Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold166
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: 2719372
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17868 characters in sequence are not A, C, G, or T
File 17 of 18
Found at i:2582025 original size:167 final size:168
Alignment explanation
Indices: 2581281--2582037 Score: 1068
Period size: 166 Copynumber: 4.6 Consensus size: 168
2581271 AAAAAATGAT
* * *
2581281 ATTTGATATGAATTAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAAT-TTC
1 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATCCTC
* * * *
2581345 TTCGAAAAAATTTACGGAGAAAAAAACTCCATATTT-G-AAAAAATGAGAGTTTCAAGGAAAAAA
66 CTCGAAAAAATTTACGGAGAAGAAAACTCCGTATTTAGAAAAAAAAGA-AGTTTCAAGGAAAAAA
* *
2581408 TTAAAAAATCCATGAAAATGAATGAATTTTTGAAAGATG
130 TTCAAAAATCCATGAAAATGAATGAATTTTTGAAAGATA
* *
2581447 ATTTAATATGAATT--A-AATAATATTTAATGAATTTTAAAAATTAAAAACCAAAGAAAATCCT-
1 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATCCTC
* * * * *
2581508 CTCGAAAAAATTTACAGAGAAGAAAACTCTGAATTTTGAAAAAAATGAAGTTTCAAGGAAAAAAT
66 CTCGAAAAAATTTACGGAGAAGAAAACTCCGTATTTAGAAAAAAAAGAAGTTTCAAGGAAAAAAT
2581573 TCAAAAATCC------ATGAATGAATTTTTGAAAGATA
131 TCAAAAATCCATGAAAATGAATGAATTTTTGAAAGATA
*
2581605 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAAT-CTT
1 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATCCTC
* *
2581669 CTCGAAAAAATTTACGGAGAAGAAAACTCCATATTTCAG-AAAAAAAGAAGTTTCGAGGAAAAAA
66 CTCGAAAAAATTTACGGAGAAGAAAACTCCGTATTT-AGAAAAAAAAGAAGTTTCAAGGAAAAAA
* *
2581733 TTCAAAATTTCATGAAAATGAATGAATTTTTGAAAGATA
130 TTCAAAAATCCATGAAAATGAATGAATTTTTGAAAGATA
* *
2581772 ATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAACATCCTC
1 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATCCTC
2581837 C-C-AAAAAATTTACGGAGAAGAAAACTCCGTATTTCAGAAAAAAAAG-AGTTTCAAGGAAAAAA
66 CTCGAAAAAATTTACGGAGAAGAAAACTCCGTATTT-AGAAAAAAAAGAAGTTTCAAGGAAAAAA
2581899 TTCAAAAATCCATGAAAATGAATGAATTTTTGAAA-ACTA
130 TTCAAAAATCCATGAAAATGAATGAATTTTTGAAAGA-TA
* *
2581938 ATTTAATATAAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAATGAAAATCCTC
1 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATCCTC
* *** *
2582003 CT-AAAAAAATTTATAAAGAAGAAAACTTCGTATTT
66 CTCGAAAAAATTTACGGAGAAGAAAACTCCGTATTT
2582038 TGAGAACATG
Statistics
Matches: 533, Mismatches: 39, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
158 35 0.07
160 3 0.01
161 105 0.20
162 1 0.00
163 70 0.13
164 29 0.05
165 10 0.02
166 159 0.30
167 118 0.22
168 3 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (168 bp):
ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATCCTC
CTCGAAAAAATTTACGGAGAAGAAAACTCCGTATTTAGAAAAAAAAGAAGTTTCAAGGAAAAAAT
TCAAAAATCCATGAAAATGAATGAATTTTTGAAAGATA
Found at i:2583835 original size:85 final size:84
Alignment explanation
Indices: 2583451--2583834 Score: 258
Period size: 85 Copynumber: 4.5 Consensus size: 84
2583441 AAAAGGATAA
* * * * * * * * * ** *
2583451 GGTTTACTAGGGACTGAGCTGATAAGTATATAAGGGGTGAAGGGTTGACCGGGGACTAAGCCAAC
1 GGTTTACCAGGGACTGAGCCGATAGGTAAACAAAGGATGAA-GATTGACCGAGGACTAAGCTGAT
* *
2583516 AGGTCACCA-AGGGGATAAAG
65 AGGTCACCATAAGTG-TAAAG
* * * * * *
2583536 AAGTTTACCAAGGAC-AAGTCGATAGGTAAACAAAGAGATGAAGGTTGACC-AGAGACTAAGTTG
1 -GGTTTACCAGGGACTGAGCCGATAGGTAAACAAAG-GATGAAGATTGACCGAG-GACTAAGCTG
*
2583599 ATAGGTCACCATTAGTGTAAAG
63 ATAGGTCACCATAAGTGTAAAG
* * * * * *
2583621 GGACTTT-CTAGGGACTGAGCCGATAGGTAAACAAAAAGATGAAGGTTGACCGAAGATTGAGCTG
1 GG--TTTACCAGGGACTGAGCCGATAGGTAAAC-AAAGGATGAAGATTGACCGAGGACTAAGCTG
* * *
2583685 ACATGTCACCATAGGTGTAAAG
63 ATAGGTCACCATAAGTGTAAAG
* * ** * *
2583707 GGTTTATC-GAGGACT-ACGCCAATAGGTAAATGAAGGGTAAAGAATTGACCGAGGACTAAGCTG
1 GGTTTACCAG-GGACTGA-GCCGATAGGTAAACAAAGGATGAAG-ATTGACCGAGGACTAAGCTG
* *
2583770 ATAGGTCACCAAAATTGTAAAG
63 ATAGGTCACCATAAGTGTAAAG
* * *
2583792 GGTTTACCAGGGACTGAGCTGACAGGTAAACGAAGGATGAAGA
1 GGTTTACCAGGGACTGAGCCGATAGGTAAACAAAGGATGAAGA
2583835 AGTCTCTTAA
Statistics
Matches: 227, Mismatches: 57, Indels: 30
0.72 0.18 0.10
Matches are distributed among these distances:
84 15 0.07
85 130 0.57
86 78 0.34
87 4 0.02
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (84 bp):
GGTTTACCAGGGACTGAGCCGATAGGTAAACAAAGGATGAAGATTGACCGAGGACTAAGCTGATA
GGTCACCATAAGTGTAAAG
Found at i:2584917 original size:14 final size:14
Alignment explanation
Indices: 2584895--2584928 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2584885 AGCATAATCA
*
2584895 AAAGATAGCCTAAT
1 AAAGGTAGCCTAAT
2584909 AAAGGTAGCCTAAT
1 AAAGGTAGCCTAAT
2584923 AAAGGT
1 AAAGGT
2584929 GTGGATGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.21
Consensus pattern (14 bp):
AAAGGTAGCCTAAT
Found at i:2588987 original size:20 final size:20
Alignment explanation
Indices: 2588964--2589026 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
2588954 CAGTATCAAC
2588964 ACATTCACTTATGTATTGAT
1 ACATTCACTTATGTATTGAT
*
2588984 ACATTCACTTATGTATCGAT
1 ACATTCACTTATGTATTGAT
*
2589004 ACATTCACTTATATATTGAT
1 ACATTCACTTATGTATTGAT
2589024 ACA
1 ACA
2589027 AATTGTAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.41
Consensus pattern (20 bp):
ACATTCACTTATGTATTGAT
Found at i:2589489 original size:152 final size:148
Alignment explanation
Indices: 2589208--2589611 Score: 411
Period size: 152 Copynumber: 2.7 Consensus size: 148
2589198 ATTCCTTTCC
* * * * * ** *
2589208 TTTAGCCTGTTATTAGTTTGTTTCAGCTATTAATGGAAATTTTAGAAACCATATATTTTCTATCA
1 TTTAGCCTGTTATCAGTTTGTTTCAGCTGTTGATGAAAATTTTAGAAACCACATATTCCCTATTA
* * * * * *
2589273 TGATCTTTTCTT-TCGGCTTGTCATCAGTTTGTTTTTGCTGTTGATGGACAATTTAAAAACCACA
66 TGTTCTTTT-TTCTCAGCTTGTCATCAGTTTGTGTTGGCTATTGATGGAAAATTTAAAAACCACA
***
2589337 TATTCTTTATCATGTACCTATT
130 TATTCCCCATCATGT---TATT
* *
2589359 TTTAAGCCTGTTATCAGTTTGTTTTAGCTGTTGATGAAAATTTTAGAAATCACATATTCCCTATT
1 TTT-AGCCTGTTATCAGTTTGTTTCAGCTGTTGATGAAAATTTTAGAAACCACATATTCCCTATT
* * * *
2589424 ATGTTCTTTTTTCTCA-ATCTGTTATTAGTTTGTGTTGGCTATTGAT-GAAAATTTTAAAAATCA
65 ATGTTCTTTTTTCTCAGCT-TGTCATCAGTTTGTGTTGGCTATTGATGGAAAA-TTTAAAAACCA
*
2589487 CATATTCCCCATCATGTTGTT
128 CATATTCCCCATCATGTTATT
* * * *
2589508 TTTAGCCTATTATCAATTTATTTCAGCTGTTGATAAAAATTTTAGAAACCACATATTCCCTATTA
1 TTTAGCCTGTTATCAGTTTGTTTCAGCTGTTGATGAAAATTTTAGAAACCACATATTCCCTATTA
* * * * *
2589573 TGTTATTCTTTTC-CAACTTGCCATCAATTTGTTTTGGCT
66 TGTTCTT-TTTTCTCAGCTTGTCATCAGTTTGTGTTGGCT
2589612 GTATACACAA
Statistics
Matches: 210, Mismatches: 37, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
148 80 0.38
149 12 0.06
151 10 0.05
152 108 0.51
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (148 bp):
TTTAGCCTGTTATCAGTTTGTTTCAGCTGTTGATGAAAATTTTAGAAACCACATATTCCCTATTA
TGTTCTTTTTTCTCAGCTTGTCATCAGTTTGTGTTGGCTATTGATGGAAAATTTAAAAACCACAT
ATTCCCCATCATGTTATT
Found at i:2589567 original size:72 final size:72
Alignment explanation
Indices: 2589211--2589576 Score: 252
Period size: 76 Copynumber: 4.9 Consensus size: 72
2589201 CCTTTCCTTT
* * * * * * ** *
2589211 AGCCTGTTATTAGTTTGTTTCAGCTATTAATGGAAATTTTAGAAACCATATATTTTCTATCATGA
1 AGCCTGTTATCAGTTTGTTT-AGCTGTTGATGAAAATTTTAGAAATCACATATTCCCTATTATG-
* *
2589276 TCTTTTCTTTC
64 T-TGTT-TTTA
* * * * * * * ** *
2589287 GGCTTGTCATCAGTTTGTTTTTGCTGTTGATGGACAA-TTTAAAAACCACATATTCTTTATCATG
1 AGCCTGTTATCAGTTTG-TTTAGCTGTTGAT-GAAAATTTTAGAAATCACATATTCCCTATTATG
*
2589351 TACCTATTTTTA
64 T---TGTTTTTA
2589363 AGCCTGTTATCAGTTTGTTTTAGCTGTTGATGAAAATTTTAGAAATCACATATTCCCTATTATGT
1 AGCCTGTTATCAGTTTG-TTTAGCTGTTGATGAAAATTTTAGAAATCACATATTCCCTATTATG-
*
2589428 TCTTTTTTCTCA
64 T-TGTTTT-T-A
* * * * * * *
2589440 A-TCTGTTATTAGTTTGTGTTGGCTATTGATGAAAATTTTAAAAATCACATATTCCCCATCATGT
1 AGCCTGTTATCAGTTTGT-TTAGCTGTTGATGAAAATTTTAGAAATCACATATTCCCTATTATGT
2589504 TGTTTTT-
65 TGTTTTTA
* * * * *
2589511 AGCCTATTATCAATTTATTTCAGCTGTTGATAAAAATTTTAGAAACCACATATTCCCTATTATGT
1 AGCCTGTTATCAGTTTGTTT-AGCTGTTGATGAAAATTTTAGAAATCACATATTCCCTATTATGT
2589576 T
65 T
2589577 ATTCTTTTCC
Statistics
Matches: 233, Mismatches: 46, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
71 3 0.01
72 49 0.21
73 1 0.00
74 5 0.02
75 13 0.06
76 149 0.64
77 13 0.06
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (72 bp):
AGCCTGTTATCAGTTTGTTTAGCTGTTGATGAAAATTTTAGAAATCACATATTCCCTATTATGTT
GTTTTTA
Found at i:2590022 original size:51 final size:52
Alignment explanation
Indices: 2589957--2590076 Score: 179
Period size: 51 Copynumber: 2.3 Consensus size: 52
2589947 TTCTAGAATG
* *
2589957 CAAATGTATCGATACATTTTTCATTGTATCGATACATTCT-AGGTTTTGACC
1 CAAATGTATCGATACATTCTTCATTGTATCGATACATTATAAGGTTTTGACC
* *
2590008 CAAATGTATCGATACATTCTTGATTGTATCGATACATTATAAGTTTTTGACC
1 CAAATGTATCGATACATTCTTCATTGTATCGATACATTATAAGGTTTTGACC
* *
2590060 CCAATGTATCGGTACAT
1 CAAATGTATCGATACAT
2590077 GCAGGCAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 37 0.60
52 25 0.40
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (52 bp):
CAAATGTATCGATACATTCTTCATTGTATCGATACATTATAAGGTTTTGACC
Found at i:2592292 original size:154 final size:154
Alignment explanation
Indices: 2592067--2592403 Score: 435
Period size: 154 Copynumber: 2.2 Consensus size: 154
2592057 TATACTTTTG
* * * * *
2592067 ACGTAAAAGTATCCCGACAACCTTGAAGGACTCAAAAAGACTAGAGATAAGATGAACCTATCCTA
1 ACGTGAAAGTA-CCCGATAACCCTAAAGGACTCAAAAAGACTAGAGATAAGATGAACCTATCATA
* * * ***
2592132 AATGCCCGCCTTTGGCATAAAAGCTG-A-CTCAGCGATGGTGTAGGAGTTGGTTCTAAAAAATTA
65 AATGCCCACCTTCGACATAAAAGC-GAACCT-AGCGATGACATAGGAGTTGGTTCTAAAAAATTA
*
2592195 CCAAAATGCCCCTAAAGGATACCTTCG
128 CCAAAATGCCCCTAAAGGATACCTTCA
* * * *
2592222 ACGTGAAAGTACCTGATAACCCTAAAGGACTTAAAAATACTAGAGATGAGATGAACCTATCATAA
1 ACGTGAAAGTACCCGATAACCCTAAAGGACTCAAAAAGACTAGAGATAAGATGAACCTATCATAA
* * *
2592287 ATGCCCACCTTCGACATAAAAGCGAACCTGGTGATGACATAGGAGTTGGTTTTAAAAAATTACCA
66 ATGCCCACCTTCGACATAAAAGCGAACCTAGCGATGACATAGGAGTTGGTTCTAAAAAATTACCA
** *
2592352 AAATGCCTTTAAAGGATACCTTTA
131 AAATGCCCCTAAAGGATACCTTCA
2592376 ACGTGAAAGTACCCGATAACCCTAAAGG
1 ACGTGAAAGTACCCGATAACCCTAAAGG
2592404 GGACCTAAAA
Statistics
Matches: 157, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
153 1 0.01
154 144 0.92
155 12 0.08
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (154 bp):
ACGTGAAAGTACCCGATAACCCTAAAGGACTCAAAAAGACTAGAGATAAGATGAACCTATCATAA
ATGCCCACCTTCGACATAAAAGCGAACCTAGCGATGACATAGGAGTTGGTTCTAAAAAATTACCA
AAATGCCCCTAAAGGATACCTTCA
Found at i:2592719 original size:21 final size:22
Alignment explanation
Indices: 2592694--2592738 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2592684 TCCATGAAAT
* *
2592694 AATTCA-CAAAATTAAACGTAA
1 AATTCATCAAAATAAAAAGTAA
2592715 AATTCATCAAAATAAAAAGTAA
1 AATTCATCAAAATAAAAAGTAA
2592737 AA
1 AA
2592739 AACACCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.22
Consensus pattern (22 bp):
AATTCATCAAAATAAAAAGTAA
Found at i:2594134 original size:13 final size:13
