGATGCAC
1936439 TCATGCTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.18
Consensus pattern (19 bp):
ATGCATCGATGCACCAGCC
Found at i:1936410 original size:103 final size:102
Alignment explanation
Indices: 1936283--1936483 Score: 257
Period size: 103 Copynumber: 2.0 Consensus size: 102
1936273 GAATGCATTT
* *
1936283 CATGCATCGATGCACATACAATGCATCGATGCA-CATACAATGCATCGATGCACTCA-GAGT-TT
1 CATGCATCGATACACATACAATGCATCGATGCACCA-ACAATGCATCGATGCACTCATG-CTATT
*
1936345 TATGAAAACATCGAATGCATTTGATGCATCGATGCACCAGC
64 T-TG-AAACATCAAATGCATTTGATGCATCGATGCACCAGC
* * *
1936386 CATGCATCGATACAC-TAGCCATGCATCGATGCACCAGCCATGCATCGATGCACTCATGCTATTT
1 CATGCATCGATACACATA-CAATGCATCGATGCACCAACAATGCATCGATGCACTCATGCTATTT
* *
1936450 TGAAACATCAAATGCATTTTATGCATCGGTGCAC
65 TGAAACATCAAATGCATTTGATGCATCGATGCAC
1936484 TCTTAGTGCA
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
102 31 0.36
103 49 0.57
104 6 0.07
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (102 bp):
CATGCATCGATACACATACAATGCATCGATGCACCAACAATGCATCGATGCACTCATGCTATTTT
GAAACATCAAATGCATTTGATGCATCGATGCACCAGC
Found at i:1941787 original size:13 final size:14
Alignment explanation
Indices: 1941769--1941799 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1941759 GTATCATATT
1941769 TCACATA-TTCATA
1 TCACATAGTTCATA
1941782 TCACATAGTTCATA
1 TCACATAGTTCATA
1941796 TCAC
1 TCAC
1941800 TTGTATGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (14 bp):
TCACATAGTTCATA
Done.