Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 98 of 362
Found at i:31688423 original size:24 final size:24
Alignment explanation
Indices: 31688390--31688443 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
31688380 AAGGCTATCA
**
31688390 GGAGAAGATTTGGGAGCTGATAAG
1 GGAGAAGATTTAAGAGCTGATAAG
* *
31688414 GGAGAGGATTTAAGAGCTGATTAG
1 GGAGAAGATTTAAGAGCTGATAAG
31688438 GGAGAA
1 GGAGAA
31688444 CGGTGTTGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.41, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAAGAGCTGATAAG
Found at i:31689904 original size:27 final size:27
Alignment explanation
Indices: 31689864--31689974 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
31689854 AGGAAGCGTC
* * *
31689864 CTGGTGGCTATGCCACAATTACCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
31689891 CTGGTGGCTCTGCCACATTTATTTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
31689918 CTGGTGGCTCCGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* * *
31689945 CTGGTGACTCTGTCAC-ATTATCTATT
1 CTGGTGGCTCTGCCACAATTATCTGTT
31689971 CTGG
1 CTGG
31689975 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 13 0.18
27 58 0.82
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:31706749 original size:18 final size:18
Alignment explanation
Indices: 31706728--31706806 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
31706718 TTTTGGACAT
*
31706728 TCTTTTTCACTCTCATTC
1 TCTTTTTCTCTCTCATTC
31706746 TCTTTTTGCTCTCTTTCATTC
1 TCTTTTT-CTCTC--TCATTC
*
31706767 TCTTTTTCTGTCTCAATT-
1 TCTTTTTCTCTCTC-ATTC
31706785 TCTTTTTCT-T-TCATT-
1 TCTTTTTCTCTCTCATTC
31706800 TCTTTTT
1 TCTTTTT
31706807 TGTGTATCTC
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
15 10 0.18
16 2 0.04
17 1 0.02
18 18 0.33
19 7 0.13
20 4 0.07
21 13 0.24
ACGTcount: A:0.08, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TCTTTTTCTCTCTCATTC
Found at i:31716402 original size:93 final size:93
Alignment explanation
Indices: 31716290--31716461 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31716280 CGCCCATAAG
* *
31716290 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31716355 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
31716383 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31716448 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
31716462 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:31716458 original size:46 final size:46
Alignment explanation
Indices: 31716283--31716458 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
31716273 TGTAACCCGC
* * *
31716283 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
31716329 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
31716379 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31716422 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31716459 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31728325 original size:19 final size:19
Alignment explanation
Indices: 31728298--31728337 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
31728288 TTATTCTAGC
*
31728298 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAACATG
* *
31728317 AACTTAATTGACTAACATG
1 AACTAAATTAACTAACATG
31728336 AA
1 AA
31728338 TAATTTATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAACATG
Found at i:31728366 original size:35 final size:35
Alignment explanation
Indices: 31728317--31728397 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 35
31728307 AACTAAGATG
*
31728317 AACTTAATTGACTAACATGAATAATTTATTCCAGC
1 AACTTAATTAACTAACATGAATAATTTATTCCAGC
* * *
31728352 AACTTAATTAACTAAGATGAGTAATTTATTCTAGC
1 AACTTAATTAACTAACATGAATAATTTATTCCAGC
31728387 AACTTAATTAA
1 AACTTAATTAA
31728398 TTAAACTAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.36
Consensus pattern (35 bp):
AACTTAATTAACTAACATGAATAATTTATTCCAGC
Found at i:31730430 original size:16 final size:15
Alignment explanation
Indices: 31730402--31730441 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
31730392 TCTCACTATC
31730402 TTTCTTTTTTTTCAT
1 TTTCTTTTTTTTCAT
31730417 TTTCTTTTTCTTTCA-
1 TTTCTTTTT-TTTCAT
*
31730432 TGTCTTTTTT
1 TTTCTTTTTT
31730442 CCTTTTGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 17 0.74
16 5 0.22
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.78
Consensus pattern (15 bp):
TTTCTTTTTTTTCAT
Found at i:31730492 original size:36 final size:35
Alignment explanation
Indices: 31730417--31730497 Score: 83
Period size: 36 Copynumber: 2.3 Consensus size: 35
31730407 TTTTTTTCAT
* * * *
31730417 TTTCTTTTTCTTTCATGTCTTTTTTCCTTTTGTCTA
1 TTTC-TTTTCTATCATGTCTTTTTTCCTTCTCTCAA
*
31730453 TTTCATTTTCTATCATTTCATTTTTT-CTTCTCTCAA
1 TTTC-TTTTCTATCATGTC-TTTTTTCCTTCTCTCAA
31730489 TTTCTTTTC
1 TTTCTTTTC
31730498 CTTTCTTCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 5 0.13
36 27 0.71
37 6 0.16
ACGTcount: A:0.10, C:0.21, G:0.02, T:0.67
Consensus pattern (35 bp):
TTTCTTTTCTATCATGTCTTTTTTCCTTCTCTCAA
Found at i:31732308 original size:23 final size:22
Alignment explanation
Indices: 31732260--31732321 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
31732250 TTAAGCATGT
* **
31732260 ATAATGCTCCCTTTAATGGATG
1 ATAATGCTCCCTTTAATGAAAA
*
31732282 ATAATAGCTCCTTTTAATGAAAA
1 ATAAT-GCTCCCTTTAATGAAAA
*
31732305 ATAATGCTTCCCCTTAA
1 ATAATGC-TCCCTTTAA
31732322 ATGTAACCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 7 0.22
23 25 0.78
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (22 bp):
ATAATGCTCCCTTTAATGAAAA
Found at i:31738377 original size:46 final size:46
Alignment explanation
Indices: 31738320--31738580 Score: 173
Period size: 46 Copynumber: 5.6 Consensus size: 46
31738310 TCATTTGTGT
31738320 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTA-GA
* **
31738366 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT---CTTCATTGAGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACATT-AGA
* * * * * *
31738411 CGAGTGCTAGTGTAAGA-CATGTTTGGGACATACATCTGCCTCGTGACGTA
1 -GA--GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTA-G-A
* * * *
31738461 -AGCCAGTATAAGA-CATGTCTGGGACATGCATCGGCTAC--GAGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTAGA
* * **
31738503 TGTGTTAGTGTAAGACCATGTCTGGGACATGTCATTAG-CACAGTTATGTGA
1 -GAGCTAGTGTAAGACCATGTCTGGGACATG-CATCGGCCACA-TTA---GA
31738554 GAGCTAGTGTAAGACCATGTCTGGGAC
1 GAGCTAGTGTAAGACCATGTCTGGGAC
31738581 CTGGCATCAG
Statistics
Matches: 168, Mismatches: 26, Indels: 38
0.72 0.11 0.16
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 11 0.07
45 24 0.14
46 53 0.32
47 27 0.16
48 18 0.11
49 5 0.03
50 26 0.15
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (46 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTAGA
Found at i:31738431 original size:94 final size:92
Alignment explanation
Indices: 31738322--31738588 Score: 267
Period size: 94 Copynumber: 2.9 Consensus size: 92
31738312 ATTTGTGTGA
*
31738322 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTC
**
31738387 TGGGACATGGCATCTTCATTGA-GACGA-GT
66 TGGGACATGGCATCGGC--T-ACGA-GATGT
* * * * * * * *
31738416 GCTAGTGTAAGACATGTTTGGGACATACATCTGCCTCGTGACGTA-AGCCAGTATAAGA-CATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATG-AGAGCCAGTGTAAGACCATGT
31738479 CTGGGACAT-GCATCGGCTACGAGATGT
65 CTGGGACATGGCATCGGCTACGAGATGT
* * *
31738506 GTTAGTGTAAGACCATGTCTGGGACATGTCATTAG-CACAGTTATGTGAGAGCTAGTGTAAGACC
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCAGCCACA-TTA--TGAGAGCCAGTGTAAGACC
*
31738570 ATGTCTGGGACCTGGCATC
61 ATGTCTGGGACATGGCATC
31738589 AGCACTTTAC
Statistics
Matches: 140, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
89 3 0.02
90 16 0.11
91 15 0.11
92 12 0.09
93 15 0.11
94 60 0.43
95 14 0.10
96 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCTACGAGATGT
Found at i:31740712 original size:68 final size:68
Alignment explanation
Indices: 31740635--31740810 Score: 175
Period size: 68 Copynumber: 2.6 Consensus size: 68
31740625 CATCATGTGT
** * * *
31740635 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGATA-TAAAT-GTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CACC
31740697 ATGTAG
63 ATGTAG
* * *
31740703 ACAAGAGAGCTACGGGAGAGATAAATGTAGCTAGGTCACGTGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGATATAAATGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACACC
31740768 ATGTAG
63 ATGTAG
*
31740774 ACAAGAGAGCTACGAG--ATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATG
31740811 GGTGGTACTA
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
66 13 0.14
67 6 0.07
68 33 0.36
69 7 0.08
70 6 0.07
71 27 0.29
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCATG
TAG
Found at i:31748971 original size:40 final size:40
Alignment explanation
Indices: 31748901--31749078 Score: 243
Period size: 40 Copynumber: 4.5 Consensus size: 40
31748891 AAGCCAAGTA
* * * *
31748901 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
31748940 CCTTCGGGACATAACCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
31748980 CCTTCAGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
31749020 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
31749060 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
31749079 TTATCATCCA
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 12 0.10
40 112 0.90
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:31752873 original size:46 final size:46
Alignment explanation
Indices: 31752823--31752996 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
31752813 GTTGAGCATC
* *
31752823 CGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTT
* * * * * *
31752869 CGAACTCGTTGAGTTGAGTCCTAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTT
* * *
31752916 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTT
*
31752962 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31752997 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.59
47 26 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTT
Found at i:31752977 original size:93 final size:93
Alignment explanation
Indices: 31752818--31752988 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
31752808 GGATGGTTGA
* *
31752818 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACGATCGAACTCGTTGAGT
*
31752883 TGAGTCCTAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
31752911 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGATCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACGATCGAACTCGTTGAGT
31752976 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
31752989 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACGATCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31759341 original size:17 final size:17