Alignment explanation
Indices: 2594116--2594141 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2594106 ACAATTCTTC
2594116 ATGTATCGATACA
1 ATGTATCGATACA
2594129 ATGTATCGATACA
1 ATGTATCGATACA
2594142 TTATCCCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2594137 original size:33 final size:33
Alignment explanation
Indices: 2594095--2594161 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
2594085 CGTTGGGCAT
* *
2594095 AATGTATCGATACAAT-TCTTCATGTATCGATAC
1 AATGTATCGATACATTATC-CCATGTATCGATAC
2594128 AATGTATCGATACATTATCCCATGTATCGATAC
1 AATGTATCGATACATTATCCCATGTATCGATAC
2594161 A
1 A
2594162 TTTCACTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
AATGTATCGATACATTATCCCATGTATCGATAC
Found at i:2597383 original size:52 final size:52
Alignment explanation
Indices: 2597313--2597433 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
2597303 GAAAATTTAT
*
2597313 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
2597365 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
2597417 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
2597434 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:2597446 original size:52 final size:51
Alignment explanation
Indices: 2597313--2597453 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
2597303 GAAAATTTAT
2597313 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
2597365 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2597417 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2597454 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2597460 original size:13 final size:13
Alignment explanation
Indices: 2597442--2597466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2597432 CAAAGATCAG
2597442 TGTATCGATACAA
1 TGTATCGATACAA
2597455 TGTATCGATACA
1 TGTATCGATACA
2597467 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2597550 original size:13 final size:13
Alignment explanation
Indices: 2597532--2597556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2597522 CAAAAAAATA
2597532 TGTATCGATACAT
1 TGTATCGATACAT
2597545 TGTATCGATACA
1 TGTATCGATACA
2597557 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2597552 original size:33 final size:33
Alignment explanation
Indices: 2597510--2597576 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2597500 AGTAGCTTAA
2597510 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2597543 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2597576 A
1 A
2597577 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2602006 original size:10 final size:9
Alignment explanation
Indices: 2601983--2602008 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2601973 CTTTGATATT
2601983 ATTTTTATG
1 ATTTTTATG
2601992 ATTTTTATG
1 ATTTTTATG
2602001 ATTTTTAT
1 ATTTTTAT
2602009 AAACTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (9 bp):
ATTTTTATG
Found at i:2602322 original size:29 final size:29
Alignment explanation
Indices: 2602278--2602334 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
2602268 AGAACAGTAA
* *
2602278 CTGTTTTTGCTTCTTTCTCATGTCAGCTG
1 CTGTTTTCGCTCCTTTCTCATGTCAGCTG
*
2602307 CTGTTTTCGCTCCTTTCTCATTTCAGCT
1 CTGTTTTCGCTCCTTTCTCATGTCAGCT
2602335 ACTATTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.07, C:0.28, G:0.14, T:0.51
Consensus pattern (29 bp):
CTGTTTTCGCTCCTTTCTCATGTCAGCTG
Found at i:2603388 original size:22 final size:23
Alignment explanation
Indices: 2603353--2603396 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2603343 TTATTTTGTT
2603353 ATTTTTAATAATTTT-GATTTTG
1 ATTTTTAATAATTTTAGATTTTG
* *
2603375 ATTTTTGATGATTTTAGATTTT
1 ATTTTTAATAATTTTAGATTTT
2603397 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (23 bp):
ATTTTTAATAATTTTAGATTTTG
Found at i:2603431 original size:36 final size:37
Alignment explanation
Indices: 2603376--2603449 Score: 91
Period size: 36 Copynumber: 2.0 Consensus size: 37
2603366 TTGATTTTGA
*
2603376 TTTTTGATGATTTTAGATTT-TT-TTATT-TTTTTAT
1 TTTTTGATGATTTTAGATTTATTATTATTATTATTAT
*
2603410 TTTTTGATTTGATTTTTGATTTATTATTATTATTATTAT
1 TTTTTGA--TGATTTTAGATTTATTATTATTATTATTAT
2603449 T
1 T
2603450 ATTATTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
34 7 0.21
36 12 0.36
37 2 0.06
38 5 0.15
39 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (37 bp):
TTTTTGATGATTTTAGATTTATTATTATTATTATTAT
Found at i:2603438 original size:3 final size:3
Alignment explanation
Indices: 2603430--2603466 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
2603420 GATTTTTGAT
2603430 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2603467 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2605262 original size:37 final size:37
Alignment explanation
Indices: 2605212--2605288 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
2605202 TCTTGCATTC
2605212 AAGGGGATTATAGCAAAATAATGATAAACCGAAACTA
1 AAGGGGATTATAGCAAAATAATGATAAACCGAAACTA
2605249 AAGGGGATTATAGCAAAATAATGATAAACCGAAACTA
1 AAGGGGATTATAGCAAAATAATGATAAACCGAAACTA
2605286 AAG
1 AAG
2605289 AAACCCACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.18
Consensus pattern (37 bp):
AAGGGGATTATAGCAAAATAATGATAAACCGAAACTA
Found at i:2606409 original size:78 final size:78
Alignment explanation
Indices: 2606256--2606409 Score: 168
Period size: 78 Copynumber: 2.0 Consensus size: 78
2606246 TCTATTGCAT
** * *
2606256 TATTGCCTAAATGACCTTAATAGACGTGCATTAACATGAAAATACGCACATGACTCTAGAGACTT
1 TATTGCCTAAATGACCTTAATAGAAATGCATCAACATGAAAATACGCACATGACTCTAGAGACTC
**
2606321 GGTTTCAACATAC
66 AATTTCAACATAC
* * * ***
2606334 TATTTCCTAAATGACCTTAATGGAAATGCATCAACATGAAGATACTTGCATGAC-CTTAGAGACT
1 TATTGCCTAAATGACCTTAATAGAAATGCATCAACATGAAAATACGCACATGACTC-TAGAGACT
2606398 CAATATT-AACAT
65 CAAT-TTCAACAT
2606410 GAAACTTTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
77 1 0.02
78 59 0.95
79 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.29
Consensus pattern (78 bp):
TATTGCCTAAATGACCTTAATAGAAATGCATCAACATGAAAATACGCACATGACTCTAGAGACTC
AATTTCAACATAC
Found at i:2606521 original size:79 final size:78
Alignment explanation
Indices: 2606428--2606670 Score: 227
Period size: 79 Copynumber: 3.1 Consensus size: 78
2606418 TTAATAGGAG
*
2606428 CTTAGTGCACATGTCTTGATATGAAAATACCAACATGCTCCTAAGGACTTAGATTTCTCATGAAA
1 CTTAGTGCACATGTCTTGATATGAAAATACCAACATGCTCTTAAGGACTTAGATTTCTCATGAAA
* *
2606493 CTCACTAAAATGGC
66 AT-GCTAAAATGGC
* ** * * ** * *
2606507 CTTAGTGGACATGTCTCAATATGAAAAATACCAACATGCTATTAAGAACCCATATTTCTCATAAA
1 CTTAGTGCACATGTCTTGATATG-AAAATACCAACATGCTCTTAAGGACTTAGATTTCTCATGAA
*
2606572 AGATGCTAAGATGGC
65 A-ATGCTAAAATGGC
* * * * * *** *
2606587 CATAATGTAGATGTCTTGATATGAAAATATCAATGCGCTCTTAAGGA-TCTGGATTTCTCATGAA
1 CTTAGTGCACATGTCTTGATATGAAAATACCAACATGCTCTTAAGGACT-TAGATTTCTCATGAA
*
2606651 ATTGGCTAAAATGGC
65 AAT-GCTAAAATGGC
2606666 CTTAG
1 CTTAG
2606671 ATTATGCAAA
Statistics
Matches: 126, Mismatches: 34, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
78 1 0.01
79 63 0.50
80 61 0.48
81 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (78 bp):
CTTAGTGCACATGTCTTGATATGAAAATACCAACATGCTCTTAAGGACTTAGATTTCTCATGAAA
ATGCTAAAATGGC
Found at i:2606740 original size:58 final size:57
Alignment explanation
Indices: 2606657--2606999 Score: 221
Period size: 58 Copynumber: 5.9 Consensus size: 57
2606647 TGAAATTGGC
* *
2606657 TAAAATGGCCTTAGATTATGCAAAATAACCTAAATGGCCCTAAAATG-ATGAAATTAGT
1 TAAAATGACCTTAGATTATGTAAAATAACCTAAATGGCCCTAAAATGCATGAAATT--T
* * * ** * * *
2606715 TAAAATGACCCTAAATTATGTAAAAT-ACCTTAGATGAACTTAAAAT-AATGAAAATTAC
1 TAAAATGACCTTAGATTATGTAAAATAACC-TAAATGGCCCTAAAATGCATG-AAATT-T
* * * * *
2606773 TAAAATGATCC-TAGTTTAGGTAAAATAATCTAAATGGCCCAAAAATGCAATAAAATTT
1 TAAAATGA-CCTTAGATTATGTAAAATAACCTAAATGGCCCTAAAATGC-ATGAAATTT
* * * **
2606831 CTAAAAAGATCTTAGATTATGCAAAATAACCTAAATGGAGCTAAAATGCATGAAAGTTT
1 -TAAAATGACCTTAGATTATGTAAAATAACCTAAATGGCCCTAAAATGCATGAAA-TTT
* * * * * *
2606890 CTAAAATG-CCTTACATTATGTAAAATAACCTACATGACCCTTAAATGTATATAAATTT
1 -TAAAATGACCTTAGATTATGTAAAATAACCTAAATGGCCCTAAAATGCAT-GAAATTT
* * * ** **
2606948 CTCAAAATGCCCTTA-ACTTACGCAAAATAAGTTAAATAACCCTAAAATGCAT
1 -T-AAAATGACCTTAGA-TTATGTAAAATAACCTAAATGGCCCTAAAATGCAT
2607000 AAAAGCCTTT
Statistics
Matches: 220, Mismatches: 51, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
57 3 0.01
58 112 0.51
59 71 0.32
60 34 0.15
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (57 bp):
TAAAATGACCTTAGATTATGTAAAATAACCTAAATGGCCCTAAAATGCATGAAATTT
Found at i:2609217 original size:11 final size:11
Alignment explanation
Indices: 2609203--2609227 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2609193 GTAATATCCA
2609203 TGCCCAAATTT
1 TGCCCAAATTT
2609214 TGCCCAAATTT
1 TGCCCAAATTT
2609225 TGC
1 TGC
2609228 TTTGCTGCAA
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:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (11 bp):
TGCCCAAATTT
Found at i:2609548 original size:22 final size:21
Alignment explanation
Indices: 2609516--2609602 Score: 92
Period size: 22 Copynumber: 4.2 Consensus size: 21
2609506 TAATTATTTA
*
2609516 TTTTAATAATAAAAATAATAAT
1 TTTTAAAAATAAAAATAAT-AT
*
2609538 TTTTAAAAATAAAGATAAT-T
1 TTTTAAAAATAAAAATAATAT
2609558 TTTTAAAAAATAATAAATAATA-
1 TTTT-AAAAATAA-AAATAATAT
*
2609580 TTTT-AATATAAAAATAAT-T
1 TTTTAAAAATAAAAATAATAT
2609599 TTTT
1 TTTT
2609603 CCTCTCTTCG
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
19 11 0.19
20 11 0.19
21 8 0.14
22 27 0.47
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (21 bp):
TTTTAAAAATAAAAATAATAT
Found at i:2609549 original size:25 final size:26
Alignment explanation
Indices: 2609494--2609545 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
2609484 CTCGTGTATT
* **
2609494 AATAATTAAAAATAATTATTTATTTT
1 AATAATTAAAAATAATAATTTATTAA
2609520 AATAA-TAAAAATAATAATTT-TTAA
1 AATAATTAAAAATAATAATTTATTAA
2609544 AA
1 AA
2609546 ATAAAGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 4 0.17
25 14 0.61
26 5 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AATAATTAAAAATAATAATTTATTAA
Found at i:2609557 original size:19 final size:19
Alignment explanation
Indices: 2609532--2609601 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 19
2609522 TAATAAAAAT
2609532 AATAATTTTTAAAAATAAA
1 AATAATTTTTAAAAATAAA
*
2609551 GATAATTTTTTAAAAAATAATA
1 AATAA-TTTTT-AAAAATAA-A
*
2609573 AATAATATTTT-AATATAAA
1 AATAAT-TTTTAAAAATAAA
2609592 AATAATTTTT
1 AATAATTTTT
2609602 TCCTCTCTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 4 0.09
19 11 0.25
20 11 0.25
21 9 0.20
22 9 0.20
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (19 bp):
AATAATTTTTAAAAATAAA
Found at i:2610878 original size:19 final size:18
Alignment explanation
Indices: 2610855--2610926 Score: 81
