Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 58 of 444
Found at i:14037092 original size:26 final size:26
Alignment explanation
Indices: 14037063--14037172 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
14037053 TGATACAAAT
14037063 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
14037089 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
14037115 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
14037141 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
14037167 TAATAA
1 TGATAA
14037173 GAAATTCATG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14044150 original size:26 final size:26
Alignment explanation
Indices: 14044121--14044229 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
14044111 TGATACAAAT
14044121 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
14044147 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
14044173 TGATAATGGGTTAGGTAAATGTT-TA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
14044198 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14044224 TGATAA
1 TGATAA
14044230 GAAATTCATG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14044226 original size:51 final size:52
Alignment explanation
Indices: 14044121--14044229 Score: 175
Period size: 51 Copynumber: 2.1 Consensus size: 52
14044111 TGATACAAAT
14044121 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * * *
14044173 TGATAATGGGTTAGGTAAATGTT-TATGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
14044224 TGATAA
1 TGATAA
14044230 GAAATTCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 30 0.57
52 23 0.43
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:14047654 original size:18 final size:18
Alignment explanation
Indices: 14047627--14047667 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14047617 GTTGTTTTTG
*
14047627 TCTTTGTTTTTTCCTTTC
1 TCTTTTTTTTTTCCTTTC
*
14047645 TCTTTTTTTTTTTCTTTC
1 TCTTTTTTTTTTCCTTTC
14047663 T-TTTT
1 TCTTTT
14047668 GGCTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (18 bp):
TCTTTTTTTTTTCCTTTC
Found at i:14051689 original size:93 final size:93
Alignment explanation
Indices: 14051577--14051748 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
14051567 CGCCCATAAG
* *
14051577 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14051642 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
14051670 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14051735 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
14051749 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:14051745 original size:46 final size:46
Alignment explanation
Indices: 14051570--14051745 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
14051560 TGTAACCCGC
* * *
14051570 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
14051616 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
14051666 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
14051709 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
14051746 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14059267 original size:93 final size:93
Alignment explanation
Indices: 14059155--14059326 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
14059145 CGCCCATAAG
* *
14059155 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14059220 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
14059248 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14059313 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
14059327 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:14059323 original size:46 final size:46
Alignment explanation
Indices: 14059148--14059323 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
14059138 TGTAACCCGC
* * *
14059148 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
14059194 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
14059244 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
14059287 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
14059324 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14065917 original size:93 final size:93
Alignment explanation
Indices: 14065805--14065976 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
14065795 CGCCCATAAG
* *
14065805 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14065870 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
14065898 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14065963 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
14065977 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:14065973 original size:46 final size:46
Alignment explanation
Indices: 14065798--14065973 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
14065788 TGTAACCCGC
* * *
14065798 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
14065844 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
14065894 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
14065937 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
14065974 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14073484 original size:93 final size:93
Alignment explanation
Indices: 14073372--14073543 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
14073362 CGCCCATAAG
* *
14073372 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14073437 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
14073465 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14073530 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
14073544 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:14073540 original size:46 final size:46
Alignment explanation
Indices: 14073365--14073540 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
14073355 TGTAACCCGC
* * *
14073365 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
14073411 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
14073461 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
14073504 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
14073541 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14078081 original size:20 final size:20
Alignment explanation
Indices: 14078058--14078109 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
14078048 AAATCCAAAT
14078058 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
14078078 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
14078098 TAAGAATACTGA
1 TAA-AATACTGA
14078110 TGTGGCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:14078656 original size:125 final size:124
Alignment explanation
Indices: 14078398--14078674 Score: 340
Period size: 125 Copynumber: 2.2 Consensus size: 124
14078388 TTGGCAGTTT
* * * * * *
14078398 GAGAAGTCGTGCCCTAA-CGTGCTGAGTCTCGATTTTTCGTTTGACCGAATAGGGAATATCCTTG
1 GAGAAATCGTGCCC-AATCGTGCTGGGTTTCGATTTTTCATTCGACCGAATACGGAATATCCTTG
* * * * * * *
14078462 TGAAATTTCAACCATGTTTTCTTAAATTAAAATGAGGCAATGTTTCGTACTTGGGAGTTT
65 TGAAATCTCAACCATGCTTTCTTAAATTAAAATGAGGCAATATTTCATACTTGGAAATTC
* * *
14078522 GAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTGAGATACGGAATATCCTTT
1 GAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACCGA-ATACGGAATATCCTTG
* * * *
14078587 TGACATCTCATCCATGCTTTCTTGAATTAAAATGAGGCAATATTTCATATTTGGAAATTC
65 TGAAATCTCAACCATGCTTTCTTAAATTAAAATGAGGCAATATTTCATACTTGGAAATTC
*
14078647 GATAAATCGTGCCCAATCGTGCTGGGTT
1 GAGAAATCGTGCCCAATCGTGCTGGGTT
14078675 GCGACTTACC
Statistics
Matches: 129, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
123 2 0.02
124 38 0.29
125 89 0.69
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (124 bp):
GAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACCGAATACGGAATATCCTTGT
GAAATCTCAACCATGCTTTCTTAAATTAAAATGAGGCAATATTTCATACTTGGAAATTC
Found at i:14078708 original size:125 final size:125
Alignment explanation
Indices: 14078452--14078722 Score: 285
Period size: 125 Copynumber: 2.2 Consensus size: 125
14078442 CCGAATAGGG
* * * * * *
14078452 AATATCCTTGTGAAATTTCAACCATGTTTTCTTAAATTAAAATGAGGCAATGTTTCGTACTTGGG
1 AATATCCTTTTGAAATCTCAACCATGCTTTCTTAAATTAAAATGAGGCAATATTTCATACTTGGA
* * * * * ** * * *
14078517 AGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTGAGATACGG
66 AATTCGAGAAATCGTGCCCAATCGTGCTGGGTTGCGACTTACCATTCGACTCAAATACGC
* * * *
14078577 AATATCCTTTTGACATCTCATCCATGCTTTCTTGAATTAAAATGAGGCAATATTTCATATTTGGA
1 AATATCCTTTTGAAATCTCAACCATGCTTTCTTAAATTAAAATGAGGCAATATTTCATACTTGGA
* * * *
14078642 AATTCGATAAATCGTGCCCAATCGTGCTGGGTTGCGACTTACCGTTTGGC-CAAATAAC-C
66 AATTCGAGAAATCGTGCCCAATCGTGCTGGGTTGCGACTTACCATTCGACTCAAAT-ACGC
*
14078701 AAGTATCCTTTTGAAATTTCAA
1 AA-TATCCTTTTGAAATCTCAA
14078723 ATGCATGAGT
Statistics
Matches: 117, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
124 5 0.04
125 112 0.96
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (125 bp):
AATATCCTTTTGAAATCTCAACCATGCTTTCTTAAATTAAAATGAGGCAATATTTCATACTTGGA
AATTCGAGAAATCGTGCCCAATCGTGCTGGGTTGCGACTTACCATTCGACTCAAATACGC
Found at i:14079763 original size:15 final size:14
Alignment explanation
Indices: 14079705--14079776 Score: 58
Period size: 15 Copynumber: 5.0 Consensus size: 14
14079695 ATCTTAGTAT
*
14079705 ATAAATAGAAATA-
1 ATAAATAAAAATAG
14079718 A-AAATATAATAATAG
1 ATAAATA-AA-AATAG
* *
14079733 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
14079748 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
14079763 ATAAATAATAATAG
1 ATAAATAAAAATAG
14079777 TATTAGAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
12 5 0.10
13 2 0.04
14 16 0.33
15 18 0.38
16 2 0.04
17 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:14079805 original size:13 final size:13
Alignment explanation
Indices: 14079783--14079813 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
14079773 ATAGTATTAG
14079783 AATA-ACAAAATA
1 AATATACAAAATA
14079795 AATATACAAAATA
1 AATATACAAAATA
14079808 AATATA
1 AATATA
14079814 AATAGAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (13 bp):
AATATACAAAATA
Found at i:14081184 original size:10 final size:9
Alignment explanation
Indices: 14081125--14081374 Score: 55
Period size: 9 Copynumber: 26.6 Consensus size: 9
14081115 TATTTTTTCC
*
14081125 AAAAATGAT
1 AAAAATTAT
*
14081134 AAAAAATTTT
1 -AAAAATTAT
*
14081144 AAAAAGTAT
1 AAAAATTAT
14081153 AAAAATTATT
1 AAAAATTA-T
* *
14081163 AGATATTA-
1 AAAAATTAT
14081171 AAAAATTAT
1 AAAAATTAT
*
14081180 GAAAATTGAT
1 AAAAATT-AT
* **
14081190 -ATAAGGAT
1 AAAAATTAT
* **
14081198 GAATTTTAT
1 AAAAATTAT
14081207 AAAAATTAT
1 AAAAATTAT
**
14081216 AAATTTTAT
1 AAAAATTAT
*
14081225 AAAAAAATTCT
1 --AAAAATTAT
*
14081236 AATAAATTTT
1 AA-AAATTAT
14081246 AATAAATTAT
1 AA-AAATTAT
14081256 -AAAATTAAT
1 AAAAATT-AT
*
14081265 AACAGATATTTT
1 AA-A-A-ATTAT
* *
14081277 AAATATTGT
1 AAAAATTAT
*
14081286 AAAATTTTAT
1 AAAA-ATTAT