Alignment explanation
Indices: 31759319--31759352 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
31759309 TCAACGGGAA
31759319 ATATAAATTTATCGATT
1 ATATAAATTTATCGATT
31759336 ATATAAATTTATCGATT
1 ATATAAATTTATCGATT
31759353 TTAACTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (17 bp):
ATATAAATTTATCGATT
Found at i:31764096 original size:40 final size:40
Alignment explanation
Indices: 31764041--31764228 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
31764031 GGATATAACT
* *
31764041 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-GAGTA
* *
31764081 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTGAGTA
* *
31764121 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTGAGTA
* *
31764161 ACTCGCACAGATGCCTTCGGGACTTAGCCCGGATT-AGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTGAGTA
* ** *
31764200 ACTAGTGCAGATGCCTTCGGGACTTAGCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCC
31764229 TGGTTTTCAT
Statistics
Matches: 135, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 29 0.21
40 104 0.77
41 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTGAGTA
Found at i:31768892 original size:15 final size:15
Alignment explanation
Indices: 31768872--31768905 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
31768862 GTGTTGTAAA
31768872 TTGGATTTCCTTATC
1 TTGGATTTCCTTATC
* *
31768887 TTGGATTTCTTTATT
1 TTGGATTTCCTTATC
31768902 TTGG
1 TTGG
31768906 GCTTCTTCGT
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:0.12, C:0.12, G:0.18, T:0.59
Consensus pattern (15 bp):
TTGGATTTCCTTATC
Found at i:31769587 original size:14 final size:15
Alignment explanation
Indices: 31769568--31769596 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31769558 AAAGTTAATA
31769568 TGGATT-TTCTTGTC
1 TGGATTATTCTTGTC
31769582 TGGATTATTCTTGTC
1 TGGATTATTCTTGTC
31769597 CTTGAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.10, C:0.14, G:0.21, T:0.55
Consensus pattern (15 bp):
TGGATTATTCTTGTC
Found at i:31775676 original size:31 final size:31
Alignment explanation
Indices: 31775641--31775709 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
31775631 TTAAATGGTG
* * *
31775641 CATAATTCCCTCCTTAAATGTTGTCGATATA
1 CATAACTCCCTCCTTAAATATTGTCCATATA
*
31775672 CATAACTCCCTCCTTAAATATTGTCCATGTA
1 CATAACTCCCTCCTTAAATATTGTCCATATA
31775703 CATAACT
1 CATAACT
31775710 GACATAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.36
Consensus pattern (31 bp):
CATAACTCCCTCCTTAAATATTGTCCATATA
Found at i:31779042 original size:40 final size:40
Alignment explanation
Indices: 31778969--31779113 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
31778959 CTCGCACAAG
* * * * * * *
31778969 GCCTTCAGGTCTTAACCCGAATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
31779009 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
31779049 GCCTTC-GGATCTTAGTCTGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
31779090 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
31779114 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 56 0.64
41 26 0.30
42 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:31782065 original size:20 final size:21
Alignment explanation
Indices: 31782031--31782070 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
31782021 CTCCACTCTC
31782031 TCATGTTTTCCTTTCTTTCTA
1 TCATGTTTTCCTTTCTTTCTA
*
31782052 TCAT-TTTTCTTTTCTTTCT
1 TCATGTTTTCCTTTCTTTCT
31782071 CTTTTTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.07, C:0.23, G:0.03, T:0.68
Consensus pattern (21 bp):
TCATGTTTTCCTTTCTTTCTA
Found at i:31787270 original size:39 final size:40
Alignment explanation
Indices: 31787225--31787449 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
31787215 GCTCCTCGTT
* * * *
31787225 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
31787265 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
31787304 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
31787344 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
31787384 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
31787425 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31787450 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31787458 original size:41 final size:41
Alignment explanation
Indices: 31787381--31787458 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31787371 CTTGTATCTC
* * *
31787381 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31787422 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31787459 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31795170 original size:39 final size:40
Alignment explanation
Indices: 31795125--31795349 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
31795115 GCTCCTCGTT
* * * *
31795125 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
31795165 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
31795204 CGAATGCCTTCGGGACTTAACCCGGATTTAGCATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
31795244 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
31795284 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
31795325 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31795350 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 38 0.25
40 103 0.66
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31795358 original size:41 final size:41
Alignment explanation
Indices: 31795281--31795358 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31795271 CTTGTATCTC
* * *
31795281 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31795322 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31795359 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31798465 original size:27 final size:26
Alignment explanation
Indices: 31798421--31798571 Score: 108
Period size: 27 Copynumber: 5.6 Consensus size: 26
31798411 TTAGTTTACC
*
31798421 AAATTACTGAAATACCCCC-AGTTGTA
1 AAATTAC-CAAATACCCCCGAGTTGTA
* *
31798447 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAA-TACCCCCGAGTTGTA
* * *
31798474 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCCCGAGTTGTA
** *
31798501 AAATTACCGAAATA-CCCTTAGTTTGCA
1 AAATTACC-AAATACCCCCGAG-TTGTA
* * *
31798528 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTAC-CAAATACCCCCGAGTTGTA
*
31798555 AAATTATCAAAGTACCC
1 AAATTACCAAA-TACCC
31798572 TCGAATTACA
Statistics
Matches: 98, Mismatches: 19, Indels: 15
0.74 0.14 0.11
Matches are distributed among these distances:
25 3 0.03
26 22 0.22
27 65 0.66
28 8 0.08
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTACCAAATACCCCCGAGTTGTA
Found at i:31798572 original size:27 final size:26
Alignment explanation
Indices: 31798442--31798575 Score: 135
Period size: 27 Copynumber: 5.0 Consensus size: 26
31798432 ATACCCCCAG
*
31798442 TTGTAAAATTACCAAAGTACCCCCGAT
1 TTGTAAAATTACCAAA-TACCCTCGAT
* *
31798469 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
*
31798496 TTGTAAAATTACCGAAATACCCT-TAGT
1 TTGTAAAATTACC-AAATACCCTCGA-T
* * *
31798523 TTGCAAAATTACTAAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
*
31798550 TTGTAAAATTATCAAAGTACCCTCGA
1 TTGTAAAATTACCAAA-TACCCTCGA
31798576 ATTACAAAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
26 6 0.07
27 76 0.86
28 6 0.07
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAT
Found at i:31798584 original size:27 final size:27
Alignment explanation
Indices: 31798446--31798698 Score: 89
Period size: 27 Copynumber: 9.4 Consensus size: 27
31798436 CCCCAGTTGT
* * * * *
31798446 AAAATTACCAAAGTACCCCCGATTTAT
1 AAAATTACTAAAATACCCTCGAATTAC
** * * **
31798473 AAAATTACCCAAATATCCTCGATTTGT
1 AAAATTACTAAAATACCCTCGAATTAC
** * * *
31798500 AAAATTACCGAAATACCCT-TAGTTTGC
1 AAAATTACTAAAATACCCTCGA-ATTAC
* **
31798527 AAAATTACTAAAATACCCTCGACTTGT
1 AAAATTACTAAAATACCCTCGAATTAC
*
31798554 AAAATTA-TCAAAGTACCCTCGAATTAC
1 AAAATTACT-AAAATACCCTCGAATTAC
*** * *
31798581 AAAATTACTATTTTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTCGAATTAC
* *** *
31798608 AGAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGAATTAC
* *** *
31798635 AAAATT-TTCATTTTACCCTCGATTTAC
1 AAAATTACT-AAAATACCCTCGAATTAC
* * *** *
31798662 AAAACTACCATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGAATTAC
31798689 AAAATTACTA
1 AAAATTACTA
31798699 TTTTACTCTT
Statistics
Matches: 188, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.02
27 183 0.97
28 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTCGAATTAC
Found at i:31798585 original size:81 final size:80
Alignment explanation
Indices: 31798416--31798588 Score: 186
Period size: 81 Copynumber: 2.1 Consensus size: 80
31798406 ATACTTTAGT
* * * * *
31798416 TTACCAAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTAC
1 TTACAAAATTACCGAAATACCCCCAGTTGCAAAATTACCAAAATACCCCCGACTTATAAAATTAC
* *
31798481 CCAAATATCCTCGAT
66 CCAAATACCCTCGAA
** ** * * *
31798496 TTGTAAAATTACCGAAATACCCTTAGTTTGCAAAATTACTAAAATACCCTCGACTTGTAAAATTA
1 TTACAAAATTACCGAAATACCCCCAG-TTGCAAAATTACCAAAATACCCCCGACTTATAAAATTA
*
31798561 -TCAAAGTACCCTCGAA
65 CCCAAA-TACCCTCGAA
31798577 TTACAAAATTAC
1 TTACAAAATTAC
31798589 TATTTTACCC
Statistics
Matches: 74, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
80 24 0.32
81 50 0.68
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (80 bp):
TTACAAAATTACCGAAATACCCCCAGTTGCAAAATTACCAAAATACCCCCGACTTATAAAATTAC
CCAAATACCCTCGAA
Found at i:31798589 original size:54 final size:54
Alignment explanation
Indices: 31798415--31798698 Score: 198
Period size: 54 Copynumber: 5.3 Consensus size: 54
31798405 AATACTTTAG
* * * * *
31798415 TTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
* ** * * *
31798468 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAA-TACCCT-TA
1 TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCTCGA
* *
31798521 GTTTGCAAAATTACTAAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCGA
1 -TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
* *** * * * * ***
31798576 ATTACAAAATTACTATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
* *** * ** * ***
31798630 TTTACAAAATT-TTCATTTTACCCTCGATTTACAAAACTACCATTTTACCCTCGA
1 TTTACAAAATTACT-AAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
31798684 TTTACAAAATTACTA
1 TTTACAAAATTACTA
31798699 TTTTACTCTT
Statistics
Matches: 187, Mismatches: 37, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
53 23 0.12
54 159 0.85
55 5 0.03
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (54 bp):
TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
Found at i:31798614 original size:81 final size:81
Alignment explanation
Indices: 31798526--31798698 Score: 211
Period size: 81 Copynumber: 2.1 Consensus size: 81