Period size: 20 Copynumber: 3.7 Consensus size: 18
2610845 ACATTTGTTC
2610855 ATGTATCGATACAATGAA
1 ATGTATCGATACAATGAA
*
2610873 CATGTATCGATACAAAGCATA
1 -ATGTATCGATACAATG-A-A
*
2610894 ATGTATCGATACATTTGAA
1 ATGTATCGATACA-ATGAA
2610913 AGTGTATCGATACA
1 A-TGTATCGATACA
2610927 TACAAAGGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
19 17 0.37
20 27 0.59
21 2 0.04
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (18 bp):
ATGTATCGATACAATGAA
Found at i:2610899 original size:20 final size:19
Alignment explanation
Indices: 2610854--2610906 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
2610844 TACATTTGTT
*
2610854 CATGTATCGATACAATGAA
1 CATGTATCGATACAAAGAA
2610873 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAAAG-A-A
2610894 -ATGTATCGATACA
1 CATGTATCGATACA
2610907 TTTGAAAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 16 0.52
20 14 0.45
21 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (19 bp):
CATGTATCGATACAAAGAA
Found at i:2611692 original size:19 final size:19
Alignment explanation
Indices: 2611662--2611698 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
2611652 TAGAATTATA
2611662 AAAAATATGAGAATTTTTTG
1 AAAAATATGAG-ATTTTTTG
2611682 AAAAATA-GAGATTTTTT
1 AAAAATATGAGATTTTTT
2611699 AATGTTTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 3 0.18
20 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.41
Consensus pattern (19 bp):
AAAAATATGAGATTTTTTG
Found at i:2611924 original size:26 final size:27
Alignment explanation
Indices: 2611890--2611946 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
2611880 AAAAACTATT
2611890 TATTGTAAAAAA-TATTAATT-ATATTAA
1 TATTGTAAAAAATTA-TAATTAATA-TAA
*
2611917 TATT-TAAAATATTATAATTAATATAA
1 TATTGTAAAAAATTATAATTAATATAA
2611943 TATT
1 TATT
2611947 ATTTATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TATTGTAAAAAATTATAATTAATATAA
Found at i:2612053 original size:23 final size:22
Alignment explanation
Indices: 2612000--2612063 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 22
2611990 TTTAAATAGT
2612000 AATATTTA-CA-TAAATATTAA
1 AATATTTATCATTAAATATTAA
*
2612020 AATATTAATCATTAAATATTAA
1 AATATTTATCATTAAATATTAA
2612042 AATTATTTATCATTAAACTATT
1 AA-TATTTATCATTAAA-TATT
2612064 CATTTTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.18
21 2 0.05
22 12 0.32
23 13 0.34
24 4 0.11
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATTTATCATTAAATATTAA
Found at i:2612168 original size:29 final size:27
Alignment explanation
Indices: 2612104--2612174 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 27
2612094 ATTTTTGTAA
* * *
2612104 TAATATTTAACA-CTAAAATATTATAT
1 TAATATTAAACATTTAAAATAATATAT
*
2612130 TAATATTAAATATTTAAAATAATACTATT
1 TAATATTAAACATTTAAAATAATA-TA-T
*
2612159 TATTATTAAACATTTA
1 TAATATTAAACATTTA
2612175 TTATATAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 10 0.28
27 9 0.25
28 2 0.06
29 15 0.42
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (27 bp):
TAATATTAAACATTTAAAATAATATAT
Found at i:2612175 original size:14 final size:15
Alignment explanation
Indices: 2612156--2612189 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2612146 AAATAATACT
*
2612156 ATTTATTAT-TAAAC
1 ATTTATTATATAAAA
2612170 ATTTATTATATAAAA
1 ATTTATTATATAAAA
2612185 ATTTA
1 ATTTA
2612190 AAAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTATTATATAAAA
Found at i:2612285 original size:19 final size:21
Alignment explanation
Indices: 2612259--2612305 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
2612249 TTTATAAGGT
*
2612259 ATAATATATATTTAT-TTTTA
1 ATAATATAAATTTATATTTTA
2612279 A-AATATAAATTTATATTTTA
1 ATAATATAAATTTATATTTTA
2612299 ATAATAT
1 ATAATAT
2612306 TCAAAACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 12 0.50
20 7 0.29
21 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAATATAAATTTATATTTTA
Found at i:2615013 original size:21 final size:21
Alignment explanation
Indices: 2614969--2615013 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2614959 CGTTGACTTT
* *
2614969 GAAGTTAGAGAGAGATGGAGA
1 GAAGCTAGAGAGAGAAGGAGA
2614990 GAAGCTAGAGAGAGAAAGGA-A
1 GAAGCTAGAGAGAG-AAGGAGA
2615011 GAA
1 GAA
2615014 AGTGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.49, C:0.02, G:0.40, T:0.09
Consensus pattern (21 bp):
GAAGCTAGAGAGAGAAGGAGA
Found at i:2620576 original size:34 final size:34
Alignment explanation
Indices: 2620537--2620614 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
2620527 TTTCGACATA
2620537 GTTTATTTTGATAGGCCATATTATTGTTAATATT
1 GTTTATTTTGATAGGCCATATTATTGTTAATATT
* * *
2620571 GTTTATTTTTATGGGTCATATTATTGTTAATATT
1 GTTTATTTTGATAGGCCATATTATTGTTAATATT
*
2620605 TTTTAATTTT
1 GTTT-ATTTT
2620615 AGAGATTGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 34 0.87
35 5 0.13
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.59
Consensus pattern (34 bp):
GTTTATTTTGATAGGCCATATTATTGTTAATATT
Found at i:2622129 original size:155 final size:153
Alignment explanation
Indices: 2621784--2622310 Score: 449
Period size: 155 Copynumber: 3.4 Consensus size: 153
2621774 CTTGATCTTA
* * * ** * * * *
2621784 AAAAAATTATAAAAATGCCTCT-AGGGGTACCTTCGATG-AACACTACCCGATACCCTTAAAAGA
1 AAAAAATTATGAAAATGCCCCTAAGGGATACCTTTAATGTAAAAGTGCCCGATACCCCTAAAAGA
* * * * * *
2621847 CTTCAAAAA-ATTAGAGATGAGATGAACTTATCCTAGATACCCACCTTT-GACATAAAAGCAGAC
66 CTTAAAAAAGATTAAAAATGGGATGAAC-TATCCTAAATACCCA-CTTTCGGCATAAAAGCAGAC
**
2621910 TTGTGACAA-TCTAGGACTTGATT-T
129 CAGTGACAACT-TAGGACTTGATTCT
* * ** * * * * * *
2621934 AAAAAATTATAAAAATGCCCATTGGGGATACTTTTGATGTAAAAGTGCTCGATATCCTTAAAGGA
1 AAAAAATTATGAAAATGCCCCTAAGGGATACCTTTAATGTAAAAGTGCCCGATACCCCTAAAAGA
* * *
2621999 TTTAAAAAAGATTATAAATGGGATGAATCTATCCTAAATACCTACTTTCGGCATAAAAGCAGACC
66 CTTAAAAAAGATTAAAAATGGGATGAA-CTATCCTAAATACCCACTTTCGGCATAAAAGCAGA-C
* *
2622064 CGGTGATAACTTAGGACTTGATTCT
129 CAGTGACAACTTAGGACTTGATTCT
* * * *
2622089 AAAAAATTACGAAAATGCCCCTAAGGGATACCTTCAATGTAGAAGTGCCCGATACCCCTAAAAAA
1 AAAAAATTATGAAAATGCCCCTAAGGGATACCTTTAATGTAAAAGTGCCCGATACCCCTAAAAGA
* * * * *
2622154 CTTAAAAAGGAGTAAAAAAGGGATGAAACTATTCTAAATACCCACTTGCGGCATAAAAGC-GAAG
66 CTTAAAAAAGATTAAAAATGGGATG-AACTATCCTAAATACCCACTTTCGGCATAAAAGCAG-A-
* * * * * *
2622218 TCAATAACAACCTAGGACATGGTTCT
128 CCAGTGACAACTTAGGACTTGATTCT
* * * * *
2622244 AAAAAATTATGAAAATACCGCTAAGGGATACCTTTAACT-TAAAGGTGCGCGATACCCCTAAAGG
1 AAAAAATTATGAAAATGCCCCTAAGGGATACCTTTAA-TGTAAAAGTGCCCGATACCCCTAAAAG
2622308 ACT
65 ACT
2622311 CGAAAATGAA
Statistics
Matches: 303, Mismatches: 63, Indels: 17
0.79 0.16 0.04
Matches are distributed among these distances:
150 20 0.07
151 12 0.04
152 30 0.10
153 40 0.13
154 21 0.07
155 177 0.58
156 3 0.01
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (153 bp):
AAAAAATTATGAAAATGCCCCTAAGGGATACCTTTAATGTAAAAGTGCCCGATACCCCTAAAAGA
CTTAAAAAAGATTAAAAATGGGATGAACTATCCTAAATACCCACTTTCGGCATAAAAGCAGACCA
GTGACAACTTAGGACTTGATTCT
Found at i:2622585 original size:143 final size:143
Alignment explanation
Indices: 2622408--2622676 Score: 375
Period size: 143 Copynumber: 1.9 Consensus size: 143
2622398 GTAATTTTCT
* *
2622408 AAAATCTCATTTCGTACCTTAATGAAGAGCCGAAAAGATATGAAAAGTTTTAAAGATTTCTATA-
1 AAAATCTCATTTCGTACCTTAATGAAGAACCGAAAAGATATAAAAAGTTTTAAAGATTTCTATAC
* * *
2622472 TCTCTA-TGAAAAACCATAAGAATATTAGAAATCTTGAAAAATTAGGATAAAAATTTTTATTTAA
66 CCT-TACAG-AAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAAAAA-TTTTATTTAA
2622536 TTTTTTTAATTTTTGA
128 TTTTTTTAATTTTTGA
* * *
2622552 AAAAT-TCATTTCGTACCTTAATGGAA-AATCGAAAAGATATAAAAAGTTTTGAAGATTTTTATA
1 AAAATCTCATTTCGTACCTTAAT-GAAGAACCGAAAAGATATAAAAAGTTTTAAAGATTTCTATA
* * *
2622615 CCCTTACAGAAAACTATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTATTTA
65 CCCTTACAGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAAAAATTTTATTTA
2622677 GTGATAAAAT
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
142 9 0.08
143 91 0.82
144 11 0.10
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (143 bp):
AAAATCTCATTTCGTACCTTAATGAAGAACCGAAAAGATATAAAAAGTTTTAAAGATTTCTATAC
CCTTACAGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAAAAATTTTATTTAATTT
TTTTAATTTTTGA
Found at i:2622730 original size:16 final size:15
Alignment explanation
Indices: 2622689--2622730 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
2622679 GATAAAATAA
2622689 TATTTATTTATTATTT
1 TATTTATTT-TTATTT
2622705 TATTTATTTTATATTT
1 TATTTATTTT-TATTT
2622721 T-TTTATTTTT
1 TATTTATTTTT
2622731 GAAAATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.04
15 9 0.36
16 15 0.60
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TATTTATTTTTATTT
Found at i:2623600 original size:11 final size:11
Alignment explanation
Indices: 2623584--2623630 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
2623574 ACCTTGGTGT
2623584 TCTTTTTTTTC
1 TCTTTTTTTTC
2623595 TCTTTTTTTT-
1 TCTTTTTTTTC
2623605 TCTTTCTTTTTTC
1 TC-TT-TTTTTTC
*
2623618 TCATTTTTTTC
1 TCTTTTTTTTC
2623629 TC
1 TC
2623631 ACTTGCCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 2 0.06
11 21 0.66
12 7 0.22
13 2 0.06
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TCTTTTTTTTC
Found at i:2624478 original size:167 final size:167
Alignment explanation
Indices: 2624299--2624607 Score: 385
Period size: 167 Copynumber: 1.9 Consensus size: 167
2624289 AAAACTCATA
* * * *
2624299 AAAATCAATGAATTTTTCAAAACTGATTTAATATG-AATTAAATGATGATATTTGATGAATATTA
1 AAAATAAATGAATTTTTCAAAACTGATTTAA-AGGCAATTAAATAATAATATTTGATGAAT-TTA
** * ** * * * *
2624363 AAAATTT-TGGACCGAGAAAAA-CCCCTTCAAAAACTTTTATGGAATAGAAAAC-TCGATTTTTT
64 AAAATTTATAAACCAAGAAAAATCCCC-TCAAAAA-AATTACGCAAAAGAAAACTTC-ATATTTT
2624425 AAAAATAA-GGAAATTTCAAGGGAAAAACTAAAAAATTTAAG
126 AAAAATAATGGAAATTTCAAGGGAAAAACTAAAAAATTTAAG
* * * *
2624466 AAAATAAATGAATTTTTTAAAATTGATTTAAAGGCACTTAAATAATAATATTTGATGAATTTTAA
1 AAAATAAATGAATTTTTCAAAACTGATTTAAAGGCAATTAAATAATAATATTTGATGAATTTAAA
2624531 AATTTATAAACCAAGAAAAATCCCCTCAAAAAAATTACGCAAAAGAAAACTTCATATTTTAAAAA
66 AATTTATAAACCAAGAAAAATCCCCTCAAAAAAATTACGCAAAAGAAAACTTCATATTTTAAAAA
2624596 TAATGGAAATTT
131 TAATGGAAATTT
2624608 TAAAAGAAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
166 38 0.32
167 78 0.65
168 4 0.03
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (167 bp):
AAAATAAATGAATTTTTCAAAACTGATTTAAAGGCAATTAAATAATAATATTTGATGAATTTAAA
AATTTATAAACCAAGAAAAATCCCCTCAAAAAAATTACGCAAAAGAAAACTTCATATTTTAAAAA
TAATGGAAATTTCAAGGGAAAAACTAAAAAATTTAAG
Found at i:2631207 original size:165 final size:166
Alignment explanation
Indices: 2630776--2631216 Score: 520
Period size: 165 Copynumber: 2.7 Consensus size: 166
2630766 TCGAAATGTA
* * * * *
2630776 GAGTTTTCTTCTTCG-TAAATTTTTTTC-GGAGGA-TTTTCACTAGTTTATAAA-TTTAAAAATT
1 GAGTTTTC-TATTCGATAAA-TATTTTCGGGAGGATTTTTC-TTAATTTA-AAATTTTTAAAATT
* * *
