Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 41 of 279
Found at i:13793439 original size:13 final size:13
Alignment explanation
Indices: 13793421--13793447 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13793411 AATATCTTAA
13793421 ATATTTAGATATC
1 ATATTTAGATATC
13793434 ATATTTAGATATC
1 ATATTTAGATATC
13793447 A
1 A
13793448 CCTATATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATATTTAGATATC
Found at i:13798015 original size:24 final size:25
Alignment explanation
Indices: 13797921--13798006 Score: 113
Period size: 25 Copynumber: 3.4 Consensus size: 25
13797911 AGGAAGTGCA
* *
13797921 AAAAGGGC-TATGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCTAGTTTATC
*
13797945 GAAACA-GGCTTTTGCCCTAGTTTATT
1 -AAA-AGGGCTTTTGCCCTAGTTTATC
13797971 AAAAGGGCTTTTGCCCTAGTTTATC
1 AAAAGGGCTTTTGCCCTAGTTTATC
13797996 AAAAGGGCTTT
1 AAAAGGGCTTT
13798007 GTCCCAGTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
24 1 0.02
25 39 0.72
26 14 0.26
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCTAGTTTATC
Found at i:13798028 original size:24 final size:25
Alignment explanation
Indices: 13797921--13798028 Score: 109
Period size: 25 Copynumber: 4.4 Consensus size: 25
13797911 AGGAAGTGCA
* * *
13797921 AAAAGGGC-TATGCCCCAGTTTATCG
1 AAAAGGGCTTTTGCCCTAGTTTAT-T
13797946 AAACA-GGCTTTTGCCCTAGTTTATT
1 AAA-AGGGCTTTTGCCCTAGTTTATT
*
13797971 AAAAGGGCTTTTGCCCTAGTTTATC
1 AAAAGGGCTTTTGCCCTAGTTTATT
13797996 AAAAGGGC-TTTGTCCC-AG-TTATT
1 AAAAGGGCTTTTG-CCCTAGTTTATT
13798019 AAAAGAGGCT
1 AAAAG-GGCT
13798029 AGGCCTCCAG
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
23 9 0.12
24 10 0.14
25 39 0.54
26 14 0.19
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCTAGTTTATT
Found at i:13805281 original size:20 final size:20
Alignment explanation
Indices: 13805256--13805300 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
13805246 ATTTTAATAT
13805256 ACATGATATGTATGATATAC
1 ACATGATATGTATGATATAC
*
13805276 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATAC
13805296 ACATG
1 ACATG
13805301 GGATAGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATAC
Found at i:13805370 original size:26 final size:24
Alignment explanation
Indices: 13805331--13805425 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
13805321 AGGAAGTGCA
* *
13805331 AAAAGGGC-TATGCCTTAGTTTACC
1 AAAAGGGCTTTTGCCCTAGTTTA-C
* *
13805355 GAAAAGGGCTTTTGCCCCAGTTTATT
1 -AAAAGGGCTTTTGCCCTAGTTTA-C
13805381 AAAAGGGCTTTTGCCCTAGTTTATC
1 AAAAGGGCTTTTGCCCTAGTTTA-C
*
13805406 AAAAGGGCTTTT-CCCCAGTT
1 AAAAGGGCTTTTGCCCTAGTT
13805426 ATTAAAAGAG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.11
25 43 0.70
26 11 0.18
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (24 bp):
AAAAGGGCTTTTGCCCTAGTTTAC
Found at i:13805438 original size:24 final size:25
Alignment explanation
Indices: 13805356--13805438 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
13805346 TAGTTTACCG
13805356 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
* *
13805381 AAAAGGGCTTTTGCCCTAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATT
13805406 AAAAGGGCTTTT-CCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
13805429 AAAAGAGGCT
1 AAAAG-GGCT
13805439 AGGCCTCTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 9 0.17
24 9 0.17
25 35 0.66
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATT
Found at i:13805449 original size:49 final size:51
Alignment explanation
Indices: 13805331--13805450 Score: 160
Period size: 50 Copynumber: 2.4 Consensus size: 51
13805321 AGGAAGTGCA
13805331 AAAAGGGCTATGCCT-TAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTATGCCTCTAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
* *
13805381 AAAAGGGCTTTTGCC-CTAGTTTATC-AAAAGGGCTTTT-CCCCAG-TTATT
1 AAAAGGGC-TATGCCTCTAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
*
13805429 AAAAGAGGCTAGGCCTCTAGTT
1 AAAAG-GGCTATGCCTCTAGTT
13805451 ATATGATAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
48 14 0.23
49 15 0.24
50 20 0.32
51 13 0.21
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (51 bp):
AAAAGGGCTATGCCTCTAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
Found at i:13805676 original size:7 final size:7
Alignment explanation
Indices: 13805664--13805693 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
13805654 TCGGCCCAGT
13805664 AATATGA
1 AATATGA
13805671 AATATGA
1 AATATGA
13805678 AATATGA
1 AATATGA
13805685 AATATGA
1 AATATGA
13805692 AA
1 AA
13805694 AGGCTTCGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (7 bp):
AATATGA
Found at i:13810690 original size:42 final size:41
Alignment explanation
Indices: 13810631--13810784 Score: 164
Period size: 42 Copynumber: 3.7 Consensus size: 41
13810621 TGAAATTACG
**
13810631 TGTAAGACCATATCTGGGATATAACATCATTATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCA-TATGAGATTTCA
* **
13810673 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGGCA-TCATATGAGATTTCA
* * **
13810715 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATC-ATATGAGATTTCA
* * *
13810758 TGGAAGACCATATCTAGAATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
13810785 TGGTGTGGTA
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 60 0.65
43 32 0.35
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCATATGAGATTTCA
Found at i:13810772 original size:85 final size:84
Alignment explanation
Indices: 13810630--13810786 Score: 208
Period size: 85 Copynumber: 1.9 Consensus size: 84
13810620 TTGAAATTAC
* ** * * *
13810630 GTGTAAGACCATATCTGGGATATAACATCATTATGAGATTTCATGTAAGACCATATCTGGGATAT
1 GTGTAAGACCATAGCTGGGATATAACATCATTATGAGATCCCATGGAAGACCATATCTAGAATAT
13810695 GGCATTGATATGAGATTTT
66 GGCATTGATATGAGATTTT
* **
13810714 GTGTAAGACCATAGCTGGGCTATTGGCATCGA-TATGAGATCCCATGGAAGACCATATCTAGAAT
1 GTGTAAGACCATAGCTGGGATA-TAACATC-ATTATGAGATCCCATGGAAGACCATATCTAGAAT
13810778 ATGGCATTG
64 ATGGCATTG
13810787 GTGTGGTACT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
84 20 0.32
85 41 0.66
86 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATATAACATCATTATGAGATCCCATGGAAGACCATATCTAGAATAT
GGCATTGATATGAGATTTT
Found at i:13819057 original size:43 final size:42
Alignment explanation
Indices: 13819010--13819110 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
13819000 TCCCGGATGT
* **
13819010 GGTCTTACATGTAATTCAG-TATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACA-GTAAATCAGTTA-CGATGCCGATGTCCCAGACAG
* ** *
13819053 GGTCTTATACAAAATCAGTTACGATGCCGATGTCCCAGACAT
1 GGTCTTACAGTAAATCAGTTACGATGCCGATGTCCCAGACAG
13819095 GGTCTTACACGTAAAT
1 GGTCTTACA-GTAAAT
13819111 TTGAAATCAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
42 32 0.70
43 14 0.30
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (42 bp):
GGTCTTACAGTAAATCAGTTACGATGCCGATGTCCCAGACAG
Found at i:13821862 original size:46 final size:46
Alignment explanation
Indices: 13821813--13822116 Score: 527
Period size: 46 Copynumber: 6.6 Consensus size: 46
13821803 GGTTGAGCAT
* * *
13821813 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
13821859 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
13821905 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACAC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
13821951 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACAC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
13821997 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
13822043 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
13822089 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
13822117 NNNNNNNNNN
Statistics
Matches: 253, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 253 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:13827492 original size:27 final size:27
Alignment explanation
Indices: 13827403--13827485 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 27
13827393 AACTTACATT
* * *
13827403 ACATAGGGGCAAAATAGTCACTTTAGC
1 ACATAGGGGCAAAACAGTCATTTTACC
* * *
13827430 ATATAAGGGCAAAATAGTCATTTTACC
1 ACATAGGGGCAAAACAGTCATTTTACC
*
13827457 ACATAGGGGCAATACAGTCATTTTACC
1 ACATAGGGGCAAAACAGTCATTTTACC
13827484 AC
1 AC
13827486 CAAGGGGGTC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
ACATAGGGGCAAAACAGTCATTTTACC
Found at i:13832270 original size:61 final size:60
Alignment explanation
Indices: 13832175--13832294 Score: 204
Period size: 61 Copynumber: 2.0 Consensus size: 60
13832165 TCTAAATTCC
*
13832175 TTATTGAGTCTAGTTTTAAATGAAACAGGTTTCATGGTTATTTGAATTGTGTACTGAGAG
1 TTATTGAGTATAGTTTTAAATGAAACAGGTTTCATGGTTATTTGAATTGTGTACTGAGAG
* *
13832235 NTTATTGATTATAGTTTTAAATGAAATAGGTTTCATGGTTATTTGAATTGTGTACTGAGA
1 -TTATTGAGTATAGTTTTAAATGAAACAGGTTTCATGGTTATTTGAATTGTGTACTGAGA
13832295 TAAATTCAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.43
Consensus pattern (60 bp):
TTATTGAGTATAGTTTTAAATGAAACAGGTTTCATGGTTATTTGAATTGTGTACTGAGAG
Found at i:13834631 original size:49 final size:47
Alignment explanation
Indices: 13834520--13834694 Score: 169
Period size: 49 Copynumber: 3.6 Consensus size: 47
13834510 AATGCCGATA
*
13834520 CCATGTCCCA-AGCATGGTCTTACACTGACTCATC--CATCAAGTCAATG
1 CCATGTCCCAGA-CATGGTCTTACACTGACT-ATCAAAATCAAGT-AATG
* *
13834567 CCATGTCCAAGACATGGTCTTACACTGACTATCAAAATCGAGGTAGATG
1 CCATGTCCCAGACATGGTCTTACACTGACTATCAAAATC-AAGTA-ATG
* * * * *
13834616 CCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATC-TGTACCTACG
1 CCATGTCCCAGACATGGTCTTACACTGACTATCA-AAATCAAGTA---ATG
13834666 CCATGTCCCAGACATGGTCTTACACTGAC
1 CCATGTCCCAGACATGGTCTTACACTGAC
13834695 ACATCTCGTT
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
46 3 0.03
47 27 0.25
48 8 0.07
49 37 0.34
50 34 0.31
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGTAATG
Found at i:13837339 original size:24 final size:24
Alignment explanation
Indices: 13837307--13837355 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
13837297 TGGCCGAATG
*
13837307 AACATATATATACATTTACAAACT
1 AACATATATATACATTAACAAACT
13837331 AACATATATATACATTAACAAACT
1 AACATATATATACATTAACAAACT
13837355 A
1 A
13837356 TCATTCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (24 bp):
AACATATATATACATTAACAAACT
Found at i:13837825 original size:45 final size:45
Alignment explanation
Indices: 13837766--13837987 Score: 291
Period size: 45 Copynumber: 4.9 Consensus size: 45
13837756 AATCAAATAC
* * * * * *
13837766 GATGCCGATGTCCCAGACATGGTCTTACACGTAACCACATATATT
1 GATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACATATATT
* *
13837811 GATGCCAACCTCCCAAACGTGGTCTTACAGGAAAACACATATATT
1 GATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACATATATT
* *
13837856 GATGCCAACGTCCCAAACGTGGTCTTACACGTAACCACATATATT
1 GATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACATATATT
* * * * *
13837901 GATGCCAACGTCCTAGACATGGTCTTACATGAAAACACATATATC
1 GATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACATATATT
* *