14081296 AAAAATGTATT
1 AAAAAT-TA-T
**
14081307 AAATTTTACAT
1 AAAAATT--AT
14081318 AAAAA-TA-
1 AAAAATTAT
14081325 AAAAA--AT
1 AAAAATTAT
* *
14081332 TAAAAGTAT
1 AAAAATTAT
*
14081341 TAAAATTGAT
1 AAAAATT-AT
*
14081351 ATAAACTTAT
1 A-AAAATTAT
14081361 AAAAATTAT
1 AAAAATTAT
14081370 AAAAA
1 AAAAA
14081375 AAAATCATAA
Statistics
Matches: 174, Mismatches: 44, Indels: 45
0.66 0.17 0.17
Matches are distributed among these distances:
6 1 0.01
7 9 0.05
8 14 0.08
9 72 0.41
10 48 0.28
11 22 0.13
12 5 0.03
13 3 0.02
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:14081783 original size:63 final size:63
Alignment explanation
Indices: 14081684--14081811 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 63
14081674 AAGTCGATGC
14081684 AACCAACGGCTTCCAGATCAACTAGTCTAATGGCTTTCCTTGGACTGGTACCATTACCAATTT
1 AACCAACGGCTTCCAGATCAACTAGTCTAATGGCTTTCCTTGGACTGGTACCATTACCAATTT
* * *
14081747 AACCACCGGGTTCCAGATCAACTAGTCTAATGGCTTTCCTTGGACTGGTACCTTTACCAATTT
1 AACCAACGGCTTCCAGATCAACTAGTCTAATGGCTTTCCTTGGACTGGTACCATTACCAATTT
14081810 AA
1 AA
14081812 GGATAAGTGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (63 bp):
AACCAACGGCTTCCAGATCAACTAGTCTAATGGCTTTCCTTGGACTGGTACCATTACCAATTT
Found at i:14084601 original size:9 final size:9
Alignment explanation
Indices: 14084564--14084816 Score: 111
Period size: 10 Copynumber: 26.8 Consensus size: 9
14084554 ATTTTTTTCC
*
14084564 ATAAAAATG
1 ATAAAAATT
*
14084573 ATTAAAAATC
1 A-TAAAAATT
14084583 ATAAAAAATT
1 AT-AAAAATT
14084593 ATAAAAATT
1 ATAAAAATT
* *
14084602 ATTAGATATT
1 A-TAAAAATT
*
14084612 A-AAAAAAT
1 ATAAAAATT
*
14084620 AT-TAAATT
1 ATAAAAATT
14084628 A-AAAAATAT
1 ATAAAAAT-T
* *
14084637 ATGAACATT
1 ATAAAAATT
*
14084646 GATATAAAGTT
1 -ATA-AAAATT
14084657 ATAAAAATT
1 ATAAAAATT
*
14084666 ATAAAAAAAT
1 AT-AAAAATT
*
14084676 CTAATAAATT
1 ATAA-AAATT
* *
14084686 ATAAAAGTA
1 ATAAAAATT
14084695 ATAAAAATAT
1 ATAAAAAT-T
*
14084705 TTAAAATATT
1 ATAAAA-ATT
*
14084715 TTAAAAATTT
1 ATAAAAA-TT
14084725 ATAAAAATGT
1 ATAAAAAT-T
**
14084735 ATTACAATTTT
1 A-TA-AAAATT
14084746 ATAAAAA-T
1 ATAAAAATT
*
14084754 AAAAAAATT
1 ATAAAAATT
*
14084763 ATAAAAA-A
1 ATAAAAATT
* *
14084771 ATTCAAAAGT
1 A-TAAAAATT
*
14084781 ATTAAAATT
1 ATAAAAATT
*
14084790 AATATAAACTT
1 -ATA-AAAATT
14084801 ATAAAAATT
1 ATAAAAATT
14084810 ATAAAAA
1 ATAAAAA
14084817 CTAGTTGGCA
Statistics
Matches: 182, Mismatches: 40, Indels: 44
0.68 0.15 0.17
Matches are distributed among these distances:
8 22 0.12
9 66 0.36
10 76 0.42
11 15 0.08
12 3 0.02
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:14084616 original size:18 final size:16
Alignment explanation
Indices: 14084588--14084634 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
14084578 AAATCATAAA
14084588 AAATTATAAAAATTATT
1 AAATTA-AAAAATTATT
*
14084605 AGATATTAAAAAAATATT
1 A-A-ATTAAAAAATTATT
14084623 AAATTAAAAAAT
1 AAATTAAAAAAT
14084635 ATATGAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 9 0.35
17 2 0.08
18 11 0.42
19 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
AAATTAAAAAATTATT
Found at i:14084632 original size:17 final size:17
Alignment explanation
Indices: 14084588--14084638 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
14084578 AAATCATAAA
* *
14084588 AAATTATAAAAATTATT
1 AAATTAAAAAAAATATT
14084605 AGATATT-AAAAAAATATT
1 A-A-ATTAAAAAAAATATT
*
14084623 AAATTAAAAAATATAT
1 AAATTAAAAAAAATAT
14084639 GAACATTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 3 0.11
17 11 0.39
18 11 0.39
19 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAATTAAAAAAAATATT
Found at i:14084688 original size:29 final size:29
Alignment explanation
Indices: 14084649--14084731 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
14084639 GAACATTGAT
14084649 ATAAAGTTATAAAAATTATAAAAAAATCTA
1 ATAAA-TTATAAAAATTATAAAAAAATCTA
* * * *
14084679 ATAAATTATAAAAGTAATAAAAATATTTA
1 ATAAATTATAAAAATTATAAAAAAATCTA
*
14084708 A-AATATTTTAAAAATTTATAAAAA
1 ATAA-ATTATAAAAA-TTATAAAAA
14084732 TGTATTACAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 2 0.05
29 29 0.66
30 13 0.30
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (29 bp):
ATAAATTATAAAAATTATAAAAAAATCTA
Found at i:14084731 original size:21 final size:21
Alignment explanation
Indices: 14084658--14084769 Score: 68
Period size: 21 Copynumber: 5.8 Consensus size: 21
14084648 TATAAAGTTA
14084658 TAAAAA-TTATAAAAA-A-AT
1 TAAAAATTTATAAAAATATAT
*
14084676 CTAATAAA-TTATAAAAGTA-A-
1 -TAA-AAATTTATAAAAATATAT
*
14084696 TAAAAATATT-T-AAAATATTT
1 TAAAAAT-TTATAAAAATATAT
*
14084716 TAAAAATTTATAAAAATGTAT
1 TAAAAATTTATAAAAATATAT
* *
14084737 TACAATTTTATAAAAATA-A-
1 TAAAAATTTATAAAAATATAT
14084756 -AAAAA-TTATAAAAA
1 TAAAAATTTATAAAAA
14084770 AATTCAAAAG
Statistics
Matches: 75, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
17 9 0.12
18 11 0.15
19 9 0.12
20 22 0.29
21 24 0.32
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAAATTTATAAAAATATAT
Found at i:14085214 original size:14 final size:14
Alignment explanation
Indices: 14085195--14085223 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14085185 TTTATAACTC
14085195 TATATGGCTTTCCT
1 TATATGGCTTTCCT
14085209 TATATGGCTTTCCT
1 TATATGGCTTTCCT
14085223 T
1 T
14085224 GTATTTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.52
Consensus pattern (14 bp):
TATATGGCTTTCCT
Found at i:14089849 original size:9 final size:9
Alignment explanation
Indices: 14089835--14089893 Score: 93
Period size: 9 Copynumber: 6.6 Consensus size: 9
14089825 ATAAGTATAA
14089835 AATTAACCG
1 AATTAACCG
*
14089844 AATTAATCG
1 AATTAACCG
14089853 AATTAACCG
1 AATTAACCG
14089862 AATT-ACTCG
1 AATTAAC-CG
14089871 AATTAACCG
1 AATTAACCG
14089880 AATTAACCG
1 AATTAACCG
14089889 AATTA
1 AATTA
14089894 TTTGTATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 2 0.04
9 42 0.91
10 2 0.04
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:14094121 original size:12 final size:12
Alignment explanation
Indices: 14094104--14094169 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
14094094 ACCTCAAAAC
14094104 TTTAAATATAAA
1 TTTAAATATAAA
*
14094116 TTTAAATATACA
1 TTTAAATATAAA
*
14094128 TTT--ATAT-AG
1 TTTAAATATAAA
* * *
14094137 TTTTACTGA-AGA
1 TTTAAAT-ATAAA
14094149 TTTAAATATAAA
1 TTTAAATATAAA
14094161 TTTAAATAT
1 TTTAAATAT
14094170 TTTTACTAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
9 3 0.08
10 4 0.10
11 2 0.05
12 31 0.77
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (12 bp):
TTTAAATATAAA
Found at i:14095578 original size:14 final size:14
Alignment explanation
Indices: 14095559--14095586 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14095549 TTTTGAAAAA
14095559 GATAGTTAGATGAT
1 GATAGTTAGATGAT
14095573 GATAGTTAGATGAT
1 GATAGTTAGATGAT
14095587 TTATGATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
GATAGTTAGATGAT
Found at i:14095822 original size:16 final size:18
Alignment explanation
Indices: 14095801--14095840 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
14095791 TCTAATTTTC
14095801 TAAATTA-TAAAA-AATA
1 TAAATTATTAAAATAATA
14095817 TAAATTATTAAAATAATA
1 TAAATTATTAAAATAATA
14095835 -AAATTA
1 TAAATTA
14095841 CATTTTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAATTATTAAAATAATA
Found at i:14096674 original size:20 final size:20
Alignment explanation
Indices: 14096636--14096680 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
14096626 CAAATATTAA
*
14096636 TAATTAAAAAAAATTAAAAT
1 TAATTAAAAAAAATAAAAAT
* *
14096656 TAATTAACAAACATAAAAAT
1 TAATTAAAAAAAATAAAAAT
*
14096676 AAATT
1 TAATT
14096681 TAATTACCGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
TAATTAAAAAAAATAAAAAT
Found at i:14098445 original size:29 final size:31
Alignment explanation
Indices: 14098399--14098460 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
14098389 TATAATTATA
*
14098399 TAATTAGATAATTATTATT-TATTTAATATTT
1 TAATAAGATAATTATTATTAT-TTTAATATTT
*
14098430 TAATAAGAT-ATT-TTATTATTTTATTATTT
1 TAATAAGATAATTATTATTATTTTAATATTT
14098459 TA
1 TA
14098461 TTTAGCCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 16 0.57
30 4 0.14
31 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (31 bp):
TAATAAGATAATTATTATTATTTTAATATTT
Found at i:14098449 original size:8 final size:8
Alignment explanation
Indices: 14098438--14098462 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14098428 TTTAATAAGA
14098438 TATTTTAT
1 TATTTTAT
14098446 TATTTTAT
1 TATTTTAT
14098454 TATTTTAT
1 TATTTTAT
14098462 T
1 T
14098463 TAGCCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:14100617 original size:46 final size:46
Alignment explanation
Indices: 14100565--14100791 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
14100555 AGTGTGCTCT
14100565 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
14100611 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
14100657 CTGATATGAAATGTGTAATACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
14100703 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
14100748 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
14100792 TCATGTCAAA
Statistics
Matches: 166, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
44 1 0.01
45 37 0.22
46 128 0.77
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:14100812 original size:45 final size:45
Alignment explanation
Indices: 14100626--14100814 Score: 132
Period size: 46 Copynumber: 4.2 Consensus size: 45
14100616 ATGGAATGTG
* * * * ***
14100626 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTG
1 TAAGACCATAGTTGAAAGACACCATGGC-ACATGACA-GAAAATAAA
* * * * * *
14100672 TAATACCATGGTTGAAAGATACCATGGCAACGTGATATG-AAATGAA
1 TAAGACCATAGTTGAAAGACACCATGGC-ACATGACA-GAAAATAAA
* * * *
14100718 TAAGACCATGGTTGAAAGATACCATGGCACATGACAGAAAATGAG
1 TAAGACCATAGTTGAAAGACACCATGGCACATGACAGAAAATAAA
* * *
14100763 TAAGACCATAGTTGAAAGACACTATGGCATCATGTCA-AAGATAAA
1 TAAGACCATAGTTGAAAGACACCATGGCA-CATGACAGAAAATAAA
14100808 TAAGACC
1 TAAGACC
14100815 GTGTATAGGA
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
44 1 0.01
45 50 0.40
46 75 0.60
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACCATGGCACATGACAGAAAATAAA
Found at i:14101621 original size:24 final size:24
Alignment explanation
Indices: 14101594--14101641 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
14101584 ATTAACCTTT
14101594 TGGGAATGATCAACTGTTGTATAA
1 TGGGAATGATCAACTGTTGTATAA
14101618 TGGGAATGATCAACTGTTGTATAA
1 TGGGAATGATCAACTGTTGTATAA
14101642 AAAAGTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.33
Consensus pattern (24 bp):
TGGGAATGATCAACTGTTGTATAA
Found at i:14102183 original size:30 final size:32
Alignment explanation
Indices: 14102147--14102214 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 32
