Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 120 of 373
Found at i:39179606 original size:27 final size:27
Alignment explanation
Indices: 39179405--39179608 Score: 218
Period size: 26 Copynumber: 7.7 Consensus size: 27
39179395 CATCATAAGA
* *
39179405 AAGCTTTTGTGGCT-ATCTCTGAAAGG
1 AAGCCTTTGTGGCTAATCTCTAAAAGG
*
39179431 AAGCCTTTATGGCTAATCTCTAAAAGG
1 AAGCCTTTGTGGCTAATCTCTAAAAGG
** * * *
39179458 ACTCTTTTGTGGCT-AGCTCTGAAAGG
1 AAGCCTTTGTGGCTAATCTCTAAAAGG
39179484 AAGCCTTTGTGGCTAATCTCTAAAAGG
1 AAGCCTTTGTGGCTAATCTCTAAAAGG
* * * *
39179511 ACGCCTTTGTGGCT-ATCTTTGAAAGA
1 AAGCCTTTGTGGCTAATCTCTAAAAGG
* * *
39179537 AAGCCTTTATAGCT-ATCTTTAAAAGG
1 AAGCCTTTGTGGCTAATCTCTAAAAGG
*
39179563 AAGCCTTTGTGGCTAATATCTAAAAGG
1 AAGCCTTTGTGGCTAATCTCTAAAAGG
* *
39179590 AAGCCTTTATGGTTAATCT
1 AAGCCTTTGTGGCTAATCT
39179609 ATGTTAAAGA
Statistics
Matches: 145, Mismatches: 30, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
26 75 0.52
27 70 0.48
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (27 bp):
AAGCCTTTGTGGCTAATCTCTAAAAGG
Found at i:39186289 original size:45 final size:45
Alignment explanation
Indices: 39186221--39186310 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
39186211 AAAATAGACC
*
39186221 CTTGGATTTTAGCTTGGCTAGCCATGAGACAAAGAACTTAAATGG
1 CTTGGATTTTAGCTTGGCCAGCCATGAGACAAAGAACTTAAATGG
39186266 CTTGGATTTTAGCTTGGCCAGCCATGAGACAAAGAACTTAAATGG
1 CTTGGATTTTAGCTTGGCCAGCCATGAGACAAAGAACTTAAATGG
39186311 TCAAAGTGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (45 bp):
CTTGGATTTTAGCTTGGCCAGCCATGAGACAAAGAACTTAAATGG
Found at i:39187420 original size:50 final size:50
Alignment explanation
Indices: 39187206--39187478 Score: 220
Period size: 46 Copynumber: 5.7 Consensus size: 50
39187196 GGTTATTTGT
* * *
39187206 GTGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGAT-GTAA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATCG-AA
* * * *
39187254 --GCTAGTGTAAGA-CATGTTTGGAACAT-GCATCGGC-TACGAGAT-GTA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGATATCGAA
* * *
39187299 -T-C-AGTGTAAGACCATGTCTAGGACATGGCATCGGCA-CG-TATAGAG
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATCGAA
* *
39187344 GTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATCTAA
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATCGAA
* * * * * *
39187394 GTGCTAGTGTAAGACTATGTCCGGGACATGGCGTCGACCTCGATTTCGATA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATCGA-A
*
39187445 GT-C-AGTGCAAGACCATGTCTGGGACATGGCATCG
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
39187479 ACATTACACC
Statistics
Matches: 186, Mismatches: 25, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.06
45 17 0.09
46 49 0.26
48 33 0.18
49 28 0.15
50 44 0.24
51 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (50 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATCGAA
Found at i:39190297 original size:17 final size:17
Alignment explanation
Indices: 39190272--39190323 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
39190262 ATTTCTAAAT
39190272 GTTTGATTTGTTAGCAA
1 GTTTGATTTGTTAGCAA
* *
39190289 GTTTCATTT-CTA--AA
1 GTTTGATTTGTTAGCAA
39190303 TGTTTGATTTGTTAGCAA
1 -GTTTGATTTGTTAGCAA
39190321 GTT
1 GTT
39190324 AAAGTTGAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
14 2 0.07
15 8 0.30
16 4 0.15
17 11 0.41
18 2 0.07
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (17 bp):
GTTTGATTTGTTAGCAA
Found at i:39190300 original size:32 final size:32
Alignment explanation
Indices: 39190259--39190323 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
39190249 CATTTCAGAG
39190259 TTCATTTCTAAATGTTTGATTTGTTAGCAAGT
1 TTCATTTCTAAATGTTTGATTTGTTAGCAAGT
39190291 TTCATTTCTAAATGTTTGATTTGTTAGCAAGT
1 TTCATTTCTAAATGTTTGATTTGTTAGCAAGT
39190323 T
1 T
39190324 AAAGTTGAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.09, G:0.15, T:0.51
Consensus pattern (32 bp):
TTCATTTCTAAATGTTTGATTTGTTAGCAAGT
Found at i:39190312 original size:15 final size:15
Alignment explanation
Indices: 39190262--39190312 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
39190252 TTCAGAGTTC
39190262 ATTTCTAAATGTTTG
1 ATTTCTAAATGTTTG
* *
39190277 ATTTGTTAGCAA-GTTTC
1 ATTT-CTA--AATGTTTG
39190294 ATTTCTAAATGTTTG
1 ATTTCTAAATGTTTG
39190309 ATTT
1 ATTT
39190313 GTTAGCAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
14 2 0.07
15 12 0.43
16 4 0.14
17 8 0.29
18 2 0.07
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (15 bp):
ATTTCTAAATGTTTG
Found at i:39194098 original size:40 final size:40
Alignment explanation
Indices: 39194003--39194260 Score: 373
Period size: 40 Copynumber: 6.5 Consensus size: 40
39193993 TGGATGATAA
*
39194003 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
39194044 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39194084 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39194124 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39194164 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39194204 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
39194243 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39194261 TACTTGGCTT
Statistics
Matches: 202, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
38 15 0.07
39 15 0.07
40 144 0.71
41 24 0.12
42 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39196051 original size:43 final size:43
Alignment explanation
Indices: 39195993--39196106 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 43
39195983 ACATTAGGTT
* * * *
39195993 ATCGAGATGTGATTACATGCAAGACCATGCCTGGGACATTGGC
1 ATCGATATGAGATTACATGTAAGACCATGCCTGGGACAGTGGC
* * * *
39196036 ATTGCAT-TGAGATTACGTGTAAGACCCTGTCTGGGACAGTGGC
1 ATCG-ATATGAGATTACATGTAAGACCATGCCTGGGACAGTGGC
* *
39196079 ATCGATATGTGATAACATGTAAGACCAT
1 ATCGATATGAGATTACATGTAAGACCAT
39196107 ATAAGTAACA
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 2 0.04
43 53 0.95
44 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
ATCGATATGAGATTACATGTAAGACCATGCCTGGGACAGTGGC
Found at i:39204889 original size:13 final size:13
Alignment explanation
Indices: 39204866--39204928 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
39204856 CACTTAAATT
39204866 TTTTC-AAAGCAC
1 TTTTCAAAAGCAC
*
39204878 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
***
39204891 TTTTCCGCAGCAC
1 TTTTCAAAAGCAC
39204904 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
39204917 TTTTCAAAAGCA
1 TTTTCAAAAGCA
39204929 ATGAAGAACT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
12 4 0.10
13 38 0.90
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:39208020 original size:46 final size:48
Alignment explanation
Indices: 39207969--39208099 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 48
39207959 ATGGTTGAGC
39207969 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * * *
39208016 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
39208061 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39208100 GCGGGTTACA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
45 3 0.04
46 29 0.42
47 29 0.42
48 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:39208501 original size:68 final size:68
Alignment explanation
Indices: 39208392--39208527 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
39208382 TTAGTTTGAT
39208392 TGTTTGTTATGTTATTTATTATTTACATATGAACTTACTAAGCATTTATGCTTACTCCCTCCTTC
1 TGTTTGTTATGTTATTTATTATTTACATATGAACTTACTAAGCATTTATGCTTACTCCCTCCTTC
39208457 TTA
66 TTA
39208460 TGTTTGTTATGTTATTTATTATTTACATATGAACTTACTAAGCATTTATGCTTACTCCCTCCTTC
1 TGTTTGTTATGTTATTTATTATTTACATATGAACTTACTAAGCATTTATGCTTACTCCCTCCTTC
39208525 TTA
66 TTA
39208528 CTCATTGTAG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.50
Consensus pattern (68 bp):
TGTTTGTTATGTTATTTATTATTTACATATGAACTTACTAAGCATTTATGCTTACTCCCTCCTTC
TTA
Found at i:39210225 original size:27 final size:26
Alignment explanation
Indices: 39210195--39210278 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
39210185 ACTTACCTTC
*
39210195 GATGTGATTTGGTGAACTATGTTCACA
1 GATGTG-TTTGGTGAACTATGTTCGCA
* *
39210222 GATGTGTATTGGCGAACTATGTTTGCA
1 GATGTGT-TTGGTGAACTATGTTCGCA
* *
39210249 GATGTGTTTTCGTAAACTATGTTCGCA
1 GATGTG-TTTGGTGAACTATGTTCGCA
39210276 GAT
1 GAT
39210279 AAGTTTTGGC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (26 bp):
GATGTGTTTGGTGAACTATGTTCGCA
Found at i:39210299 original size:54 final size:54
Alignment explanation
Indices: 39210195--39210300 Score: 122
Period size: 54 Copynumber: 2.0 Consensus size: 54
39210185 ACTTACCTTC
* * ** * *
39210195 GATGTGATTTGGTGAACTATGTTCACAGATGTGTATTGGCGAACTATGTTTGCA
1 GATGTGATTTCGTAAACTATGTTCACAGATAAGTATTGGCAAAATATGTTTGCA
* * * *
39210249 GATGTGTTTTCGTAAACTATGTTCGCAGATAAGTTTTGGCAAAATGTGTTTG
1 GATGTGATTTCGTAAACTATGTTCACAGATAAGTATTGGCAAAATATGTTTG
39210301 TAATTGTGTT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.39
Consensus pattern (54 bp):
GATGTGATTTCGTAAACTATGTTCACAGATAAGTATTGGCAAAATATGTTTGCA
Found at i:39216545 original size:26 final size:26
Alignment explanation
Indices: 39216506--39216566 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
39216496 CCTGACTTAC
* *
39216506 AGCTGGTGTGAGTAGGTCCATTTCAT
1 AGCTCGTGTAAGTAGGTCCATTTCAT
39216532 AGCTCGTGTAAGTAGGTCCATTTCAT
1 AGCTCGTGTAAGTAGGTCCATTTCAT
*
39216558 AGCTTGTGT
1 AGCTCGTGT
39216567 GAGCATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (26 bp):
AGCTCGTGTAAGTAGGTCCATTTCAT
Found at i:39223045 original size:24 final size:28
Alignment explanation
Indices: 39223018--39223075 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 28
39223008 CTCCCTTTCC
*
39223018 TCTTCTC-CTTTCTCA-T-TCTTGCTT-
1 TCTTCTCTCTTTATCACTCTCTTGCTTA
39223042 TCTTC-CTCTTTATCACTCTCTTGCTTA
1 TCTTCTCTCTTTATCACTCTCTTGCTTA
39223069 TCTTCTC
1 TCTTCTC