13837946 AATGCCAACGTCCCAAACGTGGTCTTACACAAAAACACATAT
1 GATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACATAT
13837988 CGGAATCCTA
Statistics
Matches: 152, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 152 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (45 bp):
GATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACATATATT
Found at i:13837879 original size:90 final size:90
Alignment explanation
Indices: 13837765--13837975 Score: 323
Period size: 90 Copynumber: 2.3 Consensus size: 90
13837755 GAATCAAATA
* * * * *
13837765 CGATGCCGATGTCCCAGACATGGTCTTACACGTAACCACATATATTGATGCCAACCTCCCAAACG
1 CGATGCCAACGTCCCAAACGTGGTCTTACACGTAACCACATATATTGATGCCAACCTCCCAAACA
13837830 TGGTCTTACAGGAAAACACATATAT
66 TGGTCTTACAGGAAAACACATATAT
* * * *
13837855 TGATGCCAACGTCCCAAACGTGGTCTTACACGTAACCACATATATTGATGCCAACGTCCTAGACA
1 CGATGCCAACGTCCCAAACGTGGTCTTACACGTAACCACATATATTGATGCCAACCTCCCAAACA
*
13837920 TGGTCTTACATGAAAACACATATAT
66 TGGTCTTACAGGAAAACACATATAT
*
13837945 CAATGCCAACGTCCCAAACGTGGTCTTACAC
1 CGATGCCAACGTCCCAAACGTGGTCTTACAC
13837976 AAAAACACAT
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 109 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (90 bp):
CGATGCCAACGTCCCAAACGTGGTCTTACACGTAACCACATATATTGATGCCAACCTCCCAAACA
TGGTCTTACAGGAAAACACATATAT
Found at i:13839085 original size:14 final size:15
Alignment explanation
Indices: 13839068--13839096 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13839058 TCACGAAAAT
13839068 TTCACACAT-ATAAA
1 TTCACACATAATAAA
13839082 TTCACACATAATAAA
1 TTCACACATAATAAA
13839097 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:13843557 original size:97 final size:92
Alignment explanation
Indices: 13843389--13843563 Score: 210
Period size: 97 Copynumber: 1.8 Consensus size: 92
13843379 TGTGTAAGCC
13843389 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTAGAA
1 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTAGAA
**
13843454 TGTGGCATCGGCATAGATACGCGAGAG
66 CATGGCATCGGCATAGATACGCGAGAG
* *
13843481 AGTGTAAGACCATGTCTAGGACATGGTATCGGCCT-TGAAGATGATAG-CTAGTGTAAGACCATG
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGG-CTACG-AGATG-T-GTC-AGTGTAAGACCATG
* * *
13843544 TTTGGGACATGGCATCGGCA
59 TCTAGAACATGGCATCGGCA
13843564 CTTTACCACA
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
92 9 0.13
93 14 0.20
94 7 0.10
95 7 0.10
96 2 0.03
97 30 0.43
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTAGAA
CATGGCATCGGCATAGATACGCGAGAG
Found at i:13847294 original size:46 final size:46
Alignment explanation
Indices: 13847166--13847423 Score: 242
Period size: 46 Copynumber: 5.6 Consensus size: 46
13847156 TGTGAGCTAG
* *
13847166 TGTAAGACATGTCTAGGACATCCATCAGCCACATT---ATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATC-G--ACATTGAGATGAGAGCCAA
* * * *
13847212 TGTAAGACCATGTATGGGACATGGCATCGGCATTGAGATGAGTGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGACATTGAGATGAGAGCCAA
* * * *
13847260 TGTAAGACATGTCTAGGACATGCATCGACATTGAGATTAGTGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGACATTGAGATGAGAGCCAA
13847306 TGTAAGACATGTCTGGGACATGCATCGGCCACATT---ATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATC-G--ACATTGAGATGAGAGCCAA
* * * * *
13847352 TGTAAGACATGTCTGGGGCATGCATCGGCCTCGAGACGTA-AGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGACATTGAGATG-AGAGCCAA
*
13847398 TGTAAGACATGTTTGGGACATGCATC
1 TGTAAGACATGTCTGGGACATGCATC
13847424 AGCTATGAGA
Statistics
Matches: 179, Mismatches: 21, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
43 2 0.01
45 5 0.03
46 120 0.67
47 27 0.15
48 20 0.11
49 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGACATTGAGATGAGAGCCAA
Found at i:13847337 original size:140 final size:138
Alignment explanation
Indices: 13847164--13847569 Score: 421
Period size: 140 Copynumber: 2.9 Consensus size: 138
13847154 TGTGTGAGCT
* * *
13847164 AGTGTAAGACATGTCTAGGACATCCATCAGCCACATTATGAGAGCCAATGTAAGACCATGTATGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTATGG
* * *
13847229 GACATGGCATCGGCATTGAGATGAGTGCCAGTGTAAGACATGTCTAGGACATGCATCGA-C-ATT
66 GACATGGCATCGGCCTTGAGATGA-AGCCAGTGTAAGACATGTCTGGGACATGCATCGAGCTA-T
13847292 GAGATTAGTGCC
129 GAGA-T-GTGCC
*
13847304 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGA-CATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTATGG
* * * * *
13847368 GGCAT-GCATCGGCCTCGAGACGTAAGCCAATGTAAGACATGTTTGGGACATGCATC-AGCTATG
66 GACATGGCATCGGCCTTGAGATG-AAGCCAGTGTAAGACATGTCTGGGACATGCATCGAGCTATG
*
13847431 AGATGTGTC
130 AGATGTGCC
* * * * * * *
13847440 AGTATACGACCATGTCTGGGACATGGCATTGG-CACGGA-TACGCGAGAGCTAGTGTAAGACAAT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC--ATTA--TGAGAGCCAATGTAAGACCAT
* * *
13847503 GTTTGGGAGATGGCATTGGCCTTGAAGATGACAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
60 GTATGGGACATGGCATCGGCCTTG-AGATGA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCAT
13847568 CG
121 CG
13847570 GCACTTTACC
Statistics
Matches: 222, Mismatches: 28, Indels: 26
0.80 0.10 0.09
Matches are distributed among these distances:
136 11 0.05
137 19 0.09
138 56 0.25
139 15 0.07
140 66 0.30
141 10 0.05
142 11 0.05
143 16 0.07
144 13 0.06
145 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (138 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTATGG
GACATGGCATCGGCCTTGAGATGAAGCCAGTGTAAGACATGTCTGGGACATGCATCGAGCTATGA
GATGTGCC
Found at i:13849369 original size:24 final size:24
Alignment explanation
Indices: 13849308--13849384 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 24
13849298 TGCTCCTCCT
*
13849308 GAGCTGATGAACAGTAAGCTC-TGAC
1 GAGCTGA-GAATAGTAAGCTCAT-AC
*
13849333 GAGCT-A-AATAGTAAGTTCATAC
1 GAGCTGAGAATAGTAAGCTCATAC
*
13849355 GAGCTGAGAATAGTAAGCTCATTC
1 GAGCTGAGAATAGTAAGCTCATAC
13849379 GAGCTG
1 GAGCTG
13849385 CGGTGAGTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
22 17 0.38
23 2 0.04
24 21 0.47
25 5 0.11
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (24 bp):
GAGCTGAGAATAGTAAGCTCATAC
Found at i:13849977 original size:26 final size:26
Alignment explanation
Indices: 13849929--13849982 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
13849919 AACCACTACG
** *
13849929 TTTTACATTTTCTCAATTTAATCCCT
1 TTTTACATTTTCTCAATAAAATCACT
13849955 TTTTATCATTTTCTCAA-AAAATCACT
1 TTTTA-CATTTTCTCAATAAAATCACT
13849981 TT
1 TT
13849983 ATAAAACTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTTACATTTTCTCAATAAAATCACT
Found at i:13853020 original size:27 final size:27
Alignment explanation
Indices: 13852989--13853166 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13852979 TAAATTGTAC
13852989 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
13853016 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13853042 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
13853070 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
13853098 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13853125 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
13853152 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13853167 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:13853103 original size:82 final size:81
Alignment explanation
Indices: 13852990--13853145 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13852980 AAATTGTACA
* *
13852990 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13853054 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
13853071 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
13853136 TGCGAGTTGA
65 TGCGAATTGA
13853146 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13853157 original size:82 final size:81
Alignment explanation
Indices: 13852986--13853166 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
13852976 GATTAAATTG
* *
13852986 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13853051 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13853067 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13853131 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13853149 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13853167 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13857470 original size:20 final size:19
Alignment explanation
Indices: 13857408--13857470 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
13857398 TTTTCATAAA
*
13857408 TTATGTACCACTCCATTTAC
1 TTAT-TACCATTCCATTTAC
13857428 TTTATTACCATTCCATTTAC
1 -TTATTACCATTCCATTTAC
* *
13857448 TTACTTTCCATTTCATTTAC
1 TTA-TTACCATTCCATTTAC
13857468 TTA
1 TTA
13857471 ACATAAACTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.08
20 31 0.82
21 4 0.11
ACGTcount: A:0.24, C:0.25, G:0.02, T:0.49
Consensus pattern (19 bp):
TTATTACCATTCCATTTAC
Found at i:13858363 original size:138 final size:137
Alignment explanation
Indices: 13858111--13858380 Score: 342
Period size: 138 Copynumber: 2.0 Consensus size: 137
13858101 GAGCCATAAA
* *
13858111 TGGGTCTGCTCACACAAGATAACAATCGGAATGTAGCTACATGATGCCGCTCACACAAGCTAATG
1 TGGGTCTGCTCACACAAGATAACAATCGAAATGTAGCTACACGATGCCGCTCACACAAGCTAATG
** * * ** * *
13858176 AGTATCAAAAACAAATTTTAAAGCTCAGCCATCGATAGGACATTTAGGACTAGCACCCGAAACAT
66 AGTATCAAAAACAAATGCTAAACCTCAACCATCGATAAAACATTCAGGACCAGCACCCGAAACAT
13858241 GATAACT
131 GATAACT
* *** * *
13858248 TGGGTCTGCTCACACAAGCTAATGGTCGAAATGTAAGCTACACGATGCTGCTCACACAAGCTGAT
1 TGGGTCTGCTCACACAAGATAACAATCGAAATGT-AGCTACACGATGCCGCTCACACAAGCTAAT
*** * *
13858313 GAGTATCCGCAACAAATGCTAGACCTCAACCATCGGTAAAACATTCAGGACCAGCACCCGAAACA
65 GAGTATCAAAAACAAATGCTAAACCTCAACCATCGATAAAACATTCAGGACCAGCACCCGAAACA
13858378 TGA
130 TGA
13858381 AAACCCTAAT
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
137 29 0.26
138 82 0.74
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (137 bp):
TGGGTCTGCTCACACAAGATAACAATCGAAATGTAGCTACACGATGCCGCTCACACAAGCTAATG
AGTATCAAAAACAAATGCTAAACCTCAACCATCGATAAAACATTCAGGACCAGCACCCGAAACAT
GATAACT
Found at i:13868714 original size:13 final size:13
Alignment explanation
Indices: 13868696--13868721 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13868686 GCTGTGGATT
13868696 TGGGTTTTAAAGA
1 TGGGTTTTAAAGA
13868709 TGGGTTTTAAAGA
1 TGGGTTTTAAAGA
13868722 AATGATTTGT
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:0.31, T:0.38
Consensus pattern (13 bp):
TGGGTTTTAAAGA
Found at i:13875422 original size:40 final size:40
Alignment explanation
Indices: 13875390--13876141 Score: 1180
Period size: 40 Copynumber: 18.8 Consensus size: 40
13875380 CCAGCATGAT
* * * *
13875390 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
13875430 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
13875470 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
13875510 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
13875550 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
13875590 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
13875630 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