14102137 GTTTCATTTT
* *
14102147 AGTCACTTAAC-TTTTGAAAAA-CAACAAAAC
1 AGTCACTTAACGTTATAAAAAAGCAACAAAAC
**
14102177 AGTCAC-TAACGTTATAAAAAAGTGACAAAAC
1 AGTCACTTAACGTTATAAAAAAGCAACAAAAC
14102208 AGTCACT
1 AGTCACT
14102215 GACTAACAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 4 0.13
30 14 0.45
31 13 0.42
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.22
Consensus pattern (32 bp):
AGTCACTTAACGTTATAAAAAAGCAACAAAAC
Found at i:14103586 original size:131 final size:129
Alignment explanation
Indices: 14103444--14103724 Score: 311
Period size: 132 Copynumber: 2.1 Consensus size: 129
14103434 TATTTTTAGA
* *
14103444 ATTTTTAAGAAACATGAGTGAAATTCTAAAGGGGATATTCGATTATTTT-G-AACCGATAGGAAA
1 ATTTTT-AGAAACATGA-TGAAATTCTAAA-GGGACATTCGATTATTTTAGCAAACGAT---AAA
* ** *
14103507 TCGCAACCCAGCACGATT-GGGCACGATTCC-CGAATTGCCAAACATTGAGTATTACCTTCGTTT
60 TCGCAACCCAGCACG-TTAGGGCACGATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTT
14103570 TAAA-G
124 TAAAGG
* *
14103575 AGTTTTTAGAAAGCCTGCATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACGATAAATT
1 A-TTTTTAGAAA-CATG-ATGAAATTCTAAAGGGACATTCGATTATTTT-AGCAAACGATAAATC
* * *
14103640 GCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGTCAAATATCGAACATCGCCTTCGTTTTAA
62 GCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTTAA
14103705 AGG
127 AGG
*
14103708 ATTTTTGGAAGACATGA
1 ATTTTTAGAA-ACATGA
14103725 ATGATTATAA
Statistics
Matches: 127, Mismatches: 13, Indels: 20
0.79 0.08 0.12
Matches are distributed among these distances:
130 2 0.02
131 53 0.42
132 61 0.48
133 5 0.04
134 6 0.05
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (129 bp):
ATTTTTAGAAACATGATGAAATTCTAAAGGGACATTCGATTATTTTAGCAAACGATAAATCGCAA
CCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTTAAAGG
Found at i:14103713 original size:132 final size:130
Alignment explanation
Indices: 14103462--14103706 Score: 316
Period size: 131 Copynumber: 1.9 Consensus size: 130
14103452 GAAACATGAG
* *
14103462 TGAAATTCTAAAGGGGATATTCGATTATTTTGAACCGATAGGAAATCGCAACCCAGCACGATTGG
1 TGAAATTCTAAAGGGGACATTCGATTATTTTGAAACGAT--GAAATCGCAACCCAGCACGATTGG
* ** *
14103527 GCACGATTCCCGAATTGCCAAACATTGAGTATTACCTTCGTTTTAAAGAGTTTTTAGAAAGCCTG
64 GCACGATTCCCGAATTGCCAAACATCGAACATCACCTTCGTTTTAAAGAGTTTTTAGAAAGCCTG
14103592 CA
129 CA
*
14103594 TGAAATTCTAAA-GGGACATTCGATTATTTTGAGCAAACGAT-AAATTGCAACCCAGCACG-TTA
1 TGAAATTCTAAAGGGGACATTCGATTATTTT--G-AAACGATGAAATCGCAACCCAGCACGATT-
* * *
14103656 GGGCACGATTCCGCGAATTGTCAAATATCGAACATCGCCTTCGTTTTAAAG
62 GGGCACGATTCC-CGAATTGCCAAACATCGAACATCACCTTCGTTTTAAAG
14103707 GATTTTTGGA
Statistics
Matches: 98, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
130 2 0.02
131 46 0.47
132 43 0.44
133 1 0.01
134 6 0.06
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (130 bp):
TGAAATTCTAAAGGGGACATTCGATTATTTTGAAACGATGAAATCGCAACCCAGCACGATTGGGC
ACGATTCCCGAATTGCCAAACATCGAACATCACCTTCGTTTTAAAGAGTTTTTAGAAAGCCTGCA
Found at i:14104633 original size:8 final size:8
Alignment explanation
Indices: 14104623--14104662 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
14104613 GAAGTATACG
*
14104623 TGTATATG
1 TGTATATA
14104631 TGTATATA
1 TGTATATA
*
14104639 TATATATA
1 TGTATATA
14104647 TGTATATA
1 TGTATATA
*
14104655 TATATATA
1 TGTATATA
14104663 GATTAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (8 bp):
TGTATATA
Found at i:14104640 original size:2 final size:2
Alignment explanation
Indices: 14104633--14104662 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14104623 TGTATATGTG
*
14104633 TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14104663 GATTAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14104644 original size:16 final size:16
Alignment explanation
Indices: 14104625--14104662 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
14104615 AGTATACGTG
*
14104625 TATATGTGTATATATA
1 TATATATGTATATATA
14104641 TATATATGTATATATA
1 TATATATGTATATATA
14104657 TATATA
1 TATATA
14104663 GATTAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (16 bp):
TATATATGTATATATA
Found at i:14107871 original size:22 final size:21
Alignment explanation
Indices: 14107824--14107882 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 21
14107814 GATATAAAGT
14107824 TATAAATTTTATAAAAAAATA
1 TATAAATTTTATAAAAAAATA
* *
14107845 TATAAATTTTATAAAAAATTC
1 TATAAATTTTATAAAAAAATA
14107866 TAATAAATTTTAATAAA
1 T-ATAAATTTT-ATAAA
14107883 TTATAAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 20 0.59
22 9 0.26
23 5 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAAATTTTATAAAAAAATA
Found at i:14108002 original size:9 final size:9
Alignment explanation
Indices: 14107736--14108005 Score: 66
Period size: 9 Copynumber: 28.6 Consensus size: 9
14107726 ATTTTTTTCA
*
14107736 AAAAATGAT
1 AAAAATTAT
14107745 AAAAA-TA-
1 AAAAATTAT
14107752 AAAAA-TAT
1 AAAAATTAT
* *
14107760 CGAAAAGTAT
1 -AAAAATTAT
14107770 AAAAATTATT
1 AAAAATTA-T
* *
14107780 AGATATTA-
1 AAAAATTAT
*
14107788 AAAAAATATT
1 AAAAATTA-T
14107798 AAAAATTAT
1 AAAAATTAT
*
14107807 GAAAATTGAT
1 AAAAATT-AT
*
14107817 ATAAAGTTAT
1 A-AAAATTAT
**
14107827 AAATTTTAT
1 AAAAATTAT
14107836 AAAAAAATATAT
1 --AAAAAT-TAT
**
14107848 AAATTTTAT
1 AAAAATTAT
*
14107857 AAAAAATTCT
1 -AAAAATTAT
*
14107867 AATAAATTTT
1 AA-AAATTAT
14107877 AATAAATTAT
1 AA-AAATTAT
* *
14107887 AAAACTAAT
1 AAAAATTAT
*
14107896 AACAAATATTTT
1 -A-AAA-ATTAT
* *
14107908 AAATATTGT
1 AAAAATTAT
*
14107917 AAAATTTTAT
1 AAAA-ATTAT
**
14107927 AAAACGTATT
1 AAAAATTA-T
*
14107937 AAAATTTAT
1 AAAAATTAT
14107946 ATAAAA--AT
1 A-AAAATTAT
**
14107954 AAAAAAAAT
1 AAAAATTAT
* *
14107963 TAAAAGTAT
1 AAAAATTAT
*
14107972 TAAAATTGAT
1 AAAAATT-AT
*
14107982 ATAAACTTAT
1 A-AAAATTAT
14107992 AAAAATTAT
1 AAAAATTAT
14108001 AAAAA
1 AAAAA
14108006 AAATCATAAA
Statistics
Matches: 192, Mismatches: 46, Indels: 46
0.68 0.16 0.16
Matches are distributed among these distances:
7 11 0.06
8 9 0.05
9 75 0.39
10 74 0.39
11 18 0.09
12 5 0.03
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:14110670 original size:25 final size:26
Alignment explanation
Indices: 14110630--14110682 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
14110620 TATTTTATTT
*
14110630 CAAAATACTTTATATAATATATAATA
1 CAAAATACTATATATAATATATAATA
* *
14110656 CAAAAT-CTATATATATTATATACTA
1 CAAAATACTATATATAATATATAATA
14110681 CA
1 CA
14110683 GAAACCAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
CAAAATACTATATATAATATATAATA
Found at i:14111231 original size:19 final size:19
Alignment explanation
Indices: 14111209--14111293 Score: 75
Period size: 19 Copynumber: 4.5 Consensus size: 19
14111199 TATTAAAATT
*
14111209 TTATAAAAATAAAAAAAAG
1 TTATAAAAATAATAAAAAG
*
14111228 TTATAAAAA-AATCAAAAG
1 TTATAAAAATAATAAAAAG
* * * *
14111246 -TATTAAAATTGATATAAAC
1 TTA-TAAAAATAATAAAAAG
*
14111265 TTATAAAAATTATAAAAAG
1 TTATAAAAATAATAAAAAG
14111284 ATTATAAAAA
1 -TTATAAAAA
14111294 CTTGAACTTG
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
17 2 0.04
18 12 0.24
19 26 0.51
20 11 0.22
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (19 bp):
TTATAAAAATAATAAAAAG
Found at i:14111275 original size:20 final size:21
Alignment explanation
Indices: 14111250--14111298 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
14111240 CAAAAGTATT
* *
14111250 AAAATTGATATAAA-CTTATA
1 AAAATTGATAAAAAGATTATA
14111270 AAAATT-ATAAAAAGATTATA
1 AAAATTGATAAAAAGATTATA
14111290 AAAACTTGA
1 AAAA-TTGA
14111299 ACTTGATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.25
20 15 0.62
21 2 0.08
22 1 0.04
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (21 bp):
AAAATTGATAAAAAGATTATA
Found at i:14111279 original size:9 final size:9
Alignment explanation
Indices: 14111209--14111293 Score: 55
Period size: 9 Copynumber: 9.0 Consensus size: 9
14111199 TATTAAAATT
14111209 TTATAAAAA
1 TTATAAAAA
* *
14111218 TAAAAAAAA
1 TTATAAAAA
14111227 GTTATAAAAA
1 -TTATAAAAA
* *
14111237 -AATCAAAA
1 TTATAAAAA
* *
14111245 GTATTAAAA
1 TTATAAAAA
*
14111254 TTGATATAAAC
1 TT-ATA-AAAA
14111265 TTATAAAAA
1 TTATAAAAA
14111274 TTATAAAAAGA
1 TTAT-AAAA-A
14111285 TTATAAAAA
1 TTATAAAAA
14111294 CTTGAACTTG
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
8 6 0.10
9 22 0.38
10 20 0.34
11 10 0.17
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (9 bp):
TTATAAAAA
Found at i:14118967 original size:13 final size:13
Alignment explanation
Indices: 14118949--14119011 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
14118939 TTGACAATGA
14118949 TTTTAAAAAGTAT
1 TTTTAAAAAGTAT
*
14118962 TTTTAAAAAATAT
1 TTTTAAAAAGTAT
* * *
14118975 TGTGAAAAAATACT
1 TTTTAAAAAGTA-T
*
14118989 TTTT-AGAAGTAT
1 TTTTAAAAAGTAT
14119001 TTTTAAAAAGT
1 TTTTAAAAAGT
14119012 TTAGTTTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 5 0.12
13 32 0.80
14 3 0.08
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.43
Consensus pattern (13 bp):
TTTTAAAAAGTAT
Found at i:14119606 original size:18 final size:18
Alignment explanation
Indices: 14119557--14119600 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
14119547 AGCTTTTCTT
14119557 CCAGAAGTACTTTTGGAG
1 CCAGAAGTACTTTTGGAG
14119575 CCAGAAGTACTTTTGGAG
1 CCAGAAGTACTTTTGGAG
14119593 CCAGAAGT
1 CCAGAAGT
14119601 GTTTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (18 bp):
CCAGAAGTACTTTTGGAG
Found at i:14120893 original size:25 final size:27
Alignment explanation
Indices: 14120856--14120908 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
14120846 TCAAACATGC
14120856 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
14120882 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
14120908 A
1 A
14120909 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:14122409 original size:32 final size:32
Alignment explanation
Indices: 14122372--14122468 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
14122362 AATGCTTATC
*
14122372 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATTCATTAACTATTAAAATGCTA
14122404 ATGCCCATCATTCATTAACTATTAAAATGCTA
1 ATGCCCATCATTCATTAACTATTAAAATGCTA
14122436 ATGCCCATCATTCATTAACTATTAAAATGCTA
1 ATGCCCATCATTCATTAACTATTAAAATGCTA
14122468 A
1 A
14122469 AATGCATACA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (32 bp):
ATGCCCATCATTCATTAACTATTAAAATGCTA
Found at i:14123627 original size:19 final size:20
Alignment explanation
Indices: 14123580--14123627 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
14123570 TAAATGATAT
14123580 AATTTTTTATAAAATATACA
1 AATTTTTTATAAAATATACA
* *
14123600 AATTATTTTATAATATA-AGA
1 AATT-TTTTATAAAATATACA
14123620 AATTTTTT
1 AATTTTTT
14123628 TGTTATAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 10 0.40
21 11 0.44
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTTTTTATAAAATATACA
Found at i:14125317 original size:27 final size:28
Alignment explanation
Indices: 14125280--14125419 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
14125270 AGCATGGCTG
* *
14125280 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
14125306 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
14125334 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
14125361 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
14125388 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
14125415 CCAGA
1 CCAGA
14125420 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:14125551 original size:26 final size:27
Alignment explanation
Indices: 14125522--14125597 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
14125512 CAAAATTAAC
*
14125522 CCTAGGGGTATAATGGTAATTTT-ACA
1 CCTAGGGGTATAATAGTAATTTTCACA
* *
14125548 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTT-CACA
* *
14125576 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
14125598 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 21 0.50
28 21 0.50
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCACA
Found at i:14125586 original size:28 final size:26
Alignment explanation
Indices: 14125524--14125597 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
14125514 AAATTAACCC
* *
14125524 TAGGGGTATAATGGTAATTTTACACC
1 TAGGGGTATAATAGTAATTTTACACA
* *
14125550 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTT--ACACA
*
14125578 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
14125598 AGCTACTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 19 0.47
28 21 0.52
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTACACA
Found at i:14127076 original size:26 final size:26
Alignment explanation
Indices: 14127040--14127175 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
14127030 CATGAAATTC
* *
14127040 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
* *
14127066 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
14127092 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
14127118 TTATCATGGAACATTTGCCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
14127144 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
14127170 TTATCA
1 TTATCA
14127176 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:14128101 original size:30 final size:29
Alignment explanation
Indices: 14128058--14128140 Score: 76
Period size: 30 Copynumber: 2.8 Consensus size: 29
14128048 AAATTTTTAG
* *
14128058 AATTAAAAATAAATTGATAGAATATGCAA
1 AATTGAAACTAAATTGATAGAATATGCAA
* * * **
14128087 AATTGAAACTTAAATTTATTGAATTTTTTAA
1 AATTGAAAC-TAAATTGATAGAA-TATGCAA
*
14128118 ATTTGAAACTAAATTGATAGAAT
1 AATTGAAACTAAATTGATAGAAT
14128141 CTATAAATAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 8 0.19
30 22 0.52
31 12 0.29
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (29 bp):
AATTGAAACTAAATTGATAGAATATGCAA
Found at i:14129632 original size:54 final size:54
Alignment explanation
Indices: 14129531--14129651 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 54
14129521 ACTTTTTTAG
* * * * * * * *
14129531 ATTTTGAGTCACACGGATGTGTGTTTGGCCGTATGTTAGACCATGTAATTCTCT
1 ATTTTGAGTCACACAGACGTGTGCTTAGCCATATGCTAGACCATGTAACTCTCC
* * *
14129585 ATTTTGAGTCACACAGACGTGTGCTTAGCCATGTGCTAGATCGTGTAACTCTCC
1 ATTTTGAGTCACACAGACGTGTGCTTAGCCATATGCTAGACCATGTAACTCTCC
*
14129639 GTTTTGAGTCACA
1 ATTTTGAGTCACA
14129652 TGGGCGTGTA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (54 bp):
ATTTTGAGTCACACAGACGTGTGCTTAGCCATATGCTAGACCATGTAACTCTCC
Found at i:14136033 original size:12 final size:13
Alignment explanation
Indices: 14136005--14136034 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14135995 TTTAAACTTC
*
14136005 AAAAATTGAACTA
1 AAAAACTGAACTA
14136018 AAAAACTGAACTA
1 AAAAACTGAACTA
14136031 AAAA
1 AAAA
14136035 GGTGTGACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (13 bp):
AAAAACTGAACTA
Found at i:14137655 original size:2 final size:2
Alignment explanation
Indices: 14137650--14137691 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
14137640 ATATATGAAG
14137650 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14137692 GCATGTGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14138577 original size:3 final size:3
Alignment explanation
Indices: 14138495--14138562 Score: 82
Period size: 3 Copynumber: 22.7 Consensus size: 3
14138485 ATGATAGTAA
* * *
14138495 AAT ACT AAT ACT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
14138543 AAT GAT GAT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
14138563 AAAATAGAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14140069 original size:9 final size:9
Alignment explanation
Indices: 14139803--14140069 Score: 120
Period size: 9 Copynumber: 28.6 Consensus size: 9
14139793 ATTTTTTCTA
*
14139803 AAAAATGAT
1 AAAAATTAT
14139812 AAAAA--AT
1 AAAAATTAT
14139819 AAAAA-TAT
1 AAAAATTAT
*
14139827 CAAAAAGTAT
1 -AAAAATTAT
14139837 AAAAATTATT
1 AAAAATTA-T
* * *
14139847 AGATATTAA
1 AAAAATTAT
*
14139856 AAAAAAT-T
1 AAAAATTAT
14139864 AAAAATTAT
1 AAAAATTAT
*
14139873 GAAAATTGAT
1 AAAAATT-AT
*
14139883 ATAAAGTTAT
1 A-AAAATTAT
*
14139893 AAAAATTCT
1 AAAAATTAT
14139902 AATAAATTAT
1 AA-AAATTAT
**
14139912 AAATTTTAT
1 AAAAATTAT
*
14139921 AAAAAAATTCT
1 --AAAAATTAT
*
14139932 AATAAATTTT
1 AA-AAATTAT
14139942 AATAAATTAT
1 AA-AAATTAT
14139952 -AAAATTAAT
1 AAAAATT-AT
*
14139961 AACAAATATTTT
1 -A-AAA-ATTAT
* *
14139973 AAATATTGT
1 AAAAATTAT
*
14139982 AAAATTTTAT
1 AAAA-ATTAT
14139992 AAAAACTTATT
1 AAAAA-TTA-T
*
14140003 AAAATTTAT
1 AAAAATTAT
14140012 ATAAAA--AT
1 A-AAAATTAT
14140020 AAAAA--AT
1 AAAAATTAT
14140027 AAAAATTAT
1 AAAAATTAT
*
14140036 TAAAATTGAT
1 AAAAATT-AT
*
14140046 ATAAACTTAT
1 A-AAAATTAT
14140056 AAAAATTAT
1 AAAAATTAT
14140065 AAAAA
1 AAAAA
14140070 AAATCATAAA
Statistics
Matches: 199, Mismatches: 35, Indels: 48
0.71 0.12 0.17
Matches are distributed among these distances:
7 18 0.09
8 16 0.08
9 75 0.38
10 61 0.31
11 22 0.11
12 4 0.02
13 3 0.02
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:14140529 original size:20 final size:20
Alignment explanation
Indices: 14140483--14140530 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
14140473 TTATGGTTTT
* * *
14140483 TTTTTATAATTTTTATAACTC
1 TTTTT-TAATTTTAATAAATA
*
14140504 TATTTTAATTTTAATAAATA
1 TTTTTTAATTTTAATAAATA
14140524 TTTTTTA
1 TTTTTTA
14140531 TAATTTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTTAATTTTAATAAATA
Found at i:14142722 original size:33 final size:33
Alignment explanation
Indices: 14142685--14142797 Score: 113
Period size: 32 Copynumber: 3.5 Consensus size: 33
14142675 TACCCAAATG
14142685 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
* * *
14142718 GTAC-ACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
* * * * ***
14142750 GTACCACTTGGAAAGG-AATGTACACCTCAAGT
1 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
*
14142782 GTACAACTAGAAAAGG
1 GTACAACTTGAAAAGG
14142798 AAAGGTCCAT
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
32 51 0.77
33 15 0.23
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTTATGTACACTTTGTGT
Found at i:14142732 original size:32 final size:32
Alignment explanation
Indices: 14142685--14142774 Score: 119
Period size: 32 Copynumber: 2.8 Consensus size: 32
14142675 TACCCAAATG
*
14142685 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTAC-ACTTGGAAAGGTTATGTACACTTTGTGT
* *
14142718 GTACACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACACTTGGAAAGGTTATGTACACTTTGTGT
*
14142750 GTACCACTTGGAAAGG-AATGTACAC
1 GTA-CACTTGGAAAGGTTATGTACAC
14142775 CTCAAGTGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
32 34 0.68
33 16 0.32
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.32
Consensus pattern (32 bp):
GTACACTTGGAAAGGTTATGTACACTTTGTGT
Found at i:14143595 original size:10 final size:11
Alignment explanation
Indices: 14143556--14143597 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
14143546 GCATGGTCGT
* *
14143556 GTGTCAAAATC
1 GTGTAAAAATG
14143567 GTGTAAAAATG
1 GTGTAAAAATG
*
14143578 GCGTAAAAATG
1 GTGTAAAAATG
14143589 GTG-AAAAAT
1 GTGTAAAAAT
14143598 TAGTTTACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 6 0.22
11 21 0.78
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.24
Consensus pattern (11 bp):
GTGTAAAAATG
Found at i:14147466 original size:8 final size:7
Alignment explanation
Indices: 14147438--14147464 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14147428 AAATATAAGT
14147438 TTTTTTA
1 TTTTTTA
14147445 TTTTTTA
1 TTTTTTA
14147452 TTTTTTA
1 TTTTTTA
14147459 TTTTTT
1 TTTTTT
14147465 TAAGAACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:14154571 original size:31 final size:31
Alignment explanation
Indices: 14154533--14154596 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
14154523 CTTTTTCATA
*
14154533 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
14154564 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
14154595 TT
1 TT
14154597 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:14154832 original size:25 final size:24
Alignment explanation
Indices: 14154804--14154932 Score: 165
Period size: 23 Copynumber: 5.4 Consensus size: 24
14154794 CTGGAGGCCT
*
14154804 AGCCTCTTTTAGTAACTGGGGCAAA
1 AGCC-CTTTTAGTAACTGGGGCATA
*
14154829 AGCCCTTTTTTGTAACTGGGGCATA
1 AGCCC-TTTTAGTAACTGGGGCATA
*
14154854 AGCCCTTTT-GATCACTGGGGCATA
1 AGCCCTTTTAG-TAACTGGGGCATA
*
14154878 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAGTAACTGGGGCATA
*
14154901 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAGTAACTGGGGCATA
14154924 AGCCCTTTT
1 AGCCCTTTT
14154933 GCACTTCCTC
Statistics
Matches: 95, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
23 44 0.46
24 25 0.26
25 26 0.27
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAGTAACTGGGGCATA
Found at i:14155008 original size:20 final size:20
Alignment explanation
Indices: 14154985--14155028 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
14154975 TGTACACCTA
14154985 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
14155005 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
14155025 ATGT
1 ATGT
14155029 TTATCAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTGCATATCATACATATC
Found at i:14156383 original size:27 final size:27
Alignment explanation
Indices: 14156354--14156610 Score: 340
Period size: 27 Copynumber: 9.6 Consensus size: 27
14156344 GGGTATTTTA
* * *
14156354 GTAATTTTGTAAATCGAGTGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
14156381 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
14156408 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
