Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009036.1 Hibiscus syriacus cultivar Beakdansim tig00112443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1934717
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1529136 original size:3 final size:3
Alignment explanation
Indices: 1529128--1529176 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
1529118 AATATTTGTT
* * * * *
1529128 TAA TAA TAA TGA TGA TGA TGA TAA TAA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1529176 T
1 T
1529177 TTGGAATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1529856 original size:11 final size:11
Alignment explanation
Indices: 1529840--1529873 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1529830 GCATCGATGC
1529840 ACTGCTACAGT
1 ACTGCTACAGT
*
1529851 ACTGCTACAAAT
1 ACTGCTAC-AGT
1529863 ACTGCTACAGT
1 ACTGCTACAGT
1529874 GACTTTCGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (11 bp):
ACTGCTACAGT
Found at i:1530594 original size:30 final size:31
Alignment explanation
Indices: 1530555--1530621 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
1530545 GAAGAACCTA
* * * *
1530555 TCCAGAGGTCATAAAGAACCTCGG-CAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
* *
1530585 TCCATAGGTCCCGAAGAACCTAGGTAAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
1530616 TCCATA
1 TCCATA
1530622 TGTTCCTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (31 bp):
TCCATAGGTCACAAAGAACCTAGGTAAACTG
Found at i:1530640 original size:31 final size:30
Alignment explanation
Indices: 1530580--1530707 Score: 105
Period size: 31 Copynumber: 4.1 Consensus size: 30
1530570 GAACCTCGGC
* ** *
1530580 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCTTAA-AACATAGGTA
1530611 AACTGTCCATATGTTCCTTAAAACATAGGTA
1 AACTGTCCATATG-TCCTTAAAACATAGGTA
* * **
1530642 TACTG-CTCGTATGTCCCGAAAGACATAGGTA
1 AACTGTC-CATATGTCCTTAAA-ACATAGGTA
* *
1530673 ATTCTGTCCATATGATCCTTAGAACATAGGTA
1 A-ACTGTCCATATG-TCCTTAAAACATAGGTA
1530705 AAC
1 AAC
1530708 CCTCGACTCT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
30 7 0.09
31 40 0.53
32 23 0.30
33 6 0.08
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (30 bp):
AACTGTCCATATGTCCTTAAAACATAGGTA
Found at i:1531414 original size:14 final size:14
Alignment explanation
Indices: 1531395--1531429 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
1531385 CCTAAACCTT
*
1531395 ATAACTTGATATTA
1 ATAACTCGATATTA
1531409 ATAACTCGATATTA
1 ATAACTCGATATTA
1531423 ATAACTC
1 ATAACTC
1531430 AAACTAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (14 bp):
ATAACTCGATATTA
Found at i:1535747 original size:22 final size:22
Alignment explanation
Indices: 1535704--1535751 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1535694 TTGCATATAT
* *
1535704 ATGTAAATGTAGAGGTGCAATG
1 ATGTAAATGCAGAAGTGCAATG
1535726 ATGTAAATGCA-AAGTGCAA--
1 ATGTAAATGCAGAAGTGCAATG
1535745 ATGTAAA
1 ATGTAAA
1535752 CGCAAAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (22 bp):
ATGTAAATGCAGAAGTGCAATG
Found at i:1537767 original size:12 final size:12
Alignment explanation
Indices: 1537750--1537779 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1537740 TTTGTAATAC
1537750 TGGAAATTTGGT
1 TGGAAATTTGGT
*
1537762 TGGAAATTTGTT
1 TGGAAATTTGGT
1537774 TGGAAA
1 TGGAAA
1537780 CCAATTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (12 bp):
TGGAAATTTGGT
Found at i:1546175 original size:31 final size:31
Alignment explanation
Indices: 1546086--1546209 Score: 117
Period size: 31 Copynumber: 4.0 Consensus size: 31
1546076 GTCGAGGGTT
* *
1546086 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTAAGGAACATATGGACAGTA
* *
1546117 TTACCTATGTATTTCAA-G-ACATGTGGACAGTA
1 -TACCTATGT-TCT-AAGGAACATATGGACAGTA
*
1546149 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTAAGGAACATATGGACAGTA
* ** * *
1546180 TACCTAGGTTCTTCGGGACCTATGGACAGT
1 TACCTATGTTCTAAGGAACATATGGACAGT
1546210 TGCCAGGTTC
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
29 2 0.03
30 3 0.04
31 46 0.61
32 21 0.28
33 3 0.04
34 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACAGTA
Found at i:1547250 original size:30 final size:29
Alignment explanation
Indices: 1547182--1547253 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
1547172 AAATTTTATC
**
1547182 TAGTGACTAAAATATAAGTTTTGAAAGTT
1 TAGTGACTAAAATATAAACTTTGAAAGTT
* *
1547211 TAGTAACTAAAGTATAAACTTTGAAAAGTT
1 TAGTGACTAAAATATAAACTTTG-AAAGTT
1547241 TAAG-GACTAAAAT
1 T-AGTGACTAAAAT
1547254 TGTAATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
29 19 0.54
30 14 0.40
31 2 0.06
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (29 bp):
TAGTGACTAAAATATAAACTTTGAAAGTT
Found at i:1550138 original size:14 final size:14
Alignment explanation
Indices: 1550119--1550151 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1550109 TAGAACTACT
1550119 TTAGTTTA-TTTTA
1 TTAGTTTAGTTTTA
1550132 CTTAGTTTAGTTTTA
1 -TTAGTTTAGTTTTA
1550147 TTAGT
1 TTAGT
1550152 ATTTATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.64
Consensus pattern (14 bp):
TTAGTTTAGTTTTA
Found at i:1550581 original size:29 final size:29
Alignment explanation
Indices: 1550548--1550603 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
1550538 TATTGTTTCG
*
1550548 ACTCTACATCGAAAGGGTACTCAAATTCA
1 ACTCTACAACGAAAGGGTACTCAAATTCA
* *
1550577 ACTCTACAAGGAAAGGGTACTCGAATT
1 ACTCTACAACGAAAGGGTACTCAAATT
1550604 GTCCTAGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (29 bp):
ACTCTACAACGAAAGGGTACTCAAATTCA
Found at i:1556161 original size:22 final size:24
Alignment explanation
Indices: 1556118--1556165 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1556108 GCAGTGGCTC
1556118 TCTCTAGAACAAAAGAGAGAGAAA
1 TCTCTAGAACAAAAGAGAGAGAAA
1556142 TCTCTAGAACAAAAGAGAGAGAAA
1 TCTCTAGAACAAAAGAGAGAGAAA
1556166 AGCTAGGAAG
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:0.54, C:0.12, G:0.21, T:0.12
Consensus pattern (24 bp):
TCTCTAGAACAAAAGAGAGAGAAA
Found at i:1557062 original size:30 final size:30
Alignment explanation
Indices: 1556967--1557052 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
1556957 AACTGGTAAA
* *
1556967 GAACCGGCTGAGAACCGGCAAAACCGGGGT
1 GAACCGGCTGAAAACCGGCAAAACTGGGGT
*
1556997 GAACCGGCTGAAAATCGGCAAAACTGGGGT
1 GAACCGGCTGAAAACCGGCAAAACTGGGGT
*
1557027 GAACCGGCTGAAAACCGACAAAACTG
1 GAACCGGCTGAAAACCGGCAAAACTG
1557053 ATATGAACCG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.35, C:0.24, G:0.31, T:0.09
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGGCAAAACTGGGGT
Found at i:1557317 original size:24 final size:25
Alignment explanation
Indices: 1557281--1557327 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
1557271 GAACTCAAAA
* *
1557281 AAAATTTGAAGCTCGATTAAAGCCT
1 AAAATTCGAAGCTCAATTAAAGCCT
*
1557306 AAAATTCG-AGCTCAATTGAAGC
1 AAAATTCGAAGCTCAATTAAAGC
1557328 GAAAGAATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (25 bp):
AAAATTCGAAGCTCAATTAAAGCCT
Found at i:1558171 original size:182 final size:182
Alignment explanation
Indices: 1557858--1558311 Score: 795
Period size: 182 Copynumber: 2.5 Consensus size: 182
1557848 ACTTTTTTAC
* *
1557858 TACCGGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTAACTGTTATATTGTTATGGATCGA
* * * *
1557923 TATAATTTTATAAAATATCGACACTTTATTGACGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
*
1557988 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
131 TGCCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
1558040 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTAACTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTAACTGTTATATTGTTATGGATCGA
*
1558105 TACATTTTTATAAAGTATCGACACTTTATTTG-CGCTATAACTTCTTCTCTTTTAAATTCTAAAA
66 TACATTTTTATAAAGTATCGACACTTTA-TTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAA
1558169 GTGCCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
130 GTGCCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
*
1558222 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTT-ACATGTTATATTGTTATGGATCG
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTAAC-TGTTATATTGTTATGGATCG
1558286 ATACATTTTTATAAAGTATCGACACT
65 ATACATTTTTATAAAGTATCGACACT
1558312 ATCAACATAT
Statistics
Matches: 261, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
181 2 0.01
182 256 0.98
183 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTAACTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
TGCCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
Found at i:1558543 original size:112 final size:112
Alignment explanation
Indices: 1558184--1558759 Score: 936
Period size: 112 Copynumber: 5.1 Consensus size: 112
1558174 GATACTTATA
* * * * **
1558184 ATAAAGTATCGACACTATCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
1558249 TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTT
* *
1558296 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
1558361 TTTCTCATTTTTTTTACATGTTTTATTGTTATGGATCGATACATTTTT
66 TTTGTCA-TTTTTTTACATGTTATATTGTTATGGATCAATACATTTTT
*
1558409 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
1558474 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATAAATACATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTT
1558521 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
1558586 TTTGTCATTTTTTTGCTTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTT
*
1558633 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
1558698 TTTGTCATTTTTTAACTTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTT
1558745 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
1558760 AAACCGACAA
Statistics
Matches: 440, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
112 334 0.76
113 106 0.24
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTT
Found at i:1558575 original size:225 final size:224
Alignment explanation
Indices: 1558184--1558759 Score: 936
Period size: 225 Copynumber: 2.6 Consensus size: 224
1558174 GATACTTATA
* * * * **
1558184 ATAAAGTATCGACACTATCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
1558249 TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTAT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTAT
1558314 CAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTCTCATTTTTTTTACA
131 CAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTCTCA-TTTTTTTACA
* *
1558379 TGTTTTATTGTTATGGATCGATACATTTTT
195 TGTTATATTGTTATGGATCAATACATTTTT
*
1558409 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
1558474 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATAAATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTAT
* * * *
1558539 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTGCTT
131 CAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTCTCATTTTTTTACAT
*
1558604 GTTATATTGTTATGGATCAATATATTTTT
196 GTTATATTGTTATGGATCAATACATTTTT
*
1558633 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
1558698 TTTGTCATTTTTTAACTTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGACAC
66 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACAC
1558760 AAACCGACAA
Statistics
Matches: 326, Mismatches: 25, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
224 156 0.48
225 170 0.52
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (224 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTAT
CAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTCTCATTTTTTTACAT
GTTATATTGTTATGGATCAATACATTTTT
Found at i:1562111 original size:2 final size:2
Alignment explanation
Indices: 1562104--1562128 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1562094 AAATAATTAA
1562104 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1562129 AATGTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1563256 original size:34 final size:36
Alignment explanation
Indices: 1563211--1563300 Score: 148
Period size: 34 Copynumber: 2.6 Consensus size: 36
1563201 AATTCAAAGA
*
1563211 TTTTGTGTTTCAAGAGAAACATTTTCAAAGG-TT-T
1 TTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTCT
*
1563245 TTTTATGTTTCAAGAGAAACAATTTCAAAGGTTTCT
1 TTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTCT
1563281 TTTTGTGTTTCAAGAGAAAC
1 TTTTGTGTTTCAAGAGAAAC
1563301 TGTCTTAAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
34 29 0.57
35 2 0.04
36 20 0.39
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (36 bp):
TTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTCT
Found at i:1563542 original size:65 final size:66
Alignment explanation
Indices: 1563473--1563598 Score: 193
Period size: 65 Copynumber: 1.9 Consensus size: 66
1563463 GTAAAACATA
1563473 TTCAAAGATTT-TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTCATTTCAAGGGAAATA
1 TTCAAAG-TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTCATTTCAAGGGAAATA
1563536 TT
65 TT
* * **
1563538 TTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAA
1 TTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTCATTTCAAGGGAA
1563599 CCTATCTCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 3 0.05
65 39 0.71
66 13 0.24
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (66 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTCATTTCAAGGGAAATAT
T
Found at i:1563604 original size:37 final size:37
Alignment explanation
Indices: 1563549--1563635 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 37
1563539 TCAATGTTTA
* * *
1563549 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTT
*
1563586 TGTTTCAAGGGAACCTATCTCAAGAGAGACAAAACTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTT
**
1563623 CATTTCAAGGGAA
1 TGTTTCAAGGGAA
1563636 TTTTTTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTT
Found at i:1563604 original size:102 final size:104
Alignment explanation
Indices: 1563475--1563681 Score: 337
Period size: 103 Copynumber: 2.0 Consensus size: 104
1563465 AAAACATATT
1563475 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTCATTTCAAGGGAAATATTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTCATTTCAAGGGAAATATTT
*
1563539 TCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGA
66 TCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGA
* * * *
1563578 CAAA-ATTTTGTTTCAAGGGAACCTATCTCAAGAGAGACAAAACTTCATTTCAAGGGAATTTTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTCATTTCAAGGGAAATATTT
* *
1563642 TTAATGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGA
66 TCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGA
1563681 C
1 C
1563682 GAAACTTAGT
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 36 0.38
103 60 0.62
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (104 bp):
CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTCATTTCAAGGGAAATATTT
TCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGA
Found at i:1563661 original size:103 final size:103
Alignment explanation
Indices: 1563475--1563733 Score: 335
Period size: 103 Copynumber: 2.5 Consensus size: 103
1563465 AAAACATATT
1563475 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
*
1563540 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGA
66 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGA
* * * *
1563578 CAAA-ATTTTGTTTCAAGGGAACCTATCTCAAGAGAGACAAAACTTCATTTCAAGGGAATTTTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTCATTTCAAGGGAAATATTT
* *
1563642 TTAATGTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGA
65 TCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGA
* * * * * * * * *
1563681 CGAA-ACTTAG-TTCTAAAAGAAAATGTCTCAAGGGAGACGAAATTTATTTCAAG
1 CAAAGATTTTGTTTC-AAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAG
1563734 AGAGACGAGA
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
102 49 0.36
103 87 0.64
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (103 bp):
CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGA
Found at i:1563736 original size:19 final size:21
Alignment explanation
Indices: 1563708--1563757 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
1563698 AGAAAATGTC
*
1563708 TCAAGGGAGACGAAATTTATT
1 TCAAGAGAGACGAAATTTATT
* *
1563729 TCAAGAGAGACGAGATTTGTT
1 TCAAGAGAGACGAAATTTATT
1563750 TCAAGAGA
1 TCAAGAGA
1563758 AACTATCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACGAAATTTATT
Found at i:1565320 original size:183 final size:183
Alignment explanation
Indices: 1565012--1565365 Score: 584
Period size: 183 Copynumber: 1.9 Consensus size: 183
1565002 ATCAGGTTTA
* **
1565012 ACTGAAGGGTTCGTCTCATCACAAAGTCTTCAGCCTGACAAAAGCAATGGAGCAAACACTTAATT
1 ACTGAAGGGTTCGTCTCATCACAAAGTCTTCAGACTGACAAAAGCAATGGAGCAAACACCGAATT
* *
1565077 ACCAAGTTTTCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 ACCAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTT
1565142 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
* *
1565195 ACTGAAGGGTTCGTCTCATCACAAAGTCTT-TGAACTGACAAAAGCAGTGGAGCAAACACCGAAT
1 ACTGAAGGGTTCGTCTCATCACAAAGTCTTCAG-ACTGACAAAAGCAATGGAGCAAACACCGAAT
* *
1565259 TGCCAAGTGTCCGAGCAGTGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
65 TACCAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
* * *
1565324 TTTCTCTATAACCAATTTCTTTAGTGGAATAGCTCAGCTTTA
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
1565366 CGGATTTAAT
Statistics
Matches: 158, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
182 1 0.01
183 157 0.99
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (183 bp):
ACTGAAGGGTTCGTCTCATCACAAAGTCTTCAGACTGACAAAAGCAATGGAGCAAACACCGAATT
ACCAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:1569403 original size:2 final size:2
Alignment explanation
Indices: 1569396--1569447 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1569386 CACTATCATG
1569396 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
1569438 AT AT AT AT AT
1 AT AT AT AT AT
1569448 TATGAAACAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1575161 original size:19 final size:21
Alignment explanation
Indices: 1575116--1575162 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
1575106 TTTTATTTGC
1575116 TTTTAAGTAATTAAAATTAAT
1 TTTTAAGTAATTAAAATTAAT
* *
1575137 TATTAAGTAA-T-AAATTATT
1 TTTTAAGTAATTAAAATTAAT
1575156 TTTTAAG
1 TTTTAAG
1575163 GATGTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 13 0.57
20 1 0.04
21 9 0.39
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (21 bp):
TTTTAAGTAATTAAAATTAAT
Found at i:1580512 original size:14 final size:14
Alignment explanation
Indices: 1580493--1580531 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
1580483 CTATACAGTA
1580493 CAAGCCTAATAAAG
1 CAAGCCTAATAAAG
1580507 CAAGCCTAATAAAG
1 CAAGCCTAATAAAG
*
1580521 CAAGCCCAATA
1 CAAGCCTAATA
1580532 CAACTAGCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.49, C:0.26, G:0.13, T:0.13
Consensus pattern (14 bp):
CAAGCCTAATAAAG
Found at i:1589029 original size:99 final size:100
Alignment explanation
Indices: 1588885--1589095 Score: 361
Period size: 99 Copynumber: 2.1 Consensus size: 100
1588875 ATTTTTAGGC
* *
1588885 ATATATATATATATATATAAATAATAATATTTATTTATTTTTTAATGTTAAGAAAGGGGTTGTCT
1 ATATATATATATATATATAAATAATAATATTTATTTATTTTTTAATGTTAAAAAAGGGGCTGTCT
* *
1588950 TAAAGCAACTATATGTCTTTTTCTGATATTTTTAA
66 TAAAGCAACTAGATGTCCTTTTCTGATATTTTTAA
1588985 ATATATATATATATAT-TAAATAATAATATTTATTTATTTTTTAATGTTAAAAAAGGGGCTGTCT
1 ATATATATATATATATATAAATAATAATATTTATTTATTTTTTAATGTTAAAAAAGGGGCTGTCT
1589049 TAAAGCAACTAGATGTCCTTTTCTGATATTTTTAA
66 TAAAGCAACTAGATGTCCTTTTCTGATATTTTTAA
* *
1589084 ATAAATAAATAT
1 ATATATATATAT
1589096 CTTACTTTTA
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
99 89 0.85
100 16 0.15
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (100 bp):
ATATATATATATATATATAAATAATAATATTTATTTATTTTTTAATGTTAAAAAAGGGGCTGTCT
TAAAGCAACTAGATGTCCTTTTCTGATATTTTTAA
Found at i:1589127 original size:146 final size:143
Alignment explanation
Indices: 1588979--1589252 Score: 320
Period size: 146 Copynumber: 1.9 Consensus size: 143
1588969 TTTCTGATAT
* * *
1588979 TTTTAA-ATATATATATATATATTAAATAATAAT-ATTTATTTA-TTTTTTAATGTTAAAAAAGG
1 TTTTAATATATATAAAT-TATATTAAAGAA-AATGATTTATTTATTTTTTTAATATTAAAAAAGG
* * * *
1589041 GGCTGTCTTAAAGCAACTAGATGTCCTTTTCTGATATTTTTAAATAAATAAATATCTTACTTTTA
64 GGCTGTCTTAAAGAAACTAGATGTCATTTTCTGAT-TTCTTAAATAAATAAATAACTTA--TTTA