39223076 ACGTTCTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 1 0.04
24 12 0.43
25 1 0.04
26 8 0.29
27 5 0.18
28 1 0.04
ACGTcount: A:0.07, C:0.34, G:0.03, T:0.55
Consensus pattern (28 bp):
TCTTCTCTCTTTATCACTCTCTTGCTTA
Found at i:39228551 original size:40 final size:40
Alignment explanation
Indices: 39228467--39228670 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
39228457 TCGAATGATG
* * * *
39228467 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* * *
39228507 TCCGGACTAAGAT-CCGAAGGCATTTTTGCGAGTTACTATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
39228547 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
39228586 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
39228626 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
39228666 TCCGG
1 TCCGG
39228671 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 35 0.25
40 96 0.70
41 7 0.05
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:39228673 original size:79 final size:79
Alignment explanation
Indices: 39228520--39228684 Score: 208
Period size: 79 Copynumber: 2.1 Consensus size: 79
39228510 GGACTAAGAT
* ** **
39228520 CCGAAGGCATTTTTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
39228585 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
39228599 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CT
* *
39228663 ATATCC-GGTTAAATT
64 AAATCCGGGTTAAATC
39228678 CCGAAGG
1 CCGAAGG
39228685 TACGTGATTC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 50 0.68
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:39230358 original size:20 final size:19
Alignment explanation
Indices: 39230335--39230380 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
39230325 TTGGGCCGTT
39230335 ATGGGCTACAT-TGGGCCAAA
1 ATGGGCT-CATGTGGGCC-AA
*
39230355 ATGGG-TCATGTGGGCCCA
1 ATGGGCTCATGTGGGCCAA
39230373 ATGGGCTC
1 ATGGGCTC
39230381 GTGGGCCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 9 0.39
19 9 0.39
20 5 0.22
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.22
Consensus pattern (19 bp):
ATGGGCTCATGTGGGCCAA
Found at i:39230642 original size:27 final size:27
Alignment explanation
Indices: 39230598--39230921 Score: 434
Period size: 27 Copynumber: 12.0 Consensus size: 27
39230588 GGTCGTTATT
*
39230598 TGACCGTAATACCCCTATAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * * *
39230625 TGATCGTAATTCCTCTATAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * *
39230652 TGGCAGTAATTCCCCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
39230679 TGACCGTAATACCCCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
39230706 TGACCGTAATACCCCTGTAGGG-AAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* *
39230732 TAACCGTAATACCCCTGTAAGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
** * *
39230759 TGACTATAATACCCCTATAAGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
*
39230786 TGACCGTAATGCCCCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * *
39230813 TGACCATAATTCCCCTATAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* **
39230840 TGATCGTAATACCCCTAAAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
*
39230867 TGACCGTAATGCCCCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
*
39230894 TGACCGTAATACCCCTGTATGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
39230921 T
1 T
39230922 AATGATTATG
Statistics
Matches: 261, Mismatches: 35, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
26 24 0.09
27 237 0.91
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (27 bp):
TGACCGTAATACCCCTGTAGGGTAAAA
Found at i:39236815 original size:39 final size:39
Alignment explanation
Indices: 39236661--39236830 Score: 205
Period size: 39 Copynumber: 4.3 Consensus size: 39
39236651 CTATGGGTCT
* * * * *
39236661 TTAAGCCCGGATATAGTTCCAGCATATAGCCTGCGGGTCT
1 TTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGG-CC
* * * *
39236701 TTAAGCCCAGATACAATTCCAGCACGAAGCTTGCGGACC
1 TTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGCC
* *
39236740 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGCC
1 TTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGCC
* *
39236779 TTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGAC
1 TTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGCC
*
39236818 TTTAGCCCGGATA
1 TTAAGCCCGGATA
39236831 TAACACCAGA
Statistics
Matches: 113, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 84 0.74
40 29 0.26
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (39 bp):
TTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGCC
Found at i:39236828 original size:78 final size:77
Alignment explanation
Indices: 39236659--39236910 Score: 233
Period size: 78 Copynumber: 3.2 Consensus size: 77
39236649 GCCTATGGGT
* * * *
39236659 CTTTAAGCCCGGATATAGTTCCAGCATATAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGC
1 CTTT-AGCCCGGATATAATTCCAGCAGA-AGCCTGCGGG-CCTTAAGCCCGGATACAATTCCAGC
* *
39236724 ACGAAGCTTGC-GGA
63 ACAAAGCCTGCGGGA
* * * *
39236738 CCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGCCTTAAGTCCGGATACAATTCCAGCA
1 -CTTTAGCCCGGATATAATTCCAGCA-GAAGCCTGCGGGCCTTAAGCCCGGATACAATTCCAGCA
39236803 CAAAGCCTGCGGGA
64 CAAAGCCTGCGGGA
** ** * * **
39236817 CTTTAGCCCGGATATAACACCAG-ATGAATGCCTTTGGGGCTTAA-CCCGGATATAACACCAGCA
1 CTTTAGCCCGGATATAATTCCAGCA-GAA-GCCTGCGGGCCTTAAGCCCGGATACAATTCCAGCA
*
39236880 CAAATGCCTTCGGGA
64 CAAA-GCCTGCGGGA
39236895 C-TTAGCCCGGATATAA
1 CTTTAGCCCGGATATAA
39236911 CACCATTATA
Statistics
Matches: 144, Mismatches: 24, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
77 38 0.26
78 71 0.49
79 31 0.22
80 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (77 bp):
CTTTAGCCCGGATATAATTCCAGCAGAAGCCTGCGGGCCTTAAGCCCGGATACAATTCCAGCACA
AAGCCTGCGGGA
Found at i:39236904 original size:39 final size:39
Alignment explanation
Indices: 39236797--39236915 Score: 161
Period size: 39 Copynumber: 3.1 Consensus size: 39
39236787 GGATACAATT
*
39236797 CCAGCACAAA-GCCTGCGGGACTTTAGCCCGGATATAACA
1 CCAGCACAAATGCCTTCGGGAC-TTAGCCCGGATATAACA
** * * *
39236836 CCAG-ATGAATGCCTTTGGGGCTTAACCCGGATATAACA
1 CCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACA
39236874 CCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACA
39236913 CCA
1 CCA
39236916 TTATAAAGTC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
38 23 0.34
39 44 0.66
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.18
Consensus pattern (39 bp):
CCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACA
Found at i:39237021 original size:28 final size:28
Alignment explanation
Indices: 39236989--39237060 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
39236979 TTTAATCATC
*
39236989 CAATATTTTGCACACTAAGTGTCATTCT
1 CAATATTTCGCACACTAAGTGTCATTCT
* *
39237017 CAATATCTCGCACATTAAGTGTCATTCT
1 CAATATTTCGCACACTAAGTGTCATTCT
*
39237045 CAATATTTCGTACACT
1 CAATATTTCGCACACT
39237061 GAGTACCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (28 bp):
CAATATTTCGCACACTAAGTGTCATTCT
Found at i:39238635 original size:27 final size:27
Alignment explanation
Indices: 39238597--39238949 Score: 449
Period size: 27 Copynumber: 13.1 Consensus size: 27
39238587 GTCGTTATTG
*
39238597 GACCGTAATACCCCTGTATGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
39238624 GACCGTAATACCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* *
39238651 GATCGTGATACCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* * *
39238678 GATCGTGATACCCCTATAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* **
39238705 GACCGTAATGCCCCTGTACTGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* *
39238732 AACCGTAATACCCCTGTAAGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
*
39238759 GGCCGTAATACCCCTAG-AGGG-AAAAT
1 GACCGTAATACCCCT-GTAGGGTAAAAT
* * * *
39238785 GACCATAATACCCTTATAAGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* * *
39238812 GACTGTAATACCCCTATAGGGTAAAAC
1 GACCGTAATACCCCTGTAGGGTAAAAT
* * *
39238839 GACCGTAATGCCCTTATAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
* *
39238866 AACCGTAATTCCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
*
39238893 GACCGTAATGCCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
*
39238920 GACCGTAATACCCCTGTAAGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAAT
39238947 GAC
1 GAC
39238950 GATTGTGCCC
Statistics
Matches: 284, Mismatches: 39, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 20 0.07
27 263 0.93
28 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (27 bp):
GACCGTAATACCCCTGTAGGGTAAAAT
Found at i:39238977 original size:161 final size:160
Alignment explanation
Indices: 39238597--39238934 Score: 446
Period size: 161 Copynumber: 2.1 Consensus size: 160
39238587 GTCGTTATTG
* * * * *
39238597 GACCGTAATACCCCT-GTATGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGA-TCGTGAT
1 GACCGTAATACCCCTAG-A-GGGAAAATGACCATAATACCCTTATA-GGTAAAATGACT-GTAAT
* * * * * *
39238660 ACCCCTGTAGGGTAAAATGATCGTGATACCCCTATAGGGTAAAATGACCGTAATGCCCCTGTACT
62 ACCCCTATAGGGTAAAACGACCGTAATACCCCTATAGGGTAAAATAACCGTAATGCCCCTGTACG
39238725 GTAAAATAACCGTAATACCCCTGTAAGGTAAAAT
127 GTAAAATAACCGTAATACCCCTGTAAGGTAAAAT
*
39238759 GGCCGTAATACCCCTAGAGGGAAAATGACCATAATACCCTTATAAGGTAAAATGACTGTAATACC
1 GACCGTAATACCCCTAGAGGGAAAATGACCATAATACCCTTAT-AGGTAAAATGACTGTAATACC
* * * *
39238824 CCTATAGGGTAAAACGACCGTAATGCCCTTATAGGGTAAAATAACCGTAATTCCCCTGTAGGGTA
65 CCTATAGGGTAAAACGACCGTAATACCCCTATAGGGTAAAATAACCGTAATGCCCCTGTACGGTA
* * *
39238889 AAATGACCGTAATGCCCCTGTAGGGTAAAAT
130 AAATAACCGTAATACCCCTGTAAGGTAAAAT
39238920 GACCGTAATACCCCT
1 GACCGTAATACCCCT
39238935 GTAAGGTAAA
Statistics
Matches: 153, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
161 135 0.88
162 17 0.11
163 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (160 bp):