31798516 CCTTAGTTTG
** * *
31798526 CAAAATTACTAAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCGAATTACAAAATTACTA
1 CAAAATTACTAAAATACCCTCGACTTACAAAATTATCAAAGTACCCTCGAATTACAAAACTACCA
31798591 TTTTACCCTCGATTTA
66 TTTTACCCTCGATTTA
* * *** * * *** *
31798607 TAGAATTACTATTTTACCCTCGATTTACAAAATTTTCATTTTACCCTCGATTTACAAAACTACCA
1 CAAAATTACTAAAATACCCTCGACTTACAAAATTATCAAAGTACCCTCGAATTACAAAACTACCA
31798672 TTTTACCCTCGATTTA
66 TTTTACCCTCGATTTA
31798688 CAAAATTACTA
1 CAAAATTACTA
31798699 TTTTACTCTT
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (81 bp):
CAAAATTACTAAAATACCCTCGACTTACAAAATTATCAAAGTACCCTCGAATTACAAAACTACCA
TTTTACCCTCGATTTA
Found at i:31798701 original size:27 final size:27
Alignment explanation
Indices: 31798567--31798787 Score: 309
Period size: 27 Copynumber: 8.2 Consensus size: 27
31798557 ATTATCAAAG
*
31798567 TACCCTCGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
31798594 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
31798621 TACCCTCGATTTACAAAATT-TTCATTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* *
31798648 TACCCTCGATTTACAAAACTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
31798675 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
31798702 TACTCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
31798729 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
31798756 TACCCTCAATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
31798783 TACCC
1 TACCC
31798788 CTAGGGTGTT
Statistics
Matches: 171, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 170 0.99
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:31799303 original size:6 final size:6
Alignment explanation
Indices: 31799272--31799359 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
31799262 TTGCATTCAC
* * *
31799272 ATTCTG ATTTTG ATTCT- AGTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG A-T-TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
31799321 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
31799360 AATGTTTCTT
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
5 3 0.04
6 55 0.82
7 7 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:31799308 original size:31 final size:32
Alignment explanation
Indices: 31799272--31799353 Score: 132
Period size: 31 Copynumber: 2.6 Consensus size: 32
31799262 TTGCATTCAC
*
31799272 ATTCTGATTTTGATTCTAGT-ACCTGATACTG
1 ATTCTGATTCTGATTCTAGTCACCTGATACTG
*
31799303 ATTCTGATTCTGATTCT-GTCACCTGATTCTG
1 ATTCTGATTCTGATTCTAGTCACCTGATACTG
31799334 ATTCTGATTCTGATTCTAGT
1 ATTCTGATTCTGATTCTAGT
31799354 TCTGATAATG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 2 0.04
31 43 0.91
32 2 0.04
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (32 bp):
ATTCTGATTCTGATTCTAGTCACCTGATACTG
Found at i:31801455 original size:27 final size:25
Alignment explanation
Indices: 31801306--31801459 Score: 119
Period size: 27 Copynumber: 5.8 Consensus size: 25
31801296 TTAGTTTACC
* * *
31801306 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTAC-CAAATACCCTCATTTGTA
** *
31801332 AAATTACCAAAGTACCCCTGGTTTATA
1 AAATTACCAAA-TA-CCCTCATTTGTA
*
31801359 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCTC-ATTTGTA
* *
31801386 AAATTACCGAAATACACTCAGTTTGCA
1 AAATTACC-AAATACCCTCA-TTTGTA
*
31801413 AAATTACTAAAATACCCTCATCTTGTA
1 AAATTAC-CAAATACCCTCAT-TTGTA
*
31801440 AAATTATCAAAGTACCCTCA
1 AAATTACCAAA-TACCCTCA
31801460 AATTACAAAA
Statistics
Matches: 101, Mismatches: 18, Indels: 17
0.74 0.13 0.12
Matches are distributed among these distances:
25 3 0.03
26 19 0.19
27 74 0.73
28 5 0.05
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (25 bp):
AAATTACCAAATACCCTCATTTGTA
Found at i:31801469 original size:54 final size:53
Alignment explanation
Indices: 31801298--31801473 Score: 176
Period size: 54 Copynumber: 3.3 Consensus size: 53
31801288 ACAATACTTT
* * * *
31801298 AGTTTACCAAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCC-C
1 AGTTTACAAAATTACTAAAATACCCTCATTTGTAAAATTACCAAAGTACCCTC
* * ** * *
31801350 TGGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAA-TACACTC
1 -AGTTTACAAAATTACTAAAATACCCTC-ATTTGTAAAATTACC-AAAGTACCCTC
* *
31801405 AGTTTGCAAAATTACTAAAATACCCTCATCTTGTAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACTAAAATACCCTCAT-TTGTAAAATTACCAAAGTACCCTC
**
31801459 AAATTACAAAATTAC
1 AGTTTACAAAATTAC
31801474 CGTTTTACCC
Statistics
Matches: 98, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
53 25 0.26
54 69 0.70
55 4 0.04
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (53 bp):
AGTTTACAAAATTACTAAAATACCCTCATTTGTAAAATTACCAAAGTACCCTC
Found at i:31801482 original size:27 final size:27
Alignment explanation
Indices: 31801452--31801753 Score: 388
Period size: 27 Copynumber: 11.2 Consensus size: 27
31801442 ATTATCAAAG
* *
31801452 TACCCTCAAATTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
31801479 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
31801506 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * ***
31801533 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * * *
31801560 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
31801587 TACCCTCGATTGACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
31801614 TACCCTCGATTGACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
31801641 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
**
31801668 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
31801695 TACCCTCGATTTTCAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
31801722 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
31801749 TACCC
1 TACCC
31801754 CTAGGGTGTT
Statistics
Matches: 251, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 251 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:31802034 original size:27 final size:26
Alignment explanation
Indices: 31801990--31802041 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
31801980 CTCGCTGCAA
*
31801990 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
31802017 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
31802042 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:31802134 original size:27 final size:26
Alignment explanation
Indices: 31802082--31802141 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
31802072 ACATATATAT
*
31802082 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
31802108 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
31802135 ATATCTG
1 ATATCTG
31802142 GCAGCCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:31802291 original size:6 final size:6
Alignment explanation
Indices: 31802260--31802332 Score: 67
Period size: 6 Copynumber: 11.8 Consensus size: 6
31802250 TTGCATTCAC
* * * *
31802260 ATTCTG ATTTTG ATTCTG GTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
31802309 -TCACCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCT
31802333 AGTTCTAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
5 1 0.02
6 45 0.83
7 7 0.13
8 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:31802295 original size:31 final size:31
Alignment explanation
Indices: 31802260--31802332 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
31802250 TTGCATTCAC
*
31802260 ATTCTGATTTTGATTCTGGT-ACCTGATACTG
1 ATTCTGATTCTGATTCT-GTCACCTGATACTG
*
31802291 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
31802322 ATTCTGATTCT
1 ATTCTGATTCT
31802333 AGTTCTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 2 0.05
31 37 0.95
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:31812756 original size:26 final size:26
Alignment explanation
Indices: 31812726--31812833 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
31812716 AGCATGGCTG
** *
31812726 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
31812752 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
31812779 CCAGAACAGGTATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** * *
31812806 CCAGATTAGATAAATATGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
31812833 C
1 C
31812834 GAGGACGCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 13 0.19
27 55 0.79
28 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:31814046 original size:16 final size:16
Alignment explanation
Indices: 31814021--31814053 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31814011 CTAAAAGAAA
31814021 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
31814037 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
31814053 A
1 A
31814054 GAATTCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:31814303 original size:24 final size:24
Alignment explanation
Indices: 31814263--31814332 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
31814253 TTCCTTGATT
*
31814263 TCCTC-CCCTTATTAGCTCCTAAA
1 TCCTCTCCCTTATCAGCTCCTAAA
31814286 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCCTTATCAGCTCCTAAA
* *
31814310 TCCTATCCCTTATCAACTCCTAA
1 TCCTCTCCCTTATCAGCTCCTAA
31814333 GTCCCCTCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
23 5 0.12
24 38 0.88
ACGTcount: A:0.23, C:0.40, G:0.03, T:0.34
Consensus pattern (24 bp):
TCCTCTCCCTTATCAGCTCCTAAA
Found at i:31825847 original size:13 final size:14
Alignment explanation
Indices: 31825829--31825861 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
31825819 CAAAAACAAC
31825829 TTAATAAG-CTTAA
1 TTAATAAGACTTAA
31825842 TTAAT-AGACTTAA
1 TTAATAAGACTTAA
31825855 TTAATAA
1 TTAATAA
31825862 ACACATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 15 0.83
14 1 0.06
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (14 bp):
TTAATAAGACTTAA
Found at i:31828396 original size:21 final size:21
Alignment explanation
Indices: 31828353--31828396 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
31828343 GCACACTCAG
* *
31828353 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAACTATTAATAAA
31828374 CTTAATTGAACTAATTAA-AAA
1 CTTAATTGAACT-ATTAATAAA
31828395 CT
1 CT
31828397 AGAAGACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (21 bp):
CTTAATTGAACTATTAATAAA
Found at i:31831721 original size:49 final size:49
Alignment explanation
Indices: 31831666--31831834 Score: 214
Period size: 49 Copynumber: 3.4 Consensus size: 49
31831656 CGCATAGGAT
31831666 CCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAG
1 CCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAG
* * ** * *
31831715 CCTGCACTTAGTACTACACACGTGATTGAAGTTAT-CGAGTACGCATAGTAG
1 CCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCG-GTACACGTAGTAG
* * *
31831766 CCTGCACTTAGCACTACACATGCGACCAATAATCCCGTACACGTAGTAG
1 CCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAG
*
31831815 CCTGAACTTAGTACTACACA