1589106 TAAATTATATATATTTAA
126 TAAATTATATATATTTAA
* * * * * * * * *
1589124 TTTTATTTTGTTTAAATTATTTTTAGGAAAATGTTTTATTTATTTTTTTAATATTAAGAAAGGGG
1 TTTTAATATATATAAATTATATTAAAGAAAATGATTTATTTATTTTTTTAATATTAAAAAAGGGG
* *
1589189 TTGTCTTAAAGAAACTAGATGTCATTTTCTGATTTCTTAAGTAAATAAATAACTTATTTATAAA
66 CTGTCTTAAAGAAACTAGATGTCATTTTCTGATTTCTTAAATAAATAAATAACTTATTTATAAA
1589253 AATCTAAATA
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
143 8 0.07
144 3 0.03
145 41 0.38
146 56 0.52
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (143 bp):
TTTTAATATATATAAATTATATTAAAGAAAATGATTTATTTATTTTTTTAATATTAAAAAAGGGG
CTGTCTTAAAGAAACTAGATGTCATTTTCTGATTTCTTAAATAAATAAATAACTTATTTATAAAT
TATATATATTTAA
Found at i:1593146 original size:15 final size:15
Alignment explanation
Indices: 1593123--1593154 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1593113 GATCAATACC
*
1593123 TTTTGCATACATTCA
1 TTTTACATACATTCA
1593138 TTTTACATACATTCA
1 TTTTACATACATTCA
1593153 TT
1 TT
1593155 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.03, T:0.50
Consensus pattern (15 bp):
TTTTACATACATTCA
Found at i:1593198 original size:11 final size:11
Alignment explanation
Indices: 1593182--1593206 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1593172 ATTGATTCAT
1593182 TAAATAAATAA
1 TAAATAAATAA
1593193 TAAATAAATAA
1 TAAATAAATAA
1593204 TAA
1 TAA
1593207 TATGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAATAAATAA
Found at i:1602400 original size:123 final size:122
Alignment explanation
Indices: 1602174--1602489 Score: 472
Period size: 123 Copynumber: 2.6 Consensus size: 122
1602164 TCAACATTTT
*
1602174 CAGAAGAGTTCATAGTGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACT
1 CAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACT
* *
1602239 TGTTCAACCTTTTGCTCGATTCTATCATAGAATAAGATAAAACAGCACC-GACATCGC
66 TGTTCAACCTTTTGCTCGATTCTATCACAGAAGAAGATAAAACAGCACCAG-CATCGC
*
1602296 CAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 CAG-AAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAAC
* * * * **
1602361 TTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAGATAGATCAGCACCAGTATTTC
65 TTGTTCAACCTTTTGCTCGATTCTATCACAGAAGAAGATAAAACAGCACCAGCATCGC
* **
1602419 CAGAAGTAGTTCATAATGAGAAGAACCCATCTGAAGAATAAGAAGAAGTTCATAATGAGAAGAAC
1 CAGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAAC
*
1602484 ATGTTC
65 TTGTTC
1602490 GACTTTAACT
Statistics
Matches: 176, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
122 6 0.03
123 169 0.96
124 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (122 bp):
CAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACT
TGTTCAACCTTTTGCTCGATTCTATCACAGAAGAAGATAAAACAGCACCAGCATCGC
Found at i:1602732 original size:134 final size:137
Alignment explanation
Indices: 1602414--1602768 Score: 407
Period size: 139 Copynumber: 2.6 Consensus size: 137
1602404 CAGCACCAGT
* * **
1602414 ATTTCCAGAAGTAGTTCATAATGAGAAGAACCCATCTGAAGAATAAGAAGAAGTTCATAATGAGA
1 ATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
* * * * *
1602479 AGAACATGTTCGACTTTAACTTGATTCAGCACTTATAAAGATGAATGAAAGAATAACCTCATTTG
66 AGAACTTGTTCAACCTTAACTTAATTCAGCACTTATAAAGAT--ATGAAACAATAACCTCATTTG
1602544 GAGATCAAC
129 GAGATCAAC
* * *
1602553 ATTTTCAG-AGAAAGTTCATAATGAGAAAAACTCATCTGAAAAGGAAGAAGAAGTTCATAATGAG
1 ATTTCCAGAAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
** * * * * *
1602617 AAGAACTTGTTCAACCTTGCCTTAATTCATCA-TATATGAAG-T-TGAATCAA-CACCTC-TTTT
65 AAGAACTTGTTCAACCTTAACTTAATTCAGCACT-TATAAAGATATGAAACAATAACCTCATTTG
*
1602677 GAGGATCATC
129 GA-GATCAAC
* * * *
1602687 ATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAAAAAGTTCACAATGAGA
1 ATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
1602752 AGAACTTGTTCAACCTT
66 AGAACTTGTTCAACCTT
1602769 TTGCTAGATT
Statistics
Matches: 185, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
133 5 0.03
134 83 0.45
135 8 0.04
138 4 0.02
139 85 0.46
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (137 bp):
ATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACCTTAACTTAATTCAGCACTTATAAAGATATGAAACAATAACCTCATTTGGA
GATCAAC
Found at i:1602874 original size:20 final size:20
Alignment explanation
Indices: 1602818--1602874 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
1602808 CCAGTGGAAG
**
1602818 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAAAA
* * *
1602838 AGTCCAGAGTG-GAAGAAAA
1 AGTTCATAATGAGAAGAAAA
1602857 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
1602875 CTTGTTCAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.19
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAAAA
Found at i:1602881 original size:20 final size:20
Alignment explanation
Indices: 1602818--1602882 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
1602808 CCAGTGGAAG
1602818 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* * * **
1602838 AGTCCAGAGTG-GAAGAAAA
1 AGTTCATAATGAGAAGAACT
1602857 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
1602877 TGTTCA
1 AGTTCA
1602883 ATGTTGTCAT
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:1603014 original size:3 final size:3
Alignment explanation
Indices: 1603008--1603052 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
1602998 TTCCATTTTT
1603008 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1603053 AATAAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1604253 original size:2 final size:2
Alignment explanation
Indices: 1604246--1604275 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1604236 TTAGGCATAA
1604246 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
1604276 TAAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1604365 original size:2 final size:2
Alignment explanation
Indices: 1604358--1604388 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1604348 ATATTTTAAA
1604358 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1604389 TTATTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1604390 original size:100 final size:102
Alignment explanation
Indices: 1604256--1604469 Score: 326
Period size: 100 Copynumber: 2.1 Consensus size: 102
1604246 ATATATATAT
* *
1604256 ATATATATATATATATATATTAAATAATAATATTTATTTATTTTTTAATGTTAAGAAAGGGACTT
1 ATATATATATATATATATATTAAATAATAATATTTATTTATTTTTTAATGTTAAAAAAGGGA-TG
*
1604321 TCTTAAAGCAACTAGATATTCTTTT-TGATATTTTAAA
65 TCTTAAAGCAACTAGATATCCTTTTCTGATATTTTAAA
*
1604358 ATATATATATATATATATA-TATAT-ATAATATTTATTTATTTTTTAATGTTAAAAAAGGGATGT
1 ATATATATATATATATATATTAAATAATAATATTTATTTATTTTTTAATGTTAAAAAAGGGATGT
* *
1604421 CTTAAAGCAACTAGATGTCCTTTTCTGATATTTTTAA
66 CTTAAAGCAACTAGATATCCTTTTCTGATATTTTAAA
* *
1604458 ATAAATAAATAT
1 ATATATATATAT
1604470 CCTACTTTTA
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
99 24 0.23
100 56 0.54
101 4 0.04
102 19 0.18
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (102 bp):
ATATATATATATATATATATTAAATAATAATATTTATTTATTTTTTAATGTTAAAAAAGGGATGT
CTTAAAGCAACTAGATATCCTTTTCTGATATTTTAAA
Found at i:1604531 original size:10 final size:11
Alignment explanation
Indices: 1604508--1604533 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1604498 TTTAATTTTG
1604508 TTTAAATTATT
1 TTTAAATTATT
1604519 TTTAAATTATT
1 TTTAAATTATT
1604530 TTTA
1 TTTA
1604534 GGAAAATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTAAATTATT
Found at i:1623893 original size:6 final size:6
Alignment explanation
Indices: 1623882--1623916 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
1623872 ATATTTTTTA
1623882 ATTATG ATTATG ATTATG ATTATG ATTATG ATTAT
1 ATTATG ATTATG ATTATG ATTATG ATTATG ATTAT
1623917 ACAGCTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTATG
Found at i:1628050 original size:34 final size:31
Alignment explanation
Indices: 1627985--1628058 Score: 80
Period size: 34 Copynumber: 2.3 Consensus size: 31
1627975 TCGGGCCGGG
1627985 TATATATATTTAAATTAAATACATAAATATTATA
1 TATATATATTTAAATTAAAT--ATAAATATTA-A
1628019 TATATATATTTAAATTTAAAT-TAAATTTATTAA
1 TATATATATTTAAA-TTAAATATAAA--TATTAA
1628052 TAT-TATA
1 TATATATA
1628059 CATATAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
32 8 0.22
33 4 0.11
34 19 0.51
35 6 0.16
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
TATATATATTTAAATTAAATATAAATATTAA
Found at i:1633880 original size:21 final size:21
Alignment explanation
Indices: 1633854--1633895 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1633844 TCACTAAAAA
1633854 CCTTTAGAACAAAAGGTAAGC
1 CCTTTAGAACAAAAGGTAAGC
1633875 CCTTTAGAACAAAAGGTAAGC
1 CCTTTAGAACAAAAGGTAAGC
1633896 TTGGCTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (21 bp):
CCTTTAGAACAAAAGGTAAGC
Found at i:1636050 original size:3 final size:3
Alignment explanation
Indices: 1636044--1636069 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1636034 TAATAAAGAG
1636044 ACA ACA ACA ACA ACA ACA ACA ACA AC
1 ACA ACA ACA ACA ACA ACA ACA ACA AC
1636070 CCATGTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:1639571 original size:19 final size:21
Alignment explanation
Indices: 1639540--1639584 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1639530 AATGTTATCT
1639540 AAATATGTAT-AAAC-TTAAA
1 AAATATGTATAAAACATTAAA
1639559 AAAT-TGTATTAAAACATTAAA
1 AAATATGTA-TAAAACATTAAA
1639580 AAATA
1 AAATA
1639585 CATAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.18
19 5 0.23
20 4 0.18
21 9 0.41
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (21 bp):
AAATATGTATAAAACATTAAA
Found at i:1651754 original size:324 final size:310
Alignment explanation
Indices: 1651139--1651773 Score: 1110
Period size: 324 Copynumber: 2.0 Consensus size: 310
1651129 TTCATAACAT
1651139 TTATGGAATTGATACAAGATTAATTGTAGAGTATAAAAACTCTAAAATGACTAGATGACCATTTA
1 TTATGGAATTGATACAAGATTAATTGTAGAGTATAAAAACTCTAAAATGACTAGATGACCATTTA
1651204 TGTTGTAATATGCTAAGTTGATTGAAGCCCATTGTATGTGCGTTGAGAGTCATAGGTGCATTCGA
66 TGTTGTAATATGCTAAGTTGATTGAAGCCCATTGTATGTGCGTTGAGAGTCATAGGTGCATTCGA
1651269 CATTCATTGTATGTAATGGTTATCAATCGATTTTAATGCATAACGGTGCATTTTCGTAACAATAT
131 CATTCATTGTATGTAATGGTTATCAATCGATTTTAATGCATAACGGTGCATTTTCGTAACAATAT
1651334 TGTGTACTTTGGCTAGATGTGCAATCATGATATTCCATAATAAGTTTGTGAATCACCATTTCGTT