13875670 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
13875710 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
13875750 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
13875790 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
13875830 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
13875870 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
13875910 TGCTCCTCGGGACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
13875950 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
13875990 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* ** *
13876030 TGCTCTTCGGGATTTAGTTCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
13876070 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
13876110 TGCTCTTCGGGATTTAGCCCAGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
13876142 CTCAATTCTC
Statistics
Matches: 669, Mismatches: 43, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 669 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:13877962 original size:48 final size:48
Alignment explanation
Indices: 13877891--13878380 Score: 836
Period size: 48 Copynumber: 10.2 Consensus size: 48
13877881 TGTTACAACA
13877891 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
13877939 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
13877987 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
13878035 TTCACATTAGCCATTGGGCTTTACCACATATACATCTCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* ** *
13878083 TTCACATTCGCCATTCGGCTTTACCACATATACATATAACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
13878131 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
13878179 TTCACATTAGCCATTCGGCTTTACACACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTAC-CACATATACATATCTCATATATAT
*
13878228 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
13878276 TTCACATTCGCCATTCGGCTTCACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
13878324 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
13878372 TTTACATTA
1 TTCACATTA
13878381 TGAGCAACTA
Statistics
Matches: 413, Mismatches: 28, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
48 365 0.88
49 48 0.12
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:13882837 original size:49 final size:46
Alignment explanation
Indices: 13882549--13882859 Score: 242
Period size: 46 Copynumber: 6.7 Consensus size: 46
13882539 ATTGTGGGCT
** *
13882549 AGTGTAAGACATGTCTGGGACATGCATCGG-CTGCATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTA-ATCC
* ** * ** * **
13882595 AGTGTAAGACCATGTCTGGG-TATGGCATCAACATTGAGACG-AGCGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGTA-ATCC
* * *
13882642 AGTGTAAGACAAGTCTGGGACATGCATCGGCCTCAGGATGTAAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAATCC
** *
13882688 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAATCC
* * * *
13882734 AGTGTAAGACATGTTTGGGACATGCATC-GACTACGAGATAT-AT-C
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTAATCC
*
13882778 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAAGATG-ATATCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTC-AAGATGTA-ATCC
*
13882827 AGTGTAAGACCATGTCTAGGACATGACATCGGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC
13882860 ACCTTACCCC
Statistics
Matches: 216, Mismatches: 35, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.05
45 17 0.08
46 114 0.53
47 41 0.19
48 4 0.02
49 30 0.14
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAATCC
Found at i:13896200 original size:47 final size:46
Alignment explanation
Indices: 13896142--13896259 Score: 173
Period size: 47 Copynumber: 2.5 Consensus size: 46
13896132 GCATTGGCAT
* *
13896142 TAAGATAAGGATACCATTTAAGACGATGTGTGGAACATGGCATTTTG
1 TAAGATAAGGATACCATGTAAGAC-ATGTGTGGAACATGGCATTTCG
* *
13896189 TAAGACAAGGATACCATGTAAGATCATGTTTGGAACATGGCATTTCG
1 TAAGATAAGGATACCATGTAAGA-CATGTGTGGAACATGGCATTTCG
*
13896236 TAAGATAAGGATATCATGTAAGAC
1 TAAGATAAGGATACCATGTAAGAC
13896260 CATGCCAAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
46 1 0.02
47 62 0.97
48 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (46 bp):
TAAGATAAGGATACCATGTAAGACATGTGTGGAACATGGCATTTCG
Found at i:13896371 original size:55 final size:54
Alignment explanation
Indices: 13896242--13896438 Score: 263
Period size: 55 Copynumber: 3.6 Consensus size: 54
13896232 TTCGTAAGAT
* * *
13896242 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
13896296 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
13896351 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
13896404 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
13896439 ATGGTAAGTT
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.26
54 42 0.33
55 43 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:13900706 original size:40 final size:40
Alignment explanation
Indices: 13900646--13900880 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
13900636 ATGATCATTC
13900646 GACTGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT
1 GACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT
* *
13900687 GACTATATCCGGGCTAAGTCCCGAAGGTATTTGTGCTATT
1 GACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT
*
13900727 GACTATATCCGGGACTTAGGGCTAAGTCCTGAAGGCATTTGTGCTAGT
1 GACTATAT-C----C---GGGCTAAGTCCCGAAGGCATTTGTGCTAGT
* * *
13900775 GACTATATCTGGGCTAAGTCCCAAAGGCATTTGTGCTATT
1 GACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT
* *
13900815 GACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT
1 GACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-T
*
13900856 G-CTATATCC-GGCTAAATCCCGAAGG
1 GACTATATCCGGGCTAAGTCCCGAAGG
13900881 TACTTGGGTT
Statistics
Matches: 169, Mismatches: 16, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
39 14 0.08
40 111 0.66
41 7 0.04
45 1 0.01
47 1 0.01
48 35 0.21
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
GACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT
Found at i:13900807 original size:88 final size:88
Alignment explanation
Indices: 13900657--13900827 Score: 306
Period size: 88 Copynumber: 1.9 Consensus size: 88
13900647 ACTGATATCC
* *
13900657 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGTATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTTGTG
13900722 CTATTGACTATATCCGGGACTTA
66 CTATTGACTATATCCGGGACTTA
* *
13900745 GGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTTGTG
13900810 CTATTGACTATATCCGGG
66 CTATTGACTATATCCGGG
13900828 CTAAGACCCG
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (88 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTTGTG
CTATTGACTATATCCGGGACTTA
Found at i:13906002 original size:19 final size:20
Alignment explanation
Indices: 13905978--13906015 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13905968 GGTACCACCA
13905978 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
13905997 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
13906016 ACCACCTGAT
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:13908281 original size:44 final size:44
Alignment explanation
Indices: 13908219--13908305 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
13908209 TTGATATCTC
*
13908219 AAAGTCCATGGTTGTACCATGGAAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATACCATGGAAATTAAGGAAGAATTGACGGA
* * *
13908263 AAAGTCCAT-GTTCATACCATGGCATTTAAGGAGGAATTGACGG
1 AAAGTCCATGGTT-ATACCATGGAAATTAAGGAAGAATTGACGG
13908306 TTAAGGATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 3 0.08
44 35 0.92
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATACCATGGAAATTAAGGAAGAATTGACGGA
Found at i:13911709 original size:54 final size:53
Alignment explanation
Indices: 13911637--13911940 Score: 221
Period size: 54 Copynumber: 5.8 Consensus size: 53
13911627 TGGCATTTGG
* * *
13911637 TAAGATAAGGTTATCATGTAAGACCATGCCAAGGCATGGCATTGATATGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATA-GTTCTA
*** * * *
13911691 TAAGACAAGGATACCATGTAAGACCATG-TTTGG-A--ACA-TGACA-TT-TGG
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAGTTCT-A
* * * *
13911738 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGACATCGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGAT-AGTTCTA
* * * * * * *
13911792 TAAGGCAAGGAAATCATGTAAGACCATGTCGAGACATGGCATTGATGAGTTACCA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGAT-AGTT-CTA
* * * *
13911847 CAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGAC-AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGAT-AGTTCTA
* * * * *
13911900 TAAGGCAAGGATACCACGTAAGACTATGTCAAGACATGGCA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCA
13911941 ATGGCAAGTT
Statistics
Matches: 197, Mismatches: 41, Indels: 25
0.75 0.16 0.10
Matches are distributed among these distances:
46 1 0.01
47 28 0.14
48 2 0.01
49 5 0.03
50 2 0.01
51 3 0.02
52 7 0.04
53 34 0.17
54 70 0.36
55 41 0.21
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAGTTCTA
Found at i:13911769 original size:101 final size:101
Alignment explanation
Indices: 13911594--13911820 Score: 382
Period size: 101 Copynumber: 2.2 Consensus size: 101
13911584 GGGTGTTACA
* *
13911594 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGTTATCATGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGATATCATGTAAG
* * *
13911659 ACCATGCCAAGGCATGGCATTGATATGTTCTATAAG
66 ACCATGCCAAGGCATGACATCGATAAGTTCTATAAG
13911695 ACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGATATCATGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGATATCATGTAAG
13911760 ACCATGCCAAGGCATGACATCGATAAGTTCTATAAG
66 ACCATGCCAAGGCATGACATCGATAAGTTCTATAAG
* * *
13911796 GCAAGGAAATCATGTAAGACCATGT
1 ACAAGGATACCATGTAAGACCATGT
13911821 CGAGACATGG
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 118 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (101 bp):
ACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGATATCATGTAAG
ACCATGCCAAGGCATGACATCGATAAGTTCTATAAG
Found at i:13911869 original size:55 final size:53
Alignment explanation
Indices: 13911744--13911940 Score: 198
Period size: 55 Copynumber: 3.7 Consensus size: 53
13911734 TTGGTAAGAT
* * * * * * *
13911744 AAGGATATCATGTAAGACCATGCCAAGGCATGACATCGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTC-ACAAGGC
* * *
13911798 AAGGAAATCATGTAAGACCATGTCGAGACATGGCATTGATGAGTTACCACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT--CACAAGGC
* * * * *
13911853 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCACAAGGC
* *
13911906 AAGGATACCACGTAAGACTATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
13911941 ATGGCAAGTT
Statistics
Matches: 118, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
52 4 0.03
53 32 0.27
54 38 0.32
55 39 0.33
56 5 0.04
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCACAAGGC
Found at i:13928662 original size:46 final size:46
Alignment explanation
Indices: 13928563--13928688 Score: 146