1 CCTGCACTTAGTACTACACA
31831835 CGTGACCTCA
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 55 0.56
50 7 0.07
51 37 0.37
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
CCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAG
Found at i:31831771 original size:51 final size:49
Alignment explanation
Indices: 31831647--31831841 Score: 194
Period size: 49 Copynumber: 3.9 Consensus size: 49
31831637 TAGCCAAAGC
* * * * *
31831647 TATCTAGTACGCATAGGATCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCGAGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * **
31831696 TATCCG-GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGT
1 TAT-CGAGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
31831747 TATCGAGTACGCATAGTAGCCTGCACTTAGCACTACACATGCGACCAAT
1 TATCGAGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* ** * * *
31831796 AATCCCGTACACGTAGTAGCCTGAACTTAGTACTACACACGTGACC
1 TATCGAGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
31831842 TCACAATAGA
Statistics
Matches: 117, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
49 73 0.62
50 7 0.06
51 37 0.32
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCGAGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:31831787 original size:100 final size:100
Alignment explanation
Indices: 31831647--31831839 Score: 323
Period size: 100 Copynumber: 1.9 Consensus size: 100
31831637 TAGCCAAAGC
* * * * *
31831647 TATCTAGTACGCATAGGATCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGAGTACGCATAGGAGCCTGCACTTAGCACTACACATGCGACCAATAATCCCGTACACGTAG
*
31831712 TAGCCTGCACTTAGTACTACACACGTGATTGAAGT
66 TAGCCTGAACTTAGTACTACACACGTGATTGAAGT
*
31831747 TATCGAGTACGCATAGTAGCCTGCACTTAGCACTACACATGCGACCAATAATCCCGTACACGTAG
1 TATCGAGTACGCATAGGAGCCTGCACTTAGCACTACACATGCGACCAATAATCCCGTACACGTAG
31831812 TAGCCTGAACTTAGTACTACACACGTGA
66 TAGCCTGAACTTAGTACTACACACGTGA
31831840 CCTCACAATA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (100 bp):
TATCGAGTACGCATAGGAGCCTGCACTTAGCACTACACATGCGACCAATAATCCCGTACACGTAG
TAGCCTGAACTTAGTACTACACACGTGATTGAAGT
Found at i:31839399 original size:32 final size:32
Alignment explanation
Indices: 31839358--31839425 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
31839348 GCAGGTGCAT
31839358 TAGTAAGTCTGAAATGCATAACCAAAAACTCA
1 TAGTAAGTCTGAAATGCATAACCAAAAACTCA
31839390 TAGTAAGTCTGAAATGCATAACCAAAAACTCA
1 TAGTAAGTCTGAAATGCATAACCAAAAACTCA
31839422 TAGT
1 TAGT
31839426 GCCTGTACCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.24
Consensus pattern (32 bp):
TAGTAAGTCTGAAATGCATAACCAAAAACTCA
Found at i:31852401 original size:18 final size:19
Alignment explanation
Indices: 31852366--31852416 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
31852356 ATAAATTGAG
*
31852366 AAAGAAAAACA-AATCGAA
1 AAAGAAAAAGAGAATCGAA
31852384 AAAGAAAAAGAGAA-CGAA
1 AAAGAAAAAGAGAATCGAA
31852402 AGAGAGAAAAAGAGA
1 A-A-AGAAAAAGAGA
31852417 TTGAGAGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 15 0.52
19 3 0.10
20 11 0.38
ACGTcount: A:0.71, C:0.06, G:0.22, T:0.02
Consensus pattern (19 bp):
AAAGAAAAAGAGAATCGAA
Found at i:31852439 original size:18 final size:18
Alignment explanation
Indices: 31852402--31852449 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
31852392 AGAGAACGAA
31852402 AGAGAGAAAAAGAGATTG
1 AGAGAGAAAAAGAGATTG
*
31852420 AGAGTGAAAAAGA-ATGTG
1 AGAGAGAAAAAGAGAT-TG
*
31852438 AGA-AGGAAAAGA
1 AGAGAGAAAAAGA
31852450 AAGTTGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.56, C:0.00, G:0.33, T:0.10
Consensus pattern (18 bp):
AGAGAGAAAAAGAGATTG
Found at i:31858132 original size:39 final size:39
Alignment explanation
Indices: 31858045--31858260 Score: 198
Period size: 38 Copynumber: 5.7 Consensus size: 39
31858035 GCTCCTCGTT
* * *
31858045 CAAATGCCTTCGGGACATAGCCCGG-TTAGTAA-CT--CA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TTAATCTCGCA
*
31858081 CAAATGCCTTCGGGACTTAACCCGGATTTTAAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTAATCTCGCA
* *
31858120 CGAATGCCTTCGGGACTTAACCCGGATTGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTAATCTCGCA
* * *
31858158 CAAAGGCCTTCGGGGCTTAACCCGGA-ATTAATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTAATCTCGCA
** * * *
31858196 CAAATGCCTTC-GGATCTTAGTCCGGATATATCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTTAATC-TCGCA
*
31858236 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31858261 CAGCATTCAA
Statistics
Matches: 150, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
36 26 0.17
37 7 0.05
38 57 0.38
39 47 0.31
40 13 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTTAATCTCGCA
Found at i:31858135 original size:75 final size:75
Alignment explanation
Indices: 31858045--31858208 Score: 215
Period size: 75 Copynumber: 2.2 Consensus size: 75
31858035 GCTCCTCGTT
* *
31858045 CAAATGCCTTCGGGACATAGCCCGG-TTAGTAACT-CACAAATGCCTTCGGGACTTAACCCGGAT
1 CAAATGCCTTCGGGACATAACCCGGATT-GTAACTCCACAAAGGCCTTCGGGACTTAACCCGGA-
*
31858108 TTTAAACTCGCA
64 ATTAAACTCGCA
* * * *
31858120 CGAATGCCTTCGGGACTTAACCCGGATTGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAA
1 CAAATGCCTTCGGGACATAACCCGGATTGTAACTC-CACAAAGGCCTTCGGGACTTAACCCGGAA
*
31858185 TTAATCTCGCA
65 TTAAACTCGCA
31858196 CAAATGCCTTCGG
1 CAAATGCCTTCGG
31858209 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
75 27 0.35
76 24 0.31
77 26 0.34
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (75 bp):
CAAATGCCTTCGGGACATAACCCGGATTGTAACTCCACAAAGGCCTTCGGGACTTAACCCGGAAT
TAAACTCGCA
Found at i:31859255 original size:11 final size:10
Alignment explanation
Indices: 31859231--31859260 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
31859221 ATTTTTGGCC
31859231 AAGGATGAAA
1 AAGGATGAAA
31859241 AAGGATGAGAA
1 AAGGATGA-AA
31859252 AAGGATGAA
1 AAGGATGAA
31859261 CAAAATTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (10 bp):
AAGGATGAAA
Found at i:31865639 original size:40 final size:39
Alignment explanation
Indices: 31865587--31865768 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 39
31865577 TAACTCATTC
*
31865587 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAAAACTCGCACA
*** *
31865627 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAAAACTCGCACA
* *
31865667 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACA
* ** * *
31865707 AATACCTTC-GGATCTTAGTCCGGATATT--CACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAT-TTAAAAC-TCGCACA
*
31865746 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31865769 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
38 17 0.15
39 16 0.14
40 80 0.69
41 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACA
Found at i:31865649 original size:79 final size:80
Alignment explanation
Indices: 31865550--31865717 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 80
31865540 CTCGTTCAAG
* * ** * *
31865550 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
31865613 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * * *
31865629 TGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
31865694 AATAACTCGCACAAA
66 AATAACTCGCACAAA
*
31865709 TACCTTCGG
1 TGCCTTCGG
31865718 ATCTTAGTCC
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 31 0.42
80 42 0.57
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:31865730 original size:80 final size:78
Alignment explanation
Indices: 31865590--31865768 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 78
31865580 CTCATTCAAT
* * *
31865590 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATT
* *
31865654 GGTA-TCTCGCACAAA
66 --CACT-TAGCACAAA
**
31865669 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGAT
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAT
31865732 ATTCACTTAGCACAAA
63 ATTCACTTAGCACAAA
*
31865748 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
31865769 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
78 20 0.23
79 16 0.18
80 48 0.55
81 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATT
CACTTAGCACAAA
Found at i:31868129 original size:23 final size:23
Alignment explanation
Indices: 31868054--31868130 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
31868044 TTTAGGATTT
31868054 TATGTGATGAATGTGAGCATGCA
1 TATGTGATGAATGTGAGCATGCA
* * * * *
31868077 TATATGTTGATAAG-GCCGAATGGCCA
1 TATGTGATGA-ATGTG-AGCAT-G-CA
31868103 -ATGTGATGAATGTGAGCATGCA
1 TATGTGATGAATGTGAGCATGCA
31868125 TATGTG
1 TATGTG
31868131 TGATAAGGCC
Statistics
Matches: 38, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
22 2 0.05
23 15 0.39
24 10 0.26
25 9 0.24
26 2 0.05
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (23 bp):
TATGTGATGAATGTGAGCATGCA
Found at i:31868153 original size:47 final size:47
Alignment explanation
Indices: 31868055--31868192 Score: 199
Period size: 47 Copynumber: 3.0 Consensus size: 47
31868045 TTAGGATTTT
*
31868055 ATGTGATGAATGTGAGCATGCATATATGTTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTG-TGATAAGGCCGAATGGCCA
31868103 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
31868150 ATGTGGTGAATTTGAACATGCACATGTG-G-TAAAGCCGAATGGC
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGC
31868193 TAGTGTGAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
45 13 0.15
46 1 0.01
47 43 0.51
48 27 0.32
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:31868158 original size:25 final size:25
Alignment explanation
Indices: 31868084--31868158 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 25
31868074 GCATATATGT
*
31868084 TGATAAGGCCGAATGGCCAATGTGA
1 TGATAAGGCCGAATGGCCAATGTGG
* * *
31868109 TGA-ATGTG-AGCAT-G-CATATGT-G
1 TGATAAG-GCCGAATGGCCA-ATGTGG
31868131 TGATAAGGCCGAATGGCCAATGTGG
1 TGATAAGGCCGAATGGCCAATGTGG
31868156 TGA
1 TGA
31868159 ATTTGAACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.24
Consensus pattern (25 bp):
TGATAAGGCCGAATGGCCAATGTGG
Found at i:31868463 original size:37 final size:37
Alignment explanation
Indices: 31868358--31868469 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
31868348 AATATATTTC
* *
31868358 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
31868395 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
* * *
31868432 GGGTAAGACCCGATAACTTCGTGTGGAGATTTCGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
31868469 G
1 G
31868470 AGCTAAAGGT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
Found at i:31872378 original size:47 final size:47
Alignment explanation
Indices: 31872322--31872466 Score: 238
Period size: 47 Copynumber: 3.1 Consensus size: 47
31872312 TAAGTTGGAT
31872322 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
31872369 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