196 TGTGTACTTTGGCTAGATGTGCAATCATGATATTCCATAATAAGTTTGTGAATCACCATTTCGTT
1651399 ATACAATTATGTATAAAAGTTATCGATCGACTTTGTTTAATACATAACGG
261 ATACAATTATGTATAAAAGTTATCGATCGACTTTGTTTAATACATAACGG
**
1651449 TTATGGAATTGATACAAGATTAATTGTAGAGTATAAACTGCTCTAAAATGACTAGATGACCATTT
1 TTATGGAATTGATACAAGATTAATTGTAGAGTATAAA-AACTCTAAAATGACTAGATGACCATTT
1651514 ATGTTGTGTAATATGCTAAGTTGATTGAATAGCCCATTGTATGTGCGTTGAGAGTCATAGGTGCA
65 ATG-T-TGTAATATGCTAAGTTGATTG-A-AGCCCATTGTATGTGCGTTGAGAGTCATAGGTGCA
1651579 TTTCGACATTCATTGTATGTAATGGTTATCAATCGATTTTGAGTAATGCATAACGGTGCATTTTC
126 -TTCGACATTCATTGTATGTAATGGTTATCAATCGA-TTT---TAATGCATAACGGTGCATTTTC
1651644 GTAACAATATTGTGTGTACTTTTGGCACTAGATGTGCAATCATGATATT-CATAATAAGTTTGTG
186 GTAACAATA-T-TGTGTAC-TTTGG--CTAGATGTGCAATCATGATATTCCATAATAAGTTTGTG
1651708 AATCACCATTTCGTTATACAATTATGTATAAAAGTTATCGATCGACTTTGTTTAATACATAACGG
246 AATCACCATTTCGTTATACAATTATGTATAAAAGTTATCGATCGACTTTGTTTAATACATAACGG
1651773 T
1 T
1651774 GCATTTTCGT
Statistics
Matches: 308, Mismatches: 2, Indels: 16
0.94 0.01 0.05
Matches are distributed among these distances:
310 37 0.12
311 28 0.09
312 1 0.00
313 21 0.07
314 1 0.00
315 35 0.11
316 35 0.11
317 3 0.01
320 31 0.10
321 1 0.00
322 7 0.02
323 5 0.02
324 81 0.26
325 22 0.07
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (310 bp):
TTATGGAATTGATACAAGATTAATTGTAGAGTATAAAAACTCTAAAATGACTAGATGACCATTTA
TGTTGTAATATGCTAAGTTGATTGAAGCCCATTGTATGTGCGTTGAGAGTCATAGGTGCATTCGA
CATTCATTGTATGTAATGGTTATCAATCGATTTTAATGCATAACGGTGCATTTTCGTAACAATAT
TGTGTACTTTGGCTAGATGTGCAATCATGATATTCCATAATAAGTTTGTGAATCACCATTTCGTT
ATACAATTATGTATAAAAGTTATCGATCGACTTTGTTTAATACATAACGG
Found at i:1652591 original size:20 final size:20
Alignment explanation
Indices: 1652541--1652598 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
1652531 CAGAAAATTA
*
1652541 ATCCCCAATGGCTCTAAAAC
1 ATCCCCAATGTCTCTAAAAC
1652561 ATCCCCAATGTCTCTAAAAC
1 ATCCCCAATGTCTCTAAAAC
*
1652581 ATCCCCAATGTCTATAAA
1 ATCCCCAATGTCTCTAAA
1652599 CAGCCACAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.33, G:0.07, T:0.24
Consensus pattern (20 bp):
ATCCCCAATGTCTCTAAAAC
Found at i:1662129 original size:17 final size:17
Alignment explanation
Indices: 1662107--1662147 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
1662097 AAAATACTTA
1662107 AAAACCCCCAAAACATT
1 AAAACCCCCAAAACATT
1662124 AAAACCCCCAAAACATT
1 AAAACCCCCAAAACATT
1662141 AAAACCC
1 AAAACCC
1662148 TCATTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.54, C:0.37, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAACCCCCAAAACATT
Found at i:1664656 original size:23 final size:24
Alignment explanation
Indices: 1664630--1664688 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 24
1664620 TAATTTAAAC
* *
1664630 TTATAGTAAAA-CAACGTGTTTAG
1 TTATGGTAAAATCAAAGTGTTTAG
*
1664653 TTATGGTAAAAATGAAAGTGTTTAG
1 TTATGGT-AAAATCAAAGTGTTTAG
1664678 TTATGGTAAAA
1 TTATGGTAAAA
1664689 ATGAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.19
24 8 0.26
25 17 0.55
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (24 bp):
TTATGGTAAAATCAAAGTGTTTAG
Found at i:1664673 original size:25 final size:25
Alignment explanation
Indices: 1664645--1664694 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1664635 GTAAAACAAC
1664645 GTGTTTAGTTATGGTAAAAATGAAA
1 GTGTTTAGTTATGGTAAAAATGAAA
1664670 GTGTTTAGTTATGGTAAAAATGAAA
1 GTGTTTAGTTATGGTAAAAATGAAA
1664695 AGAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (25 bp):
GTGTTTAGTTATGGTAAAAATGAAA
Found at i:1664799 original size:12 final size:12
Alignment explanation
Indices: 1664740--1664792 Score: 99
Period size: 12 Copynumber: 4.5 Consensus size: 12
1664730 AATAAAAAGG
1664740 AAAAATGAAATT
1 AAAAATGAAATT
1664752 AAAAATGAAATT
1 AAAAATGAAATT
1664764 AAAAATGAAATT
1 AAAAATGAAATT
1664776 AAAAAT-AAATT
1 AAAAATGAAATT
1664787 AAAAAT
1 AAAAAT
1664793 AAGATTATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
11 11 0.27
12 30 0.73
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.25
Consensus pattern (12 bp):
AAAAATGAAATT
Found at i:1675732 original size:34 final size:34
Alignment explanation
Indices: 1675640--1675803 Score: 107
Period size: 34 Copynumber: 4.7 Consensus size: 34
1675630 ATGATGTTTT
*** *
1675640 CAAGAGAAAATATCTCAAGTGAGA-TGCAATTGTAT
1 CAAGAGAAAATATCTCAAGTGAGACAAAAATT-T-G
* *
1675675 CAAGA-AAAACTATTTCGAGTGAGACAAAAATTTG
1 CAAGAGAAAA-TATCTCAAGTGAGACAAAAATTTG
* ** *
1675709 CAAGGGAAAATATCTCAAGTGAGATGAAATTTTG
1 CAAGAGAAAATATCTCAAGTGAGACAAAAATTTG
* * * * * * *
1675743 TTTCGAGAGAAACTGTCTCGAGTTAGACAAACATTTT
1 ---CAAGAGAAAATATCTCAAGTGAGACAAAAATTTG
1675780 CAAGAGAAAATATCTCAAGTGAGA
1 CAAGAGAAAATATCTCAAGTGAGA
1675804 TGCAATTTTT
Statistics
Matches: 95, Mismatches: 28, Indels: 13
0.70 0.21 0.10
Matches are distributed among these distances:
34 46 0.48
35 22 0.23
36 4 0.04
37 23 0.24
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (34 bp):
CAAGAGAAAATATCTCAAGTGAGACAAAAATTTG
Found at i:1675844 original size:72 final size:72
Alignment explanation
Indices: 1675636--1675890 Score: 293
Period size: 72 Copynumber: 3.6 Consensus size: 72
1675626 TGAGATGATG
* * * * *
1675636 TTTTCAAGAGAAAATATCTCAAGTGAGATGCAA---TTGTATCAAGAAAAACTATTTCGAGTGAG
1 TTTTCAAGAGAAAATATCTCAAGTGAGATGCAATTTTTGTTTCGAGAGAAACTGTCTCGAGTGAG
1675698 ACAAAAA
66 ACAAAAA
* * * *
1675705 TTTGCAAGGGAAAATATCTCAAGTGAGATG-AAATTTTGTTTCGAGAGAAACTGTCTCGAGTTAG
1 TTTTCAAGAGAAAATATCTCAAGTGAGATGCAATTTTTGTTTCGAGAGAAACTGTCTCGAGTGAG
*
1675769 ACAAACA
66 ACAAAAA
* * *
1675776 TTTTCAAGAGAAAATATCTCAAGTGAGATGCAATTTTTGTTTCGTGAGAAATTGTCTCGTGTGAG
1 TTTTCAAGAGAAAATATCTCAAGTGAGATGCAATTTTTGTTTCGAGAGAAACTGTCTCGAGTGAG
**
1675841 ACAAATT
66 ACAAAAA
* * * * **
1675848 TTTTTAAGGGAAAATATTTTAAGTGAGATATAATTTTTGTTTC
1 TTTTCAAGAGAAAATATCTCAAGTGAGATGCAATTTTTGTTTC
1675891 AATGAGATTT
Statistics
Matches: 158, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
68 2 0.01
69 28 0.18
71 57 0.36
72 71 0.45
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (72 bp):
TTTTCAAGAGAAAATATCTCAAGTGAGATGCAATTTTTGTTTCGAGAGAAACTGTCTCGAGTGAG
ACAAAAA
Found at i:1675942 original size:37 final size:37
Alignment explanation
Indices: 1675901--1676047 Score: 129
Period size: 37 Copynumber: 3.9 Consensus size: 37
1675891 AATGAGATTT
*
1675901 TCTCAAGTGAGACTAAATTTGT-TTTTGAGGAAAACTA
1 TCTCAAGTGAGA-TAAATTTGTATTTTAAGGAAAACTA
* * * * *
1675938 TCTCAAGTAAGATAAATTT-TTTGTTTAAAGAGAAATTG
1 TCTCAAGTGAGATAAATTTGTAT-TTTAAGGA-AAACTA
* * *
1675976 TCTCAAATGAGACAAATTT-TGTTTTAAGGAAAACTA
1 TCTCAAGTGAGATAAATTTGTATTTTAAGGAAAACTA
* *
1676012 TTTCAAGTGAGATAAAATTTGTATTTTGAGGGAAAA
1 TCTCAAGTGAGAT-AAATTTGTATTTT-AAGGAAAA
1676048 TTGTCTAATG
Statistics
Matches: 87, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
35 1 0.01
36 22 0.25
37 30 0.34
38 27 0.31
39 7 0.08
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (37 bp):
TCTCAAGTGAGATAAATTTGTATTTTAAGGAAAACTA
Found at i:1675962 original size:74 final size:71
Alignment explanation
Indices: 1675713--1676027 Score: 284
Period size: 72 Copynumber: 4.3 Consensus size: 71
1675703 AATTTGCAAG
* * * * *
1675713 GGAAAATATCTCAAGTGAGATGAAA-TTTTGTTTCGA-GAGAAACTGTCTCGAGTTAGACAAA-C
1 GGAAAATATCTCAAGTGAGAT-AAATTTTTGTTTCAATGAG-AATTGTCTCAAGTGAGACAAATT
* *
1675775 ATTTTCAA
64 TTTTTTAA
* * **
1675783 GAGAAAATATCTCAAGTGAGATGCAATTTTTGTTTC-GTGAGAAATTGTCTCGTGTGAGACAAA-
1 G-GAAAATATCTCAAGTGAGAT-AAATTTTTGTTTCAATGAG-AATTGTCTCAAGTGAGACAAAT
1675846 TTTTTTTAA
63 TTTTTTTAA
* * *
1675855 GGGAAAATATTTTAAGTGAGATATAATTTTTGTTTCAATGAG-ATTTTCTCAAGTGAGACTAAAT
1 -GGAAAATATCTCAAGTGAGATA-AATTTTTGTTTCAATGAGAATTGTCTCAAGTGAGAC-AAAT
*
1675919 TTGTTTTTGA
63 TT-TTTTTAA
* * *
1675929 GGAAAACTATCTCAAGTAAGATAAATTTTTTGTTT-AAAGAGAAATTGTCTCAAATGAGACAAAT
1 GGAAAA-TATCTCAAGTGAGATAAA-TTTTTGTTTCAATGAG-AATTGTCTCAAGTGAGACAAAT
1675993 TTTGTTTTAA
63 TTT-TTTTAA
*
1676003 GGAAAACTATTTCAAGTGAGATAAA
1 GGAAAA-TATCTCAAGTGAGATAAA
1676028 ATTTGTATTT
Statistics
Matches: 206, Mismatches: 25, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
70 1 0.00
71 37 0.18
72 70 0.34
73 21 0.10
74 62 0.30
75 15 0.07
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (71 bp):
GGAAAATATCTCAAGTGAGATAAATTTTTGTTTCAATGAGAATTGTCTCAAGTGAGACAAATTTT
TTTTAA
Found at i:1676023 original size:36 final size:35
Alignment explanation
Indices: 1675836--1676033 Score: 118
Period size: 37 Copynumber: 5.5 Consensus size: 35
1675826 ATTGTCTCGT
*
1675836 GTGAGACAAA-TTT-TTTTAAGGGAAAATATTTTAA
1 GTGAGACAAATTTTGTTTTAA-GGAAAATATTTCAA
* * * * *
1675870 GTGAGATATAATTTTTGTTTCAATG-AGATTTTCTCAA
1 GTGAGACA-AA-TTTTGTTTTAAGGAAAATATT-TCAA
* *
1675907 GTGAGACTAAA-TTTGTTTTTGAGGAAAACTATCTCAA
1 GTGAGAC-AAATTTTG-TTTTAAGGAAAA-TATTTCAA
* * * *
1675944 GTAAGATAAATTTTTTGTTTAAAGAGAAAT-TGTCTCAA
1 GTGAGACAAATTTTGT-TTTAAGGA-AAATAT-T-TCAA
*
1675982 ATGAGACAAATTTTGTTTTAAGGAAAACTATTTCAA
1 GTGAGACAAATTTTGTTTTAAGGAAAA-TATTTCAA
* *
1676018 GTGAGATAAAATTTGT
1 GTGAGACAAATTTTGT
1676034 ATTTTGAGGG
Statistics
Matches: 121, Mismatches: 27, Indels: 30
0.68 0.15 0.17
Matches are distributed among these distances:
34 7 0.06
35 6 0.05
36 35 0.29
37 45 0.37
38 28 0.23
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (35 bp):
GTGAGACAAATTTTGTTTTAAGGAAAATATTTCAA
Found at i:1680389 original size:31 final size:31
Alignment explanation
Indices: 1680330--1680416 Score: 79
Period size: 31 Copynumber: 2.8 Consensus size: 31
1680320 TTCGATAATA
* * * *
1680330 TAATAATTATTTTATAGT-ATTTAGATAAATT
1 TAATAAGTATTTTATAATCTTTTA-ATAAAGT
*
1680361 TATTAA-TAATTTTATAATCTTTTAATAAAGT
1 TAATAAGT-ATTTTATAATCTTTTAATAAAGT
* *
1680392 TAATAAGTATTTTATAGTTTTTTAA
1 TAATAAGTATTTTATAATCTTTTAA
1680417 ACTTTATTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.87
32 5 0.11
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (31 bp):
TAATAAGTATTTTATAATCTTTTAATAAAGT
Found at i:1681173 original size:31 final size:30
Alignment explanation
Indices: 1681138--1681224 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
1681128 TCAATAAAGT
1681138 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