2630837 CATCAAATATTATCATTTAATTCATAGTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTT
62 CATCTAATATTATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTT
* * *
2630902 TTTTATTTTTTCTTTAAAATTTCCTTGCCTCCAAAAAACT
127 TTTCATTTTTTCTTTAAAATTTCCCTGCCTCCAAAAAACC
*
2630942 GAGTTTTCTATTCGATAAATATTTTCGTGAGGATTTTTCTTAATTTAAAATTTTTAAAATTCATC
1 GAGTTTTCTATTCGATAAATATTTTCGGGAGGATTTTTCTTAATTTAAAATTTTTAAAATTCATC
* * * *
2631007 TAACATTATCA-TTAGACTC-CGTTTAAATTAGTTTTGAAAAATTCATTTATTTTCATAAGTTTT
66 TAATATTATCATTTA-ATTCAC-ATTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTT
* ** *
2631070 TCATTTTTT-TCTTGAAA-TTCCCTGTTTCTAAAAAACC
129 TCATTTTTTCT-TTAAAATTTCCCTGCCTCCAAAAAACC
* * * * * *
2631107 GAGTTTTCTATTCTATAAATGTTTTCGGGGGGATTTTTCTTGATTTCAAATTTTTAAAATTCATT
1 GAGTTTTCTATTCGATAAATATTTTCGGGAGGATTTTTCTTAATTTAAAATTTTTAAAATTCATC
*
2631172 TAATATTTTCATTTAATTCACATTAAATCAGTTTTGAAAAATTCA
66 TAATATTATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCA
2631217 AATTATTTCA
Statistics
Matches: 234, Mismatches: 32, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
165 125 0.53
166 104 0.44
167 5 0.02
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (166 bp):
GAGTTTTCTATTCGATAAATATTTTCGGGAGGATTTTTCTTAATTTAAAATTTTTAAAATTCATC
TAATATTATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTC
ATTTTTTCTTTAAAATTTCCCTGCCTCCAAAAAACC
Found at i:2631374 original size:16 final size:16
Alignment explanation
Indices: 2631353--2631393 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
2631343 AGAATGGATT
* *
2631353 TTAATTTTAACTTTTC
1 TTAATTTTAAATTTAC
2631369 TTAATTTTAAATTTAC
1 TTAATTTTAAATTTAC
*
2631385 TTTATTTTA
1 TTAATTTTA
2631394 TTTTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (16 bp):
TTAATTTTAAATTTAC
Found at i:2631712 original size:12 final size:12
Alignment explanation
Indices: 2631695--2631760 Score: 72
Period size: 10 Copynumber: 5.9 Consensus size: 12
2631685 TTGCAAGTGA
2631695 AGAAAAAAAGAG
1 AGAAAAAAAGAG
*
2631707 AGAAAAAAGGAAG
1 AGAAAAAAAG-AG
2631720 AGAAAAAAAG-G
1 AGAAAAAAAGAG
2631731 A-AAAAAAA-A-
1 AGAAAAAAAGAG
2631740 AGAAAAAAA-AG
1 AGAAAAAAAGAG
2631751 A-AAAAAAAGA
1 AGAAAAAAAGA
2631761 AAAAAGAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
9 1 0.02
10 22 0.47
11 4 0.09
12 9 0.19
13 11 0.23
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAGAG
Found at i:2631722 original size:15 final size:14
Alignment explanation
Indices: 2631695--2631741 Score: 59
Period size: 12 Copynumber: 3.7 Consensus size: 14
2631685 TTGCAAGTGA
2631695 AGAAAAAAA-G-AG
1 AGAAAAAAAGGAAG
2631707 AG-AAAAAAGGAAG
1 AGAAAAAAAGGAAG
2631720 AGAAAAAAAGGAA-
1 AGAAAAAAAGGAAG
2631733 A-AAAAAAAG
1 AGAAAAAAAG
2631742 AAAAAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.19
12 11 0.34
13 5 0.16
14 10 0.31
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAGGAAG
Found at i:2631735 original size:1 final size:1
Alignment explanation
Indices: 2631731--2631778 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
2631721 GAAAAAAAGG
* * * * *
2631731 AAAAAAAAAAGAAAAAAAAGAAAAAAAAGAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2631779 TTAAGGCAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (1 bp):
A
Found at i:2631745 original size:7 final size:7
Alignment explanation
Indices: 2631723--2631778 Score: 62
Period size: 7 Copynumber: 7.7 Consensus size: 7
2631713 AAGGAAGAGA
2631723 AAAAAAGG
1 AAAAAA-G
2631731 AAAAAA-
1 AAAAAAG
2631737 AAAAGAA-
1 AAAA-AAG
2631744 AAAAAAG
1 AAAAAAG
2631751 AAAAAAAAG
1 --AAAAAAG
2631760 AAAAAAG
1 AAAAAAG
2631767 AAAAAAG
1 AAAAAAG
2631774 AAAAA
1 AAAAA
2631779 TTAAGGCAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
6 6 0.14
7 25 0.57
8 6 0.14
9 7 0.16
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:2631763 original size:23 final size:23
Alignment explanation
Indices: 2631694--2631778 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
2631684 TTTGCAAGTG
* *
2631694 AAGAAAAAAAGAGAGAAAAAAG-G
1 AAGAAAAAAA-AGAAAAAAAAGAA
*
2631717 AAGAGAAAAAAAG-GAAAAAA-AA
1 AAGA-AAAAAAAGAAAAAAAAGAA
2631739 AAGAAAAAAAAGAAAAAAAAGAA
1 AAGAAAAAAAAGAAAAAAAAGAA
2631762 AA-AAGAAAAAAGAAAAA
1 AAGAA-AAAAAAGAAAAA
2631779 TTAAGGCAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.15
22 19 0.35
23 22 0.40
24 6 0.11
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AAGAAAAAAAAGAAAAAAAAGAA
Found at i:2631772 original size:9 final size:9
Alignment explanation
Indices: 2631694--2631765 Score: 67
Period size: 9 Copynumber: 8.0 Consensus size: 9
2631684 TTTGCAAGTG
2631694 AAGAAAAAA
1 AAGAAAAAA
2631703 AGAGAGAAAAA
1 A-AGA-AAAAA
* * *
2631714 AGGAAGAGA
1 AAGAAAAAA
**
2631723 AA-AAAAGG
1 AAGAAAAAA
2631731 AA-AAAAAA
1 AAGAAAAAA
2631739 AAGAAAAAA
1 AAGAAAAAA
2631748 AAGAAAAAA
1 AAGAAAAAA
2631757 AAGAAAAAA
1 AAGAAAAAA
2631766 GAAAAAAGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
8 12 0.23
9 29 0.56
10 5 0.10
11 6 0.12
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:2631912 original size:22 final size:21
Alignment explanation
Indices: 2631870--2631917 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
2631860 TTTCTTTATG
2631870 ATGTTATGAATATATGAGTTT
1 ATGTTATGAATATATGAGTTT
*
2631891 -TGTTATGAATCATGTTGAGTTT
1 ATGTTATGAAT-AT-ATGAGTTT
2631913 ATGTT
1 ATGTT
2631918 GATATATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 10 0.43
21 2 0.09
22 7 0.30
23 4 0.17
ACGTcount: A:0.27, C:0.02, G:0.21, T:0.50
Consensus pattern (21 bp):
ATGTTATGAATATATGAGTTT
Found at i:2632911 original size:140 final size:142
Alignment explanation
Indices: 2632666--2632932 Score: 371
Period size: 140 Copynumber: 1.9 Consensus size: 142
2632656 ATTTAATCAC
* *
2632666 TAAATAAAAATTACTATCTTAATTTTTCAATATTTCTAATATTCCTATAATTTTCTATAGGAGTA
1 TAAATAAAAATTACTATCTTAATTTTTCAAGATTTCTAATATTCCTATAATTTTCCATAGGAGTA
* * * *
2632731 TAGAAATTTTCAAAACATTTTGTATCTTTTTGGTTCTCCATTAAGATACGAGATGA-ATTTTTTG
66 TAGAAATCTTCAAAACATTTTGTATATTTTTAGTTCTCCATTAAGATACGAAATGAGATTTTTTG
2632795 AAAATAAAAAAT
131 AAAATAAAAAAT
* * ** *
2632807 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATT-TTATGGTTTTCCGTAGG-GAT
1 TAAATAAAAATTACTATCTTAATTTTTCAAGATTTCTAATATTCCTATAATTTTCCATAGGAG-T
* *
2632870 ATAGAAATCTTCAAAAC-TTTATGTATATTTTTAGTTTTCCATTAAGGTACGAAATGAGATTTT
65 ATAGAAATCTTCAAAACATTT-TGTATATTTTTAGTTCTCCATTAAGATACGAAATGAGATTTT
2632933 CGAAATTTAC
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
139 4 0.04
140 60 0.55
141 46 0.42
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.44
Consensus pattern (142 bp):
TAAATAAAAATTACTATCTTAATTTTTCAAGATTTCTAATATTCCTATAATTTTCCATAGGAGTA
TAGAAATCTTCAAAACATTTTGTATATTTTTAGTTCTCCATTAAGATACGAAATGAGATTTTTTG
AAAATAAAAAAT
Found at i:2634646 original size:19 final size:20
Alignment explanation
Indices: 2634601--2634653 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
2634591 CTGTCAGTTT
* *
2634601 CATGTATCTATACAATTGAG
1 CATGTATCGATACAATTGAA
*
2634621 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
2634640 CATGTATCGATACA
1 CATGTATCGATACA
2634654 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2634660 original size:13 final size:13
Alignment explanation
Indices: 2634642--2634666 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2634632 ACAATGAACA
2634642 TGTATCGATACAT
1 TGTATCGATACAT
2634655 TGTATCGATACA
1 TGTATCGATACA
2634667 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2634683 original size:33 final size:32
Alignment explanation
Indices: 2634623--2634687 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
2634613 CAATTGAGTA
*
2634623 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
2634655 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
2634688 CTGGATATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:2635312 original size:21 final size:20
Alignment explanation
Indices: 2635288--2635333 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2635278 TAAAATTTTC
*
2635288 AATAAAACTCTCCCTTAATAA
1 AATAAAACTC-CCCCTAATAA
**
2635309 AATAATTCTCCCCCTAATAA
1 AATAAAACTCCCCCTAATAA
2635329 AATAA
1 AATAA
2635334 TTAAAGCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAAAACTCCCCCTAATAA
Found at i:2635665 original size:15 final size:15
Alignment explanation
Indices: 2635642--2635673 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2635632 CTAATCCTAT
2635642 GACTCATCGTCACTA
1 GACTCATCGTCACTA
*
2635657 GACTTATCGTCACTA
1 GACTCATCGTCACTA
2635672 GA
1 GA
2635674 GGAAAAGTAA
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:0.28, G:0.16, T:0.28
Consensus pattern (15 bp):
GACTCATCGTCACTA
Found at i:2642183 original size:13 final size:13
Alignment explanation
Indices: 2642165--2642192 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2642155 CGATACATGG
2642165 TACATTGTATCGA
1 TACATTGTATCGA
2642178 TACATTGTATCGA
1 TACATTGTATCGA
2642191 TA
1 TA
2642193 TATGATGAAT
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:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2642189 original size:33 final size:33
Alignment explanation
Indices: 2642149--2642217 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2642139 TTACCATTGT
*
2642149 TTGTATCGATACATGGT-ACATTGTATCGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
*
2642182 TTGTATCGATATATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
2642215 TTG
1 TTG
2642218 CTTCTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:2645195 original size:13 final size:13
Alignment explanation
Indices: 2645177--2645266 Score: 63
Period size: 13 Copynumber: 5.9 Consensus size: 13
2645167 CATAAAGTGT
2645177 TGTATCGATACAA
1 TGTATCGATACAA
2645190 TGTATCGATACATAAA
1 TGTATCGATAC---AA
2645206 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2645223 TGTATCGATACATAA
1 TGTATCGATAC--AA
2645238 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2645255 TGTATCGATACA
1 TGTATCGATACA
2645267 TAAGTTTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 34 0.53
15 2 0.03
16 2 0.03
17 4 0.06
19 11 0.17
20 11 0.17
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2645245 original size:32 final size:33
Alignment explanation
Indices: 2645159--2645290 Score: 241
Period size: 32 Copynumber: 4.1 Consensus size: 33
2645149 CAACGATTTT
2645159 TATCGATACATAAAGTGTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
2645192 TATCGATACATAAAGTGTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
2645225 TATCGATACAT-AAGTGTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
*
2645257 TATCGATACAT-AAGTTTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
2645289 TA
1 TA
2645291 AGCTACTACC
Statistics
Matches: 98, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 54 0.55
33 44 0.45
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (33 bp):