Period size: 46 Copynumber: 2.7 Consensus size: 46
13928553 GTTATTGTAG
* * ** *
13928563 GCTAGTGTAAGGCATGTCTGGGACATGCATCAGCCGCATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGCAGGACGAGA
* * * *
13928609 GCCAGTGTAAGACATGTCTGGGACATACATCGGCCTCGGGACGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGCAGGACG-AGA
*
13928655 GCTAGTGTAAGACATGTCTTGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
13928689 TAAAAGATGT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 66 0.99
47 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGCAGGACGAGA
Found at i:13939122 original size:26 final size:25
Alignment explanation
Indices: 13939088--13939136 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
13939078 GCCAAATTTG
*
13939088 AGTACCAAATTAGATAAAAAAAATTA
1 AGTACCAAATTA-AGAAAAAAAATTA
*
13939114 AGTATCAAATTAAGAAAAAAAAT
1 AGTACCAAATTAAGAAAAAAAAT
13939137 GACAAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.63, C:0.06, G:0.08, T:0.22
Consensus pattern (25 bp):
AGTACCAAATTAAGAAAAAAAATTA
Found at i:13944635 original size:30 final size:30
Alignment explanation
Indices: 13944601--13944660 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
13944591 GATTGTGGAG
13944601 TTGAGAATGTGTAATGATCATTGAGATAGT
1 TTGAGAATGTGTAATGATCATTGAGATAGT
13944631 TTGAGAATGTGTAATGATCATTGAGATAGT
1 TTGAGAATGTGTAATGATCATTGAGATAGT
13944661 GGAATTTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (30 bp):
TTGAGAATGTGTAATGATCATTGAGATAGT
Found at i:13945482 original size:31 final size:31
Alignment explanation
Indices: 13945439--13945524 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
13945429 TCAATCTCAG
13945439 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
13945469 CATATCACTGGGCCGAAGTCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
13945500 CATATCACTGGGCCAAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
13945525 TGTAACAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:13945787 original size:26 final size:25
Alignment explanation
Indices: 13945742--13945837 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
13945732 CTCTTTTAAT
*
13945742 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
13945767 AACTGGAGCAAAAGCCCTTTTCGATA
1 AACTGGGGC-AAAGCCCTTTTCGATA
*
13945793 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
13945818 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
13945838 AGCACTTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 42 0.65
26 23 0.35
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:13945800 original size:51 final size:50
Alignment explanation
Indices: 13945742--13945837 Score: 147
Period size: 51 Copynumber: 1.9 Consensus size: 50
13945732 CTCTTTTAAT
*
13945742 AACTGGGGCAAAGCCCTTTTTGATAAACTGGAGCAAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATAAACTGGAGC-AAAGCCCTTTTCGATA
* * *
13945793 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTTCGATAAACTGGAGCAAAGCCCTTTT
13945838 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 10 0.24
51 31 0.76
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (50 bp):
AACTGGGGCAAAGCCCTTTTCGATAAACTGGAGCAAAGCCCTTTTCGATA
Found at i:13948688 original size:46 final size:46
Alignment explanation
Indices: 13948543--13948836 Score: 256
Period size: 46 Copynumber: 6.3 Consensus size: 46
13948533 NNNNNNNNNN
* * *
13948543 ACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCA
1 ACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCA
* * *** *
13948589 ACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCTCGAACTTGGACTCA
1 ACTCAACGAGCTCGGACATTCGC-A--TCCATAAGT-GAACTCGGACTCA
* * *
13948636 AATCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCA
1 ACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCA
* *
13948682 ACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCA
1 ACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCA
* * * * * *** *
13948728 ACTCAATGAGCTCGG--ATGCCCTGTTACATCTCTCGAACTCTGACTCA
1 ACTCAACGAGCTCGGACATTCGC--ATCCATAAGT-GAACTCGGACTCA
* *
13948775 ACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCA
1 ACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCA
*
13948821 ACTCAACGAGTTCGGA
1 ACTCAACGAGCTCGGA
13948837 TGCCAAAATA
Statistics
Matches: 194, Mismatches: 42, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
43 1 0.01
44 6 0.03
46 120 0.62
47 59 0.30
49 7 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
ACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCA
Found at i:13948766 original size:93 final size:93
Alignment explanation
Indices: 13948669--13948840 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
13948659 ATCCATAAGT
* * *
13948669 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
13948734 TGAGCTCGGATGCCCTGTTACATCTCTC
66 CGAGCTCGGATGCCCTGTTACATCTCTC
* *
13948762 GAACTCTGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
13948827 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
13948841 AAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCCTGTTACATCTCTC
Found at i:13948793 original size:139 final size:139
Alignment explanation
Indices: 13948543--13948835 Score: 500
Period size: 139 Copynumber: 2.1 Consensus size: 139
13948533 NNNNNNNNNN
13948543 ACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGC
1 ACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGC
*
13948608 CTAGTTACATCTCTCGAACTTGGACTCAAATCAACGAGTTCGGACATTTGCATCCATAAGTGAAC
66 CTAGTTACATCTCTCGAACTTGGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGAAC
*
13948673 TCGGACTCA
131 TCAGACTCA
* *
13948682 ACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGC
1 ACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATG-
*
13948747 CCT-GTTACATCTCTCGAACTCT-GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGA
65 CCTAGTTACATCTCTCGAACT-TGGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGA
13948810 ACTCAGACTCA
129 ACTCAGACTCA
*
13948821 ACTCAACGAGTTCGG
1 ACTCAACGAGCTCGG
13948836 ATGCCAAAAT
Statistics
Matches: 146, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
139 142 0.97
140 4 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (139 bp):
ACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGC
CTAGTTACATCTCTCGAACTTGGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGAAC
TCAGACTCA
Found at i:13955761 original size:31 final size:31
Alignment explanation
Indices: 13955718--13955803 Score: 156
Period size: 31 Copynumber: 2.8 Consensus size: 31
13955708 TCAATCTCAG
13955718 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
13955748 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
13955779 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
13955804 TGTAACAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
30 5 0.09
31 48 0.91
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:13956036 original size:25 final size:25
Alignment explanation
Indices: 13956008--13956092 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
13955998 CTGGAGGCCT
13956008 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
13956033 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
** *
13956059 AGCCCTTTTCGGTAAACTAGGGC-AA
1 AGCCCTTTT-AATAAACTGGGGCAAA
13956084 AGCCCTTTT
1 AGCCCTTTT
13956093 CGGTAATTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.46
26 28 0.52
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:13956093 original size:25 final size:26
Alignment explanation
Indices: 13956021--13956116 Score: 126
Period size: 26 Copynumber: 3.8 Consensus size: 26
13956011 CTCTTTTAAT
* *
13956021 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
13956047 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
13956073 AACTAGGGC-AAAGCCCTTTTCGGT-
1 AACTGGGGCAAAAGCCCTTTTCGGTA
* *
13956097 AATTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
13956117 ACACTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 17 0.27
25 15 0.23
26 32 0.50
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:13957969 original size:50 final size:48
Alignment explanation
Indices: 13957810--13958037 Score: 183
Period size: 47 Copynumber: 4.8 Consensus size: 48
13957800 CAGGCCACAT
* *
13957810 TGTGAGAGCTAGCGTAAGACCATGTCTGGGACATGGCATCT-GCATTGAA
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-TGGCA-CGAA
** *
13957859 -ACGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGA
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGC-ACGA-A
* * *
13957906 TGT--G-TC-AGTGTAAGACCATGTCTGAGATATGGCATTGGCACAGATA
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC-GA-A
* *
13957952 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC-GT-CCACTTGAGA
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC--GA-A
* *
13958001 TATGAG-TCTA-TGTAAGACCATGTCTGGGACATGGCAT
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
13958038 CGGTACCTTA
Statistics
Matches: 144, Mismatches: 22, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
44 9 0.06
45 15 0.10
46 22 0.15
47 41 0.28
48 22 0.15
49 10 0.07
50 25 0.17
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGAA
Found at i:13958857 original size:13 final size:13
Alignment explanation
Indices: 13958839--13958870 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
13958829 AGTACACGGG
13958839 CGTGTGCCATAGC
1 CGTGTGCCATAGC
13958852 CGTGTGCCATAGC
1 CGTGTGCCATAGC
13958865 CGTGTG
1 CGTGTG
13958871 ACATTTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.28, G:0.34, T:0.25
Consensus pattern (13 bp):
CGTGTGCCATAGC
Found at i:13959096 original size:21 final size:21
Alignment explanation
Indices: 13959044--13959101 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
13959034 CGGGTGTGCG
*
13959044 ACACGGGTGTGTT-CTCTTCC
1 ACACGGGTGTGTTACCCTTCC
* *
13959064 ACAGGGGCGTGTTACCCTTCC
1 ACACGGGTGTGTTACCCTTCC
*
13959085 ACACTGGTGTG-TACCCT
1 ACACGGGTGTGTTACCCT
13959102 ATTTTAAAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.14, C:0.31, G:0.26, T:0.29
Consensus pattern (21 bp):
ACACGGGTGTGTTACCCTTCC
Found at i:13960501 original size:17 final size:17
Alignment explanation
Indices: 13960479--13960513 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
13960469 ACGAGTCACG
13960479 CATACATAGTTCGTCAT
1 CATACATAGTTCGTCAT
13960496 CATACATAGTTCGTCAT
1 CATACATAGTTCGTCAT
13960513 C
1 C
13960514 CACTTAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (17 bp):
CATACATAGTTCGTCAT
Found at i:13962144 original size:5 final size:5
Alignment explanation
Indices: 13962134--13962200 Score: 104
Period size: 5 Copynumber: 14.0 Consensus size: 5
13962124 TAAGTAAATG
*
13962134 TTATA TTATA -T-TA TTGTA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
13962182 TTATA -TATA TTATA TTATA
1 TTATA TTATA TTATA TTATA
13962201 ATAAAAGAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
3 2 0.03
4 6 0.10
5 50 0.86
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:13962153 original size:8 final size:8