GACCGTAATACCCCTAGAGGGAAAATGACCATAATACCCTTATAGGTAAAATGACTGTAATACCC
CTATAGGGTAAAACGACCGTAATACCCCTATAGGGTAAAATAACCGTAATGCCCCTGTACGGTAA
AATAACCGTAATACCCCTGTAAGGTAAAAT
Found at i:39240387 original size:46 final size:46
Alignment explanation
Indices: 39240287--39240415 Score: 136
Period size: 46 Copynumber: 2.8 Consensus size: 46
39240277 CCACATTGTG
* * *
39240287 GAGCCAGTGTAAGACCATGTCTAAGACATAGCATCGGAATTGAGACGA
1 GAGCTAGTATAAGA-CATGTCTAGGACATA-CATCGGAATTGAGACGA
* *
39240335 GTGCTAGTATAAGACATGTCTAGGACATACATCGG-TTTCGAGACGTA
1 GAGCTAGTATAAGACATGTCTAGGACATACATCGGAATT-GAGACG-A
* * *
39240382 -AGCTAGTGTTAGACATGTCTAGGACATGCATCGG
1 GAGCTAGTATAAGACATGTCTAGGACATACATCGG
39240416 CTACGAGATA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
45 2 0.03
46 42 0.60
47 15 0.21
48 11 0.16
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (46 bp):
GAGCTAGTATAAGACATGTCTAGGACATACATCGGAATTGAGACGA
Found at i:39244245 original size:64 final size:63
Alignment explanation
Indices: 39244164--39244347 Score: 165
Period size: 67 Copynumber: 2.8 Consensus size: 63
39244154 AGACATTATG
* *
39244164 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGCAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG-AGACAAGAGAGCTACGAGATAA
* * * * * *
39244228 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATG-AGACAAGAGAGCTACGAGAT
39244293 AA
62 AA
* * * * * *
39244295 ACTG--GCCAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGAG-ACAAGAGAGC
39244348 CAAACTATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 15 0.16
67 30 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGAGACAAGAGAGCTACGAGATAA
Found at i:39251599 original size:46 final size:45
Alignment explanation
Indices: 39251416--39251629 Score: 182
Period size: 46 Copynumber: 4.6 Consensus size: 45
39251406 GGGTTATTGT
* * * * *
39251416 GAGCTAGTGTAAAACATGTTTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAGA-GATGA
* * *
39251462 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TAGAGATGA
* * *
39251510 GTGCTAGTGTAAGACATGTCTGGGACATGAATTGGCCTAGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTAGAGATG-A
* * *
39251557 -AGCTAGTGTAAGATATGTTTGGGACATGCATCTGCTATGAGAT--
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTA-GAGATGA
* * *
39251600 GTGTTAGTGTAAGACCATGTCTAGGACATG
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG
39251630 GCAGCATCTG
Statistics
Matches: 135, Mismatches: 25, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 56 0.41
47 29 0.21
48 23 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAGAGATGA
Found at i:39253169 original size:21 final size:21
Alignment explanation
Indices: 39253145--39253189 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
39253135 TTTAGATTTT
*
39253145 AAACAAGGT-ATTTTAAGGTTA
1 AAACAAGGTAAATTTAA-GTTA
*
39253166 AAACAGGGTAAATTTAAGTTA
1 AAACAAGGTAAATTTAAGTTA
39253187 AAA
1 AAA
39253190 GCTAGCAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (21 bp):
AAACAAGGTAAATTTAAGTTA
Found at i:39257940 original size:48 final size:48
Alignment explanation
Indices: 39257664--39257952 Score: 250
Period size: 48 Copynumber: 6.0 Consensus size: 48
39257654 GGGTGCCAAA
* * * * *
39257664 ACATGGGACCACTTATCGATGTCAATGCCATGTCCCAGACATAGTCTT
1 ACATGGGATCACATATCGATGCCAATGCCATGTCCTAGACATGGTCTT
* * * *
39257712 ACGTGGGACCACTTATCGATGCCAATGCCATGTCCCAGACATGGTCTT
1 ACATGGGATCACATATCGATGCCAATGCCATGTCCTAGACATGGTCTT
39257760 ACATGGGATCACACATATCGATGCCAATGCCATGTCCCT-GACATGGTCTT
1 ACATGGGAT--CACATATCGATGCCAATGCCATGT-CCTAGACATGGTCTT
* * * *
39257810 ACATAGGATCATACATATCGAAGCCGAT---A-G-CATAG-CTATGGTCTT
1 ACATGGGATC--ACATATCGATGCCAATGCCATGTCCTAGAC-ATGGTCTT
** * * * *
39257855 ACCCGATGTTCTCATATTGATGCCAATGCCATGTCCTAGACATGGTCTT
1 ACATG-GGATCACATATCGATGCCAATGCCATGTCCTAGACATGGTCTT
* * * * *
39257904 ACATGGGATCACATAACGATACCGATGCCATATCCTAGATATGGTCTT
1 ACATGGGATCACATATCGATGCCAATGCCATGTCCTAGACATGGTCTT
39257952 A
1 A
39257953 TACAGGATCT
Statistics
Matches: 195, Mismatches: 32, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
44 15 0.08
45 11 0.06
46 4 0.02
47 2 0.01
48 89 0.46
49 15 0.08
50 57 0.29
51 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (48 bp):
ACATGGGATCACATATCGATGCCAATGCCATGTCCTAGACATGGTCTT
Found at i:39258158 original size:89 final size:89
Alignment explanation
Indices: 39258005--39258193 Score: 326
Period size: 89 Copynumber: 2.1 Consensus size: 89
39257995 TAAGTATTCC
* *
39258005 TAAG-GTTCAATCAGCTTCCATCACCTCAAATCTTTGTCGGACAACATCAATAATATGCACAAAA
1 TAAGTGTTAAATCAGCTTCCATCACCTCAAATCTTTGTCGGACAACATCAATAATATGCAAAAAA
*
39258069 GCAATTATACAGCTCATGCAACAT
66 GCAATTATACAACTCATGCAACAT
*
39258093 TAAGTGTTAAATCAGCTTCCATCACCTCCAATCTTTGTCGGACAACATCAATAATATGCAAAAAA
1 TAAGTGTTAAATCAGCTTCCATCACCTCAAATCTTTGTCGGACAACATCAATAATATGCAAAAAA
*
39258158 GCAATTATACAATTCATGCAACAT
66 GCAATTATACAACTCATGCAACAT
39258182 TAAGTGTTAAAT
1 TAAGTGTTAAAT
39258194 GTATAATAAA
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
88 4 0.04
89 91 0.96
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (89 bp):
TAAGTGTTAAATCAGCTTCCATCACCTCAAATCTTTGTCGGACAACATCAATAATATGCAAAAAA
GCAATTATACAACTCATGCAACAT
Found at i:39268107 original size:48 final size:48
Alignment explanation
Indices: 39268036--39268357 Score: 237
Period size: 48 Copynumber: 6.7 Consensus size: 48
39268026 AGTAGGGTGT
* * *
39268036 CAATGCCATATCCC-GTATATGGTCTTACATGGGACCACTTATCGATAC
1 CAATGCCATGTCCCAG-ACATGGTCTTACATGGGACCACTTATCGATGC
*
39268084 CAATGCCATGTCCCAGACATGGTCTTACATGAGACCACTTATCGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCACTTATCGATGC
* * * * *
39268132 CAATGCCATGTTCTAAACATGGTCTTACATTGGATCACACATATCGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGA-C-CACTTATCGATGC
* * * *
39268182 CAATGCCATGTCCTAGACATGGTCTTACATGAGATCACACATATCGAAGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGA-C-CACTTATCGATGC
* * * * * * *
39268232 CGAT---A-G-CCCAG-CTATGGTCTTACACGATG-CTCTCATATCAATGA
1 CAATGCCATGTCCCAGAC-ATGGTCTTACATG-GGAC-CACTTATCGATGC
* ** * * *
39268276 CGATGCCATGTCCCAGACATGGTCTTACATGGGGTCACATAACGACGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCACTTATCGATGC
** * * *
39268324 TGATGCCATATCCCAGATATGGTCTTATATGGGA
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGA
39268358 TCTCCTCAAC
Statistics
Matches: 225, Mismatches: 37, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
44 15 0.07
45 16 0.07
46 2 0.01
47 2 0.01
48 110 0.49
49 19 0.08
50 61 0.27
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGGGACCACTTATCGATGC
Found at i:39272330 original size:28 final size:28
Alignment explanation
Indices: 39272290--39272357 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
39272280 AGTAAGTCCA
*
39272290 CACACTTAGTGCT-TAATAATCAAACTCG
1 CACACTTAGTGCTAT-ACAATCAAACTCG
*
39272318 CACACTTAGTGCTATACAATTAAACTCG
1 CACACTTAGTGCTATACAATCAAACTCG
39272346 CACACTTAGTGC
1 CACACTTAGTGC
39272358 CAATCTCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTATACAATCAAACTCG
Found at i:39273957 original size:20 final size:20
Alignment explanation
Indices: 39273932--39273970 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39273922 AGGGACTAAA
* *
39273932 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTATAAAATTTG
39273952 ATGAAAAATTATAAAATTT
1 ATGAAAAATTATAAAATTT
39273971 TATGGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:39274315 original size:17 final size:18
Alignment explanation
Indices: 39274293--39274327 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39274283 GGCATGTAAA
*
39274293 TGTGTTT-TATTGAATGT
1 TGTGTTTGTATGGAATGT
39274310 TGTGTTTGTATGGAATGT
1 TGTGTTTGTATGGAATGT
39274328 GATTTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (18 bp):
TGTGTTTGTATGGAATGT
Found at i:39283001 original size:47 final size:47
Alignment explanation
Indices: 39282947--39283153 Score: 324
Period size: 47 Copynumber: 4.4 Consensus size: 47
39282937 GATTTTATGA
** * * **
39282947 GATGAATGTGAATGTGTATATATGAGATAAGGCTTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
39282994 GATGAATGAGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
39283041 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
39283088 GATAAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
39283135 GATGAATGTGAACATGCAT
1 GATGAATGTGAACATGCAT
39283154 GTGCGATAAG
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 147 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:39283043 original size:22 final size:22
Alignment explanation
Indices: 39283016--39283092 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
39283006 CATGCATATG
39283016 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
39283038 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
39283063 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
39283085 TGTGATAA
1 TGTGATAA
39283093 ATGTGAACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 16 0.38
23 9 0.21
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:39284744 original size:40 final size:40
Alignment explanation
Indices: 39284691--39285049 Score: 556
Period size: 40 Copynumber: 9.0 Consensus size: 40
39284681 TTGAGAGTTA
*
39284691 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
39284731 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTTGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
39284771 TATGTCCGGGCTATGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
39284811 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
39284851 TATGTCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
39284891 TATGTCCGAGCTAAGTCCCGAAAAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
39284931 TATATCCGGGCTAAGTCTCGGAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