TATCGATACATAAAGTGTTGTATCGATACAATG
Found at i:2645314 original size:65 final size:65
Alignment explanation
Indices: 2645180--2645318 Score: 167
Period size: 65 Copynumber: 2.1 Consensus size: 65
2645170 AAAGTGTTGT
* *** *
2645180 ATCGATACAATGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGT
1 ATCGATACAATGTATCGATACATAAAGTGTTGTATCGATACAATGTAGCGATACATAAGAAATGA
* *
2645245 ATCGATACAATGTATCGATACAT-AAGTTTTGTATCGATACAATGTAAGCTACTACCA-AA-AAA
1 ATCGATACAATGTATCGATACATAAAGTGTTGTATCGATACAATGT-AGCGA-TA-CATAAGAAA
2645307 TGA
63 TGA
2645310 ATCGATACA
1 ATCGATACA
2645319 TTACTCAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
64 21 0.33
65 37 0.58
66 4 0.06
67 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (65 bp):
ATCGATACAATGTATCGATACATAAAGTGTTGTATCGATACAATGTAGCGATACATAAGAAATGA
Found at i:2645346 original size:13 final size:13
Alignment explanation
Indices: 2645328--2645385 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
2645318 ATTACTCAAA
2645328 TGTATCGATACAT
1 TGTATCGATACAT
*
2645341 TGTATCGATACAC
1 TGTATCGATACAT
2645354 TG-ATC--T---T
1 TGTATCGATACAT
2645361 TGTATCGATACAT
1 TGTATCGATACAT
*
2645374 TGTATTGATACA
1 TGTATCGATACA
2645386 CTGATCTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
7 2 0.06
8 3 0.08
10 2 0.06
12 3 0.08
13 26 0.72
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2645365 original size:20 final size:20
Alignment explanation
Indices: 2645340--2645403 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
2645330 TATCGATACA
2645340 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
2645360 TTGTATCGAT--AC--A---
1 TTGTATCGATACACTGATCT
*
2645373 TTGTATTGATACACTGATCT
1 TTGTATCGATACACTGATCT
2645393 TTGTATCGATA
1 TTGTATCGATA
2645404 TATGCAGGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 9 0.26
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
20 20 0.57
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACACTGATCT
Found at i:2645369 original size:33 final size:33
Alignment explanation
Indices: 2645328--2645403 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
2645318 ATTACTCAAA
2645328 TGTATCGATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
*
2645361 TGTATCGATACATTGTATTGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
2645394 TGTATCGATA
1 TGTATCGATA
2645404 TATGCAGGCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACACTGATCTT
Found at i:2645437 original size:52 final size:52
Alignment explanation
Indices: 2645394--2645522 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
2645384 CACTGATCTT
* *
2645394 TGTATCGATATATGCAGGCAAATTTGCTCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
2645446 TGTATCAATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2645498 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2645523 TCATATTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2652423 original size:80 final size:79
Alignment explanation
Indices: 2652310--2652512 Score: 210
Period size: 80 Copynumber: 2.6 Consensus size: 79
2652300 AATAACGGGG
* * * * * * * *
2652310 TTGGAGTGTTCCCTTGAAAATAACGAGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAG
*
2652374 AAAAAAAAAATCAGGA
65 -AAAAAAAAACCAGGA
* * *
2652390 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
* * * * *
2652455 GAATAAAGCCGGGG
66 AAAAAAAACCAGGA
* *
2652469 TTGGAGTATCTCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
2652513 GATTAACGGG
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 50 0.49
80 52 0.51
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
AAAAAAAACCAGGA
Found at i:2652527 original size:27 final size:27
Alignment explanation
Indices: 2652464--2652536 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
2652454 GGAATAAAGC
2652464 CGGGGTTGGAGTATCTCCTCGGAAATAA
1 CGGGGTTGGAGTATC-CCTCGGAAATAA
*
2652492 CGGGGTTGGAGTATCCC-C-GATGATTAA
1 CGGGGTTGGAGTATCCCTCGGA--AATAA
2652519 CGGGGTTGGAGTATCCCT
1 CGGGGTTGGAGTATCCCT
2652537 GATTGTGAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
25 2 0.05
26 1 0.02
27 23 0.56
28 15 0.37
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGGAAATAA
Found at i:2652686 original size:54 final size:52
Alignment explanation
Indices: 2652523--2652702 Score: 215
Period size: 54 Copynumber: 3.4 Consensus size: 52
2652513 GATTAACGGG
* * *
2652523 GTTGGAGTATCCCTGATTGTGAAGAAATTGGTATTTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTG-A-AAATTGGTGTTTTTTGGAAATAAAATCGGA
* * *
2652577 GTT-GAGTATCCCCGATTAAAG-GAAAATTGGTG--TTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT---GTGAAAATTGGTGTTTTTTGGAAATAAAATCGGA
2652628 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAA-TTGGTG-TTTTTTGGAAATAAAATCGGA
2652682 GTTGGAGTATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
2652703 GAGAATTGAG
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
49 1 0.01
50 5 0.05
51 24 0.22
52 14 0.13
53 21 0.19
54 41 0.38
55 1 0.01
56 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTTTGGAAATAAAATCGGA
Found at i:2655072 original size:13 final size:13
Alignment explanation
Indices: 2655054--2655079 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2655044 TACAAGATCC
2655054 ATGTATCGATACA
1 ATGTATCGATACA
2655067 ATGTATCGATACA
1 ATGTATCGATACA
2655080 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2655096 original size:33 final size:32
Alignment explanation
Indices: 2655034--2655099 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
2655024 AAAATTTCCA
***
2655034 AATGTATCGATACAAGATCCATGTATCGATAC
1 AATGTATCGATACAAGAAAAATGTATCGATAC
2655066 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACA-AGAAAAATGTATCGATAC
2655099 A
1 A
2655100 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (32 bp):
AATGTATCGATACAAGAAAAATGTATCGATAC
Found at i:2655144 original size:19 final size:18
Alignment explanation
Indices: 2655120--2655186 Score: 81
Period size: 19 Copynumber: 3.9 Consensus size: 18
2655110 AGTAGCTAAA
2655120 TATGTATCGATACAATACT
1 TATGTATCGATACAA-ACT
2655139 TATGTATCGATAC--A--
1 TATGTATCGATACAAACT
2655153 T-TGTATCGATACAAAACT
1 TATGTATCGATAC-AAACT
2655171 TATGTATCGATACAAA
1 TATGTATCGATACAAA
2655187 TCGTTGAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.57
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (18 bp):
TATGTATCGATACAAACT
Found at i:2655159 original size:13 final size:13
Alignment explanation
Indices: 2655141--2655165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2655131 ACAATACTTA
2655141 TGTATCGATACAT
1 TGTATCGATACAT
2655154 TGTATCGATACA
1 TGTATCGATACA
2655166 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2655163 original size:32 final size:32
Alignment explanation
Indices: 2655122--2655184 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2655112 TAGCTAAATA
*
2655122 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2655154 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2655185 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2655248 original size:21 final size:21
Alignment explanation
Indices: 2655222--2655383 Score: 245
Period size: 21 Copynumber: 7.7 Consensus size: 21
2655212 GTTGGGACCC
*
2655222 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTT-TACAAA
*
2655243 TGTATCGATACATTTCACAAA
1 TGTATCGATACATTTTACAAA
*
2655264 TGTATCGATACATTTCACAAA
1 TGTATCGATACATTTTACAAA
*
2655285 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTTTACAAA
*
2655306 TGTATCGATACATTTCACAAA
1 TGTATCGATACATTTTACAAA
*
2655327 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTTTACAAA
*
2655348 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTTTACAAA
2655369 TGTATCGATACATTT
1 TGTATCGATACATTT
2655384 GGAAATTTTT
Statistics
Matches: 131, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
20 1 0.01
21 130 0.99
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTTTACAAA
Found at i:2655296 original size:63 final size:63
Alignment explanation
Indices: 2655222--2655383 Score: 274
Period size: 63 Copynumber: 2.6 Consensus size: 63
2655212 GTTGGGACCC
* *
2655222 TGTATCGATACATTTGTA-GAATGTATCGATACATTTCACAAATGTATCGATACATT-TCACAAA
1 TGTATCGATACA-TTCTACAAATGTATCGATACATTTCACAAATGTATCGATACATTCT-ACAAA
2655285 TGTATCGATACATTCTACAAATGTATCGATACATTTCACAAATGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAATGTATCGATACATTTCACAAATGTATCGATACATTCTACAAA
2655348 TGTATCGATACATTCTACAAATGTATCGATACATTT
1 TGTATCGATACATTCTACAAATGTATCGATACATTT
2655384 GGAAATTTTT
Statistics
Matches: 95, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
62 4 0.04
63 90 0.95
64 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.35
Consensus pattern (63 bp):
TGTATCGATACATTCTACAAATGTATCGATACATTTCACAAATGTATCGATACATTCTACAAA
Found at i:2663586 original size:5 final size:5
Alignment explanation
Indices: 2663576--2663618 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
2663566 TCTCCGCAAA
* *
2663576 AAAAC AAAAC AAAAC AAAAC AAAAA AAAAT AAAAC AAAA- AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
2663619 TAACAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (5 bp):
AAAAC
Found at i:2663626 original size:10 final size:9
Alignment explanation
Indices: 2663573--2663628 Score: 58
Period size: 10 Copynumber: 5.8 Consensus size: 9
2663563 CGTTCTCCGC
2663573 AAAAAAACA
1 AAAAAAACA
2663582 AAACAAAACA
1 AAA-AAAACA
*
2663592 AAACAAAAAA
1 AAA-AAAACA
2663602 AAATAAAACA
1 AAA-AAAACA
*
2663612 AAAAAAATA
1 AAAAAAACA
2663621 ACAAAAAA
1 A-AAAAAA
2663629 GGTTCGGATG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
9 9 0.22
10 32 0.78
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.04
Consensus pattern (9 bp):
AAAAAAACA
Found at i:2665226 original size:34 final size:33
Alignment explanation
Indices: 2665117--2665276 Score: 187
Period size: 34 Copynumber: 4.7 Consensus size: 33
2665107 CTTCTAAAGT
* *
2665117 CCACAACTCCGTGGCACCTTTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCACC--TTTTTCCTTTT-AAGC
* *
2665153 CCACAACTCTGTGGCA-CTCTTTTCCTTATAAGT
1 CCACAACTCTGTGGCACCT-TTTTCCTTTTAAGC
*
2665186 CTACAACTCTGTGGCACCTTTCTTCCTTTTAAGC
1 CCACAACTCTGTGGCACCTTT-TTCCTTTTAAGC
* *
2665220 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCTGTGGCAC-CTTTTTCCTTTTAAGC
*
2665254 CCACAACTCTGTGGCACCCTTTT
1 CCACAACTCTGTGGCACCTTTTT
2665277 AAGCCCACAA
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
33 26 0.24
34 62 0.57
35 5 0.05
36 15 0.14
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.37
Consensus pattern (33 bp):
CCACAACTCTGTGGCACCTTTTTCCTTTTAAGC
Found at i:2665260 original size:68 final size:69
Alignment explanation
Indices: 2665113--2665276 Score: 242
Period size: 68 Copynumber: 2.4 Consensus size: 69
2665103 CAACCTTCTA
* * * *