* * **
31872416 TTAAGTTTGTTAAAATTGCCCTTAAT-ATTGCCGGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGTTCTTAATAATT-CCGGATAAGTTACTTAG
31872463 TTAA
1 TTAA
31872467 AGAAAATTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
46 3 0.03
47 90 0.97
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (47 bp):
TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
Found at i:31873308 original size:45 final size:45
Alignment explanation
Indices: 31873244--31873450 Score: 271
Period size: 45 Copynumber: 4.6 Consensus size: 45
31873234 ATATCGTACA
*
31873244 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGGTGAT
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCAGGTGAT
* * * * *
31873289 ATACTATTCTGGCCTTTGAGCCTAGTAGGCTATATTGCCGGTGAT
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCAGGTGAT
31873334 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCA-GTGAT
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATG-CAGGTGAT
* * *
31873379 ATACTATTCGAGCCTTCGAGCCTAACAGGCTATAATGTC-GGTGAA
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATG-CAGGTGAT
31873424 ATGA-TA-TCGGG-CTTCGAGCCTAGCAGG
1 AT-ACTATTCGGGCCTTCGAGCCTAGCAGG
31873451 TGAAATGCCG
Statistics
Matches: 144, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
43 15 0.10
44 4 0.03
45 123 0.85
46 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (45 bp):
ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCAGGTGAT
Found at i:31878590 original size:27 final size:26
Alignment explanation
Indices: 31878542--31878593 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
31878532 CCGAGGCTGC
*
31878542 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
31878568 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
31878594 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:31879220 original size:26 final size:27
Alignment explanation
Indices: 31879191--31879244 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
31879181 TCACACAAGT
*
31879191 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
31879217 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
31879244 T
1 T
31879245 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:31879303 original size:27 final size:27
Alignment explanation
Indices: 31879246--31879390 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
31879236 GGGCAAAATG
* * * *
31879246 GTAATTTTACCCCACAAGGGTATCT-A
1 GTAATTCTACCCTACAGGGGTATTTCA
31879272 TGTAATTCTACCCTACAGGGGTATTTCA
1 -GTAATTCTACCCTACAGGGGTATTTCA
*
31879300 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
31879327 ATAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
31879354 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
31879381 GTAATTCTAC
1 GTAATTCTAC
31879391 AACTTATCCA
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 104 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:31885027 original size:48 final size:48
Alignment explanation
Indices: 31884967--31885295 Score: 550
Period size: 48 Copynumber: 6.9 Consensus size: 48
31884957 TAGATATATG
*
31884967 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTACGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
31885015 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * * *
31885063 TGTGGTAAAGCCGAATGGCTAATATGAAATATGTACGATATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
31885111 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATATATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
31885159 TGTGGTAAAGCCGAATGGCTAGTGTGAAAAATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
31885207 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * * *
31885255 TTTGGTAAAGCTGAATGGCTAATGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
31885296 GTGTGTATAT
Statistics
Matches: 262, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 262 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:31886671 original size:47 final size:47
Alignment explanation
Indices: 31886613--31886851 Score: 345
Period size: 47 Copynumber: 5.1 Consensus size: 47
31886603 TAAGTTGGAT
*
31886613 TTAAACTTGTTAAATTTGTTCTTAATAATTCCAGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCAGATAAGTTACTTAG
* ** *
31886660 TTAAGCTTGTTAAATTTGTTCTTCATAATTCCTTATAAGGTACTTAG
1 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCAGATAAGTTACTTAG
* *
31886707 TTAAGCTTGTTAAAATTGTTCTTAATAATTTCAGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCAGATAAGTTACTTAG
*
31886754 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCAGATAAGTTACTTAG
* ** * *
31886801 TTAAGTTTGTTAAAATTT-CCCTTAATATTTCCGGATAAGTTACTTAG
1 TTAAGCTTGTT-AAATTTGTTCTTAATAATTCCAGATAAGTTACTTAG
31886848 TTAA
1 TTAA
31886852 AAAATTTTTT
Statistics
Matches: 173, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 167 0.97
48 6 0.03
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (47 bp):
TTAAGCTTGTTAAATTTGTTCTTAATAATTCCAGATAAGTTACTTAG
Found at i:31887693 original size:45 final size:45
Alignment explanation
Indices: 31887629--31887762 Score: 232
Period size: 45 Copynumber: 3.0 Consensus size: 45
31887619 ATATCGTACA
*
31887629 ATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAT
1 ATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAT
31887674 ATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAT
1 ATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAT
* * *
31887719 ATACTATTCGGGCCTTCGAGCCTAGCAAGCTATAATGCCGGTGA
1 ATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
31887763 AATGATATTG
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 85 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (45 bp):
ATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAT
Found at i:31902147 original size:24 final size:24
Alignment explanation
Indices: 31902115--31902161 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
31902105 CTAAGATAAG
31902115 CATTTATTCCAGCAAGTAATTAAA
1 CATTTATTCCAGCAAGTAATTAAA
31902139 CATTTATTCCAGCAAGTAATTAA
1 CATTTATTCCAGCAAGTAATTAA
31902162 CTAAAAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (24 bp):
CATTTATTCCAGCAAGTAATTAAA
Found at i:31902247 original size:40 final size:40
Alignment explanation
Indices: 31902181--31902267 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 40
31902171 GTTTAATAAA
31902181 AATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGTTT
1 AATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGTTT
* * * *
31902221 AATAGAGTCTAGCAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGTTT
31902261 AAATAAA
1 -AATAAA
31902268 TTAAAGTTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (40 bp):
AATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGTTT
Found at i:31904678 original size:18 final size:17
Alignment explanation
Indices: 31904646--31904680 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
31904636 TTTTCTTTTC
31904646 TCTCTCTTTTTCACTCT
1 TCTCTCTTTTTCACTCT
*
31904663 TCTCTTTTTGTTCACTCT
1 TCTCTCTTT-TTCACTCT
31904681 CTTTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.06, C:0.31, G:0.03, T:0.60
Consensus pattern (17 bp):
TCTCTCTTTTTCACTCT
Found at i:31917410 original size:49 final size:49
Alignment explanation
Indices: 31917336--31917511 Score: 246
Period size: 49 Copynumber: 3.6 Consensus size: 49
31917326 TGTGAGCTCA
31917336 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATTGGTCG
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATTGGTCG
* * * *** *
31917385 CATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATT-GGTCG
*
31917435 CGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACC-GAATAATTGGTCG
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAA-AATTGGTCG
*
31917484 CGTGTGTAGTACTAAGTGCAGACTACTA
1 CGTGTGTAGTACTAAGTGCAGGCTACTA
31917512 TACGTACCAG
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 70 0.65
50 38 0.35
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATTGGTCG
Found at i:31917504 original size:99 final size:99
Alignment explanation
Indices: 31917333--31917511 Score: 315
Period size: 99 Copynumber: 1.8 Consensus size: 99
31917323 TATTGTGAGC
*
31917333 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACCAGAAAATTGGTCGCATGTGTAGTACT
*
31917398 AAGTGCAGGCTACTACATGTATCAGATGGTTAGG
66 AAGTGCAGACTACTACATGTATCAGATGGTTAGG
*
31917432 TCACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACC-GAATAATTGGTCGCGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACCAGAA-AATTGGTCGCATGTGTAGTAC
31917496 TAAGTGCAGACTACTA
65 TAAGTGCAGACTACTA
31917512 TACGTACCAG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 3 0.04
99 73 0.96
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACCAGAAAATTGGTCGCATGTGTAGTACT
AAGTGCAGACTACTACATGTATCAGATGGTTAGG
Found at i:31919852 original size:28 final size:28
Alignment explanation
Indices: 31919819--31919911 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
31919809 TGACTATAAG
*
31919819 TGTGATTGGGCCTGATGGGCTATATGAA
1 TGTGATTGGGCCTGATGGGCCATATGAA
*
31919847 AGTGATTGGGCCTGATGGGCCATATGAA
1 TGTGATTGGGCCTGATGGGCCATATGAA
*
31919875 TGTGATTGGGCCCGATGGGCCATATGAA
1 TGTGATTGGGCCTGATGGGCCATATGAA
*
31919903 TGAGATTGG
1 TGTGATTGG
31919912 CCTAAAAGGG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.23, C:0.13, G:0.37, T:0.28
Consensus pattern (28 bp):
TGTGATTGGGCCTGATGGGCCATATGAA
Found at i:31919930 original size:56 final size:56
Alignment explanation
Indices: 31919819--31919931 Score: 138
Period size: 56 Copynumber: 2.0 Consensus size: 56
31919809 TGACTATAAG
* * * * * * *
31919819 TGTGATTGGGCCTGATGGGCTATATGAAAGTGATTGGGCCTGATGGGCCATATGAA
1 TGTGATTGGGCCCGATGGGCCATATGAAAGAGATTGGGCCTAAAGGGACAAATGAA
*
31919875 TGTGATTGGGCCCGATGGGCCATATGAATGAGATT-GGCCTAAAAGGGACAAATGAA
1 TGTGATTGGGCCCGATGGGCCATATGAAAGAGATTGGGCCT-AAAGGGACAAATGAA
31919931 T
1 T
31919932 AAGTATGGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 5 0.10
56 43 0.90
ACGTcount: A:0.27, C:0.13, G:0.34, T:0.26
Consensus pattern (56 bp):
TGTGATTGGGCCCGATGGGCCATATGAAAGAGATTGGGCCTAAAGGGACAAATGAA
Found at i:31922168 original size:48 final size:48
Alignment explanation
Indices: 31922102--31922271 Score: 213
Period size: 48 Copynumber: 3.6 Consensus size: 48
31922092 GTGTCGATTC
* *
31922102 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
* * *
31922150 CATGTCCCAAACATGTCTTACACTAGCTT-TCGT-T-TCAAAG-TCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGT-ATATCTCGAGGCT-GATG
* * * *
31922196 CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
31922244 CATGTCCCAAACATGTCTTACACTAGCT
1 CATGTCCCAAACATGTCTTACACTAGCT
31922272 CTCGTAATGT
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 35 0.34