39284971 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
39285011 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
39285050 ATGTGTATTC
Statistics
Matches: 289, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 289 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:39285263 original size:25 final size:25
Alignment explanation
Indices: 39285213--39285263 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
39285203 TGTGTAACAA
* *
39285213 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
39285238 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
39285263 C
1 C
39285264 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:39288978 original size:47 final size:47
Alignment explanation
Indices: 39288924--39289161 Score: 341
Period size: 47 Copynumber: 5.1 Consensus size: 47
39288914 GATTTCGTGA
** * * **
39288924 GATGAATGTGAATGTGTATATATGAGATAAGGCTTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
39288971 GATGAATGAGAACATGCATATGTGGGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
39289018 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
39289065 GATAAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* ** *
39289112 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
39289159 GAT
1 GAT
39289162 AAACGTGGAA
Statistics
Matches: 174, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 174 1.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:39289067 original size:22 final size:22
Alignment explanation
Indices: 39288996--39289069 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
39288986 GCATATGTGG
39288996 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
39289018 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
39289043 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
39289065 GATAA
1 GATAA
39289070 ATGTGAACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 13 0.33
23 9 0.23
24 9 0.23
25 8 0.21
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:39289182 original size:141 final size:141
Alignment explanation
Indices: 39288949--39289207 Score: 360
Period size: 141 Copynumber: 1.8 Consensus size: 141
39288939 GTATATATGA
** *
39288949 GATAAGGCTTAATGGCCAATGTGATGAATGAGAACATGCATATGTGGGATAAGGCCGAATGGCCA
1 GATAAGGCCGAATGGCCAATGTGATGAATGAGAACATGCATATGTGGGATAAGGCAGAATGGCCA
* * *
39289014 ATGTGATGAATGTGAACATGCATATATGT-GATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
66 ATGTGATAAACGTGAACATGCATATATGTGGAGAA-GCCGAATGGCCAATGTGATAAATGTGAAC
39289078 ATGCATATGTGT
130 ATGCATATGTGT
* * * *
39289090 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTA
1 GATAAGGCCGAATGGCCAATGTGATGAATGAGAACATGCATATGTGGGATAAGGCAGAATGGCCA
* * * *
39289155 ATGTGATAAACGTGGAA-GTGTATATATGTGGCGAAGCCGAATGGCTAATGTGA
66 ATGTGATAAACGT-GAACATGCATATATGTGGAGAAGCCGAATGGCCAATGTGA
39289208 GATATGTATG
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
141 96 0.94
142 6 0.06
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (141 bp):
GATAAGGCCGAATGGCCAATGTGATGAATGAGAACATGCATATGTGGGATAAGGCAGAATGGCCA
ATGTGATAAACGTGAACATGCATATATGTGGAGAAGCCGAATGGCCAATGTGATAAATGTGAACA
TGCATATGTGT
Found at i:39289194 original size:94 final size:94
Alignment explanation
Indices: 39288924--39289207 Score: 329
Period size: 94 Copynumber: 3.0 Consensus size: 94
39288914 GATTTCGTGA
** * * ** * * *
39288924 GATGAATGTGAATGTGTATATATGAGATAAGGCTTAATGGCCAATGTGATGAATGAGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
* * *
39288989 TATGTGGGATAAGGCCGAATGGCCAATGT
66 TATATGTGAGAAGGCCGAATGGCCAATGT
* *
39289018 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
* *
39289083 TATGTGTGATAAGGCCGAATGGCCAATGT
66 TATATGTGAGAAGGCCGAATGGCCAATGT
* * * * *
39289112 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGTGATAAACGTGGAA-GTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGT-GAACATGC
* *
39289176 ATATATGTGGCGAA-GCCGAATGGCTAATGT
65 ATATATGT-GAGAAGGCCGAATGGCCAATGT
39289206 GA
1 GA
39289208 GATATGTATG
Statistics
Matches: 168, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
94 162 0.96
95 6 0.04
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (94 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
TATATGTGAGAAGGCCGAATGGCCAATGT
Found at i:39291008 original size:48 final size:48
Alignment explanation
Indices: 39290875--39291009 Score: 177
Period size: 47 Copynumber: 2.9 Consensus size: 48
39290865 GTAGGTAAGG
* *
39290875 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACTTCTCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CGTCTCAA
* * * *
39290923 GGACAATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCTCAA
*
39290969 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
39291010 ATAAGGTGGC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 24 0.33
47 28 0.38
48 21 0.29
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCTCAA
Found at i:39291029 original size:47 final size:46
Alignment explanation
Indices: 39290870--39291053 Score: 148
Period size: 47 Copynumber: 3.9 Consensus size: 46
39290860 CAAACGTAGG
* *
39290870 TAAGGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACTTC-
1 TAAGGTGCCGATGCCATGTCCCAAACAT-GTCTTACACTAGC-T-C-TCA
* * * * *
39290919 T-CGAG-GACAATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTC
1 TAAG-GTGCCGATGCCATGTCCCAAACATGTCTTACACTAGCTCTC--A
*
39290965 TCAA--TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCA
1 T-AAGGTGCCGATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTCA
*
39291011 TAAGGTGGCCGATG-CATGTCCCAAACATGTCTTATACTAGCTC
1 TAAGGT-GCCGATGCCATGTCCCAAACATGTCTTACACTAGCTC
39291054 ACACACAAAT
Statistics
Matches: 111, Mismatches: 12, Indels: 27
0.74 0.08 0.18
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 3 0.03
46 32 0.29
47 42 0.38
48 29 0.26
49 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
TAAGGTGCCGATGCCATGTCCCAAACATGTCTTACACTAGCTCTCA
Found at i:39291039 original size:94 final size:94
Alignment explanation
Indices: 39290875--39291053 Score: 252
Period size: 94 Copynumber: 1.9 Consensus size: 94
39290865 GTAGGTAAGG
* * **
39290875 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACTTCTCGAGGACAATGCATGTCCCA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAACGAGGACAATGCATGTCCCA
*
39290940 GACATGTCTTACACTAGCTCTCGTCTCAA
66 AACATGTCTTACACTAGCTCTCGTCTCAA
* * * *
39290969 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAGGTGGCCGATGCATGTCCC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-TACATAACGAGGACAATGCATGTCCC
*
39291033 AAACATGTCTTATACTAGCTC
65 AAACATGTCTTACACTAGCTC
39291054 ACACACAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 73 0.99
95 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAACGAGGACAATGCATGTCCCA
AACATGTCTTACACTAGCTCTCGTCTCAA
Found at i:39295229 original size:25 final size:25
Alignment explanation
Indices: 39295193--39295250 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
39295183 TTCGGGACTT
*
39295193 ATCACATATATACACTTTCACATTC
1 ATCACATCTATACACTTTCACATTC
39295218 ATCACATCTATACACTTTCACATTC
1 ATCACATCTATACACTTTCACATTC
39295243 ATCACATC
1 ATCACATC
39295251 GGCCATTAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (25 bp):
ATCACATCTATACACTTTCACATTC
Found at i:39295281 original size:49 final size:49
Alignment explanation
Indices: 39295226--39295723 Score: 877
Period size: 49 Copynumber: 10.3 Consensus size: 49
39295216 TCATCACATC
39295226 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
39295275 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* *
39295324 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
39295371 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
39295420 TTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 -TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
39295470 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
39295519 TATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
39295566 TATACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
39295615 TATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
39295662 TATACACTTTCACATTCATCACACCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
39295711 TATACA--TTCACAT
1 TATACACTTTCACAT
39295724 CACAATTATC
Statistics
Matches: 431, Mismatches: 11, Indels: 16
0.94 0.02 0.03
Matches are distributed among these distances:
47 142 0.33
49 240 0.56
50 49 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:39295397 original size:96 final size:96
Alignment explanation
Indices: 39295226--39295723 Score: 892
Period size: 96 Copynumber: 5.2 Consensus size: 96
39295216 TCATCACATC
*
39295226 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATT
39295291 CATCACATCGGCCATTAGGCCTTATCACATATA
64 CATCACATCGGCCATTAGGCCTTATCACATATA
*
39295324 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
39295389 TCACATCGGCCATTAGGCCTTATCACATATA
66 TCACATCGGCCATTAGGCCTTATCACATATA
*
39295420 TTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
1 -TATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATATATACACTTTCACAT
39295485 TCATCACATCGGCCATTAGGCCTTATCACATATA
63 TCATCACATCGGCCATTAGGCCTTATCACATATA
*
39295519 TATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCGCATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
39295584 TCACATCGGCCATTAGGCCTTATCACATATA
66 TCACATCGGCCATTAGGCCTTATCACATATA
39295615 TATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
*
39295680 TCACACCGGCCATTAGGCCTTATCACATATA
66 TCACATCGGCCATTAGGCCTTATCACATATA
39295711 TATACA--TTCACAT
1 TATACACTTTCACAT
39295724 CACAATTATC
Statistics
Matches: 389, Mismatches: 8, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
94 7 0.02
96 203 0.52
97 42 0.11
98 85 0.22
99 52 0.13
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
TATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATA
Found at i:39295525 original size:195 final size:194
Alignment explanation
Indices: 39295226--39295723 Score: 923
Period size: 195 Copynumber: 2.6 Consensus size: 194
39295216 TCATCACATC
39295226 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
*
39295291 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATT
66 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
39295356 CGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
131 CGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
39295420 TTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
1 -TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
39295485 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCAT
65 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCAT
*
39295550 TCGGCCTTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATA
130 TCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
39295615 TATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
*
39295678 CATCACACCGGCCATTAGGCCTTATCACATATATATACA--TTCACAT
66 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
39295724 CACAATTATC
Statistics
Matches: 299, Mismatches: 4, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
190 7 0.02
192 57 0.19
194 43 0.14
195 192 0.64
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (194 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
CGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:39299079 original size:40 final size:40
Alignment explanation
Indices: 39299022--39299422 Score: 590
Period size: 40 Copynumber: 10.1 Consensus size: 40
39299012 CGAATACACG
* * * *
39299022 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * * *
39299062 ACACCAGCACGAATGCTCTTCGAGG-TTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCG-GGACTTAGCCCGGATACA
* * *
39299102 TTACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
39299142 TCACTAGCATGAATGCTCTTCGGGACTTAGTCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
39299182 TCACTAGCATGAATGCTCTTCGGGACTTAGTCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
39299222 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
39299262 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
39299302 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
39299342 TCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
39299382 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
39299421 TC
1 TC
39299423 GTCGAGACCT
Statistics
Matches: 329, Mismatches: 30, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
39 5 0.02
40 322 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:39315842 original size:53 final size:53
Alignment explanation
Indices: 39315747--39315856 Score: 177
Period size: 53 Copynumber: 2.1 Consensus size: 53
39315737 GGTCGTTAAG
* * *
39315747 ACCCCGGTTTGTAAAATTATCGAAATATCCTCAGATTGTAAAATTACTGAAAT
1 ACCCCGGTTTGTAAAATTACCAAAATATCCTCAGATTATAAAATTACTGAAAT
39315800 ACCCCTGGTTTGTAAAATTACCAAAATA-CCTCAGATTATAAAATTACTGAAAT
1 ACCCC-GGTTTGTAAAATTACCAAAATATCCTCAGATTATAAAATTACTGAAAT
39315853 ACCC
1 ACCC
39315857 TGTAACGTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
53 33 0.62
54 20 0.38
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (53 bp):
ACCCCGGTTTGTAAAATTACCAAAATATCCTCAGATTATAAAATTACTGAAAT
Found at i:39315852 original size:26 final size:26
Alignment explanation
Indices: 39315755--39315855 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
39315745 AGACCCCGGT
39315755 TTGTAAAATTA-TCGAAATATCCTCAGA
1 TTGTAAAATTACT-GAAATA-CCTCAGA
* * *
39315782 TTGTAAAATTACTGAAATACCCCTGGT
1 TTGTAAAATTACTGAAATACCTC-AGA
**
39315809 TTGTAAAATTACCAAAATACCTCAGA
1 TTGTAAAATTACTGAAATACCTCAGA
*
39315835 TTATAAAATTACTGAAATACC
1 TTGTAAAATTACTGAAATACC
39315856 CTGTAACGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
26 22 0.36
27 38 0.62
28 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.32
Consensus pattern (26 bp):
TTGTAAAATTACTGAAATACCTCAGA
Found at i:39317230 original size:46 final size:46
Alignment explanation
Indices: 39317163--39317337 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
39317153 TGTAACCCGC
*
39317163 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
39317209 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GG-G-C-A-TTCGCAT
* * *
39317259 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
39317302 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
39317338 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.55
47 28 0.26
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:39324800 original size:46 final size:46
Alignment explanation
Indices: 39324730--39324904 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
39324720 TGTAACCCGC
*
39324730 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
39324776 CCATAAGTGAACTCGGACTTAACTCAACGAGTTCGGCTGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
39324826 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
39324869 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
39324905 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:39326237 original size:27 final size:26
Alignment explanation
Indices: 39326196--39326323 Score: 114
Period size: 27 Copynumber: 4.8 Consensus size: 26
39326186 CGCCCCCAGT
39326196 TTGTAAAATTACTGAAATACCTTCAGA
1 TTGTAAAATTACTGAAATACC-TCAGA
* *
39326223 TTATAAAATTACTGAAATACCCTCAGT
1 TTGTAAAATTACTGAAATA-CCTCAGA
* * * *
39326250 TTGTAAAGTTATTGAAATACCCCCGA
1 TTGTAAAATTACTGAAATACCTCAGA
* *
39326276 TTTGTAAAATTATTGAAATACC-CTTGTA
1 -TTGTAAAATTACTGAAATACCTC-AG-A
* *
39326304 GTGTAAAATTACCGAAATAC
1 TTGTAAAATTACTGAAATAC
39326324 ACCTGTAGGG
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.06
27 76 0.90
28 3 0.04
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.34
Consensus pattern (26 bp):
TTGTAAAATTACTGAAATACCTCAGA
Found at i:39326256 original size:54 final size:54
Alignment explanation
Indices: 39326192--39326323 Score: 151
Period size: 54 Copynumber: 2.4 Consensus size: 54
39326182 GTTACGCCCC
*
39326192 CAGTTTGTAAAATTACTGAAATACCTTCAGA-TTATAAAATTACTGAAATACCCT
1 CAGTTTGTAAAATTACTGAAATACC-CCAGATTTATAAAATTACTGAAATACCCT
* * * * *
39326246 CAGTTTGTAAAGTTATTGAAATACCCCCGATTTGTAAAATTATTGAAATACCCT
1 CAGTTTGTAAAATTACTGAAATACCCCAGATTTATAAAATTACTGAAATACCCT
* * *
39326300 -TGTAGTGTAAAATTACCGAAATAC
1 CAGT-TTGTAAAATTACTGAAATAC
39326324 ACCTGTAGGG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 5 0.08
54 60 0.92
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (54 bp):
CAGTTTGTAAAATTACTGAAATACCCCAGATTTATAAAATTACTGAAATACCCT
Found at i:39326330 original size:27 final size:27
Alignment explanation
Indices: 39326278--39326339 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
39326268 ACCCCCGATT
**
39326278 TGTAAAATTATTGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
39326305 TGTAAAATTACCGAAATACACC-TGTAG
1 TGTAAAATTACCGAAATAC-CCTTGTAG
*
39326332 GGTAAAAT
1 TGTAAAAT
39326340 GATTGTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:39326735 original size:22 final size:22
Alignment explanation
Indices: 39326700--39326756 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
39326690 TTAATCTGAT
* *
39326700 TATGGCTCTATGCCAACTTAAA
1 TATGGCTTTGTGCCAACTTAAA
* ***
39326722 TATGGCTTTGTGCCATCTTGTT
1 TATGGCTTTGTGCCAACTTAAA
39326744 TATGGCTTTGTGC
1 TATGGCTTTGTGC
39326757 TAATCATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (22 bp):
TATGGCTTTGTGCCAACTTAAA
Found at i:39327186 original size:28 final size:28
Alignment explanation
Indices: 39327130--39327186 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
39327120 TTGATTCTAA
* * *
39327130 TACTGTATTGGGCTTAGGCCCACACTGT
1 TACTATATTGGGCTAAAGCCCACACTGT
* *
39327158 TACTATATTGGGCTAAAGCCTACATTGT
1 TACTATATTGGGCTAAAGCCCACACTGT
39327186 T
1 T
39327187 CTGTTACTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (28 bp):
TACTATATTGGGCTAAAGCCCACACTGT
Found at i:39339295 original size:34 final size:34
Alignment explanation
Indices: 39339256--39339327 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
39339246 TAACCCCTCA
39339256 TTCAATAGT-AGTAGCAGTCTGGGCCTGAGCCCAT
1 TTCAATA-TCAGTAGCAGTCTGGGCCTGAGCCCAT
* ** *
39339290 TTCAATATCAGTGGTGGTCTGGGCCTTAGCCCAT
1 TTCAATATCAGTAGCAGTCTGGGCCTGAGCCCAT
39339324 TTCA
1 TTCA
39339328 GTACATTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.31
Consensus pattern (34 bp):
TTCAATATCAGTAGCAGTCTGGGCCTGAGCCCAT
Found at i:39358328 original size:33 final size:34
Alignment explanation
Indices: 39358286--39358362 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 34
39358276 AGTATCAGTC
* * *
39358286 CAGTCTCAGTTAGGGCCTTAGCCC-ATTCAGTAA
1 CAGTATCAGTGAGGGCCTTAGCCCAATTCAATAA
*
39358319 CAGTATCAGTGGGGGCCTTAGCCCAATTCAATAA
1 CAGTATCAGTGAGGGCCTTAGCCCAATTCAATAA
*
39358353 CAATATCAGT
1 CAGTATCAGT
39358363 ACAAAATGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTGAGGGCCTTAGCCCAATTCAATAA
Found at i:39358354 original size:34 final size:33
Alignment explanation
Indices: 39358298--39358362 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
39358288 GTCTCAGTTA
* *
39358298 GGGCCTTAGCCCATTCAGTAACAGTATCAGTGG
1 GGGCCTTAGCCCATTCAATAACAATATCAGTGG
39358331 GGGCCTTAGCCCAATTCAATAACAATATCAGT
1 GGGCCTTAGCCC-ATTCAATAACAATATCAGT
39358363 ACAAAATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (33 bp):
GGGCCTTAGCCCATTCAATAACAATATCAGTGG
Found at i:39372676 original size:17 final size:18
Alignment explanation
Indices: 39372634--39372679 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
39372624 TATCATTTAC
*
39372634 CATTTATCGAGCATTATT
1 CATTTATCGGGCATTATT
39372652 --TTTGATCGGGCATT-TT
1 CATTT-ATCGGGCATTATT
39372668 CATTTATCGGGC
1 CATTTATCGGGC