1681169 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
1681200 TCT-AAATACTATAAAATAGTTATTA
1 T-TAAAAAATTATAAAATA-TTATTA
1681225 TATTATCGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 2 0.04
31 43 0.90
32 3 0.06
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:1681200 original size:20 final size:20
Alignment explanation
Indices: 1681133--1681200 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
1681123 TTTCGTCAAT
*
1681133 AAAG-TTTAAAAAATTA-TA
1 AAAGATTTATAAAATTATTA
* * *
1681151 AAATACTTATTAAATTTATTA
1 AAAGATTTA-TAAAATTATTA
1681172 AAAGA-TTATAAAATTATTA
1 AAAGATTTATAAAATTATTA
1681191 ATAA-ATTTAT
1 A-AAGATTTAT
1681201 CTAAATACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.08
19 15 0.38
20 15 0.38
21 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAGATTTATAAAATTATTA
Found at i:1684628 original size:14 final size:14
Alignment explanation
Indices: 1684605--1684637 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1684595 CTTTTTCATC
1684605 AACAAGAACAA-TA
1 AACAAGAACAATTA
1684618 AACATAGAACAATTA
1 AACA-AGAACAATTA
1684633 AACAA
1 AACAA
1684638 TAAAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 8 0.44
15 6 0.33
ACGTcount: A:0.67, C:0.15, G:0.06, T:0.12
Consensus pattern (14 bp):
AACAAGAACAATTA
Found at i:1686852 original size:5 final size:5
Alignment explanation
Indices: 1686842--1686867 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1686832 GGCTTATCAC
1686842 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
1686868 AGAAGGCCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:1689684 original size:36 final size:35
Alignment explanation
Indices: 1689644--1689723 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 35
1689634 ATGGAGCTTC
* *
1689644 AGATGGTCGATTAATGATTGGTTTAGCCTTGGATGG
1 AGATGGT-GATTAATGATTGGTTTAACCTTGAATGG
* * *
1689680 AGATGGTGCATTAGTGCTTGGTTTAACCTTTAATGG
1 AGATGGTG-ATTAATGATTGGTTTAACCTTGAATGG
*
1689716 AGGTGGTG
1 AGATGGTG
1689724 GATTGTTGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
35 1 0.03
36 36 0.97
ACGTcount: A:0.21, C:0.09, G:0.34, T:0.36
Consensus pattern (35 bp):
AGATGGTGATTAATGATTGGTTTAACCTTGAATGG
Found at i:1689734 original size:36 final size:35
Alignment explanation
Indices: 1689661--1689782 Score: 136
Period size: 36 Copynumber: 3.4 Consensus size: 35
1689651 CGATTAATGA
*
1689661 TTGGTTTAGCCTTGGATGGAGATGGTGCATTAGTGC
1 TTGGTTTAGCCTTGGATGGAGGTGGTGCATT-GTGC
* ** *
1689697 TTGGTTTAACCTTTAATGGAGGTGGTGGATTGTTGC
1 TTGGTTTAGCCTTGGATGGAGGTGGTGCATTG-TGC
* * *
1689733 TTGGGTTAGCGTTGGATCGAGGTGGTGCATTGCTGC
1 TTGGTTTAGCCTTGGATGGAGGTGGTGCATTG-TGC
*
1689769 TTGGTTCAGCCTTG
1 TTGGTTTAGCCTTG
1689783 AGCGTAGATC
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
35 1 0.01
36 68 0.99
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (35 bp):
TTGGTTTAGCCTTGGATGGAGGTGGTGCATTGTGC
Found at i:1689883 original size:36 final size:36
Alignment explanation
Indices: 1689796--1689883 Score: 140
Period size: 36 Copynumber: 2.4 Consensus size: 36
1689786 GTAGATCCTG
* *
1689796 CATTGTTGCTCGATTTGGTCTTTGATGAAGATGGTC
1 CATTGTTGCTCGGTTTGGTCTTGGATGAAGATGGTC
1689832 CATTGTTGCTCGGTTTGGTCTTGGATGAAGATGGTC
1 CATTGTTGCTCGGTTTGGTCTTGGATGAAGATGGTC
* *
1689868 CATTGTTTCTTGGTTT
1 CATTGTTGCTCGGTTT
1689884 AGTTTTACGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.14, C:0.14, G:0.28, T:0.44
Consensus pattern (36 bp):
CATTGTTGCTCGGTTTGGTCTTGGATGAAGATGGTC
Found at i:1690398 original size:15 final size:16
Alignment explanation
Indices: 1690378--1690408 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1690368 TAACGTTATT
1690378 TTAAAATT-AAATTAA
1 TTAAAATTAAAATTAA
1690393 TTAAAATTAAAATTAA
1 TTAAAATTAAAATTAA
1690409 AATTTTCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAAATTAAAATTAA
Found at i:1693687 original size:24 final size:24
Alignment explanation
Indices: 1693658--1693707 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
1693648 CATTAATGCT
** *
1693658 TGGTTTAGCCCTGGATGGAGGTGG
1 TGGTTTAAACCTGGATGGAGATGG
*
1693682 TGGTTTAAACTTGGATGGAGATGG
1 TGGTTTAAACCTGGATGGAGATGG
1693706 TG
1 TG
1693708 AATTGTTGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.18, C:0.08, G:0.42, T:0.32
Consensus pattern (24 bp):
TGGTTTAAACCTGGATGGAGATGG
Found at i:1695483 original size:13 final size:13
Alignment explanation
Indices: 1695465--1695492 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1695455 CGTTCAGTTT
1695465 AGTATAATAAAAG
1 AGTATAATAAAAG
1695478 AGTATAATAAAAG
1 AGTATAATAAAAG
1695491 AG
1 AG
1695493 GATCACCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (13 bp):
AGTATAATAAAAG
Found at i:1697198 original size:17 final size:18
Alignment explanation
Indices: 1697157--1697198 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1697147 AATAGGGACC
1697157 GAAAAGGTTAGAGAAGAA
1 GAAAAGGTTAGAGAAGAA
*
1697175 GAAAAGGTTAGGGAA-AA
1 GAAAAGGTTAGAGAAGAA
*
1697192 TAAAAGG
1 GAAAAGG
1697199 GGAGATCGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.55, C:0.00, G:0.33, T:0.12
Consensus pattern (18 bp):
GAAAAGGTTAGAGAAGAA
Found at i:1697469 original size:83 final size:82
Alignment explanation
Indices: 1697371--1697689 Score: 298
Period size: 83 Copynumber: 3.9 Consensus size: 82
1697361 TGCAGCGTTC
* * * * *
1697371 GTTGAAAAAATGCCACTATAGATGAACCCTATTGTGGCATTTGTATAAAAACATCACTAAAGTAC
1 GTTG-AAAAACGCCACTATAGATGAACCCTATTGCGGCATTTCTATAAAAACACCGCTAAAGTAC
*
1697436 TACTCTTTTATGGCATTT
65 TACTCTATTATGGCATTT
* * * * * * * *
1697454 ATCGATAAAACGCCACTATAAATAAACCCTATTACGACATTTTTATACAAACACCGCTAAAGTAC
1 GTTGA-AAAACGCCACTATAGATGAACCCTATTGCGGCATTTCTATAAAAACACCGCTAAAGTAC
* * *
1697519 TACTCTGTCATGACATTT
65 TACTCTATTATGGCATTT
* * * * * * *
1697537 GTTGAGAAACACAACTATGGATGAA-CCTATTGCGGCGTTTCTATAAAAACGCTGCTAAAGTACT
1 GTTGAAAAACGCCACTATAGATGAACCCTATTGCGGCATTTCTATAAAAACACCGCTAAAGTACT
** *
1697601 ACTCTATTGCGGCGTTT
66 ACTCTATTATGGCATTT
* * * * * * **
1697618 GTTGAAAAATGCCACTATAGATGAACTCTATTACGACATTTTTATACAAATGCCGCTAAAGTACT
1 GTTGAAAAACGCCACTATAGATGAACCCTATTGCGGCATTTCTATAAAAACACCGCTAAAGTACT
1697683 ACTCTAT
66 ACTCTAT
1697690 CGCGACGTTT
Statistics
Matches: 185, Mismatches: 49, Indels: 5
0.77 0.21 0.02
Matches are distributed among these distances:
81 63 0.34
82 53 0.29
83 69 0.37
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (82 bp):
GTTGAAAAACGCCACTATAGATGAACCCTATTGCGGCATTTCTATAAAAACACCGCTAAAGTACT
ACTCTATTATGGCATTT
Found at i:1697619 original size:81 final size:82
Alignment explanation
Indices: 1697468--1697699 Score: 241
Period size: 81 Copynumber: 2.8 Consensus size: 82
1697458 ATAAAACGCC
* * * * * * * **
1697468 ACTATAAATAAACCCTATTACGACATTTTTATACAAACACCGCTAAAGTACTACTCTGTCATGAC
1 ACTATAGATGAACTCTATTACGACATTTCTATAAAAACGCCGCTAAAGTACTACTCTATCGCGAC
* *
1697533 ATTTGTTGAGAAACACA
66 GTTTGTTGAAAAACACA
* * * * * * *
1697550 ACTATGGATGAAC-CTATTGCGGCGTTTCTATAAAAACGCTGCTAAAGTACTACTCTATTGCGGC
1 ACTATAGATGAACTCTATTACGACATTTCTATAAAAACGCCGCTAAAGTACTACTCTATCGCGAC
** *
1697614 GTTTGTTGAAAAATGCC
66 GTTTGTTGAAAAACACA
* * *
1697631 ACTATAGATGAACTCTATTACGACATTTTTATACAAATGCCGCTAAAGTACTACTCTATCGCGAC
1 ACTATAGATGAACTCTATTACGACATTTCTATAAAAACGCCGCTAAAGTACTACTCTATCGCGAC
1697696 GTTT
66 GTTT
1697700 TGTATAAAAA
Statistics
Matches: 119, Mismatches: 30, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
81 63 0.53
82 56 0.47
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (82 bp):
ACTATAGATGAACTCTATTACGACATTTCTATAAAAACGCCGCTAAAGTACTACTCTATCGCGAC
GTTTGTTGAAAAACACA
Found at i:1697676 original size:163 final size:165
Alignment explanation
Indices: 1697385--1697687 Score: 414
Period size: 163 Copynumber: 1.8 Consensus size: 165
1697375 AAAAAATGCC
* * * *
1697385 ACTATAGATGAACCCTATTGTGGCATTTGTATAAAAACATCACTAAAGTACTACTCTTTTATGGC
1 ACTATAGATGAACCCTATTGCGGCATTTCTATAAAAACATCACTAAAGTACTACTCTATTACGGC
1697450 ATTTATCGATAAAACGCCACTATAAATAAACCCTATTACGACATTTTTATACAAACACCGCTAAA
66 ATTTATCGATAAAACGCCACTATAAATAAACCCTATTACGACATTTTTATACAAACACCGCTAAA
1697515 GTACTACTCTGTCATGACATTTGTTGAGAAACACA
131 GTACTACTCTGTCATGACATTTGTTGAGAAACACA
* * * * *
1697550 ACTATGGATGAA-CCTATTGCGGCGTTTCTATAAAAAC-GCTGCTAAAGTACTACTCTATTGCGG
1 ACTATAGATGAACCCTATTGCGGCATTTCTATAAAAACATC-ACTAAAGTACTACTCTATTACGG
* * * * * * * **
1697613 CGTTTGTTGA-AAAATGCCACTATAGATGAACTCTATTACGACATTTTTATACAAATGCCGCTAA
65 CATTTATCGATAAAACGCCACTATAAATAAACCCTATTACGACATTTTTATACAAACACCGCTAA
1697677 AGTACTACTCT
130 AGTACTACTCT
1697688 ATCGCGACGT
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
163 60 0.50
164 48 0.40
165 11 0.09
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (165 bp):
ACTATAGATGAACCCTATTGCGGCATTTCTATAAAAACATCACTAAAGTACTACTCTATTACGGC
ATTTATCGATAAAACGCCACTATAAATAAACCCTATTACGACATTTTTATACAAACACCGCTAAA
GTACTACTCTGTCATGACATTTGTTGAGAAACACA
Found at i:1697713 original size:42 final size:42
Alignment explanation
Indices: 1697563--1697721 Score: 150
Period size: 41 Copynumber: 3.9 Consensus size: 42
1697553 ATGGATGAAC
* * * *
1697563 CTATTGCGGCG-TTTCTATAAAAACGCTGCTAAAGTACTACT
1 CTATTGCGACGTTTTGTATAAAAATGCCGCTAAAGTACTACT
* * *
1697604 CTATTGCGGCG-TTTGT-TGAAAAATGCCACTATAG-A-TGAACT
1 CTATTGCGACGTTTTGTAT-AAAAATGCCGCTAAAGTACT--ACT
* * *
1697645 CTATTACGACATTTT-TATACAAATGCCGCTAAAGTACTACT
1 CTATTGCGACGTTTTGTATAAAAATGCCGCTAAAGTACTACT
*
1697686 CTATCGCGACGTTTTGTATAAAAATGCCGCTAAAGT
1 CTATTGCGACGTTTTGTATAAAAATGCCGCTAAAGT
1697722 TACCATTTTG
Statistics
Matches: 95, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
39 1 0.01
40 2 0.02
41 67 0.71
42 24 0.25
43 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (42 bp):
CTATTGCGACGTTTTGTATAAAAATGCCGCTAAAGTACTACT
Found at i:1697885 original size:36 final size:36
Alignment explanation
Indices: 1697836--1697984 Score: 169
Period size: 36 Copynumber: 4.2 Consensus size: 36
1697826 GTAGTATGTG
* *
1697836 TTGTTGTTAGGTTTGGTCTTTGGTGAAGATGGTGCA
1 TTGTTGCTCGGTTTGGTCTTTGGTGAAGATGGTGCA
* *
1697872 TTGTTGCTCGGTTTGGTCTTGGGGGAAGATGGTGCA
1 TTGTTGCTCGGTTTGGTCTTTGGTGAAGATGGTGCA
* *
1697908 TTGTTGCTCGGTTTAG-CCTTGGTGAACG-TGGTGCA
1 TTGTTGCTCGGTTTGGTCTTTGGTGAA-GATGGTGCA