47 4 0.04
48 62 0.61
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
Found at i:31922294 original size:94 final size:93
Alignment explanation
Indices: 31922102--31922316 Score: 308
Period size: 94 Copynumber: 2.3 Consensus size: 93
31922092 GTGTCGATTC
* * * *
31922102 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCCCAAACATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
* *
31922167 TTACACTAGCTTTCGTTTCAAAGTCGATG
66 TTACACTAGCTCTCG-TTCAAAGTCGATA
31922196 CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
*
31922261 TTACACTAGCTCTCG-T-AATGTGGCCGATA
66 TTACACTAGCTCTCGTTCAAAGT---CGATA
*
31922290 CATGTCCTAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
31922317 ACACATATCA
Statistics
Matches: 110, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
91 4 0.04
92 1 0.01
94 105 0.95
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
TTACACTAGCTCTCGTTCAAAGTCGATA
Found at i:31929209 original size:39 final size:39
Alignment explanation
Indices: 31929155--31929230 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
31929145 CTGTTGACTG
*
31929155 GATTAGAAAGTAAGGAGCCGAAGAGTTCTAAGCTAACTT
1 GATTAGAAAGTAAGGAGCCGAAGAGTTCCAAGCTAACTT
* *
31929194 GATTAGAAAGTAAGGAGTCGAAGAGTTCCGAGCTAAC
1 GATTAGAAAGTAAGGAGCCGAAGAGTTCCAAGCTAAC
31929231 ATAGATGATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (39 bp):
GATTAGAAAGTAAGGAGCCGAAGAGTTCCAAGCTAACTT
Found at i:31937313 original size:48 final size:47
Alignment explanation
Indices: 31937196--31937437 Score: 189
Period size: 48 Copynumber: 5.0 Consensus size: 47
31937186 GGATATCCAT
** *
31937196 GCCACATTATGAGAGCCAGCCTAAGACCATGTTTGGGACATGGCATCG
1 GCCACA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
*** * * * * *
31937244 GCGTTGATATGTGTGCTAGTGTAAAACCATGTCTAGGACATGGCATCG
1 GC-CACATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
* *
31937292 GCCACATTATGAGAGCCAGTGTAAGACCATGTGTGGGATATGGCATCG
1 GCCACA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
* * * ** *
31937340 G-CATGGAGACGAGAGGTAGTGTAAGACCATGTCTGAGACATGGCATCG
1 GCCA--CATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
* * * * * * *
31937388 ACCTCAACATGTGAGCCAATATAAGACGATGTCTGGGACATGGCATCG
1 GCCAC-ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
31937436 GC
1 GC
31937438 AATTTACCCT
Statistics
Matches: 146, Mismatches: 42, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
47 3 0.02
48 140 0.96
49 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
GCCACATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
Found at i:31937360 original size:96 final size:96
Alignment explanation
Indices: 31937196--31937438 Score: 281
Period size: 96 Copynumber: 2.5 Consensus size: 96
31937186 GGATATCCAT
** * * * * * * *
31937196 GCCACATTATGAGAGCCAGCCTAAGACCATGTTTGGGACATGGCATCGGCGTTGATATGTGTGCT
1 GCCACATTATGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATGGAGACGAGAGCT
31937261 AGTGTAAAACCATGTCT-AGGACATGGCATCG
66 AGTGTAAAACCATGTCTGA-GACATGGCATCG
* * * *
31937292 GCCACATTATGAGAGCCAGTGTAAGACCATGTGTGGGATATGGCATCGGCATGGAGACGAGAGGT
1 GCCACATTATGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATGGAGACGAGAGCT
*
31937357 AGTGTAAGACCATGTCTGAGACATGGCATCG
66 AGTGTAAAACCATGTCTGAGACATGGCATCG
* * ** * * *
31937388 ACCTCAACATGTGAGCCAATATAAGACGATGTCTGGGACATGGCATCGGCA
1 GCCACATTATGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCA
31937439 ATTTACCCTC
Statistics
Matches: 124, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
96 123 0.99
97 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (96 bp):
GCCACATTATGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATGGAGACGAGAGCT
AGTGTAAAACCATGTCTGAGACATGGCATCG
Found at i:31939671 original size:13 final size:13
Alignment explanation
Indices: 31939653--31939678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31939643 TGAATTAGTA
31939653 TGTGTGAAAATTT
1 TGTGTGAAAATTT
31939666 TGTGTGAAAATTT
1 TGTGTGAAAATTT
31939679 AATCGTTCGT
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:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:31940834 original size:42 final size:43
Alignment explanation
Indices: 31940770--31940889 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
31940760 TCTGATGTTT
* *
31940770 GATTTCATCTAAGACCACGTCTGAGATGTTGGCATCG-TATTA
1 GATTTCATGTAAGACCACGTCTGAGAAGTTGGCATCGATATTA
* ** * * *
31940812 GATTTCGTGTAAGACCTTGTCTGGGAAAG-TGGCACCGATATTT
1 GATTTCATGTAAGACCACGTCTGAG-AAGTTGGCATCGATATTA
* *
31940855 GATTACATGTAAGACCACGTCTGAGACGTTGGCAT
1 GATTTCATGTAAGACCACGTCTGAGAAGTTGGCAT
31940890 TGTACAAGAT
Statistics
Matches: 60, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTTCATGTAAGACCACGTCTGAGAAGTTGGCATCGATATTA
Found at i:31940877 original size:43 final size:42
Alignment explanation
Indices: 31940767--31940888 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
31940757 AGATCTGATG
* * *
31940767 TTTGATTTCATCTAAGACCACGTCTGAGATGTTGGCATCGTA
1 TTTGATTTCATGTAAGACCACGTCTGAGAAGTTGGCACCGTA
* * ** *
31940809 TTAGATTTCGTGTAAGACCTTGTCTGGGAAAG-TGGCACCGATA
1 TTTGATTTCATGTAAGACCACGTCTGAG-AAGTTGGCACCG-TA
* *
31940852 TTTGATTACATGTAAGACCACGTCTGAGACGTTGGCA
1 TTTGATTTCATGTAAGACCACGTCTGAGAAGTTGGCA
31940889 TTGTACAAGA
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
42 31 0.50
43 31 0.50
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TTTGATTTCATGTAAGACCACGTCTGAGAAGTTGGCACCGTA
Found at i:31945012 original size:27 final size:27
Alignment explanation
Indices: 31944982--31945219 Score: 332
Period size: 27 Copynumber: 8.8 Consensus size: 27
31944972 ATTACCAAAG
** *
31944982 TACCCTCGATTTGCAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
31945009 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
31945036 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
31945063 TACCCTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
31945090 TATCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
31945117 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
** *
31945144 TACCCTTAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
***
31945171 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
31945198 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
31945220 TAAAATACCC
Statistics
Matches: 190, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:31945256 original size:81 final size:81
Alignment explanation
Indices: 31945009--31945261 Score: 191
Period size: 81 Copynumber: 3.1 Consensus size: 81
31944999 ATTACCGTTT
* * * * * *** **
31945009 TACCCTCAATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTTAATT
* * * ***
31945074 TATAGAATTATCATTT
66 TACAAAATTAACAAAA
* * * ***
31945090 TATCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTTAATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTTAATT
* * * ****
31945155 TATAGAATTACCGTTT
66 TACAAAATTAACAAAA
** * **
31945171 TACCCTCGATTTATAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTTAATT
31945236 TACAAAATTAACAAAA
66 TACAAAATTAACAAAA
*
31945252 TACCCCCGAT
1 TACCCTCGAT
31945262 CAGTAAAATT
Statistics
Matches: 145, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 145 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTTAATT
TACAAAATTAACAAAA
Found at i:31945366 original size:27 final size:27
Alignment explanation
Indices: 31945212--31945366 Score: 193
Period size: 27 Copynumber: 5.7 Consensus size: 27
31945202 CTCGATTTAC
* * **
31945212 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * **
31945239 AAAATTAACAAAATACCCCCGATCAGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
31945266 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
31945293 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
31945320 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
31945347 AAAATTACCAAAATACCCCT
1 AAAATTACCAAAATACCCCT
31945367 AATCTATGAA
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 109 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:31945446 original size:27 final size:27
Alignment explanation
Indices: 31945408--31945570 Score: 263
Period size: 27 Copynumber: 6.0 Consensus size: 27
31945398 TGTAAAATAT
31945408 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
31945435 CGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
31945462 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
31945489 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
31945516 CGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
31945543 CGAGATACCCTTGTAGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
31945570 C
1 C
31945571 ATTTTGCCCC
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:31945818 original size:25 final size:23
Alignment explanation
Indices: 31945775--31945844 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 23
31945765 AGGAAGTGCT
*
31945775 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCT-TTCCCCAGTTTACC
*
31945799 GAAAAGGGCTTTCCCTCAGTTTATC
1 -AAAAGGGCTTTCCC-CAGTTTACC
31945824 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTT-CCCCAGTT
31945845 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.12
25 32 0.80
26 3 0.08
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTCCCCAGTTTACC
Found at i:31946051 original size:42 final size:42
Alignment explanation
Indices: 31945992--31946083 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
31945982 TAGTCTCCCC
*
31945992 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
31946034 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
31946076 AAATGGGC
1 AAATGGGC
31946084 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:31946145 original size:31 final size:31
Alignment explanation
Indices: 31946107--31946221 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
31946097 CGTTTACAGT
*
31946107 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
31946138 AAAGGCTTCGGCCCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
31946169 AAAGGTTTCGGCCCAGTGATATAATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
31946200 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
31946222 CCAAAACTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
30 4 0.05
31 72 0.95
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:31955423 original size:46 final size:46
Alignment explanation
Indices: 31955370--31955551 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 46
31955360 TATTTGGGCA
*
31955370 TCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31955416 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGTTCGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTT--ATG-GATGCGAA-T--G
* * *