14156435 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
14156462 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
14156489 ATAATTATGTAAATCG-GGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
14156515 GTAATTATGTAAATTG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
14156541 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
14156568 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
14156595 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
14156611 GGAGTACTTT
Statistics
Matches: 203, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
26 47 0.23
27 155 0.76
28 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:14156660 original size:133 final size:133
Alignment explanation
Indices: 14156355--14156610 Score: 352
Period size: 133 Copynumber: 1.9 Consensus size: 133
14156345 GGTATTTTAG
* * * ** **
14156355 TAATTTTGTAAATCGAGTGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
1 TAATTATGTAAATCG-GGGTAAAATAGTAATTAGGTAAAT-TGGGGTAAAACAGTAATTCTATAA
* * *
14156420 ATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAA
64 ATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
14156485 AACGA
129 AACGA
* * * *
14156490 TAATTATGTAAATCGGGGTAAAATGGTAATTATGTAAATTGGGGTAAAACGGTAATTCTGTAAAT
1 TAATTATGTAAATCGGGGTAAAATAGTAATTAGGTAAATTGGGGTAAAACAGTAATTCTATAAAT
14156555 CGAGGGTAAAATAGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
66 CGAGGGTAAAATAGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
14156611 GGAGTACTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
132 1 0.01
133 73 0.68
134 20 0.19
135 14 0.13
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (133 bp):
TAATTATGTAAATCGGGGTAAAATAGTAATTAGGTAAATTGGGGTAAAACAGTAATTCTATAAAT
CGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
CGA
Found at i:14156879 original size:20 final size:18
Alignment explanation
Indices: 14156838--14156880 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
14156828 TGGGCCCGTA
*
14156838 GGCCCATTGGGCCCACAT
1 GGCCCATTGGGCCCACAC
*
14156856 GGCCCATTTTGGCCCATCAC
1 GGCCCA-TTGGGCCCA-CAC
14156876 GGCCC
1 GGCCC
14156881 GAAGTAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 8 0.38
20 7 0.33
ACGTcount: A:0.14, C:0.42, G:0.26, T:0.19
Consensus pattern (18 bp):
GGCCCATTGGGCCCACAC
Found at i:14157825 original size:2 final size:2
Alignment explanation
Indices: 14157818--14157854 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14157808 GGTTCATGAG
14157818 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14157855 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14164114 original size:28 final size:28
Alignment explanation
Indices: 14164068--14164136 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
14164058 TTTAAAACCC
*
14164068 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
14164095 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
14164123 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
14164137 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:14165785 original size:20 final size:20
Alignment explanation
Indices: 14165762--14165799 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14165752 CACATCCAAA
*
14165762 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
14165782 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
14165800 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:14172105 original size:28 final size:28
Alignment explanation
Indices: 14172059--14172127 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
14172049 TTTAAAACCC
*
14172059 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
14172086 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
14172114 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
14172128 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:14173774 original size:20 final size:20
Alignment explanation
Indices: 14173751--14173788 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14173741 CACATCCAAA
*
14173751 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
14173771 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
14173789 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:14182653 original size:18 final size:18
Alignment explanation
Indices: 14182622--14182659 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14182612 AGCATGCATA
*
14182622 TAATAGTATCAATATTAG
1 TAATAGTATCAATAATAG
14182640 TAATAAGTAT-AATAATAG
1 TAAT-AGTATCAATAATAG
14182658 TA
1 TA
14182660 TTGAAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (18 bp):
TAATAGTATCAATAATAG
Found at i:14187354 original size:23 final size:21
Alignment explanation
Indices: 14187324--14187381 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 21
14187314 TAAAGTGAAA
14187324 TATTGATATATGTTAAAGAGT
1 TATTGATATATGTTAAAGAGT
** *
14187345 TATTAAGATATAAATTAAAGATT
1 TATT--GATATATGTTAAAGAGT
14187368 TATTGATATATGTT
1 TATTGATATATGTT
14187382 CAATCTGGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 12 0.40
23 18 0.60
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (21 bp):
TATTGATATATGTTAAAGAGT
Found at i:14190570 original size:2 final size:2
Alignment explanation
Indices: 14190565--14190598 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14190555 TTTTTTTACA
14190565 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14190599 TACTACAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14191804 original size:5 final size:6
Alignment explanation
Indices: 14191791--14191831 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
14191781 ATAATTTAAT
*
14191791 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
14191832 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:14191819 original size:20 final size:21
Alignment explanation
Indices: 14191783--14191826 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
14191773 AATTACAAAT
14191783 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
*
14191804 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
14191824 AAT
1 AAT
14191827 AAAAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:14191832 original size:20 final size:20
Alignment explanation
Indices: 14191794--14191833 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14191784 ATTTAATAAA
**
14191794 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
14191814 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
14191834 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:14191874 original size:18 final size:17
Alignment explanation
Indices: 14191851--14191919 Score: 93
Period size: 18 Copynumber: 3.9 Consensus size: 17
14191841 TTTATACAAA
14191851 TAATTCGGTTAATTTAGG
1 TAATTCGGTTAATTT-GG
* *
14191869 TAATTCGGGTAATTCGGG
1 TAATTCGGTTAATT-TGG
14191887 TAATTCGGTTAATTTGG
1 TAATTCGGTTAATTTGG
14191904 TTAATTCGGTTAATTT
1 -TAATTCGGTTAATTT
14191920 TATACTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.04
18 43 0.96
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.45
Consensus pattern (17 bp):
TAATTCGGTTAATTTGG
Found at i:14191879 original size:9 final size:9
Alignment explanation
Indices: 14191851--14191918 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
14191841 TTTATACAAA
14191851 TAATTCGGT
1 TAATTCGGT
*
14191860 TAATTTAGG-
1 TAA-TTCGGT
*
14191869 TAATTCGGG
1 TAATTCGGT
*
14191878 TAATTCGGG
1 TAATTCGGT
14191887 TAATTCGGT
1 TAATTCGGT
*
14191896 TAATTTGGT
1 TAATTCGGT
14191905 TAATTCGGT
1 TAATTCGGT
14191914 TAATT
1 TAATT
14191919 TTATACTTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
8 4 0.08
9 44 0.85
10 4 0.08
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:14192083 original size:21 final size:21
Alignment explanation
Indices: 14192053--14192093 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14192043 TGGTAAGAGC
14192053 GAAGCCAAAAAAAAATTTTAG
1 GAAGCCAAAAAAAAATTTTAG
* **
14192074 GAAGCGAAAATGAAATTTTA
1 GAAGCCAAAAAAAAATTTTA
14192094 ATTTTTAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.07, G:0.17, T:0.22
Consensus pattern (21 bp):
GAAGCCAAAAAAAAATTTTAG
Found at i:14195286 original size:18 final size:19
Alignment explanation
Indices: 14195251--14195296 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
14195241 CAACTCTCTC
14195251 ATTTTTATTTCACTTATTT
1 ATTTTTATTTCACTTATTT
14195270 ATTTTTATTT-A-TCTATTT
1 ATTTTTATTTCACT-TATTT
*
14195288 ATTATTATT
1 ATTTTTATT
14195297 ATTTCTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 14 0.56
19 10 0.40
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTATTTCACTTATTT
Found at i:14196137 original size:20 final size:20
Alignment explanation
Indices: 14196112--14196152 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14196102 CTTTTATTAC
14196112 TCCGTTTTATCTAGTTTTGG
1 TCCGTTTTATCTAGTTTTGG
14196132 TCCGTTTTATCTAGTTTTGG
1 TCCGTTTTATCTAGTTTTGG
14196152 T
1 T
14196153 TCCTTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.56
Consensus pattern (20 bp):
TCCGTTTTATCTAGTTTTGG
Found at i:14197169 original size:75 final size:75
Alignment explanation
Indices: 14197090--14197228 Score: 226
Period size: 75 Copynumber: 1.9 Consensus size: 75
14197080 AAAAGGATTG
* *
14197090 TTGGCGACTCC-CATGTTCATTTTCATTTTCAAAACCAAAGTTGATCCCCGTTTTCAAAAAAATG
1 TTGGCGACTCCAC-TGTTCATTTTCATTTTCAAAACCAAAGTCGATCCCCATTTTCAAAAAAATG
14197154 GCTTCGATAGC
65 GCTTCGATAGC
* *
14197165 TTGGCGACTCCACTGTTCGTTTTCATTTTCAAAATCAAAGTCGATCCCCATTTTCAAAAAAATG
1 TTGGCGACTCCACTGTTCATTTTCATTTTCAAAACCAAAGTCGATCCCCATTTTCAAAAAAATG
14197229 CTTTTGACCA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
75 58 0.98
76 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (75 bp):
TTGGCGACTCCACTGTTCATTTTCATTTTCAAAACCAAAGTCGATCCCCATTTTCAAAAAAATGG
CTTCGATAGC
Found at i:14197271 original size:62 final size:62
Alignment explanation
Indices: 14197174--14197290 Score: 207
Period size: 62 Copynumber: 1.9 Consensus size: 62
14197164 CTTGGCGACT
*
14197174 CCACTGTTCGTTTTCATTTTCAAAATCAAAGTCGATCCCCATTTTCAAAAAAATGCTTTTGA
1 CCACTGTTCGTTTTCATTTTCAAAACCAAAGTCGATCCCCATTTTCAAAAAAATGCTTTTGA
**
14197236 CCACTGTTCGTTTTCATTTTCAAAACCAAAGTCGATCCCTGTTTTCAAAAAAATG
1 CCACTGTTCGTTTTCATTTTCAAAACCAAAGTCGATCCCCATTTTCAAAAAAATG
14197291 GTTTCGACAG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (62 bp):
CCACTGTTCGTTTTCATTTTCAAAACCAAAGTCGATCCCCATTTTCAAAAAAATGCTTTTGA
Found at i:14198997 original size:3 final size:3
Alignment explanation
Indices: 14198989--14199025 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14198979 TTGCTACATA
14198989 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14199026 GAACATATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14199638 original size:27 final size:28
Alignment explanation