* * * *
1697943 TTATTGCTCGGGTTGGTC-TTGGATGAAGATGTTCCA
1 TTGTTGCTCGGTTTGGTCTTTGG-TGAAGATGGTGCA
1697979 TTGTTG
1 TTGTTG
1697985 TTTGGTTTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
35 32 0.34
36 63 0.66
ACGTcount: A:0.13, C:0.11, G:0.36, T:0.40
Consensus pattern (36 bp):
TTGTTGCTCGGTTTGGTCTTTGGTGAAGATGGTGCA
Found at i:1697953 original size:71 final size:71
Alignment explanation
Indices: 1697855--1697993 Score: 190
Period size: 71 Copynumber: 2.0 Consensus size: 71
1697845 GGTTTGGTCT
* * * *
1697855 TTGGTGAAGATGGTGCATTGTTGCTCGGTTTGGTCTTGGGGGAAGATGGTGCATTGTTGCTCGGT
1 TTGGTGAAGATGGTGCATTATTGCTCGGGTTGGTCTTGGAGGAAGATGGTCCATTGTTGCTCGGT
1697920 TTAGCC
66 TTAGCC
* * * *
1697926 TTGGTGAACG-TGGTGCATTATTGCTCGGGTTGGTCTTGGATGAAGATGTTCCATTGTTGTTTGG
1 TTGGTGAA-GATGGTGCATTATTGCTCGGGTTGGTCTTGGAGGAAGATGGTCCATTGTTGCTCGG
1697990 TTTA
65 TTTA
1697994 ATTTAACGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
71 58 0.98
72 1 0.02
ACGTcount: A:0.14, C:0.12, G:0.35, T:0.40
Consensus pattern (71 bp):
TTGGTGAAGATGGTGCATTATTGCTCGGGTTGGTCTTGGAGGAAGATGGTCCATTGTTGCTCGGT
TTAGCC
Found at i:1717879 original size:15 final size:15
Alignment explanation
Indices: 1717859--1717888 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1717849 GAAGCTGGCA
*
1717859 GTATGCCAGATAATG
1 GTATGCAAGATAATG
1717874 GTATGCAAGATAATG
1 GTATGCAAGATAATG
1717889 TATTTGAGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (15 bp):
GTATGCAAGATAATG
Found at i:1721921 original size:29 final size:29
Alignment explanation
Indices: 1721888--1721946 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1721878 GACTAATTTA
1721888 TGCCTAGTTGCTAAGGATGAACATGATAG
1 TGCCTAGTTGCTAAGGATGAACATGATAG
1721917 TGCCTAGTTGCTAAGGATGAACATGATAG
1 TGCCTAGTTGCTAAGGATGAACATGATAG
1721946 T
1 T
1721947 TGGTTATGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (29 bp):
TGCCTAGTTGCTAAGGATGAACATGATAG
Found at i:1733063 original size:41 final size:41
Alignment explanation
Indices: 1733018--1733098 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
1733008 AAGTGAGTAC
**
1733018 TTATCAGTTCAGCTTTGGTACATTTGTGTATCAATGTTCAG
1 TTATCAGTTCAGCTTTGGTACATTCATGTATCAATGTTCAG
1733059 TTATCAGTTCAGCTTTGGTACATTCATGTATCAATGTTCA
1 TTATCAGTTCAGCTTTGGTACATTCATGTATCAATGTTCA
1733099 ACACCGTTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.43
Consensus pattern (41 bp):
TTATCAGTTCAGCTTTGGTACATTCATGTATCAATGTTCAG
Found at i:1734680 original size:23 final size:22
Alignment explanation
Indices: 1734630--1734689 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
1734620 GGGAGCAATC
*
1734630 CATTTTTAATTTTGT-TTCGTTT
1 CATTTTTAATTTT-TATTCCTTT
1734652 CATTTTTTAATTTTTATTCCTTT
1 CA-TTTTTAATTTTTATTCCTTT
*
1734675 -AGTTTTAATTTTTAT
1 CATTTTTAATTTTTAT
1734690 ACTTTGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 13 0.38
22 4 0.12
23 17 0.50
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.68
Consensus pattern (22 bp):
CATTTTTAATTTTTATTCCTTT
Found at i:1734701 original size:20 final size:21
Alignment explanation
Indices: 1734656--1734694 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1734646 TCGTTTCATT
*
1734656 TTTTAATTTTTATTCCTTTAG
1 TTTTAATTTTTATTACTTTAG
1734677 TTTTAATTTTTA-TACTTT
1 TTTTAATTTTTATTACTTT
1734695 GATTTTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (21 bp):
TTTTAATTTTTATTACTTTAG
Found at i:1735823 original size:20 final size:20
Alignment explanation
Indices: 1735770--1735825 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
1735760 ATACTTGAAG
* *
1735770 GGGTATCAGTACCATAGTAT
1 GGGTATCAATACCATAGTAA
* *
1735790 GGTAGTATCGATACCATGGTAA
1 GG--GTATCAATACCATAGTAA
1735812 GGGTATCAATACCA
1 GGGTATCAATACCA
1735826 GGCAACATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 13 0.45
22 16 0.55
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (20 bp):
GGGTATCAATACCATAGTAA
Found at i:1735833 original size:94 final size:94
Alignment explanation
Indices: 1735695--1735905 Score: 262
Period size: 94 Copynumber: 2.2 Consensus size: 94
1735685 GATACCAACG
* * * * * *
1735695 AGGTAGTATCGATACCATGGTAAGGGTATCGATATCAGAAAACATCGAATCTAAAATTAGTATCG
1 AGGTAGTATCGATACCATGGTAAGGGTATCAATACCAGAAAACATCAAACCTAAAATGAGTATCA
***
1735760 ATACTTGAA-GGGGTATCAGTACCATAGT
66 ATACCAAAAGGGGGTATCAGTACCATAGT
** *
1735788 ATGGTAGTATCGATACCATGGTAAGGGTATCAATACCAGGCAACATCAAACCTAAAATGGGTATC
1 A-GGTAGTATCGATACCATGGTAAGGGTATCAATACCAGAAAACATCAAACCTAAAATGAGTATC
1735853 AATACCAAAAGGGGGTATCAGTACCATAGT
65 AATACCAAAAGGGGGTATCAGTACCATAGT
* * *
1735883 AGAGAAGTATCGGTACCACGGTA
1 AG-GTAGTATCGATACCATGGTA
1735906 GTAGTATCGA
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
93 1 0.01
94 62 0.62
95 37 0.37
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (94 bp):
AGGTAGTATCGATACCATGGTAAGGGTATCAATACCAGAAAACATCAAACCTAAAATGAGTATCA
ATACCAAAAGGGGGTATCAGTACCATAGT
Found at i:1736376 original size:55 final size:55
Alignment explanation
Indices: 1736231--1736738 Score: 713
Period size: 55 Copynumber: 9.3 Consensus size: 55
1736221 ATTACCAAAT
* *
1736231 AGGCACTATGTGTGCAAATCAACGAAATTCATCATGAGTTGATGAATAACCGCATA-
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG--TAC
*
1736287 AGG-AC--TGTGTGTAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
*
1736339 AGGCACTATGTGTGCAAATCTACGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
1736394 AGGCACTATGTGTTCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
1736449 ATGCACTATGTGTGCAAATTCACGGAATTCGTCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
1736504 ATGCACTATGTGTGCAAACCCACGGAATTCATCATGAGTTAATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
1736559 ATGCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGCATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
1736614 ATGCACTAAGTGTGC-ATTTCACAGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
1736668 ATGCACTATGTGTGCAAATCCACGGAATTTATCATGAGTAGATG-ATCTACCGTAT
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAAT-AACCGTAC
*
1736723 AGGCACTATTTGTGCA
1 AGGCACTATGTGTGCA
1736739 TCTTAATAAA
Statistics
Matches: 409, Mismatches: 37, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
51 2 0.00
52 3 0.01
53 43 0.11
54 50 0.12
55 308 0.75
56 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (55 bp):
AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:1736987 original size:81 final size:81
Alignment explanation
Indices: 1736875--1737055 Score: 184
Period size: 81 Copynumber: 2.2 Consensus size: 81
1736865 ACTAGTCCAA
* * * * * * * **
1736875 AATAGAAGAATAATGGCATAATTATGCAATTGGCATAAATGTGTCAGTTATGCCAATTAGATTAA
1 AATAAAAGAATAATGACTTAACTATGCAATTGGCAGAAATGTGTCAATTATCCCAATTAGACGAA
1736940 TGGTTAAAGA-TCGTTG
66 TGGTTAAAGACT-GTTG
* * ** * * *
1736956 AGTAAAAGAATAATGACTTAACTGTGCAATTGGTGGAAATGTGTTAATTTTCCCAGTTAGACGAA
1 AATAAAAGAATAATGACTTAACTATGCAATTGGCAGAAATGTGTCAATTATCCCAATTAGACGAA
*
1737021 TGGTTAAATACTGTTG
66 TGGTTAAAGACTGTTG
1737037 AATAAAAGAATAATAGACT
1 AATAAAAGAATAAT-GACT
1737056 AGCTGTACAT
Statistics
Matches: 80, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
81 75 0.94
82 5 0.06
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.31
Consensus pattern (81 bp):
AATAAAAGAATAATGACTTAACTATGCAATTGGCAGAAATGTGTCAATTATCCCAATTAGACGAA
TGGTTAAAGACTGTTG
Found at i:1737385 original size:46 final size:45
Alignment explanation
Indices: 1737277--1737395 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 45
1737267 TTTCATAATG
* * * *
1737277 GGCATGAAAGGATGCCATAAATAAAATGTATAATAATGTATAAAA
1 GGCATGAAACGATGTCATAAATAAAATGTAAAATAATATATAAAA
* * *
1737322 GGTATGAAATGATGTCATAAATAAAATGTAAAATAGTATATAAAAA
1 GGCATGAAACGATGTCATAAATAAAATGTAAAATAATATAT-AAAA
1737368 GGCATG-AACGATTGTCATAAATGAAAAT
1 GGCATGAAACGA-TGTCATAAAT-AAAAT
1737396 ACATAATGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 39 0.62
46 19 0.30
47 5 0.08
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (45 bp):
GGCATGAAACGATGTCATAAATAAAATGTAAAATAATATATAAAA
Found at i:1740845 original size:17 final size:17
Alignment explanation
Indices: 1740818--1740859 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
1740808 ATTCAGTTTC
1740818 AAAAATCAAAAAAGAAAA
1 AAAAAT-AAAAAAGAAAA
*
1740836 AAAAATAAAAAAGAGAA
1 AAAAATAAAAAAGAAAA
1740853 AAAAATA
1 AAAAATA
1740860 GTATTCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.07
Consensus pattern (17 bp):
AAAAATAAAAAAGAAAA
Found at i:1751084 original size:19 final size:19
Alignment explanation
Indices: 1751060--1751111 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
1751050 TTGGATCCTT
1751060 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
1751079 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
*
1751098 AGTGCATCGATGCA
1 AGTGCATCGGTGCA
1751112 TCAAGTGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:1755095 original size:6 final size:6
Alignment explanation
Indices: 1755086--1755110 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1755076 ATTTAAAATT
1755086 GATAGG GATAGG GATAGG GATAGG G
1 GATAGG GATAGG GATAGG GATAGG G
1755111 GTGGAGTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GATAGG
Found at i:1759897 original size:25 final size:25
Alignment explanation
Indices: 1759863--1759913 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
1759853 CATTGACTTA
*
1759863 GCCGATGTGTTATCTTGGATCAGTG
1 GCCGATGTGTCATCTTGGATCAGTG
1759888 GCCGATGTGTCATCTTGGATCAGTG
1 GCCGATGTGTCATCTTGGATCAGTG
1759913 G
1 G
1759914 ACAATCGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.18, G:0.33, T:0.33
Consensus pattern (25 bp):
GCCGATGTGTCATCTTGGATCAGTG
Found at i:1761806 original size:26 final size:26
Alignment explanation
Indices: 1761776--1761825 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
1761766 CCAGAAGGCG
*
1761776 TGCTGACTAGATATTCTAGAAACTGC
1 TGCTGACTAGACATTCTAGAAACTGC
* *
1761802 TGCTGACTGGACCTTCTAGAAACT
1 TGCTGACTAGACATTCTAGAAACT
1761826 ACCACGTCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (26 bp):
TGCTGACTAGACATTCTAGAAACTGC
Found at i:1764572 original size:18 final size:17
Alignment explanation