39372680 TATAACGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
16 5 0.21
17 16 0.67
18 3 0.12
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (18 bp):
CATTTATCGGGCATTATT
Found at i:39378770 original size:21 final size:21
Alignment explanation
Indices: 39378745--39378784 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39378735 CATACTTGAT
* *
39378745 AATAATCAATAATATTGATTA
1 AATAATAAATAATAGTGATTA
39378766 AATAATAAATAATAGTGAT
1 AATAATAAATAATAGTGAT
39378785 ATTTTTGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (21 bp):
AATAATAAATAATAGTGATTA
Found at i:39388909 original size:10 final size:9
Alignment explanation
Indices: 39388886--39388911 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
39388876 TTTGGTGTTA
39388886 GTTTTTGAT
1 GTTTTTGAT
39388895 GTTTTTGAT
1 GTTTTTGAT
39388904 GTTTTTGA
1 GTTTTTGA
39388912 GATCATTGAA
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:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:39389735 original size:42 final size:43
Alignment explanation
Indices: 39389647--39389771 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 43
39389637 CGGCATCTGT
** * * * *
39389647 ATGAG-TTATCATGTAAGACCATATCTGGGATATGGTGTTGAT
1 ATGAGATTATCATGTAAGACCACGTCTGGGACATGGCGTCGAA
39389689 ATGAGATT-TCATGTAAGACCACGTCTGGGACATGGCGTCGAA
1 ATGAGATTATCATGTAAGACCACGTCTGGGACATGGCGTCGAA
*
39389731 ATGAGAATTCGATCCCATGTAAGACCACGTCTTGGACATGG
1 ATGAG-ATT--AT--CATGTAAGACCACGTCTGGGACATGG
39389772 TGTTGGCATC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 38 0.55
43 5 0.07
46 1 0.01
48 25 0.36
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (43 bp):
ATGAGATTATCATGTAAGACCACGTCTGGGACATGGCGTCGAA
Found at i:39394188 original size:40 final size:40
Alignment explanation
Indices: 39394104--39394288 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
39394094 TCGAATGATG
* *
39394104 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
39394143 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
39394184 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
39394223 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
39394262 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
39394289 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:39394240 original size:79 final size:81
Alignment explanation
Indices: 39394104--39394286 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
39394094 TCGAATGATG
* *
39394104 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
39394168 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
39394183 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
39394245 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
39394263 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39394287 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:39394310 original size:79 final size:79
Alignment explanation
Indices: 39394105--39394311 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 79
39394095 CGAATGATGT
* *
39394105 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
*
39394168 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* *
39394185 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
39394247 TGTGCGAGTTACT-ATAA
63 TGTGCGAGTTACTAAT-A
* **
39394264 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAA
39394312 ATTTCGAAGG
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
78 3 0.03
79 63 0.58
80 43 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:39400926 original size:40 final size:40
Alignment explanation
Indices: 39400828--39401210 Score: 556
Period size: 40 Copynumber: 9.6 Consensus size: 40
39400818 TCCTCGTTCA
* * * * *
39400828 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
39400867 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
39400907 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39400947 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39400987 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39401027 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39401067 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
39401107 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
39401147 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
39401187 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39401211 CAGCATTCAA
Statistics
Matches: 320, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 37 0.12
40 275 0.86
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:39408941 original size:40 final size:40
Alignment explanation
Indices: 39408867--39409160 Score: 423
Period size: 40 Copynumber: 7.2 Consensus size: 40
39408857 TCCTCGTTCA
* * * * *
39408867 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
39408906 AATGCCTTCGGGGACATAA-CCGGAATTTAACAACTCGCACG
1 AATGCCTTC-GGGACTTAACCCGG-ATTTAATAACTCGCACG
*
39408947 AATGCCTTCGGGACTTAACCCGGATTTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAATAACTCGCACG
39408988 AATGCTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AA---TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39409031 AATGCCTTCGGGACTTAACCCGGATTT-ATAACTCGCCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCG-CACG
39409071 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39409111 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGC-ACG
39409152 AATGCCTTC
1 AATGCCTTC
39409161 NNNNNNNNNN
Statistics
Matches: 237, Mismatches: 7, Indels: 20
0.90 0.03 0.08
Matches are distributed among these distances:
39 21 0.09
40 126 0.53
41 51 0.22
43 17 0.07
44 22 0.09
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:39420308 original size:34 final size:34
Alignment explanation
Indices: 39420265--39420343 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 34
39420255 GCCTTAGCCC
* *
39420265 CTCA-TTCAGTAGCAGTCGCAGTCTGGGCCTCAG
1 CTCATTTCAGTAGCAATAGCAGTCTGGGCCTCAG
* ** *
39420298 CTCATTTCAGTATCAATAGTGGTCTGGGCCTTAG
1 CTCATTTCAGTAGCAATAGCAGTCTGGGCCTCAG
*
39420332 CTTATTTCAGTA
1 CTCATTTCAGTA
39420344 CATTATGCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (34 bp):
CTCATTTCAGTAGCAATAGCAGTCTGGGCCTCAG
Found at i:39432548 original size:20 final size:21
Alignment explanation
Indices: 39432520--39432558 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
39432510 GTTACATCTC
*
39432520 ACGAACTCG-GACTCAAATCA
1 ACGAACTCGAAACTCAAATCA
*
39432540 ACGAGCTCGAAACTCAAAT
1 ACGAACTCGAAACTCAAAT
39432559 ATCCTAGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.41, C:0.28, G:0.15, T:0.15
Consensus pattern (21 bp):
ACGAACTCGAAACTCAAATCA
Found at i:39436024 original size:40 final size:40
Alignment explanation
Indices: 39435980--39436167 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
39435970 GCAAACACAT
* *
39435980 TTGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
39436020 TTGCCTTTGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
39436060 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
39436100 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
39436140 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
39436168 TCCAATGCTC
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:39444399 original size:20 final size:20
Alignment explanation
Indices: 39444376--39444424 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
39444366 GAGGGGCCGT
* *
39444376 AGTGCAAATAGAGGCACCAA
1 AGTGCAAACAAAGGCACCAA
*
39444396 AGTGAAAACAAAGGCACCAA
1 AGTGCAAACAAAGGCACCAA
*
39444416 AATGCAAAC
1 AGTGCAAAC
39444425 TTGTAGAAGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.08
Consensus pattern (20 bp):
AGTGCAAACAAAGGCACCAA
Found at i:39445654 original size:27 final size:26
Alignment explanation
Indices: 39445552--39445655 Score: 70
Period size: 27 Copynumber: 3.8 Consensus size: 26
39445542 AATATTTTAG
39445552 TTTACCAAATTACTGAAATACCCTCGA
1 TTTA-CAAATTACTGAAATACCCTCGA
*
39445579 CTTGTA-AAATTAC-CAAAGTACCC-CTGA
1 -TT-TACAAATTACTGAAA-TACCCTC-GA
* * ***
39445606 TTTACAGAACTACCGTTTTACCCTCGA
1 TTTACA-AATTACTGAAATACCCTCGA
39445633 TTTACCAAATTACTGAAATACCC
1 TTTA-CAAATTACTGAAATACCC
39445656 CTGTAGGGTA
Statistics
Matches: 57, Mismatches: 11, Indels: 17
0.67 0.13 0.20
Matches are distributed among these distances:
25 2 0.04
26 7 0.12
27 41 0.72
28 5 0.09
29 2 0.04
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.30
Consensus pattern (26 bp):
TTTACAAATTACTGAAATACCCTCGA
Found at i:39445808 original size:27 final size:27
Alignment explanation
Indices: 39445640--39445807 Score: 230
Period size: 27 Copynumber: 6.2 Consensus size: 27
39445630 CGATTTACCA
39445640 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
39445667 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
39445694 AATTACTGAAATACCCCTGTAGAGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
39445721 AATTA-TCGAAACACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
39445748 AAATACTGAAATATCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
39445775 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
39445802 AATTAC
1 AATTAC
39445808 CATTTTGCCC
Statistics
Matches: 124, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 122 0.98
28 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:39446228 original size:22 final size:22
Alignment explanation
Indices: 39446195--39446250 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
39446185 GCCAATTATT
*
39446195 CTAATTATGGCTTTGCGCCAAC
1 CTAATTATGGCTCTGCGCCAAC
*
39446217 CTACA-TATGGCTCTGTGCCAAC
1 CTA-ATTATGGCTCTGCGCCAAC
39446239 CTAATTATGGCT
1 CTAATTATGGCT
39446251 GCGTTCCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (22 bp):
CTAATTATGGCTCTGCGCCAAC
Found at i:39446259 original size:22 final size:21
Alignment explanation