Indices: 14199584--14199647 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
14199574 TGATTTTTTA
* *
14199584 ACATATT-GTTTATTTGAAATTTGCTTT
1 ACATATTATTTTATTTCAAATTTGCTTT
* *
14199611 ATATATTATTTTATTTCAAA-TTGTTTT
1 ACATATTATTTTATTTCAAATTTGCTTT
*
14199638 ACATTTTATT
1 ACATATTATT
14199648 CATGTTAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.59
Consensus pattern (28 bp):
ACATATTATTTTATTTCAAATTTGCTTT
Found at i:14202981 original size:20 final size:21
Alignment explanation
Indices: 14202935--14202983 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
14202925 CTCTCTCTTA
*
14202935 ATAAAAATTATAAAATAATTT
1 ATAAAAATTAAAAAATAATTT
*
14202956 -TTAAAATTAAAAAAT-ATTT
1 ATAAAAATTAAAAAATAATTT
14202975 ATAAAAATT
1 ATAAAAATT
14202984 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAAAAATTAAAAAATAATTT
Found at i:14202989 original size:20 final size:20
Alignment explanation
Indices: 14202935--14203042 Score: 62
Period size: 20 Copynumber: 5.2 Consensus size: 20
14202925 CTCTCTCTTA
14202935 ATAAAAATTAT-AAAATAATTT
1 ATAAAAATT-TCAAAAT-ATTT
* **
14202956 -TTAAAATTAAAAAATATTT
1 ATAAAAATTTCAAAATATTT
14202975 ATAAAAATTTCAAAATTTATATT
1 ATAAAAATTTCAAAA--TAT-TT
*
14202998 TTAAAAA-TTCTAAAAT-TTT
1 ATAAAAATTTC-AAAATATTT
* * *
14203017 TTAAAAAATTTCTAAATATAT
1 AT-AAAAATTTCAAAATATTT
14203038 ATAAA
1 ATAAA
14203043 GAAATTTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
19 8 0.12
20 36 0.52
21 7 0.10
22 6 0.09
23 12 0.17
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAAAATTTCAAAATATTT
Found at i:14203138 original size:3 final size:3
Alignment explanation
Indices: 14203130--14203160 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
14203120 CATACTAAAA
*
14203130 TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14203161 TTTTTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:14208208 original size:16 final size:16
Alignment explanation
Indices: 14208187--14208241 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
14208177 CATTAAGCCC
14208187 CCCCAAAAAAACCTAA
1 CCCCAAAAAAACCTAA
14208203 CCCCAAAAAAA---AA
1 CCCCAAAAAAACCTAA
***
14208216 -GAAAAAAAAACCTAA
1 CCCCAAAAAAACCTAA
14208231 CCCCAAAAAAA
1 CCCCAAAAAAA
14208242 AACCAAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
12 7 0.24
13 2 0.07
15 2 0.07
16 18 0.62
ACGTcount: A:0.65, C:0.29, G:0.02, T:0.04
Consensus pattern (16 bp):
CCCCAAAAAAACCTAA
Found at i:14208249 original size:27 final size:28
Alignment explanation
Indices: 14208189--14208256 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
14208179 TTAAGCCCCC
14208189 CCAAAAAAACCTAACCCCAAAAAAAAAG
1 CCAAAAAAACCTAACCCCAAAAAAAAAG
**
14208217 AAAAAAAAACCTAACCCCAAAAAAAAA-
1 CCAAAAAAACCTAACCCCAAAAAAAAAG
*
14208244 CCAAAAAACCCTA
1 CCAAAAAAACCTA
14208257 GCCACCTAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 10 0.29
28 25 0.71
ACGTcount: A:0.66, C:0.28, G:0.01, T:0.04
Consensus pattern (28 bp):
CCAAAAAAACCTAACCCCAAAAAAAAAG
Found at i:14208249 original size:28 final size:28
Alignment explanation
Indices: 14208191--14208251 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
14208181 AAGCCCCCCC
*
14208191 AAAAAAACCTAACCCCAAAAAAAAAGAA
1 AAAAAAACCTAACCCCAAAAAAAAACAA
*
14208219 AAAAAAACCTAACCCCAAAAAAAAACCA
1 AAAAAAACCTAACCCCAAAAAAAAACAA
14208247 AAAAA
1 AAAAA
14208252 CCCTAGCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.72, C:0.23, G:0.02, T:0.03
Consensus pattern (28 bp):
AAAAAAACCTAACCCCAAAAAAAAACAA
Found at i:14208724 original size:11 final size:11
Alignment explanation
Indices: 14208710--14208752 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
14208700 TCTCCCTCCC
14208710 TTCTCTCTTCT
1 TTCTCTCTTCT
*
14208721 TTCTCCCTTCT
1 TTCTCTCTTCT
* * *
14208732 TTTTTTTTTCT
1 TTCTCTCTTCT
14208743 TTCTCTCTTC
1 TTCTCTCTTC
14208753 AAAATGATTT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (11 bp):
TTCTCTCTTCT
Found at i:14209725 original size:27 final size:26
Alignment explanation
Indices: 14209688--14209828 Score: 149
Period size: 27 Copynumber: 5.3 Consensus size: 26
14209678 AACATGGCTG
* *
14209688 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
14209714 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
14209742 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
14209769 CCAGGTCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
14209796 CTAG-ATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
14209822 CCAGAAC
1 CCAGAAC
14209829 GCTTCCTCCA
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.27
27 56 0.56
28 17 0.17
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:14209822 original size:53 final size:55
Alignment explanation
Indices: 14209688--14209826 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 55
14209678 AACATGGCTG
* *
14209688 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
14209742 CCAGAACAGATATATGTGGCAGAGCCACCAGGT-CAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
14209796 CTAG-ATAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
14209827 ACGCTTCCTC
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
53 23 0.31
54 34 0.46
55 17 0.23
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (55 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:14211482 original size:26 final size:26
Alignment explanation
Indices: 14211433--14211541 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
14211423 CATGAAATTC
14211433 TTATCATGAAACA-TTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14211458 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14211484 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
14211510 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
14211536 TTATCA
1 TTATCA
14211542 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
25 13 0.16
26 65 0.81
27 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14214825 original size:72 final size:71
Alignment explanation
Indices: 14214725--14214868 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 71
14214715 CTTTTCAAGG
** * *
14214725 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCT
14214790 GGTTTTC
66 -GTTTTC
* *
14214797 AAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTC
14214861 TGTTTTC
65 TGTTTTC
14214868 A
1 A
14214869 TTATTATGCT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 8 0.12
72 57 0.88
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCT
GTTTTC
Found at i:14214897 original size:160 final size:160
Alignment explanation
Indices: 14214725--14216490 Score: 460
Period size: 165 Copynumber: 11.2 Consensus size: 160
14214715 CTTTTCAAGG
* *
14214725 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTT
* * *
14214790 G-GTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTT
66 GTGTTTT-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGACGAGGTAATTT
14214854 CAATTTCTGTTTTCATTATTATGCTTTTGAA
130 CAATTTCTGTTTTCATTATTATGCTTTTGAA
* * ** *
14214885 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTT
** * *
14214950 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTC
66 GTGTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGACGAGGTAATTTC
14215015 AATTTCTGTTTGTC---A--A-------G--
131 AATTTCTGTTT-TCATTATTATGCTTTTGAA
* * ** *
14215032 --AATCAACTCATATTGCGAGAGGTGGGTTGA----------AC-CT--TTTAATTTC--TGTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAAT-TTT
***** * * *
14215080 T-TCAAAAAAAATCGACTCATATTGCGA-AAGGTGAGTTGAGCCT-TGGCTCACACG-CTGAGCT
65 TGTGTTTTAAAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCTCAGG---ACACGAC-GAGGT
* *
14215141 ATTTTCAATTTCTG---TC----TT-T-C----AAA
125 AATTTCAATTTCTGTTTTCATTATTATGCTTTTGAA
* * * * *
14215164 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTT
*** * * * *
14215229 GTTGTCAAAAAATCAACTCGTATTGCGAGAGGCT-AGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 G-TGTTTTAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAGG--ACACGACGAGGTAA
* *
14215293 TTTCAATTTCTGCCTTTCA--A--A-------AAA
127 TTTCAATTTCTG-TTTTCATTATTATGCTTTTGAA
* * * * *
14215317 AAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTT
*** * * * *
14215382 GTTGTCAAAAAAAATTAACTCGTATTGCGAG-CGATGAGTTGAGCCTCAGGTCACACGCCGAGGT
66 G-TGT--TTTAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAGG--ACACGACGAGGT
* * * * **
14215446 ATTTTCAATTTCCGTTTTTTCAAT-TTCTGCCTTTCAAAAA
125 AATTTCAATTT-C-TGTTTTCATTATTATG-CTTT--TGAA
* * ** * *
14215486 AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCC-T--CAAGACACGCTGAGGTATTTTCAATT
* * * *
14215550 TCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG-CTGAGG
63 TTTGTGTTT---TAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGAC-GAGG
*
14215614 TAATTTCAATTTCTGTTGTC------A--------AA
124 TAATTTCAATTTCTGTTTTCATTATTATGCTTTTGAA
* * * *
14215637 AAAATCAACTCGTATTGCGAGCAG-CGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATT
** * ** * * * *** * * * **
14215701 TCCGT-TTTT-CAAT-TTCTGCCT-TT-CAAAAAAAAAATCGA--CTCA-TATTGCGA-GAGGTG
63 TTTGTGTTTTAAAATCAACT-CATATTGCGAGAAGTGAGTTGAGCCTCAGGA-CACGACGAGGT-
** * * * **
14215757 AGTTGAGCCTTGGCTCACGAGCTGAGCTATTTTCAAT-TTCTGTCTTTCAAA
125 A----A---TT---TCA--A--T-TTCTGTTTTCATTATTATG-CTTTTGAA
* *
14215808 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTT
*** * * * * * *
14215872 TGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTA
65 TG-TGT-TTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG--ACACGACGAGGTA
* * * * **
14215937 TTTTCAATTTCCGTTTTTCAAT-TTCTGCCTTTCAAA
126 ATTTCAATTTCTG-TTTTCATTATTATG-CTTTTGAA
* * * *
14215973 AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTT
*** *
14216038 GTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG-CTGAGGTAAT
66 G-TGT-TTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGAC-GAGGTAAT
*
14216102 TTCAATTTCTGTTGTC------A--------AA
128 TTCAATTTCTGTTTTCATTATTATGCTTTTGAA
* ** * *
14216121 AAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAA---
* * *
14216186 CCGTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
61 ------TT---TTTGTG--TTT---TAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
* **
14216251 GACACG-CTGAGGTAATTTCAATTTCTGTTGTCA--A--A------AAAA
112 GACACGAC-GAGGTAATTTCAATTTCTGTTTTCATTATTATGCTTTTGAA
* * * * * *
14216290 AAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTT
*** * * * *
14216355 GTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACG-CTGAGGTA
66 G-TGT-TTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG--ACACGAC-GAGGTA
* * * * **
14216419 TTTTCAATTTCGGTTTTTCAAT-TTCTGTCTTTCAAAAA
126 ATTTCAATTTCTG-TTTTCATTATTATG-CTTT--TGAA
*
14216457 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGC
14216491 TTCAGATCAC
Statistics
Matches: 1268, Mismatches: 171, Indels: 327
0.72 0.10 0.19