2665113 AAGTCCACAACTCCGTGGCACCTTTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTCC
1 AAGTCCACAACTCTGTGGCACCTTTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCC
2665178 TTAT
66 TTAT
*
2665182 AAGTCTACAACTCTGTGGCACC-TTTCTTCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAGTCCACAACTCTGTGGCACCTTTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTC
*
2665245 CTTTT
65 CTTAT
2665250 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTT
2665277 AAGCCCACAA
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
67 22 0.26
68 38 0.45
69 22 0.26
70 3 0.04
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.37
Consensus pattern (69 bp):
AAGTCCACAACTCTGTGGCACCTTTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCC
TTAT
Found at i:2665275 original size:27 final size:28
Alignment explanation
Indices: 2665244--2665325 Score: 96
Period size: 27 Copynumber: 2.9 Consensus size: 28
2665234 CACTCTTTTT
*
2665244 CCTTTTAAGTCCACAACTCT-GTGGCA-C
1 CCTTTTAAGCCCACAACT-TGGTGGCACC
*
2665271 CCTTTTAAGCCCACAAGTTGGTGGCACC
1 CCTTTTAAGCCCACAACTTGGTGGCACC
* *
2665299 CCTTTTAAAGCCCACAAGTTAGTGGCA
1 CCTTTT-AAGCCCACAACTTGGTGGCA
2665326 ACCTTTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 7 0.14
29 19 0.39
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (28 bp):
CCTTTTAAGCCCACAACTTGGTGGCACC
Found at i:2665314 original size:29 final size:28
Alignment explanation
Indices: 2665264--2665371 Score: 121
Period size: 28 Copynumber: 3.8 Consensus size: 28
2665254 CCACAACTCT
*
2665264 GTGGCACCCTTTT-AAGCCCACAAGTTG
1 GTGGCACCCTTTTAAAGCCCACAAGTTA
2665291 GTGGCACCCCTTTTAAAGCCCACAAGTTA
1 GTGGCA-CCCTTTTAAAGCCCACAAGTTA
* * *
2665320 GTGGCAACCTTTAAAAGCACACAAGTTA
1 GTGGCACCCTTTTAAAGCCCACAAGTTA
* *
2665348 AT-GCAACCCTTTCAAAAGCCCACA
1 GTGGC-ACCCTTT-TAAAGCCCACA
2665372 CAAGTTGATG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
27 8 0.11
28 33 0.47
29 29 0.41
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (28 bp):
GTGGCACCCTTTTAAAGCCCACAAGTTA
Found at i:2665353 original size:27 final size:29
Alignment explanation
Indices: 2665265--2665383 Score: 102
Period size: 28 Copynumber: 4.1 Consensus size: 29
2665255 CACAACTCTG
* * **
2665265 TGGC-ACCCTTT-TAAGCCCACAAGTTGG
1 TGGCAACCCTTTAAAAGCACACAAGTTAA
* * * *
2665292 TGGCACCCCTTTTAAAGCCCACAAGTTAG
1 TGGCAACCCTTTAAAAGCACACAAGTTAA
2665321 TGGCAA-CCTTTAAAAGCACACAAGTTAA
1 TGGCAACCCTTTAAAAGCACACAAGTTAA
*
2665349 T-GCAACCCTTTCAAAAGCCCACACAAGTTGA
1 TGGCAACCCTTT-AAAAG--CACACAAGTTAA
2665380 TGGC
1 TGGC
2665384 GTCTTCTTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
27 8 0.10
28 31 0.40
29 24 0.31
31 12 0.16
32 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (29 bp):
TGGCAACCCTTTAAAAGCACACAAGTTAA
Found at i:2665504 original size:43 final size:43
Alignment explanation
Indices: 2665437--2665802 Score: 408
Period size: 43 Copynumber: 8.1 Consensus size: 43
2665427 TGGCACCTTT
* *
2665437 ACCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGC
1 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC
* * * *
2665480 ACCTTTAAGTCCAATATCGTTGGCCTTGAATTAGCATATTGGC
1 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC
* * *
2665523 ACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATGAGCACATTAGC
1 A---C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC
* * * *
2665571 ACCTTTAAGTCCAATATCGTTGGCCTTGAGTCAGCATATTGGCACC
1 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG---C
*
2665617 TTTACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
1 ---ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC
*
2665663 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
1 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC
* *
2665706 ACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGTACATTGGC
1 A---C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC
* *
2665754 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
1 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC
*
2665797 GCCTTT
1 ACCTTT
2665803 GCCATCTTTA
Statistics
Matches: 273, Mismatches: 34, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
43 155 0.57
45 2 0.01
46 4 0.01
48 75 0.27
49 37 0.14
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC
Found at i:2665573 original size:91 final size:92
Alignment explanation
Indices: 2665393--2665912 Score: 702
Period size: 91 Copynumber: 5.5 Consensus size: 92
2665383 CGTCTTCTTC
* * * *
2665393 TAAGTCCAATAGCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCTTTAAGTCTAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
2665458 GGCCTTGAATCAGCACATTGGCACCTT
66 GGCCTTGAATCAGCACATTGGCACCTT
* *
2665485 TAAGTCCAATATCGTTGGCCTTGAATTAGCATATTGGCACC-TCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
2665549 GGCCTTGAATGAGCACATTAGCACCTT
66 GGCCTTGAATCAGCACATTGGCACCTT
* * * *
2665576 TAAGTCCAATATCGTTGGCCTTGAGTCAGCATATTGGCACCTTTACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
2665641 GGCCTTGAATCAGCACATTGGCACCTT
66 GGCCTTGAATCAGCACATTGGCACCTT
*
2665668 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
2665732 GGCCTTGAATCAGTACATTGGCACCTT
66 GGCCTTGAATCAGCACATTGGCACCTT
* * *
2665759 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGCCATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT--CATCTTTAAGTCCAATGTA
* * *
2665824 GCTAGCCTTGAATCAACATATTGGCGCATTTGTCATCTTT
63 GCTGGCCTTGAATCAGCACATT-G-GCA-----C--C-TT
* * *
2665864 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
2665913 CAACATTCCT
Statistics
Matches: 381, Mismatches: 32, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
91 170 0.45
92 122 0.32
93 1 0.00
95 35 0.09
96 1 0.00
97 3 0.01
102 7 0.02
104 3 0.01
105 39 0.10
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (92 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTT
Found at i:2665701 original size:183 final size:183
Alignment explanation
Indices: 2665393--2665912 Score: 734
Period size: 183 Copynumber: 2.8 Consensus size: 183
2665383 CGTCTTCTTC
* *
2665393 TAAGTCCAATAGCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCTTTAAGTCTAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCTTTAAGTCCAATGTAGCT
* * *
2665458 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAATTAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
*
2665523 ACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATGAGCACATTAGCACCTT
131 ACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTT
* *
2665576 TAAGTCCAATATCGTTGGCCTTGAGTCAGCATATTGGCACCTTTACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCTTTAAGTCCAATGTAGCT
2665641 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
* *
2665706 ACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGTACATTGGCACCTT
131 ACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTT
* * * *
2665759 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGCCATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT---ACCTTTAAGTCCAATGTA
* * * * *
2665824 GCTAGCCTTGAATCAACATATTGGCGCATTTGTCATCTTTTAAGTCCAATGTTGCTGGCCTTGAA
63 GCTGGCCTTGAATCAGCACATT-G-GCA-----C--C-TTTAAGTCCAATATAGCTGGCCTTGAA
*
2665889 TCAGCACATTGGCACCTTCATCTT
118 TCAGCATATTGGCACC-TCATCTT
2665913 CAACATTCCT
Statistics
Matches: 301, Mismatches: 22, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
183 214 0.71
186 34 0.11
187 1 0.00
188 3 0.01
193 1 0.00
195 1 0.00
196 40 0.13
197 7 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (183 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
ACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTT
Found at i:2665834 original size:52 final size:52
Alignment explanation
Indices: 2665756--2665906 Score: 221
Period size: 52 Copynumber: 2.9 Consensus size: 52
2665746 ACATTGGCAC
2665756 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGCCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGCCAT
* * * *
2665808 CTTTAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCGCATTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGCCAT
* * * *
2665860 CTTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT
1 C-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT
2665907 CATCTTCAAC
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
52 49 0.56
53 38 0.44
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGCCAT
Found at i:2666818 original size:13 final size:13
Alignment explanation
Indices: 2666800--2666824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2666790 CATAAAATGT
2666800 TGTATCGATACAA
1 TGTATCGATACAA
2666813 TGTATCGATACA
1 TGTATCGATACA
2666825 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2666838 original size:32 final size:33
Alignment explanation
Indices: 2666782--2666848 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 33
2666772 CAATGATTTT
2666782 TATCGATACATAAAATGTTGTATCGATACAATG
1 TATCGATACATAAAATGTTGTATCGATACAATG
*
2666815 TATCGATACAT-AAGTGTTGTATCGATACAATG
1 TATCGATACATAAAATGTTGTATCGATACAATG
2666847 TA
1 TA
2666849 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 22 0.67
33 11 0.33
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (33 bp):
TATCGATACATAAAATGTTGTATCGATACAATG
Found at i:2666904 original size:13 final size:13
Alignment explanation
Indices: 2666886--2666910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2666876 ATTACTCAAA
2666886 TGTATTGATACAT
1 TGTATTGATACAT
2666899 TGTATTGATACA
1 TGTATTGATACA
2666911 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
TGTATTGATACAT
Found at i:2666961 original size:52 final size:52
Alignment explanation
Indices: 2666919--2667047 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2666909 CACTAATCTT
*
2666919 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2666971 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2667023 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2667048 TCATATTTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2675786 original size:19 final size:19
Alignment explanation
Indices: 2675762--2675818 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2675752 TGTATCAATA
*
2675762 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGAT
*
2675781 CATTGTATCGAGACATGGAT
1 CATTGTATCGATACAT-GAT
*
2675801 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
2675819 AACTGGTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:2675807 original size:20 final size:20
Alignment explanation
Indices: 2675763--2675817 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2675753 GTATCAATAC
* *
2675763 ATTGTATCGATACAT-GTTC
1 ATTGTATCGATACATGGATA
*
2675782 ATTGTATCGAGACATGGATA
1 ATTGTATCGATACATGGATA
2675802 ATTGTATCGATACATG
1 ATTGTATCGATACATG
2675818 AAACTGGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGATA
Found at i:2675880 original size:13 final size:13