Indices: 39446195--39446259 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 21
39446185 GCCAATTATT
39446195 CTAATTATGGCTTTGCG-CCAAC
1 CTAATTATGGC--TGCGTCCAAC
39446217 CTACA-TATGGCT-CTGTGCCAAC
1 CTA-ATTATGGCTGC-GT-CCAAC
39446239 CTAATTATGGCTGCGTTCCAA
1 CTAATTATGGCTGCG-TCCAA
39446260 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 1 0.03
22 29 0.81
23 3 0.08
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (21 bp):
CTAATTATGGCTGCGTCCAAC
Found at i:39446448 original size:27 final size:27
Alignment explanation
Indices: 39446418--39446525 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
39446408 ATTCTGTTAA
* *
39446418 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
39446445 GTGGCTATGCCACAAATATCTGTTT-TG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
39446472 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
** * *
39446499 GTAACTCTGTCACAATATCTG-TTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
39446525 G
1 G
39446526 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 46 0.65
28 10 0.14
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:39446513 original size:54 final size:53
Alignment explanation
Indices: 39446418--39446521 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 53
39446408 ATTCTGTTAA
* * * **
39446418 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTTTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTAACTATGCCAC-AATATCTGTTTTG
* *
39446472 GTGGCTCTGCCACAATATCTGTATCTGGTAACTCTGTCACAATATCTGTT
1 GTGGCTCTGCCACAATATCTGTATCTGGTAACTATGCCACAATATCTGTT
39446522 CTGGCAGCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 10 0.23
54 33 0.77
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTAACTATGCCACAATATCTGTTTTG
Found at i:39446655 original size:6 final size:6
Alignment explanation
Indices: 39446646--39446766 Score: 61
Period size: 6 Copynumber: 19.7 Consensus size: 6
39446636 ATTCACATTT
* * * * * *
39446646 TGATTC TGATTC TGTTATC TAATAC TGGTTC TGATTC TG-TCACC TAATTC
1 TGATTC TGATTC TGAT-TC TGATTC TGATTC TGATTC TGAT--TC TGATTC
* * *
39446696 TGATTC TGGTTC TAATTC TGATTC TG-TCACC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
*
39446745 TCATT- TCGATTC T-AGTTC TGAT
1 TGATTC T-GATTC TGA-TTC TGAT
39446767 AATGTTTCTA
Statistics
Matches: 84, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
5 4 0.05
6 67 0.80
7 11 0.13
8 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:39446677 original size:25 final size:25
Alignment explanation
Indices: 39446646--39446708 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
39446636 ATTCACATTT
* *
39446646 TGATTCTGATTCTGTTATCTAATAC
1 TGATTCTGATTCTGTCACCTAATAC
* *
39446671 TGGTTCTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGTCACCTAATAC
*
39446696 TGATTCTGGTTCT
1 TGATTCTGATTCT
39446709 AATTCTGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (25 bp):
TGATTCTGATTCTGTCACCTAATAC
Found at i:39446696 original size:19 final size:19
Alignment explanation
Indices: 39446674--39446740 Score: 93
Period size: 19 Copynumber: 3.6 Consensus size: 19
39446664 CTAATACTGG
39446674 TTCTGATTCTGTCACCTAA
1 TTCTGATTCTGTCACCTAA
*
39446693 TTCTGATTCTGGT--TCTAA
1 TTCTGATTCT-GTCACCTAA
*
39446711 TTCTGATTCTGTCACCTGA
1 TTCTGATTCTGTCACCTAA
39446730 TTCTGATTCTG
1 TTCTGATTCTG
39446741 ATTCTCATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 2 0.05
18 14 0.33
19 24 0.57
20 2 0.05
ACGTcount: A:0.16, C:0.22, G:0.15, T:0.46
Consensus pattern (19 bp):
TTCTGATTCTGTCACCTAA
Found at i:39446757 original size:37 final size:37
Alignment explanation
Indices: 39446674--39446745 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
39446664 CTAATACTGG
*
39446674 TTCTGATTCTGTCACCTAATTCTGATTCTGGTTCTAA
1 TTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAA
*
39446711 TTCTGATTCTGTCACCTGATTCTGATTCTGATTCT
1 TTCTGATTCTGTCACCTAATTCTGATTCTGATTCT
39446746 CATTTCGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.47
Consensus pattern (37 bp):
TTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAA
Found at i:39448037 original size:18 final size:18
Alignment explanation
Indices: 39448016--39448097 Score: 119
Period size: 18 Copynumber: 4.6 Consensus size: 18
39448006 TACTTCATAC
* * *
39448016 AACATAGGATCGCATAAC
1 AACATAGGTTCACATAAT
*
39448034 AACATAGGTTCGCATAAT
1 AACATAGGTTCACATAAT
*
39448052 AACATAGGTTCATATAAT
1 AACATAGGTTCACATAAT
39448070 AACATAGGTTCACATAAT
1 AACATAGGTTCACATAAT
39448088 AACATAGGTT
1 AACATAGGTT
39448098 TCCACTAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.27
Consensus pattern (18 bp):
AACATAGGTTCACATAAT
Found at i:39449145 original size:15 final size:15
Alignment explanation
Indices: 39449125--39449157 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
39449115 GCTTAAGATG
39449125 TAAATCAACCAAATC
1 TAAATCAACCAAATC
39449140 TAAATCAACCAAATC
1 TAAATCAACCAAATC
39449155 TAA
1 TAA
39449158 GCATGGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAATCAACCAAATC
Found at i:39473046 original size:13 final size:13
Alignment explanation
Indices: 39473028--39473052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39473018 CTCGGCAGGG
39473028 ACACGCCCGTGTA
1 ACACGCCCGTGTA
39473041 ACACGCCCGTGT
1 ACACGCCCGTGT
39473053 GCGATAACTT
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:39479291 original size:39 final size:39
Alignment explanation
Indices: 39479232--39479309 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
39479222 GTGAAAATAG
*
39479232 ACTTGGTTTAAGTCACATTTCTCACCCTCCTCAAGCATA
1 ACTTGGTTTAAGTCACATTTCTCACCCTCATCAAGCATA
*
39479271 ACTTGGTTTAAGTCATATTTCTCACCCTCATCAAGCATA
1 ACTTGGTTTAAGTCACATTTCTCACCCTCATCAAGCATA
39479310 CCTAAACCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.35
Consensus pattern (39 bp):
ACTTGGTTTAAGTCACATTTCTCACCCTCATCAAGCATA
Found at i:39482446 original size:80 final size:80
Alignment explanation
Indices: 39482341--39482526 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
39482331 AGTAACTCAT
* * *
39482341 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
39482404 GGA-ATTAGT-A-TCTCGC
64 GGATA-TAGTCACT-TAGC
**
39482420 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
39482485 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
39482501 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
39482527 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:39482486 original size:40 final size:40
Alignment explanation
Indices: 39482343--39482526 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
39482333 TAACTCATAC
* *
39482343 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
39482383 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
39482423 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
39482463 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
39482504 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39482527 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:39485470 original size:197 final size:198
Alignment explanation
Indices: 39485129--39485518 Score: 719
Period size: 197 Copynumber: 2.0 Consensus size: 198
39485119 CACATTGTCC
*
39485129 TTAATGTGTAGCCCTAAATAGATAAGGAAAGAAGTTACCCAATTGTTCATGACATTTTTGTAATT
1 TTAATGTGTAGCCCTAAATAGATAAGGAAAGAAGTTACCCAATTGATCATGACATTTTTGTAATT
*
39485194 TTATGGTGGGTGGTTCATTCCTTGTTCATTGAAAGCTAAAAAATATTAGGCTTTTTTTGTATGAG
66 TTATGGTGGGTGGTTCATTCCTTGTTCATTGAAAGCTAAAAAATATTAGGCTTCTTTTGTATGAG
* * *
39485259 GTTTCTACATAGAAGACCTTTGAAAACCG-AAAAAATATATATATCTACTATTAATCCTACTCAT
131 GTTTCTAAATAGAAGACCTTTGAAAACCGAAAAAAAAATATAAATCTACTATTAATCCTACTCAT
39485323 TTT
196 TTT
39485326 TTAATGTGTAGCCCTAAATAGATAAGGAAAGAAGTTACCCAATTGATCATGACATTTTTGTAATT
1 TTAATGTGTAGCCCTAAATAGATAAGGAAAGAAGTTACCCAATTGATCATGACATTTTTGTAATT
39485391 TTATGGTGGGTGGTTCATTCCTTGTTCATTGAAAGCTAAAAAATATTAGGCTTCTTTTGTATGAG
66 TTATGGTGGGTGGTTCATTCCTTGTTCATTGAAAGCTAAAAAATATTAGGCTTCTTTTGTATGAG
*
39485456 GTTTCTAAATAGAAGACCTTTGAAAACCGAAAAAAAAATATAAATCTACTATTAATCGTACTC
131 GTTTCTAAATAGAAGACCTTTGAAAACCGAAAAAAAAATATAAATCTACTATTAATCCTACTC
39485519 CTAAAAAGAA
Statistics
Matches: 186, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
197 156 0.84
198 30 0.16
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (198 bp):
TTAATGTGTAGCCCTAAATAGATAAGGAAAGAAGTTACCCAATTGATCATGACATTTTTGTAATT
TTATGGTGGGTGGTTCATTCCTTGTTCATTGAAAGCTAAAAAATATTAGGCTTCTTTTGTATGAG
GTTTCTAAATAGAAGACCTTTGAAAACCGAAAAAAAAATATAAATCTACTATTAATCCTACTCAT
TTT
Found at i:39527703 original size:47 final size:47
Alignment explanation
Indices: 39527649--39527889 Score: 356
Period size: 47 Copynumber: 5.1 Consensus size: 47
39527639 TTAGGATTTT
** * * *
39527649 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39527696 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
39527743 ATATGATGAATGTGAGCATGCATATATGTTATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
39527790 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
39527837 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39527884 ATGTGA
1 ATGTGA
39527890 AATATGTATG
Statistics
Matches: 177, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 177 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:39528204 original size:37 final size:37
Alignment explanation
Indices: 39528097--39528204 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
39528087 GAAATATATC
*
39528097 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGT
39528134 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGT
* *
39528171 CCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTT
39528205 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGT
Found at i:39529985 original size:20 final size:20
Alignment explanation
Indices: 39529949--39529999 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