Matches are distributed among these distances:
128 2 0.00
129 3 0.00
130 32 0.03
131 4 0.00
132 28 0.02
134 31 0.02
135 2 0.00
141 6 0.00
142 7 0.01
144 9 0.01
145 34 0.03
146 6 0.00
147 7 0.01
148 42 0.03
149 4 0.00
150 79 0.06
151 59 0.05
152 43 0.03
153 71 0.06
154 30 0.02
155 68 0.05
156 10 0.01
157 7 0.01
158 3 0.00
159 2 0.00
160 121 0.10
161 9 0.01
162 7 0.01
163 22 0.02
164 5 0.00
165 196 0.15
167 62 0.05
168 2 0.00
169 116 0.09
170 11 0.01
171 97 0.08
172 4 0.00
173 5 0.00
174 4 0.00
175 6 0.00
177 4 0.00
179 3 0.00
180 5 0.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (160 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTT
GTGTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGACGAGGTAATTTC
AATTTCTGTTTTCATTATTATGCTTTTGAA
Found at i:14215007 original size:72 final size:73
Alignment explanation
Indices: 14214887--14215462 Score: 354
Period size: 75 Copynumber: 7.9 Consensus size: 73
14214877 CTTTTGAAAA
* * * * * *
14214887 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
*
14214952 GTT-TTAA-
66 -TTGTCAAG
**
14214959 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
14215024 TTGTCAAG
66 TTGTCAAG
* * *** * *** *
14215032 AATCAACTCATATTGCGAGAGGTGGGTTGAACCT-TTTA-A--TTTCTGT-TTTTCAA-------
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
* *
14215085 A----AAA
66 TTGTCAAG
* * * * * *
14215089 AATCGACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGCTATTTTCAATTTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGATGAGGTAATTTCAATTTC
*
14215153 TGTCTT-TCAAAAA
63 TGT-TTGTC--AAG
* *
14215166 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTCTG-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
*
14215230 TTGTCAAAA
66 TTGTC-AAG
* ** *
14215239 AATCAACTCGTATTGCGAGAGGCT-AGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTC
1 AATCAACTCATATTGCGAGAGG-TGAGTTGAGCCTCAGG--ACACGATGAGGTAATTTCAATTTC
* *
14215303 TGCCTT-TCAAAAAAAA
63 TG-TTTGTC-----AAG
* *
14215319 AATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
*
14215383 TTGTCAAAAAA
66 TTGTC---AAG
* * * * ** * *
14215394 AATTAACTCGTATTGCGAGCGATGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGATGAGGTAATTTCAATTTCT
14215459 GTTT
64 GTTT
14215463 TTTCAATTTC
Statistics
Matches: 409, Mismatches: 57, Indels: 70
0.76 0.11 0.13
Matches are distributed among these distances:
57 33 0.08
60 1 0.00
61 1 0.00
63 2 0.00
64 7 0.02
68 6 0.01
69 3 0.01
71 3 0.01
72 61 0.15
73 71 0.17
74 3 0.01
75 85 0.21
76 4 0.01
77 62 0.15
78 28 0.07
79 1 0.00
80 38 0.09
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (73 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
TTGTCAAG
Found at i:14215230 original size:75 final size:76
Alignment explanation
Indices: 14215065--14215463 Score: 481
Period size: 75 Copynumber: 5.2 Consensus size: 76
14215055 GGGTTGAACC
* * *
14215065 TTTT-AATTTCTGTTTTTCAAAAAAAATCGACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCT
1 TTTTCAATTTCTG-TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
*
14215128 CACACGCTGAGCTA
63 CACACGCTGAGGTA
14215142 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTTCAATTTCTGT-TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCA
*
14215205 TACGCTGAGGTA
65 CACGCTGAGGTA
* * *
14215217 ATTTCAATTTCTGTTGTC--AAAAAATCAACTCGTATTGCGAGAGGCT-AGTTGAGCCTCAGGTC
1 TTTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGG-TGAGTTGAGCCTCAGG-C
*
14215279 ACACGCCGAGGTA
64 ACACGCTGAGGTA
* *
14215292 TTTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCAGG
1 TTTTCAATTTCTG-TTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
14215357 -ACACGCTGAGGTA
63 CACACGCTGAGGTA
* * * * * *
14215370 ATTTCAATTTCTGTTGTCAAAAAAAATTAACTCGTATTGCGAGCGATGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CA
*
14215435 CACGCCGAGGTA
65 CACGCTGAGGTA
*
14215447 TTTTCAATTTCCGTTTT
1 TTTTCAATTTCTGTTTT
14215464 TTCAATTTCT
Statistics
Matches: 280, Mismatches: 28, Indels: 28
0.83 0.08 0.08
Matches are distributed among these distances:
73 39 0.14
74 4 0.01
75 86 0.31
76 3 0.01
77 71 0.25
78 38 0.14
79 1 0.00
80 38 0.14
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCAC
ACGCTGAGGTA
Found at i:14215245 original size:207 final size:202
Alignment explanation
Indices: 14214883--14215260 Score: 551
Period size: 207 Copynumber: 1.8 Consensus size: 202
14214873 TATGCTTTTG
* * ** *
14214883 AAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGCTATTTTCAATTT
* * * **
14214948 TTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATT
66 CTGTCTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATT
*
14215013 TCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTGT
131 TCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTGT
14215078 TTTTCAA
196 TTTTCAA
* *
14215085 AAAAAATCGACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG--CACACGCTGAGCTATTTTCAAT
* *
14215150 TTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGG
64 TTCTGTCTTT---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGG
*
14215215 TAATTTCAATTTCTG-TTGTCAAAAAATCAACTCGTATTGCGAGAGG
126 TAATTTCAATTTCTGTTTGTC-AAAAATCAACTCATATTGCGAGAGG
14215261 CTAGTTGAGC
Statistics
Matches: 154, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
202 37 0.24
204 27 0.18
206 5 0.03
207 85 0.55
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (202 bp):
AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGCTATTTTCAATTT
CTGTCTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATT
TCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTGT
TTTTCAA
Found at i:14215543 original size:94 final size:92
Alignment explanation
Indices: 14215371--14215551 Score: 231
Period size: 94 Copynumber: 1.9 Consensus size: 92
14215361 GCTGAGGTAA
* * *
14215371 TTTCAATTTCTGTTGTCAAAAAAAATTAACTCGTATTGCGAGCGATGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCAC
*
14215436 ACGCCGAGGTATTTTCAATTTCCGTTT
66 ACGCCGAGCTATTTTCAATTTCCGTTT
* * *
14215463 TTTCAATTTCTGCCTT-TCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGC
1 TTTCAATTTCTG--TTGTC-AAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG-
* *
14215526 TCACGCGCTGAGCTATTTTCAATTTC
62 TCACACGCCGAGCTATTTTCAATTTC
14215552 TGTCTTTCAA
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
92 12 0.16
93 4 0.05
94 60 0.79
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (92 bp):
TTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCAC
ACGCCGAGCTATTTTCAATTTCCGTTT
Found at i:14215591 original size:77 final size:77
Alignment explanation
Indices: 14215462--14216439 Score: 489
Period size: 74 Copynumber: 12.3 Consensus size: 77
14215452 AATTTCCGTT
* * *
14215462 TTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGC
1 TTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
* *
14215526 TCACGCGCTGAGCTA
63 TCACACGCTGAGGTA
14215541 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
14215604 CACGCTGAGGTA
66 CACGCTGAGGTA
* * * *
14215616 ATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGCA-GCGAGTTGAGCCTCAGGTC
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAG-AGGTGAGTTGAGCCTCAGGTC
*
14215679 ACACGCCGAGGTA
65 ACACGCTGAGGTA
* * ** * * * * *
14215692 TTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAAATC-GACT-C-ATATTGCGAGAG
1 TTTTCAATTTCTGTCTTTCAA------------AAAAATCAACTCATATTGCGAGA--G-GTGAG
* * *
14215754 GTGAGTTGAGCCT-TGGCTCACGA-GCTGAGCTA
51 TTGAG-----CCTCAGG-TCAC-ACGCTGAGGTA
14215786 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
14215849 CACGCTGAGGTAA
66 CACGCTGAGGT-A
* * * * *
14215862 TTTT-AATTTTTGT-TGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
**
14215925 CACGCCAAGGTA
66 CACGCTGAGGTA
* * * * *
14215937 TTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAA--AA-TCA-ACT-C-ATATTGCGAGAG
1 TTTTCAATTTCTGTCTTTCAA------------AAAAATCAACTCATATTGCGAGA--G-GTGAG
* * * **
14215996 GTGAG-TTGAACCTCAAGACACGCTGAGGTA
51 TTGAGCCT-CAGGTC---ACACGCTGAGGTA
* *
14216026 ATTTCAATTTCTGT-TGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
14216088 CACGCTGAGGTA
66 CACGCTGAGGTA
* * * *
14216100 ATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
*
14216164 CACGCCGAGGTA
66 CACGCTGAGGTA
* * * * *
14216176 TTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAA--AA-TCA-ACT-C-ATATTGCGAGAG
1 TTTTCAATTTCTGTCTTTCAA------------AAAAATCAACTCATATTGCGAGA--G-GTGAG
* * * *
14216235 GTGAG-TTGAGCCTCAGGACACGCTGAGGTA
51 TTGAGCCTCAG-GTC---ACACGCTGAGGTA
* * * *
14216265 ATTTCAATTTCTGT-TGTCAAAAAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTTAG
1 TTTTCAATTTCTGTCTTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
14216329 G--ACACGCTGAGGTA
62 GTCACACGCTGAGGTA
* * * * *
14216343 ATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
14216407 CACGCTGAGGTA
66 CACGCTGAGGTA
* *
14216419 TTTTCAATTTCGGTTTTTCAA
1 TTTTCAATTTCTGTCTTTCAA
14216440 TTTCTGTCTT
Statistics
Matches: 698, Mismatches: 101, Indels: 202
0.70 0.10 0.20
Matches are distributed among these distances:
74 198 0.28
75 47 0.07
76 100 0.14
77 61 0.09
78 37 0.05
79 30 0.04
80 9 0.01
81 1 0.00
82 21 0.03
83 17 0.02
84 8 0.01
85 14 0.02
86 28 0.04
87 5 0.01
88 10 0.01
89 74 0.11
92 2 0.00
93 2 0.00
94 33 0.05
95 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
CACGCTGAGGTA
Found at i:14215700 original size:245 final size:244
Alignment explanation
Indices: 14215235--14216490 Score: 1968
Period size: 245 Copynumber: 5.1 Consensus size: 244
14215225 TTCTGTTGTC
* * *
14215235 AAAAAATCAACTCGTATTGCGAGAGGCT-AGTTGAGCCTCAGG-TCACACGCCGAGGTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGG-TGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCA
* *
14215298 ATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCAGGACACGC
64 ATTTCTGTCTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * **
14215363 TGAGGTAATTTCAATTTCTGTTGTCAAAAAAAATTAACTCGTATTGCGAGCGATGAGTTGAGCCT
126 TGAGGTAATTTCAATTTCTGTTGTC-AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCT
14215428 CAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTTCAATTTCTGCCTTTCAAA
190 CAGGTCACACGCCGAGGTATTTTCAATTTCCG-TTTTTCAATTTCTGCCTTTCAAA
* * *
14215484 AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAT
14215549 TTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
66 TTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
14215614 TAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCA-GCGAGTTGAGCCTCAGGT
131 TAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAG-AGGCGAGTTGAGCCTCAGGT
14215678 CACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA
195 CACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC-AAA
* *
14215729 AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGA-GCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC-ACGCTGAGGTATTTTCAA