31955467 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
31955515 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31955552 GCGGGTTACA
Statistics
Matches: 115, Mismatches: 10, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
46 62 0.54
47 3 0.03
48 4 0.03
49 6 0.05
50 5 0.04
51 4 0.03
52 3 0.03
53 28 0.24
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31957382 original size:13 final size:13
Alignment explanation
Indices: 31957364--31957389 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31957354 TGAATTAGTA
31957364 TGTGTGAAAATTT
1 TGTGTGAAAATTT
31957377 TGTGTGAAAATTT
1 TGTGTGAAAATTT
31957390 AAGTTTGTGT
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:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:31980549 original size:19 final size:20
Alignment explanation
Indices: 31980525--31980562 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31980515 TGGTACACCA
31980525 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
31980544 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
31980563 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:31980858 original size:46 final size:45
Alignment explanation
Indices: 31980791--31980956 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 45
31980781 CGCCCCTAAG
* *
31980791 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAA
1 TGAACTC-GACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAA
* * *
31980837 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTC-GACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCATAAA
* * *
31980884 CGAACTCGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAA
31980929 TGAACTCGACTCAACTCAACGAGTTCGG
1 TGAACTCGACTCAACTCAACGAGTTCGG
31980957 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 1 0.01
45 27 0.27
46 49 0.49
47 7 0.07
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAA
Found at i:31980906 original size:92 final size:92
Alignment explanation
Indices: 31980792--31980960 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
31980782 GCCCCTAAGT
* *
31980792 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTC-GACTCAACTCAA
31980857 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
31980885 GAACTC-GACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGACTCAACTCAAC
31980949 GAGTTCGGATGC
66 GAGTTCGGATGC
31980961 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 25 0.35
92 41 0.57
93 6 0.08
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31994112 original size:30 final size:30
Alignment explanation
Indices: 31994054--31994112 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
31994044 TTTATGAGCC
* *
31994054 TAGGGGCCAAAGTGCAAATATGTGAAAGTG
1 TAGGGGCCAAAATGCAAATATGTAAAAGTG
* * *
31994084 TAGGGGTCAAAATGCAAATTTTTAAAAGT
1 TAGGGGCCAAAATGCAAATATGTAAAAGT
31994113 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.25
Consensus pattern (30 bp):
TAGGGGCCAAAATGCAAATATGTAAAAGTG
Found at i:31994908 original size:50 final size:50
Alignment explanation
Indices: 31994727--31995262 Score: 385
Period size: 50 Copynumber: 10.7 Consensus size: 50
31994717 TTCTGTTGTG
* * * * * *
31994727 AGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTA
* * * * ***
31994777 GGTCGCATGTGTAGTACTAAATGCAGGCTACT--ATGCAT-A-CCCGTTA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTA
* * * *
31994823 ACTTCGATCAGGTGTGTAGGACTAAGTACAAGCTACTACATGTATCAGATGGTTA
1 A-GTC-A-CA--TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTA
* * * * *
31994878 AGTCACGTGTTTAGTATTAAGTGCAGGCTACTACATGTA-CTAGATTGATA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATC-AGATGGTTA
* ** * * * * **
31994928 GGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGA-GTACCCGTTAACTT-
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTA-CATGTATCAGAT-GGTTA
* * *
31994978 CGATCACCTGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGATGGTTA
1 AG-TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTA
* * * *
31995029 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTAGATTGATA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATC-AGATGGTTA
* * * **
31995079 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGA-GTACTC-GTTAACTT-
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTA-CATGTA-TCAGAT-GGTTA
* * *
31995129 CGATCACCTGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGATGGTTA
1 AG-TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTA
* * * *
31995180 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTAGATTGATA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATC-AGATGGTTA
* *
31995230 GGTCACATGTGTAGTACTAAGTGCATGCTACTA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTA
31995263 TGCATACCAG
Statistics
Matches: 375, Mismatches: 85, Indels: 52
0.73 0.17 0.10
Matches are distributed among these distances:
46 3 0.01
47 3 0.01
48 3 0.01
49 3 0.01
50 252 0.67
51 95 0.25
52 2 0.01
53 6 0.02
54 3 0.01
55 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (50 bp):
AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTA
Found at i:31995000 original size:101 final size:97
Alignment explanation
Indices: 31994874--31995264 Score: 385
Period size: 101 Copynumber: 3.9 Consensus size: 97
31994864 GTATCAGATG
* * **
31994874 GTTAA-GTCACGTGTTTAGTATTAAGTGCAGGCTACTACATGTACTAGATTGATAGGTCGTATGT
1 GTTAATGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATTGATAGGTCACATGT
**
31994938 GTAGTACTAAGTGCAGGCTACTATGAGTACCC
66 GTAGTACTAAGTGCAGGCTACTATGAGTACTA
* * * * *
31994970 GTTAACTTCGATCACCTGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGATGGTTAAGTCAC
1 GTTAA--T-G-TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATTGATAGGTCAC
* * *
31995035 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTA
62 ATGTGTAGTACTAAGTGCAGGCTACTATGAGTACTA
* * * * * * *
31995071 GATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGA-GTACTCG-TTAACTTCGATC
1 G-TT-A-ATGTCACGTGTGTAGTACTAAGTGCAGGCTACTA-CATGTACTAGATTGA--TAGGTC
* * * *
31995134 ACCTGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGATG
60 ACATGTGTAGTACTAAGTGCAGGCTACT--ATG-AGTA-CTA
*
31995176 GTTAA-GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGT
1 GTTAATGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATTGATAGGTCACATGT
*
31995240 GTAGTACTAAGTGCATGCTACTATG
66 GTAGTACTAAGTGCAGGCTACTATG
31995265 CATACCAGAG
Statistics
Matches: 238, Mismatches: 40, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
96 5 0.02
98 3 0.01
99 1 0.00
100 66 0.28
101 146 0.61
102 6 0.03
103 4 0.02
104 5 0.02
105 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (97 bp):
GTTAATGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATTGATAGGTCACATGT
GTAGTACTAAGTGCAGGCTACTATGAGTACTA
Found at i:31995281 original size:151 final size:151
Alignment explanation
Indices: 31994727--31995264 Score: 907
Period size: 151 Copynumber: 3.6 Consensus size: 151
31994717 TTCTGTTGTG
* * *
31994727 AGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGT
* ** * * *
31994792 ACTAAATGCAGGCTACTATGCA-TACCCGTTAACTTCGATCAGGTGTGTAGGACTAAGTACAAGC
66 ACTAAGTGCAGGCTACTATG-AGTACCCGTTAACTTCGATCACCTGTGTAGTACTAAGTGCAGGC
*
31994856 TACTACATGTATCAGATGGTTA
130 TACTACATGTATTAGATGGTTA
* * * **
31994878 AGTCACGTGTTTAGTATTAAGTGCAGGCTACTACATGTACTAGATTGATAGGTCGTATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGT
31994943 ACTAAGTGCAGGCTACTATGAGTACCCGTTAACTTCGATCACCTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGAGTACCCGTTAACTTCGATCACCTGTGTAGTACTAAGTGCAGGCT
31995008 ACTACATGTATTAGATGGTTA
131 ACTACATGTATTAGATGGTTA
31995029 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGT
*
31995094 ACTAAGTGCAGGCTACTATGAGTACTCGTTAACTTCGATCACCTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGAGTACCCGTTAACTTCGATCACCTGTGTAGTACTAAGTGCAGGCT
31995159 ACTACATGTATTAGATGGTTA
131 ACTACATGTATTAGATGGTTA
31995180 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGT
*
31995245 ACTAAGTGCATGCTACTATG
66 ACTAAGTGCAGGCTACTATG
31995265 CATACCAGAG
Statistics
Matches: 367, Mismatches: 19, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
150 1 0.00
151 366 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGT
ACTAAGTGCAGGCTACTATGAGTACCCGTTAACTTCGATCACCTGTGTAGTACTAAGTGCAGGCT
ACTACATGTATTAGATGGTTA
Found at i:31995494 original size:16 final size:16
Alignment explanation
Indices: 31995473--31995504 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31995463 AGAATGGAGT
31995473 AAGTGAAATTTTGTAA
1 AAGTGAAATTTTGTAA
31995489 AAGTGAAATTTTGTAA
1 AAGTGAAATTTTGTAA
31995505 TAAAACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (16 bp):
AAGTGAAATTTTGTAA
Found at i:31996115 original size:180 final size:180
Alignment explanation
Indices: 31995806--31996156 Score: 456
Period size: 180 Copynumber: 1.9 Consensus size: 180
31995796 AGTTGTGCCA
* * * *
31995806 TGAGATAAATAATTTTTAGTGAAGAGAGGTTGGAACTGTAGGACAGTGAAATAGGGGTCTATTTA
1 TGAGATAAATAACTTTTAGTGAAGAGAGGTCGAAACTGTAGGACAGTGAAATAGGGGTATATTTA
* * *
31995871 TTTAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTCATGGTAAGAATATATATG
66 ATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTCATGGTAAGAAGATATATG
* * *
31995936 AGTTTAGTTTCT-GGGAAAATTAACAGTTCTCAATTTGGAGTCTCGTACCG
131 AGTCTAGTTT-TAGAGAAAATTAACAGATCTCAATTTGGAGTCTCGTACCG
* *
31995986 TGAGAT-AATAACTTTTAGTGAAGAGAGGTCGAAACTGTCA-GATAGGTGAAATAGGGGTATCTT
1 TGAGATAAATAACTTTTAGTGAAGAGAGGTCGAAACTGT-AGGACA-GTGAAATAGGGGTATATT
* * * * * * *
31996049 TAATGAATAAACTGTACTTATTGGGTAGACCAAAATTTTTAAAAATTTTATGGTAAGAAGATATA
64 TAATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTCATGGTAAGAAGATATA
* * *
31996114 TGAGTCTAGTTTTAGATAAAATTAACGGATCTTAATTTGGAGT
129 TGAGTCTAGTTTTAGAGAAAATTAACAGATCTCAATTTGGAGT
31996157 TTCTTAGCTC
Statistics
Matches: 146, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
179 33 0.23
180 113 0.77
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.34
Consensus pattern (180 bp):
TGAGATAAATAACTTTTAGTGAAGAGAGGTCGAAACTGTAGGACAGTGAAATAGGGGTATATTTA
ATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTCATGGTAAGAAGATATATG
AGTCTAGTTTTAGAGAAAATTAACAGATCTCAATTTGGAGTCTCGTACCG
Found at i:31996836 original size:126 final size:126
Alignment explanation
Indices: 31996606--31996853 Score: 469
Period size: 126 Copynumber: 2.0 Consensus size: 126
31996596 TGTGTTTATA
31996606 ATTGGTTGTTATGAATAATTAGTATAACACATGTATATGATGAATGCTCTAAGACCATTCGAGGT
1 ATTGGTTGTTATGAATAATTAGTATAACACATGTATATGATGAATGCTCTAAGACCATTCGAGGT
31996671 GGTCGTGGCCATGGAATGAATGTGTGGCATGGTAATAAGTTGATAATGATTGAATATAATG
66 GGTCGTGGCCATGGAATGAATGTGTGGCATGGTAATAAGTTGATAATGATTGAATATAATG
* *