Alignment explanation
Indices: 13962137--13962199 Score: 57
Period size: 8 Copynumber: 8.4 Consensus size: 8
13962127 GTAAATGTTA
13962137 TATTATAT
1 TATTATAT
*
13962145 TATTGTAT
1 TATTATAT
13962153 TA-TAT-T
1 TATTATAT
13962159 ATATTATAT
1 -TATTATAT
13962168 TA-TAT-T
1 TATTATAT
13962174 ATATTATAT
1 -TATTATAT
13962183 TA-TATA-
1 TATTATAT
13962189 TATTATAT
1 TATTATAT
13962197 TAT
1 TAT
13962200 AATAAAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
6 4 0.09
7 17 0.38
8 22 0.49
9 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:13963628 original size:16 final size:16
Alignment explanation
Indices: 13963577--13963629 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
13963567 GTTATATACT
*
13963577 CATGAATTGAGTATGG
1 CATGAATTGAGTATTG
* * *
13963593 TATGAAATGA-TATATT
1 CATGAATTGAGTAT-TG
13963609 CATGAATTGAGTATTG
1 CATGAATTGAGTATTG
13963625 CATGA
1 CATGA
13963630 CTGATGCTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 3 0.11
16 22 0.79
17 3 0.11
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (16 bp):
CATGAATTGAGTATTG
Found at i:13965153 original size:19 final size:20
Alignment explanation
Indices: 13965131--13965173 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
13965121 TTGTAATATA
*
13965131 TTTTATAAATTTT-ATGATT
1 TTTTATAAATTTTAATAATT
*
13965150 TTTTATGAATTTTAATAATT
1 TTTTATAAATTTTAATAATT
13965170 TTTT
1 TTTT
13965174 TATCATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTATAAATTTTAATAATT
Found at i:13975982 original size:21 final size:21
Alignment explanation
Indices: 13975956--13975998 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
13975946 CCTTGGTGAT
13975956 TGTTTC-GAGCCATAAAGGGAC
1 TGTTTCAG-GCCATAAAGGGAC
*
13975977 TGTTTCAGGCCATAAATGGAC
1 TGTTTCAGGCCATAAAGGGAC
13975998 T
1 T
13975999 TTTTTAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (21 bp):
TGTTTCAGGCCATAAAGGGAC
Found at i:13976925 original size:343 final size:343
Alignment explanation
Indices: 13976293--13976981 Score: 1306
Period size: 343 Copynumber: 2.0 Consensus size: 343
13976283 TTCTTCTTGA
* *
13976293 ACACTTATTTACAATGAACAACCTTTTTACCCTTAGGAAGCTTTACTAGGTTCCATTTTCTATTC
1 ACACTTATTTACAATGAACAACCTTTTTACCCTTAGGAAGCTTCACTAGATTCCATTTTCTATTC
*
13976358 TTATGGAGCGATTTCATCTCTTATTGCATGACAAACAACCACTTTCCTGAATGTTCACAACTAAC
66 TTATGGAGCGATTTCATCTCTTATTGCATGACAAACAACCACTTTCCTGAATGTTCACAACTAAA
*
13976423 TGGCTCAGAATAAGTAGATGGCTTTTGATTTGTATCTATATCTTTAGCTACATTTATAGTATAAG
131 TGGCTCAGAATAAGTAGATGGCTTTTGATTTGTATCTATATCTTTAGCTACATTTATAGCATAAG
*
13976488 CAACTAGATCAGCCTTGACATACCTTTTTGGAGGTTTAATTTCTCTTCTAGGTTTGTTCTTGGCA
196 CAACTAGATCAGCCTTAACATACCTTTTTGGAGGTTTAATTTCTCTTCTAGGTTTGTTCTTGGCA
13976553 ATAGAATATTGTGGTGCTGACTATGGTAAAAAAGCAACTCTACTCTAAGTTTTTGTTTTAACTTG
261 ATAGAATATTGTGGTGCTGACTATGGTAAAAAAGCAACTCTACTCTAAGTTTTTGTTTTAACTTG
13976618 AGAACTAGACTCTGTTGT
326 AGAACTAGACTCTGTTGT
13976636 ACACTTATTTACAATGAACAACCTTTTTACCCTTAGGAAGCTTCACTAGATTCCATTTTCTATTC
1 ACACTTATTTACAATGAACAACCTTTTTACCCTTAGGAAGCTTCACTAGATTCCATTTTCTATTC
13976701 TTATGGAGCGATTTCATCTCTTATTGCATGACAAACAACCACTTTCCTGAATGTTCACAACTAAA
66 TTATGGAGCGATTTCATCTCTTATTGCATGACAAACAACCACTTTCCTGAATGTTCACAACTAAA
13976766 TGGCTCAGAATAAGTAGATGGCTTTTGATTTGTATCTATATCTTTAGCTACATTTATAGCATAAG
131 TGGCTCAGAATAAGTAGATGGCTTTTGATTTGTATCTATATCTTTAGCTACATTTATAGCATAAG
13976831 CAACTAGATCAGCCTTAACATACCTTTTTGGAGGTTTAATTTCTCTTCTAGGTTTGTTCTTGGCA
196 CAACTAGATCAGCCTTAACATACCTTTTTGGAGGTTTAATTTCTCTTCTAGGTTTGTTCTTGGCA
* *
13976896 ATAGAATATTGTGGTGCTGACTGTGGTAAAGAAGCAACTCTACTCTAAGTTTTTGTTTTAACTTG
261 ATAGAATATTGTGGTGCTGACTATGGTAAAAAAGCAACTCTACTCTAAGTTTTTGTTTTAACTTG
*
13976961 AGAAGTAGACTCTGTTGT
326 AGAACTAGACTCTGTTGT
13976979 ACA
1 ACA
13976982 TTCTGGATCA
Statistics
Matches: 338, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
343 338 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (343 bp):
ACACTTATTTACAATGAACAACCTTTTTACCCTTAGGAAGCTTCACTAGATTCCATTTTCTATTC
TTATGGAGCGATTTCATCTCTTATTGCATGACAAACAACCACTTTCCTGAATGTTCACAACTAAA
TGGCTCAGAATAAGTAGATGGCTTTTGATTTGTATCTATATCTTTAGCTACATTTATAGCATAAG
CAACTAGATCAGCCTTAACATACCTTTTTGGAGGTTTAATTTCTCTTCTAGGTTTGTTCTTGGCA
ATAGAATATTGTGGTGCTGACTATGGTAAAAAAGCAACTCTACTCTAAGTTTTTGTTTTAACTTG
AGAACTAGACTCTGTTGT
Found at i:13987979 original size:20 final size:20
Alignment explanation
Indices: 13987951--13987988 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13987941 TTAATTTTCA
*
13987951 GCCATGTCTCGAAACATATT
1 GCCAAGTCTCGAAACATATT
*
13987971 GCCAAGTCTCGAGACATA
1 GCCAAGTCTCGAAACATA
13987989 CATTGCATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
GCCAAGTCTCGAAACATATT
Found at i:14006118 original size:35 final size:35
Alignment explanation
Indices: 14006079--14006275 Score: 279
Period size: 35 Copynumber: 5.6 Consensus size: 35
14006069 TATGGCAAAG
*
14006079 TGTGAAACGTAGGTATGGTATTAACCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* *
14006114 TGTGAAACGTAGGTATGGTATCATCTATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* **
14006149 TGTGAAACGTAGGTATGGTATCATCCATACTAAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* *
14006184 TGTGAAACGTAGGTATGGTATTATCCATGCTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
**
14006219 TAAGAAACGTAGGTATGGTATT-TCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAT-CCATACCGAGT
*
14006254 TGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
14006276 TCAATGAGGA
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
34 1 0.01
35 144 0.99
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
Found at i:14006409 original size:31 final size:31
Alignment explanation
Indices: 14006371--14006431 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
14006361 ATAAGTAATT
14006371 TGATCAGTGAGA-AGTGGTAGCTCCGGCTACC
1 TGATCAGTGA-ATAGTGGTAGCTCCGGCTACC
*
14006402 TGATCAGTGAATAGTGGTAGCTTCGGCTAC
1 TGATCAGTGAATAGTGGTAGCTCCGGCTAC
14006432 AAGTGACAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (31 bp):
TGATCAGTGAATAGTGGTAGCTCCGGCTACC
Found at i:14010023 original size:33 final size:33
Alignment explanation
Indices: 14009980--14010047 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
14009970 TCATGAAACA
* *
14009980 CATCCGGATACTCGCACACAACAGGTACTGATT
1 CATCCAGATACTCGCACACAACAAGTACTGATT
14010013 CATCCAGATACTCGCACACAACAAGTACTGATT
1 CATCCAGATACTCGCACACAACAAGTACTGATT
14010046 CA
1 CA
14010048 ATGTTTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.21
Consensus pattern (33 bp):
CATCCAGATACTCGCACACAACAAGTACTGATT
Found at i:14015030 original size:14 final size:15
Alignment explanation
Indices: 14015013--14015041 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14015003 TCACCAAAAT
14015013 TTCACACAT-ATAAA
1 TTCACACATAATAAA
14015027 TTCACACATAATAAA
1 TTCACACATAATAAA
14015042 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:14015861 original size:268 final size:268
Alignment explanation
Indices: 14015369--14015901 Score: 913
Period size: 268 Copynumber: 2.0 Consensus size: 268
14015359 GGCAATTTCA
* * * *
14015369 TACAATCTCTGTTTTGCGATTTTAGTTGAGTTTCTAAGGGATTTTTGGGTTATTTTTACCCACCT
1 TACAACCTCTGTTTTGCGATTTTAGTCGAGTTTCTAAGGAATTTTTGGGTTATTTTCACCCACCT
* * * *
14015434 GATTACGTATTTGACCCACTCCAGTATTGAGAACCTATGAACCTACAATTTCAAACAAAACACAC
66 AATTACGTATTTGACCCACTCCACTATCGAGAACCTACGAACCTACAATTTCAAACAAAACACAC
* *
14015499 AAATCAATTCATCAAAACCTAACCAATTAACAATCCTAACATCTTAAAATCTCAGCCTTTAAAAT
131 AAATCAATCCATCAAAACCTAACCAATTAACAATCCTAACATCTTAAAATCTCAGCCTTCAAAAT
*
14015564 GATTTTGGCACACTTACCACTCAGAAAATAGCGACCAACTAGAAGCCTACTATGATGGAGGAGTT
196 GATTTTGGCACACTTACCACTCAGAAAATAGCGACCAACTAGAAGCCTACTATGATCGAGGAGTT
14015629 GGATTTTG
261 GGATTTTG
*
14015637 TACAACCTTTGTTTTGCGATTTTAGTCGAGTTTCTAAGGAATTTTTGGGTTATTTTCACCCACCT
1 TACAACCTCTGTTTTGCGATTTTAGTCGAGTTTCTAAGGAATTTTTGGGTTATTTTCACCCACCT
*
14015702 AATTACGTATTTGACCCACTCCACTATCGAGAACCTACGAACCTACAATTTCAGACAAAACACAC
66 AATTACGTATTTGACCCACTCCACTATCGAGAACCTACGAACCTACAATTTCAAACAAAACACAC
*
14015767 CAATCAATCCATCAAAACCTAACCAATTAACAATCCTAACATCTTAAAATCTCAGCCTTCAAAAT
131 AAATCAATCCATCAAAACCTAACCAATTAACAATCCTAACATCTTAAAATCTCAGCCTTCAAAAT
* * *
14015832 GATTTTGGCACACTTACCACTCGGAAAATAGTGACCAACTAGAAGCCTACTCTGATCGAGGAGTT
196 GATTTTGGCACACTTACCACTCAGAAAATAGCGACCAACTAGAAGCCTACTATGATCGAGGAGTT
14015897 GGATT
261 GGATT
14015902 CTCACCCCTT
Statistics
Matches: 248, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
268 248 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (268 bp):
TACAACCTCTGTTTTGCGATTTTAGTCGAGTTTCTAAGGAATTTTTGGGTTATTTTCACCCACCT
AATTACGTATTTGACCCACTCCACTATCGAGAACCTACGAACCTACAATTTCAAACAAAACACAC
AAATCAATCCATCAAAACCTAACCAATTAACAATCCTAACATCTTAAAATCTCAGCCTTCAAAAT
GATTTTGGCACACTTACCACTCAGAAAATAGCGACCAACTAGAAGCCTACTATGATCGAGGAGTT
GGATTTTG
Found at i:14016943 original size:10 final size:9
Alignment explanation
Indices: 14016928--14017067 Score: 84
Period size: 10 Copynumber: 14.7 Consensus size: 9
14016918 AAAAAACCAA
*
14016928 ATAAAAGTT
1 ATAAAAATT
14016937 ATAAAAATT
1 ATAAAAATT
**
14016946 ATTAAATTTT
1 A-TAAAAATT
14016956 AATAAAAA-T
1 -ATAAAAATT
14016965 ATAAAAATAT
1 ATAAAAAT-T
* **
14016975 TTAAATTTT
1 ATAAAAATT
*
14016984 ATTAAAATT
1 ATAAAAATT
*
14016993 AGAAAAAAATT
1 --ATAAAAATT
*
14017004 ATAAAAATC
1 ATAAAAATT
*
14017013 ATAATAAAAT
1 ATAA-AAATT
14017023 ATAAAAAATT
1 AT-AAAAATT
*
14017033 ATAAAATTTT
1 ATAAAA-ATT
*
14017043 ATAAAAATC
1 ATAAAAATT
14017052 ATAAAAAATT
1 AT-AAAAATT
14017062 ATAAAA
1 ATAAAA
14017068 TGCATAAAAA
Statistics
Matches: 98, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
8 7 0.07
9 38 0.39
10 43 0.44
11 10 0.10
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:14017025 original size:19 final size:18
Alignment explanation
Indices: 14016996--14017079 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 18
14016986 TAAAATTAGA
14016996 AAAAAATTATAAAAATCAT
1 AAAAAA-TATAAAAATCAT
*
14017015 AATAAAATATAAAAAATTAT
1 AA-AAAATAT-AAAAATCAT
**
14017035 AAAATTTTATAAAAATCAT
1 AAAA-AATATAAAAATCAT
14017054 AAAAAAT-TATAAAATGCAT
1 AAAAAATATA-AAAAT-CAT
14017073 AAAAAAT
1 AAAAAAT
14017080 GCCCTTTAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.04
18 6 0.11
19 29 0.54
20 17 0.31
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.29
Consensus pattern (18 bp):
AAAAAATATAAAAATCAT
Found at i:14017077 original size:29 final size:27
Alignment explanation
Indices: 14016996--14017079 Score: 105
Period size: 29 Copynumber: 2.9 Consensus size: 27
14016986 TAAAATTAGA
14016996 AAAAAATTATAAAAATCATAATAAAATAT
1 AAAAAATTAT-AAAATCATAA-AAAATAT
**
14017025 AAAAAATTATAAAATTTTATAAAAATCAT
1 AAAAAATTATAAAATCATA-AAAAAT-AT
14017054 AAAAAATTATAAAATGCATAAAAAAT
1 AAAAAATTATAAAAT-CATAAAAAAT
14017080 GCCCTTTAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 12 0.25
29 34 0.71
30 2 0.04
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.29