14215793 TTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
65 TTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* * *
14215858 GTAATTTTAATTTTTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGT
130 GTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGT
*
14215923 CACACGCCAAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC--A
195 CACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
* ** *
14215971 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC-T--CAAGACACGCTGAGGTAATTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACACGCTGAGGTATTTTCAA
*
14216033 TTTCTGT-TGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
65 TTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
14216097 GTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGT
130 GTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGT
14216162 CACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC--A
195 CACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
* *
14216210 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAA
* * *
14216272 TTTCTGT-TGTCAAAAAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTTAGGACACGC
65 TTTCTGTCTTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
14216336 TGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTC
126 TGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTC
* * *
14216401 AGGTCACACGCTGAGGTATTTTCAATTTCGGTTTTTCAATTTCTGTCTTTCAAA
191 AGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
14216455 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
14216491 TTCAGATCAC
Statistics
Matches: 953, Mismatches: 36, Indels: 40
0.93 0.03 0.04
Matches are distributed among these distances:
239 234 0.25
240 23 0.02
241 1 0.00
242 36 0.04
243 159 0.17
244 21 0.02
245 339 0.36
246 73 0.08
248 3 0.00
249 64 0.07
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (244 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAT
TTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTC
ACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
Found at i:14215788 original size:94 final size:94
Alignment explanation
Indices: 14215634--14215806 Score: 226
Period size: 94 Copynumber: 1.8 Consensus size: 94
14215624 TTCTGTTGTC
* *
14215634 AAAAAAATCAACTCGTATTGCGAGCAGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGCAGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
*
14215699 TTTCCGTTTTTCAATTTCTGCCTTTCAAA
66 TTTCCGTCTTTCAATTTCTGCCTTTCAAA
* * * *
14215728 AAAAAAATCGACTCATATTGCGAG-AGGTGAGTTGAGCCT-TGGCTCACGA-GCTGAGCTATTTT
1 AAAAAAATCAACTCATATTGCGAGCA-GCGAGTTGAGCCTCAGG-TCAC-ACGCCGAGCTATTTT
*
14215790 CAATTTCTGTCTTTCAA
63 CAATTTCCGTCTTTCAA
14215807 AAAAATCAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
93 3 0.04
94 64 0.94
95 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (94 bp):
AAAAAAATCAACTCATATTGCGAGCAGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
TTTCCGTCTTTCAATTTCTGCCTTTCAAA
Found at i:14215989 original size:165 final size:160
Alignment explanation
Indices: 14215786--14216495 Score: 764
Period size: 165 Copynumber: 4.4 Consensus size: 160
14215776 AGCTGAGCTA
14215786 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * * *
14215851 CGCTGAGGTAATTTTAATTTTTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGC
65 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGC
**
14215916 CTCAGGTCACACGCCAAGGTATTTTCAATTTCCG
130 CTCAGG--ACACGCTGAGGTATTTTCAATTT-CG
* *
14215950 TTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 -TTTTCAATTTCTG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
14216015 ACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
64 ACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAG
14216080 CCTCAGGACACGCTGAGG-----T-AA-----
129 CCTCAGGACACGCTGAGGTATTTTCAATTTCG
* *
14216101 -TTTCAATTTCTG-TTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
14216164 CACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTT-TCAAAAAAATCAACTCATATT
63 CACGCTGAGG-----T-AA--------TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATT
* *
14216228 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
112 GCGAGAGGCGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC-G
* ** * *
14216278 TTGTCAA---------AAAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTTAGGACAC
1 TTTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
14216334 GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCC
66 GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCC
14216399 TCAGGTCACACGCTGAGGTATTTTCAATTTCGG
131 TCAGG--ACACGCTGAGGTATTTTCAATTTC-G
*
14216432 TTTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 -TTTTCAATTTCTG-CTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
14216496 ATCACACACT
Statistics
Matches: 465, Mismatches: 32, Indels: 94
0.79 0.05 0.16
Matches are distributed among these distances:
147 2 0.00
148 41 0.09
149 12 0.03
150 10 0.02
151 2 0.00
152 42 0.09
153 12 0.03
154 24 0.05
155 7 0.02
156 2 0.00
157 2 0.00
158 1 0.00
161 2 0.00
162 1 0.00
163 9 0.02
164 12 0.03
165 184 0.40
166 2 0.00
167 49 0.11
169 41 0.09
170 1 0.00
171 2 0.00
178 5 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (160 bp):
TTTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCC
TCAGGACACGCTGAGGTATTTTCAATTTCG
Found at i:14216393 original size:74 final size:74
Alignment explanation
Indices: 14216191--14216429 Score: 354
Period size: 78 Copynumber: 3.1 Consensus size: 74
14216181 AATTTCCGTT
*
14216191 TTTCAATTTCTGCCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGACA
14216255 CGCTGAGGTAA
64 CGCTGAGGTAA
*
14216266 TTTCAATTTCTGTTGTCAAAAAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTTAGGA
1 TTTCAATTTCTGTTGTC----AAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGA
14216331 CACGCTGAGGTAA
62 CACGCTGAGGTAA
* *
14216344 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGG--ACA
*
14216409 CGCTGAGGTAT
64 CGCTGAGGTAA
14216420 TTTCAATTTC
1 TTTCAATTTC
14216430 GGTTTTTCAA
Statistics
Matches: 151, Mismatches: 6, Indels: 13
0.89 0.04 0.08
Matches are distributed among these distances:
73 2 0.01
74 42 0.28
75 12 0.08
76 23 0.15
78 72 0.48
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (74 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAA
Found at i:14216438 original size:14 final size:14
Alignment explanation
Indices: 14216419--14216453 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14216409 CGCTGAGGTA
14216419 TTTTCAATTTCGGT
1 TTTTCAATTTCGGT
*
14216433 TTTTCAATTTCTGT
1 TTTTCAATTTCGGT
*
14216447 CTTTCAA
1 TTTTCAA
14216454 AAAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCGGT
Found at i:14216501 original size:93 final size:90
Alignment explanation
Indices: 14216344--14216515 Score: 245
Period size: 93 Copynumber: 1.9 Consensus size: 90
14216334 GCTGAGGTAA
* * *
14216344 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACA
*
14216409 CGCTGAGGTATTTTCAATTTCGGTT
66 CACTGAGGTATTTTCAATTTCGGTT
* * *
14216434 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 TTTCAATTTCTGT-TGTC--AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATC
*
14216499 ACACACTGTGGTATTTT
63 ACACACTGAGGTATTTT
14216516 TTCAATTTAT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
90 13 0.18
91 3 0.04
93 55 0.77
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (90 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACA
CACTGAGGTATTTTCAATTTCGGTT
Found at i:14217412 original size:26 final size:25
Alignment explanation
Indices: 14217354--14217417 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
14217344 CATTAAGCCC
*
14217354 CCAAAAAAA-TTAACCCAAAAAAAA
1 CCAAAAAAACCTAACCCAAAAAAAA
*
14217378 -AAAGGAAAAACCTAACCCCAAAAAAAA
1 CCAA--AAAAACCTAA-CCCAAAAAAAA
*
14217405 CCAAAAAACCCTA
1 CCAAAAAAACCTA
14217418 GCCACCTAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.06
25 5 0.16
26 11 0.35
27 11 0.35
28 2 0.06
ACGTcount: A:0.66, C:0.25, G:0.03, T:0.06
Consensus pattern (25 bp):
CCAAAAAAACCTAACCCAAAAAAAA
Found at i:14219844 original size:100 final size:100
Alignment explanation
Indices: 14219669--14219919 Score: 439
Period size: 100 Copynumber: 2.5 Consensus size: 100
14219659 ACTATAAAAT
14219669 CATTTAAGACGTGGGAAAAAAAATTAGGTACCAACTATTATTTCTTAATTAAAATTATTTCCAGG
1 CATTTAAGACGTGGG-AAAAAAATTAGGTACCAACTATTATTTCTTAATTAAAATTATTTCCAGG
* *
14219734 ATTTTAATTAAATTTATGTTAGATTACATGACTACA
65 ATTTTAATTAAAATTATATTAGATTACATGACTACA
* * *
14219770 TATTTAAGACGTGGGAAAAAAATTAGGTACCAACTATTATTTCTTTATTAAAATTATTTCTAGGA
1 CATTTAAGACGTGGGAAAAAAATTAGGTACCAACTATTATTTCTTAATTAAAATTATTTCCAGGA
*
14219835 TTTTAATTAAAATTATATTAGATTACATTACTACA
66 TTTTAATTAAAATTATATTAGATTACATGACTACA
14219870 CATTTAAGACGTGGGAAAAAAATTAGGTACCAACTATTATTTCTTAATTA
1 CATTTAAGACGTGGGAAAAAAATTAGGTACCAACTATTATTTCTTAATTA
14219920 TAAAAATTAG
Statistics
Matches: 142, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
100 128 0.90
101 14 0.10
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (100 bp):
CATTTAAGACGTGGGAAAAAAATTAGGTACCAACTATTATTTCTTAATTAAAATTATTTCCAGGA
TTTTAATTAAAATTATATTAGATTACATGACTACA
Found at i:14219998 original size:15 final size:15
Alignment explanation
Indices: 14219968--14220010 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
14219958 TAGTATAAAT
14219968 ATAATTTTATTATTTTA
1 ATAA-TTTA-TATTTTA
*
14219985 ATAATTTATATTTTT
1 ATAATTTATATTTTA
14220000 ATAATTTATAT
1 ATAATTTATAT
14220011 AAGATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 17 0.68
16 4 0.16
17 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATAATTTATATTTTA
Found at i:14221118 original size:41 final size:41
Alignment explanation
Indices: 14221097--14221361 Score: 415
Period size: 41 Copynumber: 6.5 Consensus size: 41
14221087 CATTTTACCA
14221097 AAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGGT
** * * *
14221138 AAAACGCTACTAAAAGTCGGAGCAGTAGCGGCACTTTTGGT
1 AAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGGT
*
14221179 AAAATGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTCTT-GT
1 AAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTT-TTGGT
* * *
14221220 AAAACGCCGCTAAAAGACGGAGCAATAGCGGCACTTTTGGT
1 AAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGGT
* *
14221261 AAAACACCGCTAAAAGTCGGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGGT
14221302 AAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGGT
14221343 AAAACGCCGCTAAAAGTCA
1 AAAACGCCGCTAAAAGTCA
14221362 TATAAACCCC
Statistics
Matches: 202, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 2 0.01
41 198 0.98
42 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGGT
Done.