31996732 ATTGGTTGTTATGAATTATTAGTATAACACATGTATATGATGAATGCTCTAAGATCATTCGAGGT
1 ATTGGTTGTTATGAATAATTAGTATAACACATGTATATGATGAATGCTCTAAGACCATTCGAGGT
*
31996797 GGTCGTGGCCATGGAATGAATGTGTGGCATGGTAGTAAGTTGATAATGATTGAATAT
66 GGTCGTGGCCATGGAATGAATGTGTGGCATGGTAATAAGTTGATAATGATTGAATAT
31996854 GGACAATTGT
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 119 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.34
Consensus pattern (126 bp):
ATTGGTTGTTATGAATAATTAGTATAACACATGTATATGATGAATGCTCTAAGACCATTCGAGGT
GGTCGTGGCCATGGAATGAATGTGTGGCATGGTAATAAGTTGATAATGATTGAATATAATG
Found at i:32004867 original size:49 final size:49
Alignment explanation
Indices: 32004813--32004943 Score: 208
Period size: 49 Copynumber: 2.7 Consensus size: 49
32004803 CTGGTACGCA
* * *
32004813 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* *
32004862 TAGTAGCCTGTACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
32004911 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
32004944 TAACCAATTT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:32005330 original size:60 final size:60
Alignment explanation
Indices: 32005246--32005385 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 60
32005236 CAGTGTTAAC
* * *
32005246 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATTAATATTAATCTAGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* *
32005307 TGGGCCTAGCCCATATTAGTATTAATCTAGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATTAATATTAATCTAGGCCATAGCCCTATTACAAGTCGAGATATAT
*
32005367 TGGGCCTTGCCCATATTAA
1 TGGGCCTAGCCCATATTAA
32005386 CACAGTTGAG
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
60 54 0.78
61 13 0.19
62 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (60 bp):
TGGGCCTAGCCCATATTAATATTAATCTAGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:32016817 original size:12 final size:13
Alignment explanation
Indices: 32016800--32016829 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
32016790 TACTCGAATT
32016800 TAATTTTTATT-C
1 TAATTTTTATTAC
32016812 TAATTTTTATTAC
1 TAATTTTTATTAC
32016825 TAATT
1 TAATT
32016830 CTTCTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (13 bp):
TAATTTTTATTAC
Found at i:32017693 original size:31 final size:32
Alignment explanation
Indices: 32017651--32017712 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
32017641 TAGATCTCTT
*
32017651 AAATAAAAGAAGATGAGGTAAAACCCAAAAGC
1 AAATAAAAGAAGAGGAGGTAAAACCCAAAAGC
32017683 AAAT-AAAGAAGAGGAGGTAAAACCCAAAAG
1 AAATAAAAGAAGAGGAGGTAAAACCCAAAAG
32017713 TAATGACAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.60, C:0.11, G:0.21, T:0.08
Consensus pattern (32 bp):
AAATAAAAGAAGAGGAGGTAAAACCCAAAAGC
Found at i:32021739 original size:27 final size:27
Alignment explanation
Indices: 32021709--32021772 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
32021699 GGACTTCCCC
* * * *
32021709 GTGTTTTCTATCCTGGCAGAGTACCCT
1 GTGTTTACTATCCCGGCAAACTACCCT
*
32021736 GTGTTTACTATCCCGGTAAACTACCCT
1 GTGTTTACTATCCCGGCAAACTACCCT
32021763 GTGTTTACTA
1 GTGTTTACTA
32021773 CCTTGGGTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (27 bp):
GTGTTTACTATCCCGGCAAACTACCCT
Found at i:32023634 original size:38 final size:37
Alignment explanation
Indices: 32023590--32023685 Score: 129
Period size: 38 Copynumber: 2.5 Consensus size: 37
32023580 ATCCTTGTTG
* *
32023590 TAATTATTGTAATTATAATTTAGGATCGAATATTATTA
1 TAATTATTGTAATTATAATTTAGG-TCAAACATTATTA
* *
32023628 TAATTATTGTAATTGTAATTTTTGGTCAAACATTATTA
1 TAATTATTGTAATTATAA-TTTAGGTCAAACATTATTA
*
32023666 TAATTATGGTAATTATAATT
1 TAATTATTGTAATTATAATT
32023686 ATTATATTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
37 2 0.04
38 44 0.86
39 5 0.10
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (37 bp):
TAATTATTGTAATTATAATTTAGGTCAAACATTATTA
Found at i:32037867 original size:30 final size:30
Alignment explanation
Indices: 32037833--32037890 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
32037823 TTGAACAAAG
*
32037833 AAAACCAAGGCAGAGGATAAAAGGAGGAAA
1 AAAACCAAGGCAGAGGATAAAACGAGGAAA
32037863 AAAACCAAGGCAGAGGATAAAACGAGGA
1 AAAACCAAGGCAGAGGATAAAACGAGGA
32037891 TAAAGAGGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.12, G:0.29, T:0.03
Consensus pattern (30 bp):
AAAACCAAGGCAGAGGATAAAACGAGGAAA
Found at i:32040343 original size:26 final size:26
Alignment explanation
Indices: 32040313--32040369 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
32040303 GATTTGTGGT
32040313 TGAAGATACTTCATGCGTTTGAGGCC
1 TGAAGATACTTCATGCGTTTGAGGCC
32040339 TGAAGATACTTCATGCGTTTGAGGCC
1 TGAAGATACTTCATGCGTTTGAGGCC
32040365 TGAAG
1 TGAAG
32040370 CAATGGCGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (26 bp):
TGAAGATACTTCATGCGTTTGAGGCC
Found at i:32040926 original size:11 final size:11
Alignment explanation
Indices: 32040910--32040939 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32040900 TATATATATT
32040910 TAAAAATTATA
1 TAAAAATTATA
*
32040921 TAAAAATAATA
1 TAAAAATTATA
32040932 TAAAAATT
1 TAAAAATT
32040940 TAATACAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:32045482 original size:24 final size:23
Alignment explanation
Indices: 32045427--32045485 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
32045417 GGGGAATGGC
* *
32045427 GATTTATTGCATTTTTACTAGCA
1 GATTTTTTGCATTTTTACTAGAA
* * *
32045450 GCTTGTTTGCATTTTTACTGGAA
1 GATTTTTTGCATTTTTACTAGAA
32045473 GAATTTTTTGCAT
1 G-ATTTTTTGCAT
32045486 ATTGTTATTG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (23 bp):
GATTTTTTGCATTTTTACTAGAA
Found at i:32047525 original size:27 final size:27
Alignment explanation
Indices: 32047486--32047743 Score: 304
Period size: 27 Copynumber: 9.6 Consensus size: 27
32047476 TACCTCACAA
* *
32047486 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
32047513 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
32047540 GGTATTTCGGTATTTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
32047567 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
32047594 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * *
32047621 GGTATTCCGGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * **
32047648 GGTATTTCGGTAATTTTACAAGT-CAGG
1 GGTATTTCAGTAATTCTAC-CCTACAGG
* * * **
32047675 GCTATTTTAGTAATTTTA-CAAACCAGG
1 GGTATTTCAGTAATTCTACCCTA-CAGG
** *
32047702 GGTATTTTGGTAATTCTATCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
32047729 GGTATTTCAGTAATT
1 GGTATTTCAGTAATT
32047744 TCACAATCGA
Statistics
Matches: 198, Mismatches: 29, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
27 195 0.98
28 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTACAGG
Found at i:32047782 original size:27 final size:27
Alignment explanation
Indices: 32047748--32048306 Score: 437
Period size: 27 Copynumber: 20.8 Consensus size: 27
32047738 GTAATTTCAC
32047748 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
32047775 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * * *
32047802 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
32047829 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
32047856 AATCGAGGGTGAAACGGTAA-TTT-AA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * **
32047881 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *** ** *
32047908 AATCGAGGGCATTTCAATAATTTT-AA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* ***** *
32047934 AATCGACGGTATTTTAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **** *
32047961 AACCGGGGGTACTTTGGTAATTTTACT-
1 AATCGAGGGTAAAACGGTAATTTT-GTA
* * *****
32047988 GATCGAAGGTGTTTTGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *** **
32048015 AA-CTAAGGGTATTTCAATAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* *
32048042 AATCGAGGATAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
32048069 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
32048096 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
32048123 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
** * *
32048150 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
32048177 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
32048204 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
32048231 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
32048258 AATTGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
32048285 AATCGAGGGTAAAATGGTAATT
1 AATCGAGGGTAAAACGGTAATT
32048307 CTATCTTATT
Statistics
Matches: 443, Mismatches: 80, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
25 18 0.04
26 29 0.07
27 394 0.89
28 2 0.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:32047856 original size:81 final size:81
Alignment explanation
Indices: 32047748--32048310 Score: 483
Period size: 81 Copynumber: 7.0 Consensus size: 81
32047738 GTAATTTCAC
*
32047748 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATTGAGGGT
1 AATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
32047812 AAAATGGTAATTCTATA
65 AAAATGGTAATTCTATA
* * * * *
32047829 AATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAA-TTT-AAAATCAAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
*
32047892 AAATGGTAATTCTACA
66 AAATGGTAATTCTATA
* *** ** * * *** * * * *
32047908 AATCGAGGGCATTTCAATAATTTT-AAAATCGACGGTATTTTAGTAATTTTATAAACCGGGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
*** *
32047972 CTTTGGTAATTTTACT-
66 AAATGGTAATTCTA-TA
* * ***** * ** ** *
32047988 GATCGAAGGTGTTTTGGTAATTTTGTAAA-CTAAGGGT-ATTTCAATAATTTTGTAAATCGAGGA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAAT-GGTAATTTTGTAAATCGAGGG
** * *
32048051 TAAAACAGTAATTTTGTA
64 TAAAATGGTAATTCTATA
* * * *
32048069 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
* *
32048134 AAACGGTAATTCTGTA
66 AAATGGTAATTCTATA
** * * *
32048150 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
* * *
32048215 AAACGATAATTCTGTA
66 AAATGGTAATTCTATA
* * * * *
32048231 AATCGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
32048296 AAATGGTAATTCTAT
66 AAATGGTAATTCTAT
32048311 CTTATTTCAG
Statistics
Matches: 387, Mismatches: 85, Indels: 20
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.04
79 45 0.12
80 44 0.11
81 280 0.72
82 4 0.01
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
AAATGGTAATTCTATA
Found at i:32047947 original size:26 final size:27
Alignment explanation
Indices: 32047898--32047958 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
32047888 GGTAAAATGG
* *
32047898 TAATTCTACAAATCGAGGGCATTTCAA
1 TAATTTTACAAATCGACGGCATTTCAA
* * *
32047925 TAATTTTA-AAATCGACGGTATTTTAG
1 TAATTTTACAAATCGACGGCATTTCAA
32047951 TAATTTTA
1 TAATTTTA
32047959 TAAACCGGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAATCGACGGCATTTCAA
Done.