Consensus pattern (27 bp):
AAAAAATTATAAAATCATAAAAAATAT
Found at i:14017081 original size:11 final size:10
Alignment explanation
Indices: 14016996--14017079 Score: 61
Period size: 10 Copynumber: 8.7 Consensus size: 10
14016986 TAAAATTAGA
*
14016996 AAAAAATTAT
1 AAAAAATCAT
14017006 -AAAAATCAT
1 AAAAAATCAT
14017015 AATAAAAT-AT
1 AA-AAAATCAT
*
14017025 AAAAAATTAT
1 AAAAAATCAT
** *
14017035 AAAATTTTAT
1 AAAAAATCAT
14017045 -AAAAATCAT
1 AAAAAATCAT
14017054 AAAAAAT--T
1 AAAAAATCAT
*
14017062 ATAAAATGCAT
1 AAAAAAT-CAT
14017073 AAAAAAT
1 AAAAAAT
14017080 GCCCTTTAAC
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
8 7 0.12
9 19 0.32
10 21 0.36
11 12 0.20
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.29
Consensus pattern (10 bp):
AAAAAATCAT
Found at i:14017332 original size:39 final size:39
Alignment explanation
Indices: 14017252--14017334 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
14017242 GGTATGATAA
* ** * *
14017252 TTTTTATAATTTTTTTACAAATTTTTTATTTCTTTACAT
1 TTTTTATAATTTTCTTACAAATTTTAAATTTCTATAAAT
*
14017291 TTTTTATAATTTTCTTACAACTTTATAAATTT-TATAAAT
1 TTTTTATAATTTTCTTACAAATTT-TAAATTTCTATAAAT
14017330 TTTTT
1 TTTTT
14017335 CTATATTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 32 0.86
40 5 0.14
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (39 bp):
TTTTTATAATTTTCTTACAAATTTTAAATTTCTATAAAT
Found at i:14017411 original size:19 final size:19
Alignment explanation
Indices: 14017387--14017470 Score: 73
Period size: 20 Copynumber: 4.3 Consensus size: 19
14017377 AAGTTTACAC
*
14017387 TTTTATATTTTTTTATGAT
1 TTTTATATTTTTTTATAAT
*
14017406 TTTTATATTTTTTTTCTAAT
1 TTTTATA-TTTTTTTATAAT
*
14017426 TTTTA-ATATTTTTTATTAAA
1 TTTTATAT-TTTTTTA-TAAT
* *
14017446 ATTTA-ATATTTTTTATAAC
1 TTTTATAT-TTTTTTATAAT
14017465 TTTTAT
1 TTTTAT
14017471 TGATTTTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
18 1 0.02
19 21 0.39
20 32 0.59
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.69
Consensus pattern (19 bp):
TTTTATATTTTTTTATAAT
Found at i:14017419 original size:20 final size:20
Alignment explanation
Indices: 14017387--14017459 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
14017377 AAGTTTACAC
*
14017387 TTTTATA-TTTTTTTATGAT
1 TTTTATATTTTTTTTATAAT
*
14017406 TTTTATATTTTTTTTCTAAT
1 TTTTATATTTTTTTTATAAT
*
14017426 TTTTAATATTTTTTATTA-AAA
1 TTTT-ATATTTTTT-TTATAAT
*
14017447 TTTAATATTTTTT
1 TTTTATATTTTTT
14017460 ATAACTTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 7 0.15
20 23 0.50
21 14 0.30
22 2 0.04
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (20 bp):
TTTTATATTTTTTTTATAAT
Found at i:14017777 original size:90 final size:90
Alignment explanation
Indices: 14017681--14017856 Score: 239
Period size: 90 Copynumber: 2.0 Consensus size: 90
14017671 CTTAATTACA
* * * *
14017681 TTTTG-AAAAAGTTTAAGGG-TCTTTTTGATATATTTTGATAGTTCAAGTACCAAATTGAGTGCA
1 TTTTGAAAAAAGTTTAAGGGCT-TTTTTGATACATTTTGA-AATTCAAATACCAAATTGAATGCA
* *
14017744 AAAAAAAAGTAGGGGCTTAATTGCCTT
64 AAAAAAAAATAGAGGCTTAATTGCCTT
* * *
14017771 TTTTGAAAAAAGTTTGAGGGCTTTTTTGATACATTTTGAAATTTAAATACCTAATTGAATGCAAA
1 TTTTGAAAAAAGTTTAAGGGCTTTTTTGATACATTTTGAAATTCAAATACCAAATTGAATGCAAA
14017836 AAAAAAATAGAGGCTTAATTG
66 AAAAAAATAGAGGCTTAATTG
14017857 TTTTTCTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 45 0.60
91 29 0.39
92 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (90 bp):
TTTTGAAAAAAGTTTAAGGGCTTTTTTGATACATTTTGAAATTCAAATACCAAATTGAATGCAAA
AAAAAAATAGAGGCTTAATTGCCTT
Found at i:14020291 original size:123 final size:123
Alignment explanation
Indices: 14020072--14020315 Score: 443
Period size: 123 Copynumber: 2.0 Consensus size: 123
14020062 TTGATCTACT
* *
14020072 TTAACATCCCTTATTATAGAGTAAAGTAAACTATTTACTTGATGGGGTTTAAATTTTTTTGAAAT
1 TTAACATCCCTTATTATAGAGTAAAGTAAACTATCTACTTGATGGGGTTTAAATTTTTTTGAAAG
*
14020137 AATTCCATATATTGTCAAGGGAGGGGTGTGAATGCAATGTGGGATGAAAGTATCACTC
66 AATTCCATATATTGTCAAGGGAAGGGTGTGAATGCAATGTGGGATGAAAGTATCACTC
14020195 TTAACATCCCTTATTATAGAGTAAAGTAAACTATCTACTTGATGGGGTTTAAATTTTTTTGAAAG
1 TTAACATCCCTTATTATAGAGTAAAGTAAACTATCTACTTGATGGGGTTTAAATTTTTTTGAAAG
* *
14020260 AATTCTATATATTGTCAAGGGAAGGGTGTGAATGTAATGTGGGATGAAAGTATCAC
66 AATTCCATATATTGTCAAGGGAAGGGTGTGAATGCAATGTGGGATGAAAGTATCAC
14020316 CCTTTCCCCA
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 116 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (123 bp):
TTAACATCCCTTATTATAGAGTAAAGTAAACTATCTACTTGATGGGGTTTAAATTTTTTTGAAAG
AATTCCATATATTGTCAAGGGAAGGGTGTGAATGCAATGTGGGATGAAAGTATCACTC
Found at i:14020391 original size:29 final size:29
Alignment explanation
Indices: 14020354--14020413 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
14020344 GTCTAGCATT
14020354 TTGGTGTGTATGAAAAGTTTAATAATTTC
1 TTGGTGTGTATGAAAAGTTTAATAATTTC
14020383 TTGGTGTGTATGAAAAGTTTAATAATTTC
1 TTGGTGTGTATGAAAAGTTTAATAATTTC
14020412 TT
1 TT
14020414 CTTCTTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (29 bp):
TTGGTGTGTATGAAAAGTTTAATAATTTC
Found at i:14022242 original size:82 final size:82
Alignment explanation
Indices: 14022104--14022267 Score: 265
Period size: 82 Copynumber: 2.0 Consensus size: 82
14022094 GATATCTCGA
* * *
14022104 GTAAACTACAATAAACAAATAAGAATGATATATTATATCAACTTATTCGAGCATTGCCATTTATT
1 GTAAACTACAATAAACAAATAAGAATAATATATCATATCAACTTATTCGAGCATTGCCATGTATT
14022169 TCTAGTCTTACTTAATC
66 TCTAGTCTTACTTAATC
* * *
14022186 GTAAACTACAATAAACAAATAAGTATAATATCTCATATCAACTTATTCGAGTATTGCCATGTATT
1 GTAAACTACAATAAACAAATAAGAATAATATATCATATCAACTTATTCGAGCATTGCCATGTATT
*
14022251 TTTAGTCTTACTTAATC
66 TCTAGTCTTACTTAATC
14022268 AAGTGGCCTA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (82 bp):
GTAAACTACAATAAACAAATAAGAATAATATATCATATCAACTTATTCGAGCATTGCCATGTATT
TCTAGTCTTACTTAATC
Found at i:14023388 original size:59 final size:61
Alignment explanation
Indices: 14023324--14023440 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
14023314 ATCATTTTAA
* * * *
14023324 TATTAAATTAATATAATACTTA-T-CAAGATAAATAGTAGATTGAATTTAATGTTAAATTT
1 TATTAAATTAATAGAATACTTACTACAAGATAAACAGTAAATTAAATTTAATGTTAAATTT
* *
14023383 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATGTTAA
1 TATTAAATTAATAGAATACTTA-CTACAAGATAAACAGTAAATTAAATTTAATGTTAA
14023441 GAGAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
61 1 0.02
62 28 0.57
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (61 bp):
TATTAAATTAATAGAATACTTACTACAAGATAAACAGTAAATTAAATTTAATGTTAAATTT
Found at i:14023888 original size:9 final size:9
Alignment explanation
Indices: 14023853--14023894 Score: 57
Period size: 9 Copynumber: 4.4 Consensus size: 9
14023843 CAGACTTGAA
14023853 AATTAATTT
1 AATTAATTT
14023862 ATATTAATTTT
1 A-ATTAA-TTT
14023873 AATTAATTT
1 AATTAATTT
*
14023882 GATTAATTT
1 AATTAATTT
14023891 AATT
1 AATT
14023895 TTACTTGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 15 0.52
10 10 0.34
11 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (9 bp):
AATTAATTT
Found at i:14025392 original size:14 final size:16
Alignment explanation
Indices: 14025360--14025400 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
14025350 ATAAAACAAT
*
14025360 TATATACATATATTTA
1 TATATACATATATTCA
14025376 TATATACA-A-ATTCA
1 TATATACATATATTCA
*
14025390 TATATATATAT
1 TATATACATAT
14025401 TGCAGATCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 11 0.52
15 2 0.10
16 8 0.38
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (16 bp):
TATATACATATATTCA
Found at i:14026324 original size:153 final size:153
Alignment explanation
Indices: 14026046--14026363 Score: 539
Period size: 153 Copynumber: 2.1 Consensus size: 153
14026036 GCTCGTGTCC
14026046 CATGCCCGTGTGAACCCTGCACTAACATGGCCACACACGTCTTGGACACATGCTCATGTGCCTTG
1 CATGCCCGTGTGAACCCTGCACTAACATGGCCACACACGTCTTGGACACATGCTCATGTGCCTTG
*
14026111 CCCGTGTGGCTCCAAATAAATGAACTATGAATTACACGGCCACCCACACGGCCTTACGCACGACC
66 CCCGTGTGGCTCCAAATAAATGAACTATGAATTACACGACCACCCACACGGCCTTACGCACGACC
* *
14026176 ATGTGGGTCACACGGCCTGGATA
131 ATGTGGGTCACACAGCCTGGACA
*
14026199 CATGCCCGTGTGAACCTTGCACTAACATGGCCACACACAG-CTTGGACACATGCTCATGTGCCTT
1 CATGCCCGTGTGAACCCTGCACTAACATGGCCACACAC-GTCTTGGACACATGCTCATGTGCCTT
** * *
14026263 GCCCGTGTGGCTCCAAATTGATGAACTATGAGTTACACGACCACCTACACGGCCTTACGCACGAC
65 GCCCGTGTGGCTCCAAATAAATGAACTATGAATTACACGACCACCCACACGGCCTTACGCACGAC
14026328 CATGTGGGTCACACAGCCTGGACA
130 CATGTGGGTCACACAGCCTGGACA
*
14026352 CATGCCGGTGTG
1 CATGCCCGTGTG
14026364 CTTGGCCGTG
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
153 154 0.99
154 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (153 bp):
CATGCCCGTGTGAACCCTGCACTAACATGGCCACACACGTCTTGGACACATGCTCATGTGCCTTG
CCCGTGTGGCTCCAAATAAATGAACTATGAATTACACGACCACCCACACGGCCTTACGCACGACC
ATGTGGGTCACACAGCCTGGACA
Found at i:14028336 original size:54 final size:54
Alignment explanation
Indices: 14028268--14028377 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
14028258 TGCAGTCAGC
* * *
14028268 TAAGTGCCTAGCTTCGCATCAGTCACTATAGAACATTCCTGTACCTAATTGATG
1 TAAGCGCCTAGCTTCGCATCAGTCACTACAAAACATTCCTGTACCTAATTGATG
14028322 TAAGCGCCTAGCTTCGCATCAGTCACTACAAAACATTCCTGTACCTAATTGATG
1 TAAGCGCCTAGCTTCGCATCAGTCACTACAAAACATTCCTGTACCTAATTGATG
14028376 TA
1 TA
14028378 TGAAGCTTGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (54 bp):
TAAGCGCCTAGCTTCGCATCAGTCACTACAAAACATTCCTGTACCTAATTGATG
Found at i:14036647 original size:62 final size:59
Alignment explanation
Indices: 14036543--14036661 Score: 175
Period size: 62 Copynumber: 2.0 Consensus size: 59
14036533 ATCACTTTAA
* * *
14036543 TATTAAATTAATATAATACTTATCAAGATAAATATCAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATAATTATCAAGATAAATATCAAATTAAATTTAATATTAAATCT
*
14036602 TATTAAATTAATAGAATAATTATCGACAAGATAAATATTAAATTAAATTTAATATTAAAT
1 TATTAAATTAATAGAATAATTAT---CAAGATAAATATCAAATTAAATTTAATATTAAAT
14036662 TAATAAAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 21 0.40
62 32 0.60
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (59 bp):
TATTAAATTAATAGAATAATTATCAAGATAAATATCAAATTAAATTTAATATTAAATCT
Found at i:14036689 original size:48 final size:49
Alignment explanation
Indices: 14036629--14036726 Score: 153
Period size: 48 Copynumber: 2.0 Consensus size: 49
14036619 AATTATCGAC
* *
14036629 AAGATAAATATTAAATTAAATTTAATATTAAAT-TAATAAAATACTATT
1 AAGATAAATATTAAATTAAATATAATATTAAATCTAATAAAATAATATT
* *
14036677 AAGATAAATATTAAATTTAATATAATATTAAATCTAGTAAAATAATATT
1 AAGATAAATATTAAATTAAATATAATATTAAATCTAATAAAATAATATT
14036726 A
1 A
14036727 TTTTTGAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 31 0.69
49 14 0.31
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (49 bp):
AAGATAAATATTAAATTAAATATAATATTAAATCTAATAAAATAATATT
Found at i:14036705 original size:17 final size:17
Alignment explanation
Indices: 14036635--14036709 Score: 68
Period size: 17 Copynumber: 4.6 Consensus size: 17
14036625 CGACAAGATA
* *
14036635 AATATTAAATTAAATTT
1 AATATTAAATTTAATAT