Indices: 1764515--1764568 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 17
1764505 CTTTATCTAC
1764515 TTTATTTATTTTCTCATTA
1 TTTATTTA-TTT-TCATTA
*
1764534 TTATATTT-TTATTCAATA
1 TT-TATTTATT-TTCATTA
1764552 TTTATTTATTTTCATTA
1 TTTATTTATTTTCATTA
1764569 ATTTTAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 11 0.37
18 11 0.37
19 3 0.10
20 5 0.17
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATTTATTTTCATTA
Found at i:1771158 original size:80 final size:80
Alignment explanation
Indices: 1770950--1771158 Score: 251
Period size: 80 Copynumber: 2.6 Consensus size: 80
1770940 AGGTTACCTT
* * *
1770950 TTTCTTGTAATTGAGTGTGTATCTCGTACAATACATCACCACTTTCATATTTAGGTGTATACCTC
1 TTTCTTGTAATTGGGTGTGTATCTCGTACAATACATCACCACTTTCAAATTTAGATGTATACCTC
*
1771015 ATATGATAATTCACC
66 ATACGATAATTCACC
* * * * * * * *
1771030 TTGCTTATAATTGGGTGTGTATCCCTTACAATGCATCACCAATGTCAAATTTAGATGTGTACCT-
1 TTTCTTGTAATTGGGTGTGTATCTCGTACAATACATCACCACTTTCAAATTTAGATGTATACCTC
1771094 AGTACGATACA-TCACC
66 A-TACGATA-ATTCACC
* * *
1771110 TTTCTTGTAACTGGGTGTGTATCTCGTATAATACATCAGCACTTTCAAA
1 TTTCTTGTAATTGGGTGTGTATCTCGTACAATACATCACCACTTTCAAA
1771159 CGATACATCA
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
79 1 0.01
80 103 0.98
81 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (80 bp):
TTTCTTGTAATTGGGTGTGTATCTCGTACAATACATCACCACTTTCAAATTTAGATGTATACCTC
ATACGATAATTCACC
Found at i:1771214 original size:61 final size:61
Alignment explanation
Indices: 1771097--1771215 Score: 166
Period size: 61 Copynumber: 2.0 Consensus size: 61
1771087 TGTACCTAGT
** * * ** *
1771097 ACGATACATCACCTTTCTTGTAACTGGGTGTGTATCTCGTATAATACATCAGCACTTTCAA
1 ACGATACATCACCTCGCTTGTAACTGGGTGTGTATCTCATACAATACAAAACCACTTTCAA
*
1771158 ACGATACATCACCTCGCTTGTAATTGGGTGTGTATCTCATACAATACAAAACCACTTT
1 ACGATACATCACCTCGCTTGTAACTGGGTGTGTATCTCATACAATACAAAACCACTTT
1771216 TATATTTAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (61 bp):
ACGATACATCACCTCGCTTGTAACTGGGTGTGTATCTCATACAATACAAAACCACTTTCAA
Found at i:1771349 original size:20 final size:21
Alignment explanation
Indices: 1771293--1771349 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
1771283 CTAAAATATG
*
1771293 GGTTGCAACCTAAAAAAATCAA
1 GGTTCCAACCT-AAAAAATCAA
* * *
1771315 GTTTCCAA-CTTAAAAA-CCA
1 GGTTCCAACCTAAAAAATCAA
1771334 GGTTCCAACCTAAAAA
1 GGTTCCAACCTAAAAA
1771350 TTAGAATTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 9 0.32
20 11 0.39
21 2 0.07
22 6 0.21
ACGTcount: A:0.46, C:0.23, G:0.11, T:0.21
Consensus pattern (21 bp):
GGTTCCAACCTAAAAAATCAA
Found at i:1771381 original size:19 final size:19
Alignment explanation
Indices: 1771317--1771410 Score: 71
Period size: 20 Copynumber: 4.8 Consensus size: 19
1771307 AAAATCAAGT
* **
1771317 TTCCAACTTAAAAACCAGG
1 TTCCAACCTAAAAATTAGG
*
1771336 TTCCAACCTAAAAATTAGAA
1 TTCCAACCTAAAAATTAG-G
* *
1771356 TTTCAACTTAAAAATTAGG
1 TTCCAACCTAAAAATTAGG
* * *
1771375 CTCCAACCTAAAATTTCATG
1 TTCCAACCTAAAAATT-AGG
* *
1771395 TTCTATCCTAAAAATT
1 TTCCAACCTAAAAATT
1771411 CAATATTGAG
Statistics
Matches: 57, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
19 27 0.47
20 30 0.53
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (19 bp):
TTCCAACCTAAAAATTAGG
Found at i:1782744 original size:13 final size:14
Alignment explanation
Indices: 1782722--1782767 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
1782712 TGCATGATTC
*
1782722 ATTTTAATAATGTT
1 ATTTTTATAATGTT
1782736 -TTTTTATAATTGCTT
1 ATTTTTATAA-TG-TT
1782751 ATTTTTAT-ATGTT
1 ATTTTTATAATGTT
1782764 ATTT
1 ATTT
1782768 ATTTAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 14 0.50
14 4 0.14
15 3 0.11
16 7 0.25
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (14 bp):
ATTTTTATAATGTT
Found at i:1784327 original size:58 final size:58
Alignment explanation
Indices: 1784263--1784384 Score: 208
Period size: 58 Copynumber: 2.1 Consensus size: 58
1784253 CGGATATCAT
*
1784263 AAAAATAATTTCTAAATTTAAGTTTAATTTGATATATATTAATGAATAAATTGATTTA
1 AAAAATAATTTCTAAATTTAAGTTTAATTTGATATATATTAATGAATAAATTAATTTA
* * *
1784321 AAAAATAATTTTTAAATTTAAGTTTAATTTGATATATATTAGTGAATAAATTAATTTG
1 AAAAATAATTTCTAAATTTAAGTTTAATTTGATATATATTAATGAATAAATTAATTTA
1784379 AAAAAT
1 AAAAAT
1784385 TAAATCTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (58 bp):
AAAAATAATTTCTAAATTTAAGTTTAATTTGATATATATTAATGAATAAATTAATTTA
Found at i:1784928 original size:36 final size:36
Alignment explanation
Indices: 1784888--1785091 Score: 189
Period size: 36 Copynumber: 5.7 Consensus size: 36
1784878 GGGGCTTCAA
1784888 ATGGTGCATTAG-TGCTTGGTTTAGCCTTGGATGGAG
1 ATGGTGCATT-GTTGCTTGGTTTAGCCTTGGATGGAG
* * *
1784924 ATGGTGCACTAG-TGCTTGGTTTAACCTTGGGTGGAG
1 ATGGTGCA-TTGTTGCTTGGTTTAGCCTTGGATGGAG
* * * * * *
1784960 GTGGTGCGTTGTTGCTTGGGTTAGCGTTGGACGAAG
1 ATGGTGCATTGTTGCTTGGTTTAGCCTTGGATGGAG
* * *
1784996 GTGGTGCATTGTTGCTTGGTTCAGCCTTGGGTGGAG
1 ATGGTGCATTGTTGCTTGGTTTAGCCTTGGATGGAG
* * * ** *
1785032 ATCGTGCATTGCTGC-TGGATTTTGTATTGGATGAAG
1 ATGGTGCATTGTTGCTTGG-TTTAGCCTTGGATGGAG
*
1785068 ATGGTCCATTGTTGCTTGGTTTAG
1 ATGGTGCATTGTTGCTTGGTTTAG
1785092 TTTTACGTCG
Statistics
Matches: 132, Mismatches: 32, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
35 5 0.04
36 123 0.93
37 4 0.03
ACGTcount: A:0.14, C:0.12, G:0.37, T:0.37
Consensus pattern (36 bp):
ATGGTGCATTGTTGCTTGGTTTAGCCTTGGATGGAG
Found at i:1785220 original size:30 final size:30
Alignment explanation
Indices: 1785186--1785292 Score: 115
Period size: 30 Copynumber: 3.6 Consensus size: 30
1785176 TAGGGGTAGA
* *
1785186 GGCCGGAGATAGGGTGGGCTTCGGTCCCGG
1 GGCCGGAGATGGGGTCGGCTTCGGTCCCGG
*
1785216 GGCCGGAGTTGGGGTCGGCTTCGGTCCCGG
1 GGCCGGAGATGGGGTCGGCTTCGGTCCCGG
* * * * *
1785246 GGCTGGAGATGGGGTTGGTTTAGGTGCCGG
1 GGCCGGAGATGGGGTCGGCTTCGGTCCCGG
* * *
1785276 AGTCGGAGAAGGGGTCG
1 GGCCGGAGATGGGGTCG
1785293 TCTTTGAGGC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.10, C:0.19, G:0.51, T:0.20
Consensus pattern (30 bp):
GGCCGGAGATGGGGTCGGCTTCGGTCCCGG
Found at i:1785305 original size:30 final size:30
Alignment explanation
Indices: 1785271--1785350 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
1785261 TGGTTTAGGT
* *
1785271 GCCGGAGTCGGAGAAGGGGTCGTCTTTGAG
1 GCCGGAGACGGAGAAGGGGTCGTCTTCGAG
* *
1785301 GCCGGAGACGGAGAAGGGGTTGTCTTCGGG
1 GCCGGAGACGGAGAAGGGGTCGTCTTCGAG
* * *
1785331 GACGGAGCCAGAGAAGGGGT
1 GCCGGAGACGGAGAAGGGGT
1785351 TGGCTTTGGG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.20, C:0.16, G:0.49, T:0.15
Consensus pattern (30 bp):
GCCGGAGACGGAGAAGGGGTCGTCTTCGAG
Found at i:1785351 original size:30 final size:30
Alignment explanation
Indices: 1785281--1785361 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
1785271 GCCGGAGTCG
* * * *
1785281 GAGAAGGGGTCGTCTTTGAGGCCGGAGACG
1 GAGAAGGGGTTGTCTTTGGGGACGGAGACA
* *
1785311 GAGAAGGGGTTGTCTTCGGGGACGGAGCCA
1 GAGAAGGGGTTGTCTTTGGGGACGGAGACA
*
1785341 GAGAAGGGGTTGGCTTTGGGG
1 GAGAAGGGGTTGTCTTTGGGG
1785362 TTGGGGACGG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.19, C:0.14, G:0.49, T:0.19
Consensus pattern (30 bp):
GAGAAGGGGTTGTCTTTGGGGACGGAGACA
Found at i:1786914 original size:41 final size:41
Alignment explanation
Indices: 1786858--1786939 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
1786848 TCTCTGATCA
* * *
1786858 ACGACGACAAAGCTCAGGACAACAACAACGATGGCAGCTAG
1 ACGACAACAAAGCTCAGGAAAACAACAACAATGGCAGCTAG
**
1786899 ACGACAACAAAGCTCAGGAAAACGGCAACAATGGCAGCTAG
1 ACGACAACAAAGCTCAGGAAAACAACAACAATGGCAGCTAG
1786940 GGTTGAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.43, C:0.26, G:0.24, T:0.07
Consensus pattern (41 bp):
ACGACAACAAAGCTCAGGAAAACAACAACAATGGCAGCTAG
Found at i:1797493 original size:219 final size:220
Alignment explanation
Indices: 1797114--1797556 Score: 800
Period size: 219 Copynumber: 2.0 Consensus size: 220
1797104 AACGTTAGAT
1797114 ATGATTTTAGAAAATATTGAAAGTTTAGGGGAAACGGATCAAAACTGATAATATAAATACTAAAC
1 ATGATTTTAGAAAATATTGAAAGTTTAGGGGAAACGGATCAAAACTGATAATATAAATACTAAAC
1797179 TTGTAGTTTACCCAAAGAAAACTTATTTCCCTAGTTATTGTGATTTGCTTTGGGTCCATATAAAA
66 TTGTAGTTTACCCAAAGAAAACTTATTTCCCTAGTTATTGTGATTTGCTTTGGGTCCATATAAAA
* *
1797244 TCCTCTTTCCAGGATTCCCTCTCCTTTCTCTGTGTTTCAAATCCCCAATCTGAAACAACCTA-CT
131 TCCCCTTTCCAGGATTCCCTCTCCTTTCTCTGTGTTTCAAATCCCCAATCTGAAACAACCTACCC
*
1797308 TCCTTCTCTCTCTCAATTCGCCGAA
196 GCCTTCTCTCTCTCAATTCGCCGAA
* * *
1797333 ATGATTTT-GAAAATATTGAAAGTTTAGGGGAAAACGGATCAAAACTGATAGTATAAGTATTAAA
1 ATGATTTTAGAAAATATTGAAAGTTTAGGGG-AAACGGATCAAAACTGATAATATAAATACTAAA
1797397 CTTGTAGTTTACCCAAAGAAAACTTATTTCCCTAGTTATTGTGATTTGCTTTGGGTCCATATAAA
65 CTTGTAGTTTACCCAAAGAAAACTTATTTCCCTAGTTATTGTGATTTGCTTTGGGTCCATATAAA
*
1797462 ATCCCCTTTCCAGGATTCCCTCTCCTTTCTCTGTGTTTCAAATCCCCGATCTGAAACAACCTACC
130 ATCCCCTTTCCAGGATTCCCTCTCCTTTCTCTGTGTTTCAAATCCCCAATCTGAAACAACCTACC
1797527 CGCCTTCTCTCTCTCAATTCGCCGAA
195 CGCCTTCTCTCTCTCAATTCGCCGAA
1797553 ATGA
1 ATGA
1797557 AGCTTACAGT
Statistics
Matches: 215, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
218 22 0.10
219 164 0.76
220 29 0.13
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (220 bp):
ATGATTTTAGAAAATATTGAAAGTTTAGGGGAAACGGATCAAAACTGATAATATAAATACTAAAC
TTGTAGTTTACCCAAAGAAAACTTATTTCCCTAGTTATTGTGATTTGCTTTGGGTCCATATAAAA
TCCCCTTTCCAGGATTCCCTCTCCTTTCTCTGTGTTTCAAATCCCCAATCTGAAACAACCTACCC
GCCTTCTCTCTCTCAATTCGCCGAA
Found at i:1805913 original size:16 final size:15
Alignment explanation
Indices: 1805894--1805944 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
1805884 ATATTAATAA
1805894 ATTTAAATTATCTTAT
1 ATTTAAATTAT-TTAT
1805910 ATTTATAA-TATTTAAT
1 ATTTA-AATTATTT-AT
1805926 ATATT-AATTATTTAT
1 AT-TTAAATTATTTAT
1805941 ATTT
1 ATTT
1805945 TATGTGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 2 0.06
15 8 0.26
16 17 0.55
17 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTAAATTATTTAT
Found at i:1806003 original size:17 final size:15
Alignment explanation
Indices: 1805955--1805997 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
1805945 TATGTGATGA
1805955 AAAATAATATTATTGT
1 AAAATAATATTATT-T
1805971 AAAA-AATTAATTATTT
1 AAAATAA-T-ATTATTT
1805987 AAAATAATATT
1 AAAATAATATT