Alignment explanation
Indices: 2675862--2675892 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2675852 CGATACATGG
2675862 TACATTGTATCGA
1 TACATTGTATCGA
2675875 TACATTGTATCGA
1 TACATTGTATCGA
2675888 TACAT
1 TACAT
2675893 GATGAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2675883 original size:33 final size:33
Alignment explanation
Indices: 2675846--2675914 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2675836 CTACCACTGT
*
2675846 TTGTATCGATACATGGT-ACATTGTATCGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
*
2675879 TTGTATCGATACATGATGAATTGTATTGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
2675912 TTG
1 TTG
2675915 CTTCCAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:2678294 original size:33 final size:33
Alignment explanation
Indices: 2678252--2678318 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2678242 TTGGGCATAA
** * *
2678252 TGTATCGATACTTTTTACCATGTATTGATACAT
1 TGTATCGATACAATGTACCATGTATCGATACAT
*
2678285 TGTATCGATACAATGTCCCATGTATCGATACAT
1 TGTATCGATACAATGTACCATGTATCGATACAT
2678318 T
1 T
2678319 TCACTTAGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:2678390 original size:19 final size:20
Alignment explanation
Indices: 2678345--2678398 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
2678335 CTGCTAGTTT
* *
2678345 CATGTATCTATACAATTGTA
1 CATGTATCGATACAATTGAA
*
2678365 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
2678384 CATGTATCGATACAA
1 CATGTATCGATACAA
2678399 AGCATAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2681312 original size:30 final size:30
Alignment explanation
Indices: 2681277--2681351 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
2681267 ACTAGTTTAA
2681277 AAATAAAATAAAATAAGAAATTCAA-AATT-T
1 AAATAAAATAAAATAA-AAATT-AATAATTAT
*
2681307 AAATAAAATTAAAATTAAAATTAATAATTAT
1 AAATAAAA-TAAAATAAAAATTAATAATTAT
2681338 AAA-AAAATAGAAAT
1 AAATAAAATA-AAAT
2681352 GAAATAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
29 4 0.10
30 25 0.62
31 11 0.28
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (30 bp):
AAATAAAATAAAATAAAAATTAATAATTAT
Found at i:2681316 original size:11 final size:12
Alignment explanation
Indices: 2681273--2681336 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 12
2681263 TGAAACTAGT
*
2681273 TTAAAAATAAAA
1 TTAAAATTAAAA
*
2681285 -TAAAATAAGAAA
1 TTAAAATTA-AAA
*
2681297 TTCAAAATTTAAA
1 TT-AAAATTAAAA
2681310 -TAAAATTAAAA
1 TTAAAATTAAAA
2681321 TTAAAATTAATAA
1 TTAAAATTAA-AA
2681334 TTA
1 TTA
2681337 TAAAAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 15 0.36
12 13 0.31
13 9 0.21
14 5 0.12
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (12 bp):
TTAAAATTAAAA
Found at i:2681322 original size:17 final size:18
Alignment explanation
Indices: 2681281--2681327 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
2681271 GTTTAAAAAT
2681281 AAAA-TAAAATAAGAAATTC
1 AAAATTAAAAT-A-AAATTC
*
2681300 AAAATTTAAATAAAATT-
1 AAAATTAAAATAAAATTC
2681317 AAAATTAAAAT
1 AAAATTAAAAT
2681328 TAATAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 10 0.40
18 5 0.20
19 5 0.20
20 5 0.20
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAATTAAAATAAAATTC
Found at i:2681339 original size:6 final size:6
Alignment explanation
Indices: 2681273--2681336 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
2681263 TGAAACTAGT
* * *
2681273 TTAAAA ATAAAA -TAAAA TAAGAAA TTCAAAA TTTAAA -TAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTA-AAA TT-AAAA TTAAAA TTAAAA TTAAAA
2681321 TTAAAA TTAATAA TTA
1 TTAAAA TTAA-AA TTA
2681337 TAAAAAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
5 9 0.19
6 24 0.50
7 14 0.29
8 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (6 bp):
TTAAAA
Found at i:2681620 original size:20 final size:21
Alignment explanation
Indices: 2681587--2681627 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2681577 TTGGAAACCA
2681587 AAAAAATCTACAAAATGGATT
1 AAAAAATCTACAAAATGGATT
* *
2681608 AAAAAAT-TTCAAAATTGATT
1 AAAAAATCTACAAAATGGATT
2681628 TTATGGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (21 bp):
AAAAAATCTACAAAATGGATT
Found at i:2682906 original size:65 final size:62
Alignment explanation
Indices: 2682732--2682937 Score: 182
Period size: 65 Copynumber: 3.2 Consensus size: 62
2682722 GAGACCAGGG
* * *
2682732 TGAAACCTAAGTTGAAAAAGGTTGACCAAGTG-AAACCAACAAAGTCAACTAAAGATGACCAGGA
1 TGAAACCTAAGTCGAAAAGGGTTGA-CAAG-GAAAACCAACAAAGTCAACTAAAG-TGACCAAGA
* * * * ** *
2682796 TGGAATCTAAGTCGAAAAGTGTTGACTAGGATGAAATTAATAAAGTCAACTAAAAGTGACCAAGA
1 TGAAACCTAAGTCGAAAAGGGTTGACAAGGA--AAACCAACAAAGTCAACT-AAAGTGACCAAGA
* * *
2682861 TGAAACCTAAGTCGAAAAGGGTTGATCAAGGCAAAACCAACAAAGTTAACTGAAGGTGA-AAAGG
1 TGAAACCTAAGTCGAAAAGGGTTGA-CAAGG-AAAACCAACAAAGTCAACT-AAAGTGACCAA-G
2682925 A
62 A
*
2682926 TGAAATCTAAGT
1 TGAAACCTAAGT
2682938 AAAAACGAGT
Statistics
Matches: 113, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 22 0.19
65 78 0.69
66 8 0.07
67 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.19
Consensus pattern (62 bp):
TGAAACCTAAGTCGAAAAGGGTTGACAAGGAAAACCAACAAAGTCAACTAAAGTGACCAAGA
Found at i:2684152 original size:74 final size:74
Alignment explanation
Indices: 2683975--2684276 Score: 358
Period size: 74 Copynumber: 4.1 Consensus size: 74
2683965 AAGAAGAATG
* ** * * *
2683975 TGATGGGGAGTATGTGGTTATAATTTTCCAACAATAGA-TGAGACAAACTAATAACGAGCTGAAG
1 TGATGGGGAATATGTGGTTATAATTTTCCAACAATA-ACCAAAACAAATTGATAACGAGCT--A-
2684039 AAGAAAAA-AACA
62 AAGAAAAAGAACA
* *
2684051 TGATGGAGAATATGTGGTTATAA-TTTCCTAATAATAACCAAAACAAATTGATAACGAGCTAAAG
1 TGATGGGGAATATGTGGTTATAATTTTCC-AACAATAACCAAAACAAATTGATAACGAGCTAAAG
2684115 AAAAAGAACA
65 AAAAAGAACA
* * * ** *
2684125 TGATGGGGAATATGTGGTTATAATTTCCCAACAATAGCCGAAACAAATTGATAATAAGCAAAAGA
1 TGATGGGGAATATGTGGTTATAATTTTCCAACAATAACCAAAACAAATTGATAACGAGCTAAAGA
**
2684190 GGAAGAACA
66 AAAAGAACA
* * *
2684199 TGATGGGGAATATGTGGTTATAATTTTCCAACAACAACTAAAACACATTGATAACGAGCTAAAGA
1 TGATGGGGAATATGTGGTTATAATTTTCCAACAATAACCAAAACAAATTGATAACGAGCTAAAGA
*
2684264 AGAAGAACA
66 AAAAGAACA
2684273 TGAT
1 TGAT
2684277 AAAGAAGATG
Statistics
Matches: 194, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
73 8 0.04
74 132 0.68
75 10 0.05
76 44 0.23
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (74 bp):
TGATGGGGAATATGTGGTTATAATTTTCCAACAATAACCAAAACAAATTGATAACGAGCTAAAGA
AAAAGAACA
Found at i:2684254 original size:148 final size:149
Alignment explanation
Indices: 2683975--2684276 Score: 403
Period size: 148 Copynumber: 2.0 Consensus size: 149
2683965 AAGAAGAATG
* * * * *
2683975 TGATGGGGAGTATGTGGTTATAATTTTCCAACAATAGATGAGACAAACTAATAACGAGCTGAAGA
1 TGATGGGGAATATGTGGTTATAATTTCCCAACAATAGACGAAACAAACTAATAACAAGC-GAAGA
* *
2684040 AGAAAAAAACATGATGGAGAATATGTGGTTATAATTTCCTAATAATAACCAAAACAAATTGATAA
65 AGAAAAAAACATGATGGAGAATATGTGGTTATAATTTCCTAACAACAACCAAAACAAATTGATAA
2684105 CGAGCTAAAGAAAAAGAACA
130 CGAGCTAAAGAAAAAGAACA
* * * *
2684125 TGATGGGGAATATGTGGTTATAATTTCCCAACAATAGCCGAAACAAATTGATAATAAGC-AA-AA
1 TGATGGGGAATATGTGGTTATAATTTCCCAACAATAGACGAAACAAACTAATAACAAGCGAAGAA
* * * * *
2684188 GAGGAAGAACATGATGGGGAATATGTGGTTATAATTTTCC-AACAACAACTAAAACACATTGATA
66 GA-AAAAAACATGATGGAGAATATGTGGTTATAA-TTTCCTAACAACAACCAAAACAAATTGATA
*
2684252 ACGAGCTAAAGAAGAAGAACA
129 ACGAGCTAAAGAAAAAGAACA
2684273 TGAT
1 TGAT
2684277 AAAGAAGATG
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
147 4 0.03
148 74 0.56
149 5 0.04
150 50 0.38
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (149 bp):
TGATGGGGAATATGTGGTTATAATTTCCCAACAATAGACGAAACAAACTAATAACAAGCGAAGAA
GAAAAAAACATGATGGAGAATATGTGGTTATAATTTCCTAACAACAACCAAAACAAATTGATAAC
GAGCTAAAGAAAAAGAACA
Found at i:2684323 original size:47 final size:47
Alignment explanation
Indices: 2684246--2684339 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
2684236 CTAAAACACA
* *
2684246 TTGATAACGAGCTAAAGAAGAAGAACATGATAAAGAAGATGTGGTTT
1 TTGATAACCAGCTAAAGAAGAAAAACATGATAAAGAAGATGTGGTTT
* * ** *
2684293 TTGATAACCAGCTGAAGAAGAAAAATATGATAGGGAATATGTGGTTT
1 TTGATAACCAGCTAAAGAAGAAAAACATGATAAAGAAGATGTGGTTT
2684340 CTACAGTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.26
Consensus pattern (47 bp):
TTGATAACCAGCTAAAGAAGAAAAACATGATAAAGAAGATGTGGTTT
Found at i:2684532 original size:59 final size:59
Alignment explanation
Indices: 2684459--2685361 Score: 492
Period size: 59 Copynumber: 15.2 Consensus size: 59
2684449 CAGAACTTAA
* * * *
2684459 AACAATGACTTGGGTGAAACCAAGACTCGAGGAAATGGCCTGGTTAAAACTAGAAACCT
1 AACAATGACTTGGGTGAAACCAAGACTCAACGAAATGGCCTGGATAAAACTAAAAACCT
* * ** *
2684518 ACCAATGACTTGGGTGTAACCAAGACTCAACGAAATGGTTTGGATAAAATTAAAAACCT
1 AACAATGACTTGGGTGAAACCAAGACTCAACGAAATGGCCTGGATAAAACTAAAAACCT
** * * *
2684577 AACAATGACTTAGGGCAAAACCAAAACTCAAC-ATAATGGCTTGGATGAAACTAGAAAA-CT
1 AACAATGACTT-GGGTGAAACCAAGACTCAACGA-AATGGCCTGGATAAAACTA-AAAACCT
* * * * * * * * * *
2684637 AAGTAATGACTTAGATAAAACCAAGATTCAAC-AAAAGGACCTCGATGAAAC-CAAAACTT
1 AA-CAATGACTTGGGTGAAACCAAGACTCAACGAAATGG-CCTGGATAAAACTAAAAACCT
** * * ** ** *
2684696 AAACAATGACTTGGGCAAAACCAAGACTCAAC-AAATGTCCTAGACCAAACCCAAAACTT
1 -AACAATGACTTGGGTGAAACCAAGACTCAACGAAATGGCCTGGATAAAACTAAAAACCT
* * * * * *
2684755 AGACAATGACTTGGGTGAAACTAACACTAAAAGAAATGGCCTGGGTAAAACCAAAAACCT
1 A-ACAATGACTTGGGTGAAACCAAGACTCAACGAAATGGCCTGGATAAAACTAAAAACCT
* * * ** * * * **
2684815 AAACAACGACGTGGGTAAAATTAAGACTCTGACTTAAGAAAATGGCCTAGATAAAGCTGGAAACC
1 -AACAATGACTTGGGTGAAACCAAGACTC--A---ACG-AAATGGCCTGGATAAAACTAAAAACC
2684880 T
59 T
* ** * * * * * * * *
2684881 AATAATGACTTAGGGCAAAACTAAAACTCAACAAAATGG-TTGGACAAAACCAGAAACTT
1 AACAATGACTT-GGGTGAAACCAAGACTCAACGAAATGGCCTGGATAAAACTAAAAACCT
* * * * * * *
2684940 AAATAATGACTTAGG-CATAACAAAGACTCAACAAAATGGCCTGGACAAAACCAAAAAACCT
1 -AACAATGACTTGGGTGA-AACCAAGACTCAACGAAATGGCCTGGATAAAA-CTAAAAACCT
* ** * * * *
2685001 AAATAATGACTTGGGCAAAACCAAGACTCAACAAAATGGCCTAGATGAAACCAGAAAA-CT
1 -AACAATGACTTGGGTGAAACCAAGACTCAACGAAATGGCCTGGATAAAACTA-AAAACCT
** ** * * *
2685061 AA-ACA--A-TTGGACGAAACCAAGACTCAAATAAATGGCTTGAATAAAACCAAAAACCT
1 AACA-ATGACTTGGGTGAAACCAAGACTCAACGAAATGGCCTGGATAAAACTAAAAACCT
* * * *
2685117 AAACAATGACTT-GGTAAAACCAAGACTTAAAGAAATGGCCTGGATAAAACCAAAAACCT
1 -AACAATGACTTGGGTGAAACCAAGACTCAACGAAATGGCCTGGATAAAACTAAAAACCT
* * * * * * * *
2685176 AAACAATGA-TTGGGT-AAATTCGAGACTTAACTAAATAGTCTAGATAAAACCAAAAACCT
1 -AACAATGACTTGGGTGAAA-CCAAGACTCAACGAAATGGCCTGGATAAAACTAAAAACCT
* * * * * *
2685235 AA-AATAACTTGGGTAAAACCAAGACTCAATTG-AATGGCCTAGAT-AAACTAGAAACTT
1 AACAATGACTTGGGTGAAACCAAGACTCAA-CGAAATGGCCTGGATAAAACTAAAAACCT
* * * * * * *
2685292 AAATAATGACATGGATGAAACCAAGACTCAACTAAATGGTCTGGATAAAACCAGAAACCT
1 -AACAATGACTTGGGTGAAACCAAGACTCAACGAAATGGCCTGGATAAAACTAAAAACCT
2685352 AACAATGACT
1 AACAATGACT