*
14036652 AATATTAAA-TTAATAA
1 AATATTAAATTTAATAT
* *
14036668 AATACT--A-TTAAGAT
1 AATATTAAATTTAATAT
14036682 AAATATTAAATTTAATAT
1 -AATATTAAATTTAATAT
14036700 AATATTAAAT
1 AATATTAAAT
14036710 CTAGTAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
14 6 0.13
15 5 0.11
16 9 0.20
17 20 0.43
18 6 0.13
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (17 bp):
AATATTAAATTTAATAT
Found at i:14036720 original size:17 final size:17
Alignment explanation
Indices: 14036634--14036720 Score: 58
Period size: 17 Copynumber: 5.3 Consensus size: 17
14036624 TCGACAAGAT
*
14036634 AAATATTAAAT-TAAATT
1 AAATATTAAATCT-AATA
*
14036651 TAATATTAAAT-TAATA
1 AAATATTAAATCTAATA
* *
14036667 AAATACT--AT-TAAGA
1 AAATATTAAATCTAATA
*
14036681 TAAATATTAAATTTAATA
1 -AAATATTAAATCTAATA
* *
14036699 TAATATTAAATCTAGTA
1 AAATATTAAATCTAATA
14036716 AAATA
1 AAATA
14036721 ATATTATTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 6 0.11
15 6 0.11
16 8 0.15
17 31 0.56
18 4 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATATTAAATCTAATA
Found at i:14057100 original size:629 final size:629
Alignment explanation
Indices: 14055903--14057161 Score: 2518
Period size: 629 Copynumber: 2.0 Consensus size: 629
14055893 GTTAATATCT
14055903 TCTGATGTGGTTATATGATTATGCTTGTTCTCTATGTATGAGAAGTATATGGCACATGTACATGA
1 TCTGATGTGGTTATATGATTATGCTTGTTCTCTATGTATGAGAAGTATATGGCACATGTACATGA
14055968 TAAATGCCCCAGGACCATTCGAGATGGTCGTGGCCATGGAGTGAATGTATGGCATGGTAGTAAGA
66 TAAATGCCCCAGGACCATTCGAGATGGTCGTGGCCATGGAGTGAATGTATGGCATGGTAGTAAGA
14056033 TGATAATGATTGAACATGGACAATTGTTGAATGTGTAGAGATTAAATGTTGGGTAATAAACACAT
131 TGATAATGATTGAACATGGACAATTGTTGAATGTGTAGAGATTAAATGTTGGGTAATAAACACAT
14056098 GTATGACAACATGCAAATTATTTAATTGAATTTCACCAAAGGTTGATTAAACATTAAATTGGTGT
196 GTATGACAACATGCAAATTATTTAATTGAATTTCACCAAAGGTTGATTAAACATTAAATTGGTGT
14056163 TATAATTTGTGCCTATGATGTGTAAAAGTATGGGGGAAAAATAAGGTCAACATAAGGCTTGGAAA
261 TATAATTTGTGCCTATGATGTGTAAAAGTATGGGGGAAAAATAAGGTCAACATAAGGCTTGGAAA
14056228 ATAGCTTAAGTGTTAGCTACACGGGCAGAGACACGGCCATGTGTCTCAAACGTGTGGAGGACATG
326 ATAGCTTAAGTGTTAGCTACACGGGCAGAGACACGGCCATGTGTCTCAAACGTGTGGAGGACATG
14056293 GCCTAGTACACGGGCGTGTAGCCTGGCCATGTGGTATAAATTATTTTGCTGACGTCATAAACAGA
391 GCCTAGTACACGGGCGTGTAGCCTGGCCATGTGGTATAAATTATTTTGCTGACGTCATAAACAGA
14056358 GAGTTACACGGGCTGAGGACACGGGCGTGTCCCAAGCCATACGGACGCGTGACTCTCTAAAGCAA
456 GAGTTACACGGGCTGAGGACACGGGCGTGTCCCAAGCCATACGGACGCGTGACTCTCTAAAGCAA
14056423 GAAAATTTATTAAGTTGCCTAAAGTTTATCGAATGTTTTCGATTTTGTCCTGAATTGCCCCGATG
521 GAAAATTTATTAAGTTGCCTAAAGTTTATCGAATGTTTTCGATTTTGTCCTGAATTGCCCCGATG
14056488 TATGTTTTAGGCCTCGAAGGCCTGTATAAGGGATGATATGCATG
586 TATGTTTTAGGCCTCGAAGGCCTGTATAAGGGATGATATGCATG
14056532 TCTGATGTGGTTATATGATTATGCTTGTTCTCTATGTATGAGAAGTATATGGCACATGTACATGA
1 TCTGATGTGGTTATATGATTATGCTTGTTCTCTATGTATGAGAAGTATATGGCACATGTACATGA
14056597 TAAATGCCCCAGGACCATTCGAGATGGTCGTGGCCATGGAGTGAATGTATGGCATGGTAGTAAGA
66 TAAATGCCCCAGGACCATTCGAGATGGTCGTGGCCATGGAGTGAATGTATGGCATGGTAGTAAGA
14056662 TGATAATGATTGAACATGGACAATTGTTGAATGTGTAGAGATTAAATGTTGGGTAATAAACACAT
131 TGATAATGATTGAACATGGACAATTGTTGAATGTGTAGAGATTAAATGTTGGGTAATAAACACAT
14056727 GTATGACAACATGCAAATTATTTAATTGAATTTCACCAAAGGTTGATTAAACATTAAATTGGTGT
196 GTATGACAACATGCAAATTATTTAATTGAATTTCACCAAAGGTTGATTAAACATTAAATTGGTGT
14056792 TATAATTTGTGCCTATGATGTGTAAAAGTATGGGGGAAAAATAAGGTCAACATAAGGCTTGGAAA
261 TATAATTTGTGCCTATGATGTGTAAAAGTATGGGGGAAAAATAAGGTCAACATAAGGCTTGGAAA
14056857 ATAGCTTAAGTGTTAGCTACACGGGCAGAGACACGGCCATGTGTCTCAAACGTGTGGAGGACATG
326 ATAGCTTAAGTGTTAGCTACACGGGCAGAGACACGGCCATGTGTCTCAAACGTGTGGAGGACATG
14056922 GCCTAGTACACGGGCGTGTAGCCTGGCCATGTGGTATAAATTATTTTGCTGACGTCATAAACAGA
391 GCCTAGTACACGGGCGTGTAGCCTGGCCATGTGGTATAAATTATTTTGCTGACGTCATAAACAGA
14056987 GAGTTACACGGGCTGAGGACACGGGCGTGTCCCAAGCCATACGGACGCGTGACTCTCTAAAGCAA
456 GAGTTACACGGGCTGAGGACACGGGCGTGTCCCAAGCCATACGGACGCGTGACTCTCTAAAGCAA
14057052 GAAAATTTATTAAGTTGCCTAAAGTTTATCGAATGTTTTCGATTTTGTCCTGAATTGCCCCGATG
521 GAAAATTTATTAAGTTGCCTAAAGTTTATCGAATGTTTTCGATTTTGTCCTGAATTGCCCCGATG
14057117 TATGTTTTAGGCCTCGAAGGCCTGTATAAGGGATGATATGCATG
586 TATGTTTTAGGCCTCGAAGGCCTGTATAAGGGATGATATGCATG
14057161 T
1 T
14057162 GTTTGAAAAG
Statistics
Matches: 630, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
629 630 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (629 bp):
TCTGATGTGGTTATATGATTATGCTTGTTCTCTATGTATGAGAAGTATATGGCACATGTACATGA
TAAATGCCCCAGGACCATTCGAGATGGTCGTGGCCATGGAGTGAATGTATGGCATGGTAGTAAGA
TGATAATGATTGAACATGGACAATTGTTGAATGTGTAGAGATTAAATGTTGGGTAATAAACACAT
GTATGACAACATGCAAATTATTTAATTGAATTTCACCAAAGGTTGATTAAACATTAAATTGGTGT
TATAATTTGTGCCTATGATGTGTAAAAGTATGGGGGAAAAATAAGGTCAACATAAGGCTTGGAAA
ATAGCTTAAGTGTTAGCTACACGGGCAGAGACACGGCCATGTGTCTCAAACGTGTGGAGGACATG
GCCTAGTACACGGGCGTGTAGCCTGGCCATGTGGTATAAATTATTTTGCTGACGTCATAAACAGA
GAGTTACACGGGCTGAGGACACGGGCGTGTCCCAAGCCATACGGACGCGTGACTCTCTAAAGCAA
GAAAATTTATTAAGTTGCCTAAAGTTTATCGAATGTTTTCGATTTTGTCCTGAATTGCCCCGATG
TATGTTTTAGGCCTCGAAGGCCTGTATAAGGGATGATATGCATG
Found at i:14057705 original size:21 final size:21
Alignment explanation
Indices: 14057659--14057703 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
14057649 GTATTTTGAT
*
14057659 GTTTGATGATGGATTATAAAA
1 GTTTGATGATAGATTATAAAA
*
14057680 GTTTGATGATAG-TTATACAA
1 GTTTGATGATAGATTATAAAA
14057700 GTTT
1 GTTT
14057704 TGTTAAGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.42
Consensus pattern (21 bp):
GTTTGATGATAGATTATAAAA
Found at i:14063126 original size:28 final size:28
Alignment explanation
Indices: 14063081--14063140 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
14063071 AAAAAGCTTT
*
14063081 AACCTTAACCCTCACAAAATTAAAAAAA
1 AACCCTAACCCTCACAAAATTAAAAAAA
14063109 AACCCTAACCCT-ATCAAAATTAAAAAAA
1 AACCCTAACCCTCA-CAAAATTAAAAAAA
14063137 AACC
1 AACC
14063141 GAGGAGGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.17
Consensus pattern (28 bp):
AACCCTAACCCTCACAAAATTAAAAAAA
Found at i:14066415 original size:27 final size:27
Alignment explanation
Indices: 14066377--14066430 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
14066367 TGAAAACAGG
* *
14066377 GTTTTCTTGAAAAAAATTTCTGAGTCT
1 GTTTCCTTGAAAAAAATTTCTAAGTCT
*
14066404 GTTTCCTTGAAAAAATTTTCTAAGTCT
1 GTTTCCTTGAAAAAAATTTCTAAGTCT
14066431 TCTAAATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (27 bp):
GTTTCCTTGAAAAAAATTTCTAAGTCT
Found at i:14067811 original size:17 final size:17
Alignment explanation
Indices: 14067786--14067824 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
14067776 ATCAATTTAA
14067786 TTAACTAAATTAATTTC
1 TTAACTAAATTAATTTC
*
14067803 TTAATTAAATTAATTTC
1 TTAACTAAATTAATTTC
14067820 TTAAC
1 TTAAC
14067825 CCAATCTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAACTAAATTAATTTC
Found at i:14069530 original size:2 final size:2
Alignment explanation
Indices: 14069523--14069548 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14069513 TTAGAATGCT
14069523 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
14069549 ATGCGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14077280 original size:12 final size:12
Alignment explanation
Indices: 14077262--14077296 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14077252 TGCCTAGACA
14077262 CGCCCGTGTCTT
1 CGCCCGTGTCTT
*
14077274 TGCCCGTGTCTT
1 CGCCCGTGTCTT
*
14077286 CACCCGTGTCT
1 CGCCCGTGTCT
14077297 AAAAACCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.40, G:0.23, T:0.34
Consensus pattern (12 bp):
CGCCCGTGTCTT
Found at i:14079844 original size:12 final size:12
Alignment explanation
Indices: 14079826--14079860 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14079816 TGCCTAGACA
14079826 CGCCCGTGTCTT
1 CGCCCGTGTCTT
*
14079838 TGCCCGTGTCTT
1 CGCCCGTGTCTT
*
14079850 CACCCGTGTCT
1 CGCCCGTGTCT
14079861 AAAAACCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.40, G:0.23, T:0.34
Consensus pattern (12 bp):
CGCCCGTGTCTT
Found at i:14090689 original size:37 final size:37
Alignment explanation
Indices: 14090639--14090717 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
14090629 TTATTACGAA
* * *
14090639 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
14090676 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
14090713 GTCTT
1 GTCTT
14090718 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:14090914 original size:47 final size:47
Alignment explanation
Indices: 14090836--14091250 Score: 704
Period size: 47 Copynumber: 8.7 Consensus size: 47
14090826 CCCTTCGGGA
* * * * * *
14090836 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
14090883 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14090930 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14090977 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14091024 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14091073 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14091122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14091169 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14091216 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
14091251 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 259 0.73
49 95 0.27
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:14091290 original size:239 final size:233
Alignment explanation
Indices: 14090836--14091271 Score: 689
Period size: 239 Copynumber: 1.9 Consensus size: 233
14090826 CCCTTCGGGA
* * * *
14090836 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
14090901 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
14090966 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT----CATGAAGCCTAATCA
*
14091031 CATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
192 AATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * *
14091073 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
14091138 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
14091203 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-A-GAATCCTAAATCAA
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCATGAAGCCT-AATCAA
14091266 A-ATATA
193 ATATATA
14091272 GATTTTCATG
Statistics
Matches: 185, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
233 10 0.05
234 6 0.03
237 10 0.05
238 1 0.01
239 158 0.85
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (233 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCATGAAGCCTAATCAAATA
TATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:14093114 original size:12 final size:13
Alignment explanation
Indices: 14093086--14093118 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
14093076 TTATTTCTTT
14093086 TTCTCCATCTACC
1 TTCTCCATCTACC
*
14093099 TTCTCC-TCTTCC
1 TTCTCCATCTACC
14093111 TTCTCCAT
1 TTCTCCAT
14093119 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:14093961 original size:28 final size:28
Alignment explanation
Indices: 14093921--14093985 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