1805998 TAATTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 5 0.21
16 11 0.46
17 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
AAAATAATATTATTT
Found at i:1814408 original size:24 final size:24
Alignment explanation
Indices: 1814376--1814424 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
1814366 AGTCTTCCTG
1814376 ATGATGTATAAAACATCCATGTAC
1 ATGATGTATAAAACATCCATGTAC
*
1814400 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCCATGTAC
1814424 A
1 A
1814425 ATGTCATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (24 bp):
ATGATGTATAAAACATCCATGTAC
Found at i:1815020 original size:30 final size:31
Alignment explanation
Indices: 1814963--1815023 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
1814953 CAACCATTCA
1814963 TAACTTTTGCAAAATTGAAAAATTGGTCCCC
1 TAACTTTTGCAAAATTGAAAAATTGGTCCCC
1814994 TAACTTTT-CAAAAATT-ACAAAA-TGGTCCCC
1 TAACTTTTGC-AAAATTGA-AAAATTGGTCCCC
1815024 AAATTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (31 bp):
TAACTTTTGCAAAATTGAAAAATTGGTCCCC
Found at i:1824149 original size:3 final size:3
Alignment explanation
Indices: 1824141--1824211 Score: 106
Period size: 3 Copynumber: 23.0 Consensus size: 3
1824131 GATTCATTTG
*
1824141 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
*
1824187 ATT AAT ATT ATAT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT
1824212 TAATAAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
3 56 0.90
4 6 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1825807 original size:95 final size:92
Alignment explanation
Indices: 1825659--1825830 Score: 209
Period size: 95 Copynumber: 1.8 Consensus size: 92
1825649 ATTATTTTAA
* * * * * *
1825659 TATTTATTTTTCAATATCGAAGAAAAGGGCAGTCTTAATACAACTGGATGTCCTATTCTGGTATT
1 TATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAGACAACTAGAAGTCCTATTCTGATATT
1825724 TTAAAATTAAATATTAATAAAAAAATAT
66 TTAAAA-TAAATATTAATAAAAAAATAT
* * * * *
1825752 TATTTAATTTTATTAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCCTTTTCTGATA
1 TATTT-ATTTT-TCAATATCAAAGAAAAGAGCAGTCTTAAGACAACTAGAAGTCCTATTCTGATA
*
1825817 TTTTTAAATAAATA
64 TTTTAAAATAAATA
1825831 AATAAATTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
93 5 0.08
94 11 0.17
95 49 0.75
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (92 bp):
TATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAGACAACTAGAAGTCCTATTCTGATATT
TTAAAATAAATATTAATAAAAAAATAT
Found at i:1830430 original size:3 final size:3
Alignment explanation
Indices: 1830422--1830492 Score: 101
Period size: 3 Copynumber: 24.0 Consensus size: 3
1830412 TTTTCATTTG
*
1830422 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT -TT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1830468 ATT AAT ATT ATAT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT
1830493 TAATAAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 4 0.06
3 55 0.89
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1834261 original size:14 final size:14
Alignment explanation
Indices: 1834223--1834276 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
1834213 ATTTTAAATA
*
1834223 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
1834237 TTTTACATTTGCAT
1 ATTTACATTTGCAT
1834251 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
1834266 CTTTGCATTTG
1 ATTTACATTTG
1834277 TATTGCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:1837563 original size:22 final size:22
Alignment explanation
Indices: 1837537--1837580 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1837527 TATTATACTC
1837537 ATCCAGCAAAGAAAGAAAAAAA
1 ATCCAGCAAAGAAAGAAAAAAA
*
1837559 ATCCAGCAAAGAAAGGAAAAAA
1 ATCCAGCAAAGAAAGAAAAAAA
1837581 GAAAAAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.66, C:0.14, G:0.16, T:0.05
Consensus pattern (22 bp):
ATCCAGCAAAGAAAGAAAAAAA
Found at i:1837596 original size:10 final size:9
Alignment explanation
Indices: 1837575--1837625 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
1837565 CAAAGAAAGG
1837575 AAAAA-AGA
1 AAAAAGAGA
1837583 AAAAAGAGGA
1 AAAAAGA-GA
1837593 AAAAAGA-A
1 AAAAAGAGA
1837601 AAAAAGAGGA
1 AAAAAGA-GA
*
1837611 AAGAAATAGA
1 AA-AAAGAGA
1837621 AAAAA
1 AAAAA
1837626 AAATTAAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
8 13 0.35
9 4 0.11
10 16 0.43
11 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:1837603 original size:18 final size:18
Alignment explanation
Indices: 1837572--1837626 Score: 76
Period size: 17 Copynumber: 2.9 Consensus size: 18
1837562 CAGCAAAGAA
1837572 AGGAAAAAAG-AAAAAAG
1 AGGAAAAAAGAAAAAAAG
1837589 AGGAAAAAAGAAAAAAAG
1 AGGAAAAAAGAAAAAAAG
1837607 AGGAAAGAAATAGAAAAAAA
1 AGG-AA-AAA-AGAAAAAAA
1837627 AATTAAATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.29
18 10 0.29
19 2 0.06
20 3 0.09
21 9 0.26
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (18 bp):
AGGAAAAAAGAAAAAAAG
Found at i:1841352 original size:75 final size:74
Alignment explanation
Indices: 1841165--1841402 Score: 298
Period size: 75 Copynumber: 3.2 Consensus size: 74
1841155 GCAAATGTTA
* * ** * **
1841165 GGGCATGCTGAAAACCCTTTTCAATCAGAATCAGGAATGTTGATGTATCCTGAATGTTTATATCA
1 GGGCATGCTG-AAAGCCTTTTCAATCAGAATCAAGAATGTTGATGTATTTTGAACGTTCGTATCA
* *
1841230 GCAAAATGCTG
65 GC-AATTGATG
*
1841241 GGGCATGCTGAAAGCCCCTTTT-AATCAGAATGAAGAATGTTGATGTATTTTGAACGTTCGTATC
1 GGGCATGCTGAAAG--CCTTTTCAATCAGAATCAAGAATGTTGATGTATTTTGAACGTTCGTATC
*
1841305 AACAATTGATG
64 AGCAATTGATG
* *
1841316 GGGCATGCTGAAAGCCTATTTCAATCAGAATCAAGAATATTGATGTATTTTGAACATTCGTATCA
1 GGGCATGCTGAAAGCCT-TTTCAATCAGAATCAAGAATGTTGATGTATTTTGAACGTTCGTATCA
*
1841381 GCAATTGTTG
65 GCAATTGATG
1841391 GGGCATGCTGAA
1 GGGCATGCTGAA
1841403 GGCCCACAAC
Statistics
Matches: 142, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
73 3 0.02
74 3 0.02
75 83 0.58
76 47 0.33
77 6 0.04
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (74 bp):
GGGCATGCTGAAAGCCTTTTCAATCAGAATCAAGAATGTTGATGTATTTTGAACGTTCGTATCAG
CAATTGATG
Found at i:1842719 original size:22 final size:22
Alignment explanation
Indices: 1842690--1842744 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1842680 ATCTATACTC
*
1842690 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
1842712 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
1842734 TTCAAAGATGA
1 TTCAAAGATGA
1842745 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:1843252 original size:40 final size:40
Alignment explanation
Indices: 1843181--1843284 Score: 172
Period size: 40 Copynumber: 2.6 Consensus size: 40
1843171 CAGTTTTTCC
* * *
1843181 AGAAAAAGTTCATAATGAGAAGAATTTATCTGAAGAAGGA
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
1843221 AGAAGAAGTCCATAATGAGAAGAACTCATCTGAAGAAGGA
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1843261 AGAAGAAGTTCATAATGAGAAGAA
1 AGAAGAAGTTCATAATGAGAAGAA
1843285 TTTGTTCAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.50, C:0.08, G:0.24, T:0.18
Consensus pattern (40 bp):
AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:1843509 original size:40 final size:40
Alignment explanation
Indices: 1843443--1843541 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
1843433 TTTCCAGAGA
* *
1843443 AAGTTCATAATGAGAAGAATTTATCTGAAGAAGGAA-GAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATG-AG
* *
1843483 AAGTCCATAATAAGAAGAACTCATCTGAAGAAGGAATGAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATGAG
*
1843523 AAATTCATAATGAGAAGAA
1 AAGTTCATAATGAGAAGAA
1843542 TTTGTTCAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 50 0.98
41 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.20
Consensus pattern (40 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATGAG
Found at i:1843613 original size:111 final size:111
Alignment explanation
Indices: 1843478--1843891 Score: 550
Period size: 111 Copynumber: 3.7 Consensus size: 111
1843468 TGAAGAAGGA
* * *
1843478 AGAAGAAGTCCATAATAAGAAGAACTCATCTGAAGAAGGAATG-AGAAATTCATAATGAGAAGAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA-GAAGAAATTCATAATGAGAAGAA
1843542 TTTGTTCAACCTTTTGCAAATCCATCACTTGATGGATCAACTTTTCC
65 TTTGTTCAACCTTTTGCAAATCCATCACTTGATGGATCAACTTTTCC
* * *
1843589 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
* * * *
1843654 TTGTTCAA-CTTTTCGCTTGAATTCATCA-TTCGAT-GATTC-AGTATTACC
66 TTGTTCAACCTTTT-GC--AAATCCATCACTT-GATGGA-TCAACT-TTTCC
** * *
1843702 AGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGGAGAAATTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
*
1843767 TTGTTCAACCTTTTGCAAATCCATCACTTGATGGATCAGCTTTTCC
66 TTGTTCAACCTTTTGCAAATCCATCACTTGATGGATCAACTTTTCC
* * * * *
1843813 AGAGAAAGTTCATAATGAGAAGAATTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1843878 TTGTTCAACCTTTT
66 TTGTTCAACCTTTT
1843892 ACATGACTCT
Statistics
Matches: 262, Mismatches: 30, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
110 6 0.02
111 155 0.59
112 11 0.04
113 85 0.32
114 5 0.02
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (111 bp):
AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
TTGTTCAACCTTTTGCAAATCCATCACTTGATGGATCAACTTTTCC
Found at i:1844000 original size:84 final size:83
Alignment explanation
Indices: 1843853--1844045 Score: 269
Period size: 84 Copynumber: 2.3 Consensus size: 83
1843843 TGAAGAAGGA
** * *
1843853 AGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTACATGACTCTATCACAGAATTAGATA
1 AGAA-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATAACTCTATCACAGAAGTAGATA
*
1843918 GATCAACATCAACTTTTCC
65 GATCAACATCAACATTTCC
* *** *
1843937 AGAGAAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGTTTAACTCTATCACAGAAGTAGATG
1 AGA-AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATAACTCTATCACAGAAGTAGATA
1844002 GATCAACATCAACATTTCC
65 GATCAACATCAACATTTCC
*
1844021 AGAAATGTTCATAATGAGAAGAACT
1 AGAAAAGTTCATAATGAGAAGAACT
1844046 CATCTGAAAG
Statistics
Matches: 97, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
83 21 0.22
84 75 0.77
85 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (83 bp):
AGAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATAACTCTATCACAGAAGTAGATAG
ATCAACATCAACATTTCC
Done.