2685362 ATATATAGAT
Statistics
Matches: 666, Mismatches: 138, Indels: 80
0.75 0.16 0.09
Matches are distributed among these distances:
55 4 0.01
56 37 0.06
57 18 0.03
58 50 0.08
59 293 0.44
60 148 0.22
61 67 0.10
62 2 0.00
64 1 0.00
65 11 0.02
66 35 0.05
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (59 bp):
AACAATGACTTGGGTGAAACCAAGACTCAACGAAATGGCCTGGATAAAACTAAAAACCT
Found at i:2684719 original size:29 final size:29
Alignment explanation
Indices: 2684684--2684769 Score: 75
Period size: 30 Copynumber: 2.9 Consensus size: 29
2684674 GACCTCGATG
2684684 AAACCAAAACTTAAACAATGACTTGGGCA
1 AAACCAAAACTTAAACAATGACTTGGGCA
* * * * **
2684713 AAACCAAGAC-TCAACAAATGTCCTAGACCA
1 AAACCAAAACTTAAAC-AATG-ACTTGGGCA
* *
2684743 AACCCAAAACTTAGACAATGACTTGGG
1 AAACCAAAACTTAAACAATGACTTGGG
2684770 TGAAACTAAC
Statistics
Matches: 40, Mismatches: 14, Indels: 6
0.67 0.23 0.10
Matches are distributed among these distances:
28 4 0.10
29 16 0.40
30 17 0.43
31 3 0.08
ACGTcount: A:0.45, C:0.24, G:0.14, T:0.16
Consensus pattern (29 bp):
AAACCAAAACTTAAACAATGACTTGGGCA
Found at i:2685108 original size:30 final size:28
Alignment explanation
Indices: 2685074--2685169 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 28
2685064 CAATTGGACG
2685074 AAACCAAGACTCAAATAAATGGCTTGAATA
1 AAACCAAGACTCAAA-AAATGGCTTG-ATA
* * * *
2685104 AAACCAAAAAC-CTAAACAATGACTTGGTA
1 AAACC-AAGACTC-AAAAAATGGCTTGATA
* *
2685133 AAACCAAGACTTAAAGAAATGGCCTGGATA
1 AAACCAAGACTCAAA-AAATGG-CTTGATA
2685163 AAACCAA
1 AAACCAA
2685170 AAACCTAAAC
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
28 7 0.14
29 11 0.22
30 26 0.51
31 7 0.14
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.17
Consensus pattern (28 bp):
AAACCAAGACTCAAAAAATGGCTTGATA
Found at i:2685137 original size:29 final size:29
Alignment explanation
Indices: 2685102--2685193 Score: 98
Period size: 29 Copynumber: 3.1 Consensus size: 29
2685092 ATGGCTTGAA
2685102 TAAAACCAAAAACCTAAACAATGACTTGG
1 TAAAACCAAAAACCTAAACAATGACTTGG
* * * * *
2685131 TAAAACC-AAGACTTAAAGAAATGGCCTGG
1 TAAAACCAAAAACCTAAA-CAATGACTTGG
2685160 ATAAAACCAAAAACCTAAACAATGA-TTGGG
1 -TAAAACCAAAAACCTAAACAATGACTT-GG
2685190 TAAA
1 TAAA
2685194 TTCGAGACTT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
28 8 0.16
29 20 0.41
30 13 0.27
31 8 0.16
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.17
Consensus pattern (29 bp):
TAAAACCAAAAACCTAAACAATGACTTGG
Found at i:2685319 original size:117 final size:117
Alignment explanation
Indices: 2684926--2685361 Score: 426
Period size: 117 Copynumber: 3.7 Consensus size: 117
2684916 ATGGTTGGAC
* * * * *
2684926 AAAACCAGAAACTTAAATAATGACTTAGGCAT-AACAAAGACTCAACAAAATGGCCTGGACAAAA
1 AAAACCAGAAACTTAAACAATGA-TT-GG-ATAAACCAAGACTCAACTAAATGGTCTGGATAAAA
* * *
2684990 CCAAAAAACCTAAATAATGACTTGGGCAAAACCAAGACTCAACAAAATGGCCTAGAT
63 CC-AAAAACCTAAACAATGACTTGGGTAAAACCAAGACTCAA-AGAATGGCCTAGAT
* * * *
2685047 GAAACCAGAAAAC-TAAAC-A--ATTGGACGAAACCAAGACTCAAATAAATGG-CTTGAATAAAA
1 AAAACCAG-AAACTTAAACAATGATTGGA-TAAACCAAGACTCAACTAAATGGTC-TGGATAAAA
* *
2685107 CCAAAAACCTAAACAATGACTT-GGTAAAACCAAGACTTAAAGAAATGGCCTGGAT
63 CCAAAAACCTAAACAATGACTTGGGTAAAACCAAGACTCAAAG-AATGGCCTAGAT
* * * * * * * *
2685162 AAAACCAAAAACCTAAACAATGATTGGGTAAATTCGAGACTTAACTAAATAGTCTAGATAAAACC
1 AAAACCAGAAACTTAAACAATGATTGGATAAA-CCAAGACTCAACTAAATGGTCTGGATAAAACC
* *
2685227 AAAAACCT-AA-AATAACTTGGGTAAAACCAAGACTCAATTGAATGGCCTAGAT
65 AAAAACCTAAACAATGACTTGGGTAAAACCAAGACTCAA-AGAATGGCCTAGAT
* * *
2685279 -AAACTAGAAACTTAAATAATGACATGGATGAAACCAAGACTCAACTAAATGGTCTGGATAAAAC
1 AAAACCAGAAACTTAAACAATGA-TTGGAT-AAACCAAGACTCAACTAAATGGTCTGGATAAAAC
*
2685343 CAGAAACCT-AACAATGACT
64 CAAAAACCTAAACAATGACT
2685362 ATATATAGAT
Statistics
Matches: 258, Mismatches: 41, Indels: 35
0.77 0.12 0.10
Matches are distributed among these distances:
114 5 0.02
115 39 0.15
116 48 0.19
117 102 0.40
118 47 0.18
119 1 0.00
120 1 0.00
121 11 0.04
122 4 0.02
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.18
Consensus pattern (117 bp):
AAAACCAGAAACTTAAACAATGATTGGATAAACCAAGACTCAACTAAATGGTCTGGATAAAACCA
AAAACCTAAACAATGACTTGGGTAAAACCAAGACTCAAAGAATGGCCTAGAT
Found at i:2685906 original size:88 final size:88
Alignment explanation
Indices: 2685768--2686148 Score: 379
Period size: 88 Copynumber: 4.3 Consensus size: 88
2685758 AAATAAGGTC
* * * * ** * * *
2685768 AATGCAAATGTCATCTAATGATGCAAATGCATGTGAAACGATGTAAATGCAAGCATCAATAAAGT
1 AATGCCAATATCATCTAAAG-TGCAAATGTACATGAAACAATGCAAATGCAAGCATCAATAAAGA
* * * * **
2685833 GGGAAATTCATATGAAATAATGCA
65 GGAAAATGCACATGATACGATGCA
* * *
2685857 AATACCAATATCATCTAATGTGCAAATGTACATGAAACAATGCAAATGCAAACATCAATAAAGAG
1 AATGCCAATATCATCTAAAGTGCAAATGTACATGAAACAATGCAAATGCAAGCATCAATAAAGAG
*
2685922 GCAAATGCACATGATACGATGCA
66 GAAAATGCACATGATACGATGCA
* * * * * **
2685945 AATGCCAATGTCATCTAAAGTACAGATATGCATGAAATGATGCAAATGCAAGCATCAATAAAGAG
1 AATGCCAATATCATCTAAAGTGCAAATGTACATGAAACAATGCAAATGCAAGCATCAATAAAGAG
*
2686010 GAAAATGCACATGATACGATG-T
66 GAAAATGCACATGATACGATGCA
* * * * * * *
2686032 AATGCCATTATCATCCAAAGTGCAGATGTGCATGAAATAATGCAAACGCAAGCATCAATAGTA-A
1 AATGCCAATATCATCTAAAGTGCAAATGTACATGAAACAATGCAAATGCAAGCATCAATA-AAGA
* *
2686096 GGCAAATGCACATGATATGATGCA
65 GGAAAATGCACATGATACGATGCA
* * *
2686120 AATGCCAATGTCATCTTAAGTACAAATGT
1 AATGCCAATATCATCTAAAGTGCAAATGT
2686149 GCGTGAAATG
Statistics
Matches: 245, Mismatches: 45, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
87 74 0.30
88 154 0.63
89 17 0.07
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (88 bp):
AATGCCAATATCATCTAAAGTGCAAATGTACATGAAACAATGCAAATGCAAGCATCAATAAAGAG
GAAAATGCACATGATACGATGCA
Found at i:2685926 original size:44 final size:44
Alignment explanation
Indices: 2685801--2686030 Score: 144
Period size: 44 Copynumber: 5.2 Consensus size: 44
2685791 CAAATGCATG
* * * * *
2685801 TGAAACGATGTAAATGCAAGCATCAATAAAGTGGGAAAT-TCATA
1 TGAAACGATGCAAATGCAAACATCAATAAAGAGGCAAATGT-ACA
** * * * * * *
2685845 TGAAATAATGCAAATACCAATATCATCTAATG-TGCAAATGTACA
1 TGAAACGATGCAAATGCAAACATCA-ATAAAGAGGCAAATGTACA
* *
2685889 TGAAACAATGCAAATGCAAACATCAATAAAGAGGCAAATGCACA
1 TGAAACGATGCAAATGCAAACATCAATAAAGAGGCAAATGTACA
* * ** * * * *
2685933 TGATACGATGCAAATGCCAATGTCATCTAAAGTA--CAGATATGCA
1 TGAAACGATGCAAATGCAAACATCA-ATAAAG-AGGCAAATGTACA
* * * *
2685977 TGAAATGATGCAAATGCAAGCATCAATAAAGAGGAAAATGCACA
1 TGAAACGATGCAAATGCAAACATCAATAAAGAGGCAAATGTACA
*
2686021 TGATACGATG
1 TGAAACGATG
2686031 TAATGCCATT
Statistics
Matches: 135, Mismatches: 44, Indels: 14
0.70 0.23 0.07
Matches are distributed among these distances:
42 1 0.01
43 9 0.07
44 114 0.84
45 10 0.07
46 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (44 bp):
TGAAACGATGCAAATGCAAACATCAATAAAGAGGCAAATGTACA
Found at i:2686076 original size:175 final size:176
Alignment explanation
Indices: 2685801--2686171 Score: 485
Period size: 175 Copynumber: 2.1 Consensus size: 176
2685791 CAAATGCATG
* * * * * *
2685801 TGAAACGATGTAAATGCAAGCATCAATAAAGTGGGAAATTCATATGAAATAATGCAAATACCAAT
1 TGAAATGATGTAAATGCAAGCATCAATAAAGAGGAAAATGCACATGAAACAATGCAAATACCAAT
* * *
2685866 ATCATCTAATGTGCAAATGTACATGAAACAATGCAAATGCAAACATCAATA-AAGAGGCAAATGC
66 ATCATCCAAAGTGCAAATGTACATGAAACAATGCAAACGCAAACATCAATAGAA-AGGCAAATGC
*
2685930 ACATGATACGATGCAAATGCCAATGTCATCTAAAGTACAGATATGCA
130 ACATGATACGATGCAAATGCCAATGTCATCTAAAGTACAAATATGCA
* * * * * *
2685977 TGAAATGATGCAAATGCAAGCATCAATAAAGAGGAAAATGCACATGATACGATG-TAATGCCATT
1 TGAAATGATGTAAATGCAAGCATCAATAAAGAGGAAAATGCACATGAAACAATGCAAATACCAAT
* * * * *
2686041 ATCATCCAAAGTGCAGATGTGCATGAAATAATGCAAACGCAAGCATCAATAGTAAGGCAAATGCA
66 ATCATCCAAAGTGCAAATGTACATGAAACAATGCAAACGCAAACATCAATAGAAAGGCAAATGCA
* * * *
2686106 CATGATATGATGCAAATGCCAATGTCATCTTAAGTACAAATGTGCG
131 CATGATACGATGCAAATGCCAATGTCATCTAAAGTACAAATATGCA
*
2686152 TGAAATGATGTAAATACAAG
1 TGAAATGATGTAAATGCAAG
2686172 TGTAGATACC
Statistics
Matches: 167, Mismatches: 27, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
175 121 0.72
176 46 0.28
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (176 bp):
TGAAATGATGTAAATGCAAGCATCAATAAAGAGGAAAATGCACATGAAACAATGCAAATACCAAT
ATCATCCAAAGTGCAAATGTACATGAAACAATGCAAACGCAAACATCAATAGAAAGGCAAATGCA
CATGATACGATGCAAATGCCAATGTCATCTAAAGTACAAATATGCA
Found at i:2686146 original size:44 final size:44
Alignment explanation
Indices: 2685852--2686147 Score: 141
Period size: 44 Copynumber: 6.8 Consensus size: 44
2685842 ATATGAAATA
* * * * * * **
2685852 ATGCAAATACCAATATCATCTAATGTGCAAATGTACATGAAACA
1 ATGCAAATGCCAATGTCATCTAAAGTACAAATGCACATGATATG
* ** * *
2685896 ATGCAAATGCAAACATCA-ATAAAG-AGGCAAATGCACATGATACG
1 ATGCAAATGCCAATGTCATCTAAAGTA--CAAATGCACATGATATG
*
2685940 ATGCAAATGCCAATGTCATCTAAAGTACAGATATG--CATGAAATG
1 ATGCAAATGCCAATGTCATCTAAAGTACA-A-ATGCACATGATATG
* *
2685984 ATGCAAATG-CAA-G-CATCAATAAAG-AGGAAAATGCACATGATACG
1 ATGCAAATGCCAATGTCATC--TAAAGTA--CAAATGCACATGATATG
* * * * * * ** * *
2686028 ATG-TAATGCCATTATCATCCAAAGTGCAGATGTGCATGAAATA
1 ATGCAAATGCCAATGTCATCTAAAGTACAAATGCACATGATATG
*
2686071 ATGCAAACG-CAA-G-CATC-AATAGTAAGGCAAATGCACATGATATG
1 ATGCAAATGCCAATGTCATCTAA-AGT-A--CAAATGCACATGATATG
*
2686115 ATGCAAATGCCAATGTCATCTTAAGTACAAATG
1 ATGCAAATGCCAATGTCATCTAAAGTACAAATG
2686148 TGCGTGAAAT
Statistics
Matches: 185, Mismatches: 42, Indels: 50
0.67 0.15 0.18
Matches are distributed among these distances:
40 2 0.01
41 11 0.06
42 5 0.03
43 32 0.17
44 108 0.58
45 9 0.05
46 10 0.05
47 7 0.04
48 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (44 bp):
ATGCAAATGCCAATGTCATCTAAAGTACAAATGCACATGATATG
Found at i:2687538 original size:18 final size:17
Alignment explanation
Indices: 2687506--2687551 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
2687496 TAAGAACATT
*
2687506 AAATGAGAAAGCATGGAA
1 AAATGA-AAAACATGGAA
2687524 AAATGGAAAAACATGGAA
1 AAAT-GAAAAACATGGAA
2687542 AAATGAAAAA
1 AAATGAAAAA
2687552 TAAGCAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 18 0.69
19 2 0.08
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (17 bp):
AAATGAAAAACATGGAA
Found at i:2689506 original size:20 final size:21
Alignment explanation
Indices: 2689468--2689506 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2689458 CAAATCTTAG
* *
2689468 TTTTCTCTTTCCTTTTATTCT
1 TTTTATCTTTCCTTGTATTCT
2689489 TTTTATCTTT-CTTGTATT
1 TTTTATCTTTCCTTGTATT
2689507 ATTTATGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATCTTTCCTTGTATTCT
Found at i:2690080 original size:16 final size:17
Alignment explanation
Indices: 2690059--2690098 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
2690049 ACGGCTTTTA
2690059 TTATTTATTA-TTTACT
1 TTATTTATTATTTTACT
*
2690075 TTATTTATTATTTTATT
1 TTATTTATTATTTTACT
2690092 TTATTTA
1 TTATTTA
2690099 GTTTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTATTATTTTACT
Done.