14093911 ATGTACTAGA
*
14093921 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
14093949 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
14093977 ATACCCCTA
1 ATACCCCTA
14093986 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:14094191 original size:29 final size:28
Alignment explanation
Indices: 14094091--14094180 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
14094081 AGGAAGCGTC
* *
14094091 CTGGTGGCTA-TGCTACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* *
14094119 CTGGTGGCCCTGCCACATAA-ATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
14094146 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
14094175 CTGGTG
1 CTGGTG
14094181 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 25 0.47
28 21 0.40
29 7 0.13
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:14094199 original size:55 final size:56
Alignment explanation
Indices: 14094091--14094205 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
14094081 AGGAAGCGTC
* * *
14094091 CTGGTGGCTATGCTACAAATTATCTGTTCTGGTGGCCCTGCCACATAAATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATAAATCTGTAT
* * **
14094146 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATAAATCTGTAT
14094202 CTGG
1 CTGG
14094206 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.56
56 21 0.42
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATAAATCTGTAT
Found at i:14094668 original size:19 final size:19
Alignment explanation
Indices: 14094644--14094682 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14094634 TTTTAATTAT
* *
14094644 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
14094663 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
14094682 T
1 T
14094683 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:14104947 original size:54 final size:54
Alignment explanation
Indices: 14104884--14104992 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
14104874 CATTGAAGAA
*
14104884 TCCTTAAGAAGCTGGTTTTTCATATTTTGCTACATGTGAGTTCAATTCTTACTC
1 TCCTTAAGAAGCTAGTTTTTCATATTTTGCTACATGTGAGTTCAATTCTTACTC
14104938 TCCTTAAGAAGCTAGTTTTTCATATTTTGCTACATGTGAGTTCAATTCTTACTC
1 TCCTTAAGAAGCTAGTTTTTCATATTTTGCTACATGTGAGTTCAATTCTTACTC
14104992 T
1 T
14104993 TTTCTTGGAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (54 bp):
TCCTTAAGAAGCTAGTTTTTCATATTTTGCTACATGTGAGTTCAATTCTTACTC
Found at i:14105794 original size:33 final size:34
Alignment explanation
Indices: 14105750--14105895 Score: 106
Period size: 33 Copynumber: 4.4 Consensus size: 34
14105740 AAATGTTTAT
* *
14105750 ATGTAATACCATAGCTGGGTTATGGCACTT-TGA
1 ATGTAAGACCATAGCTGGGCTATGGCACTTATGA
* * * * *
14105783 ACGTAAGACCATGGTTGGACTATGGCAATATCTAT-A
1 ATGTAAGACCATAGCTGGGCTATGGC-A-CT-TATGA
* *
14105819 A-GTAAGATCATAGTTGGGCTATGGCA-TTATG-
1 ATGTAAGACCATAGCTGGGCTATGGCACTTATGA
* * *
14105850 ATGATAAGACCATAACTGGGTTATGGCAC-TACGA
1 ATG-TAAGACCATAGCTGGGCTATGGCACTTATGA
14105884 ATGTAAGACCAT
1 ATGTAAGACCAT
14105896 GGTTGGGCCA
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
31 4 0.04
32 2 0.02
33 52 0.58
34 5 0.06
35 22 0.25
36 3 0.03
37 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (34 bp):
ATGTAAGACCATAGCTGGGCTATGGCACTTATGA
Found at i:14105858 original size:68 final size:69
Alignment explanation
Indices: 14105716--14105862 Score: 174
Period size: 68 Copynumber: 2.2 Consensus size: 69
14105706 TGAATTGACG
* * * * *
14105716 GATAAGACCATGGTTGGACCATGGAAATGTTTATATGTAATACCATAGCTGGGTTATGGCACTTT
1 GATAAGACCATGGTTGGACCATGGAAATATCTATAAGTAAGACCATAGCTGGGCTATGGCACTTT
14105781 GAAC
66 GAAC
* * * *
14105785 G-TAAGACCATGGTTGGACTATGGCAATATCTATAAGTAAGATCATAGTTGGGCTATGGCA-TTA
1 GATAAGACCATGGTTGGACCATGGAAATATCTATAAGTAAGACCATAGCTGGGCTATGGCACTT-
*
14105848 TG-AT
65 TGAAC
14105852 GATAAGACCAT
1 GATAAGACCAT
14105863 AACTGGGTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
67 4 0.06
68 61 0.92
69 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (69 bp):
GATAAGACCATGGTTGGACCATGGAAATATCTATAAGTAAGACCATAGCTGGGCTATGGCACTTT
GAAC
Found at i:14105941 original size:66 final size:68
Alignment explanation
Indices: 14105786--14105944 Score: 155
Period size: 66 Copynumber: 2.4 Consensus size: 68
14105776 ACTTTGAACG
** * * * * *
14105786 TAAGACCATGGTTGGACTATGGCAATATCTATAAGTAAGATCATAGTTGGGCTATGGCATTATGA
1 TAAGACCATAATTGGACTATGGCACTATCGATAAGTAAGACCATAGTTGGGCCATGGCATAATGA
14105851 TGA
66 TGA
* ** * *
14105854 TAAGACCATAACTGGGTTATGGCACTA-CGA-ATGTAAGACCATGGTTGGGCCATGG-A-AATGC
1 TAAGACCATAATTGGACTATGGCACTATCGATAAGTAAGACCATAGTTGGGCCATGGCATAATG-
14105915 ATGTA
65 ATG-A
*
14105920 TAAGACCATATTTGGACTATGGCAC
1 TAAGACCATAATTGGACTATGGCAC
14105945 AAGGAAAATG
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
64 3 0.04
65 4 0.05
66 43 0.59
67 2 0.03
68 21 0.29
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (68 bp):
TAAGACCATAATTGGACTATGGCACTATCGATAAGTAAGACCATAGTTGGGCCATGGCATAATGA
TGA
Found at i:14108522 original size:24 final size:24
Alignment explanation
Indices: 14108486--14108548 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
14108476 GAGTCGATAT
* * *
14108486 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAAGTTGAA
14108510 TGGCACTATGTGTGCGAAGTTGAA
1 TGGCACTATGTGTGCGAAGTTGAA
14108534 TGGCACTATGTGTGC
1 TGGCACTATGTGTGC
14108549 CGGCTTGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.30
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAAGTTGAA
Found at i:14108556 original size:24 final size:22
Alignment explanation
Indices: 14108486--14108558 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 22
14108476 GAGTCGATAT
*
14108486 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGG--TTGAA
14108510 TGGCACTATGTGTGCGAAGTTGAA
1 TGGCACTATGTGTGCG--GTTGAA
14108534 TGGCACTATGTGTGCCGGCTTGAA
1 TGGCACTATGTGTG-CGG-TTGAA
14108558 T
1 T
14108559 ATCAATACAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
23 1 0.02
24 40 0.91
25 2 0.05
26 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.30
Consensus pattern (22 bp):
TGGCACTATGTGTGCGGTTGAA
Found at i:14110454 original size:27 final size:27
Alignment explanation
Indices: 14110416--14110469 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
14110406 TGAAAAAAAG
*
14110416 GTTTTCTTGAAAAAAAATTCTAAGTCT
1 GTTTCCTTGAAAAAAAATTCTAAGTCT
*
14110443 GTTTCCTTGAAAAAAATTTCTAAGTCT
1 GTTTCCTTGAAAAAAAATTCTAAGTCT
14110470 TCTAAATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (27 bp):
GTTTCCTTGAAAAAAAATTCTAAGTCT
Found at i:14111853 original size:17 final size:17
Alignment explanation
Indices: 14111828--14111866 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
14111818 ATCAATTTAA
14111828 TTAACTAAATTAATTTC
1 TTAACTAAATTAATTTC
*
14111845 TTAATTAAATTAATTTC
1 TTAACTAAATTAATTTC
14111862 TTAAC
1 TTAAC
14111867 CCAATTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAACTAAATTAATTTC
Found at i:14111872 original size:17 final size:17
Alignment explanation
Indices: 14111828--14111872 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
14111818 ATCAATTTAA
*
14111828 TTAACTAAATTAATTTC
1 TTAACCAAATTAATTTC
**
14111845 TTAATTAAATTAATTTC
1 TTAACCAAATTAATTTC
*
14111862 TTAACCCAATT
1 TTAACCAAATT
14111873 CTAATTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAACCAAATTAATTTC
Found at i:14112003 original size:14 final size:14
Alignment explanation
Indices: 14111984--14112024 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
14111974 CACTTTAAAC
*
14111984 TTAAATTATTTAAT
1 TTAAATTAATTAAT
14111998 TTAAATTAATTAA-
1 TTAAATTAATTAAT
14112011 TT-AATTAA-TAAT
1 TTAAATTAATTAAT
14112023 TT
1 TT
14112025 GAAGAACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 3 0.12
12 8 0.32
13 2 0.08
14 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTAAATTAATTAAT
Found at i:14119213 original size:12 final size:12
Alignment explanation
Indices: 14119196--14119229 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
14119186 GCCTAGACAA
14119196 GCCCGTGTCTTC
1 GCCCGTGTCTTC
14119208 GCCCGTGTCTTC
1 GCCCGTGTCTTC
*
14119220 GCTCGTGTCT
1 GCCCGTGTCT
14119230 AAAAACCCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.26, T:0.35
Consensus pattern (12 bp):
GCCCGTGTCTTC
Found at i:14130037 original size:86 final size:86
Alignment explanation
Indices: 14129892--14130063 Score: 326
Period size: 86 Copynumber: 2.0 Consensus size: 86
14129882 ATTTGTGAAA
14129892 AAGAAAGATGGTTCTTTGAGACTGTGTATAGACTACCTAAAGTTGAACAAGGTCACAATTAAAAA
1 AAGAAAGATGGTTCTTTGAGACTGTGTATAGACTACCTAAAGTTGAACAAGGTCACAATTAAAAA
14129957 TAAATATCCTTTGTCTCGTAT
66 TAAATATCCTTTGTCTCGTAT
* *
14129978 AAGAAAGATTGTTCTTTGAGACTGTGTATAGATTACCTAAAGTTGAACAAGGTCACAATTAAAAA
1 AAGAAAGATGGTTCTTTGAGACTGTGTATAGACTACCTAAAGTTGAACAAGGTCACAATTAAAAA
14130043 TAAATATCCTTTGTCTCGTAT
66 TAAATATCCTTTGTCTCGTAT
14130064 TGATGACTTG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (86 bp):
AAGAAAGATGGTTCTTTGAGACTGTGTATAGACTACCTAAAGTTGAACAAGGTCACAATTAAAAA
TAAATATCCTTTGTCTCGTAT
Found at i:14133532 original size:101 final size:101
Alignment explanation
Indices: 14133357--14133583 Score: 312
Period size: 101 Copynumber: 2.3 Consensus size: 101
14133347 AATTGACGGA
* * * * *
14133357 TAAGACCATGGTTGGACCATGGCAATGTTTATATGTAATACCATAGCTGGGATATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATCTATAAGTAAGACCATAGCTGGGATATGGCATTATAA
***
14133422 TGAAAAGACCATAACTGGGTTATGGCACTTTGAACG
66 TGAAAAGACCATAACTGGGTTATGGCACTACAAACG
* * * * *
14133458 TAAGACCATGGTTGGACTATGGCAATATCTATAAGTAAGATCATAGTTGGGCTATGGCATTATGA
1 TAAGACCATGGTTGGACCATGGCAATATCTATAAGTAAGACCATAGCTGGGATATGGCATTATAA
* *
14133523 TGATAAGACCATAACTGGGTTATGGCACTACAAATG
66 TGAAAAGACCATAACTGGGTTATGGCACTACAAACG
14133559 TAAGACCATGGTTGG-CCATGGCAAT
1 TAAGACCATGGTTGGACCATGGCAAT
14133584 GCATGTATAA
Statistics
Matches: 110, Mismatches: 16, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
100 9 0.08
101 101 0.92
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATCTATAAGTAAGACCATAGCTGGGATATGGCATTATAA
TGAAAAGACCATAACTGGGTTATGGCACTACAAACG
Found at i:14133547 original size:33 final size:33
Alignment explanation
Indices: 14133396--14133549 Score: 105
Period size: 33 Copynumber: 4.6 Consensus size: 33
14133386 TATATGTAAT
* * * *
14133396 ACCATAGCTGGGATATGGCATTTTAATGAAAAG
1 ACCATAGCTGGGCTATGGCATTATGATGATAAG
* * *
14133429 ACCATAACTGGGTTATGGCACTT-TGAACG-TAAG
1 ACCATAGCTGGGCTATGGCA-TTATG-ATGATAAG
* * * * * *
14133462 ACCATGGTTGGACTATGGCAATATCTATAAGTAAG
1 ACCATAGCTGGGCTATGGCATTAT-GATGA-TAAG
* *
14133497 ATCATAGTTGGGCTATGGCATTATGATGATAAG
1 ACCATAGCTGGGCTATGGCATTATGATGATAAG
* *
14133530 ACCATAACTGGGTTATGGCA
1 ACCATAGCTGGGCTATGGCA
14133550 CTACAAATGT
Statistics
Matches: 91, Mismatches: 24, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
32 1 0.01
33 59 0.65
34 7 0.08
35 24 0.26
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (33 bp):
ACCATAGCTGGGCTATGGCATTATGATGATAAG
Done.