39529939 ACAGAGAGTT
39529949 ACACGGGCGTG-CCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
39529968 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
39529988 ACACGGGCGTGT
1 ACACGGGCGTGT
39530000 GACCCTGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.20, C:0.37, G:0.33, T:0.10
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:39538389 original size:20 final size:22
Alignment explanation
Indices: 39538356--39538396 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
39538346 TGCAAGCATG
*
39538356 ATTTTTGATTTTATC-TAAGTT
1 ATTTTTGATGTTATCTTAAGTT
39538377 ATTTTT-ATGTTATCTTAAGT
1 ATTTTTGATGTTATCTTAAGT
39538397 GATGGAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.61
Consensus pattern (22 bp):
ATTTTTGATGTTATCTTAAGTT
Found at i:39540085 original size:43 final size:42
Alignment explanation
Indices: 39539942--39540091 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 42
39539932 GATTACCGAG
*
39539942 ATGTGATTACATGTAAGACCATGT-TGGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
** * * *
39539983 ATTGTGATTATGTGTAAGACCATGTCTGGGGCATTGTCATTCTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCA-TCGT
* * * * *
39540027 ATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
*
39540070 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
39540092 ATTTGGAATA
Statistics
Matches: 86, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 23 0.27
43 59 0.69
44 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:39541289 original size:114 final size:114
Alignment explanation
Indices: 39541084--39541312 Score: 440
Period size: 114 Copynumber: 2.0 Consensus size: 114
39541074 TGTGACTCGA
39541084 CCGTATGTCTACATAACTTAGTTAAAACAAGTCAGAGAGTTACACGGCTTAGACACACGGGTGTG
1 CCGTATGTCTACATAACTTAGTTAAAACAAGTCAGAGAGTTACACGGCTTAGACACACGGGTGTG
39541149 TCTACTGGCCGTGTGTAGCACACGGGTTGGCACATGGGCGTGTGGTCGG
66 TCTACTGGCCGTGTGTAGCACACGGGTTGGCACATGGGCGTGTGGTCGG
* *
39541198 CCGTGTGTCTACATAACTTAGTTAAAACAAGTTAGAGAGTTACACGGCTTAGACACACGGGTGTG
1 CCGTATGTCTACATAACTTAGTTAAAACAAGTCAGAGAGTTACACGGCTTAGACACACGGGTGTG
39541263 TCTACTGGCCGTGTGTAGCACACGGGTTGGCACATGGGCGTGTGGTCGG
66 TCTACTGGCCGTGTGTAGCACACGGGTTGGCACATGGGCGTGTGGTCGG
39541312 C
1 C
39541313 TATGTGACCC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (114 bp):
CCGTATGTCTACATAACTTAGTTAAAACAAGTCAGAGAGTTACACGGCTTAGACACACGGGTGTG
TCTACTGGCCGTGTGTAGCACACGGGTTGGCACATGGGCGTGTGGTCGG
Found at i:39541830 original size:31 final size:31
Alignment explanation
Indices: 39541787--39541845 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
39541777 TGTTCAAAAA
* *
39541787 AAAAGATGAAAGAACGAAGGAAAGTTTGTTG
1 AAAAGATGAAAGAACAAAGAAAAGTTTGTTG
39541818 AAAAGAAT-AAAGAACAAAGAAAAGTTTG
1 AAAAG-ATGAAAGAACAAAGAAAAGTTTG
39541846 CTCAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.56, C:0.03, G:0.24, T:0.17
Consensus pattern (31 bp):
AAAAGATGAAAGAACAAAGAAAAGTTTGTTG
Found at i:39554760 original size:31 final size:31
Alignment explanation
Indices: 39554620--39554760 Score: 228
Period size: 31 Copynumber: 4.5 Consensus size: 31
39554610 TTTAACGGTT
*
39554620 ACTGGGCCGGAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
39554651 ATTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
39554682 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
39554713 ATTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* * *
39554744 ACTAGGCTGAAACCTTT
1 ACTGGGCCGAAGCCTTT
39554761 ACTATAAACG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 102 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:39554843 original size:42 final size:42
Alignment explanation
Indices: 39554784--39554875 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
39554774 TGGCCCTTAG
* ** *
39554784 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
39554826 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
39554868 GCCCATTT
1 GCCCATTT
39554876 AGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:39555041 original size:25 final size:25
Alignment explanation
Indices: 39555013--39555082 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
39555003 CTCTTTTAAT
*
39555013 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
* *
39555038 AACTAGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
*
39555063 AACTGGGGCAGAGCCATTTT
1 AACTGGGGCAGAGCCCTTTT
39555083 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:39556031 original size:27 final size:27
Alignment explanation
Indices: 39556001--39556109 Score: 87
Period size: 27 Copynumber: 3.9 Consensus size: 27
39555991 GTAAATCTAC
39556001 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
* *
39556028 AAACCAATGGTATTCCTA-TAATTTT-T
1 AAACCAAGGGTATT-TTAGTAATTTTGT
* *
39556054 AAAAAAGTCAAGGGTATTTTTGTAATTTTGT
1 ---AAA-CCAAGGGTATTTTAGTAATTTTGT
** * *
39556085 AAATTAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTTAGTAATTTT
39556110 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
26 1 0.02
27 39 0.59
28 5 0.08
29 4 0.06
30 16 0.24
31 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:39556115 original size:27 final size:26
Alignment explanation
Indices: 39556065--39556160 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 26
39556055 AAAAAGTCAA
* *
39556065 GGGTATTTTTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTT-CAAATTAG
39556092 GGGTATTTTGGTAATTTTACAAATT-G
1 GGGTATTTTGGTAATTTT-CAAATTAG
* *
39556118 AGGGTATTTCGGTAATTTCTCAAACTAG
1 -GGGTATTTTGGTAATTT-TCAAATTAG
*
39556146 TGGTA-TTTGGTAATT
1 GGGTATTTTGGTAATT
39556161 CTATCCTACA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
26 10 0.17
27 47 0.80
28 2 0.03
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.46
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTCAAATTAG
Found at i:39556645 original size:27 final size:27
Alignment explanation
Indices: 39556192--39556634 Score: 620
Period size: 27 Copynumber: 16.4 Consensus size: 27
39556182 GTAATTTCAC
* * * *
39556192 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
39556219 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* *
39556246 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
***
39556273 AATCGAGGGTACTTTGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
39556300 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
39556327 AAT-TAGGGGTAAAACGGTAATTCTATA
1 AATCGA-GGGTAAAATGGTAATTCTATA
39556354 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
39556381 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
39556408 AATCAAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
39556435 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
39556462 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
39556489 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
39556516 AATCGATGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
39556543 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
39556570 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
39556597 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
39556624 AATCGAGGGTA
1 AATCGAGGGTA
39556635 CTTTGGTAAT
Statistics
Matches: 376, Mismatches: 36, Indels: 8
0.90 0.09 0.02
Matches are distributed among these distances:
26 2 0.01
27 372 0.99
28 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:39559033 original size:30 final size:29
Alignment explanation
Indices: 39558951--39559033 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 29
39558941 TCAGTCTCGA
39558951 CATATACTGGGCCGAAGCCTTTTCATAAAT
1 CATATACT-GGCCGAAGCCTTTTCATAAAT
*
39558981 CATATAACTGGACCGTAGCCTTTTCATAAAT
1 CATAT-ACTGG-CCGAAGCCTTTTCATAAAT
39559012 CATATCACTGGCCGAAGCCTTT
1 CATAT-ACTGGCCGAAGCCTTT
39559034 ACTGTAAGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
30 17 0.35
31 31 0.65
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (29 bp):
CATATACTGGCCGAAGCCTTTTCATAAAT
Found at i:39559281 original size:25 final size:25
Alignment explanation
Indices: 39559253--39559322 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
39559243 CTCTTTTAAT
* *
39559253 AACTGGGGAAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCAG-TA
39559278 AACTGGGGCAAAGCCCTTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTCAGTA
39559303 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
39559323 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 37 0.88
26 5 0.12
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAGTA
Found at i:39560191 original size:27 final size:27
Alignment explanation
Indices: 39560129--39560193 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
39560119 AGGGATATTC
39560129 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTATTACG
* *
39560156 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACG
*
39560183 GTCTTTTTACC
1 GTCATTTTACC
39560194 TATTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:39560267 original size:27 final size:27
Alignment explanation
Indices: 39560237--39560294 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
39560227 GGGTGTTTTG
39560237 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* * ** * *
39560264 GTAATTTTGTAAACCAATGGTATTTCT
1 GTAAATCTACAAACCAAGGGTATTTCA
39560291 GTAA
1 GTAA
39560295 TTTTTAGAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:39560295 original size:27 final size:27
Alignment explanation
Indices: 39560244--39560467 Score: 159
Period size: 27 Copynumber: 8.2 Consensus size: 27
39560234 TTGGTAAATC
*
39560244 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCTGTAATTT
** *
39560271 TGTAAACCAATGGTATTTCTGTAATTTT
1 TACAAACCAAGGGTATTTCTGTAA-TTT
* * *
39560299 TAGAAAGTCAAGGGTATTTCTATAATTT
1 TACAAA-CCAAGGGTATTTCTGTAATTT
** * *
39560327 TGTAAATCAGGGGTATTT-TGGTAATTT
1 TACAAACCAAGGGTATTTCT-GTAATTT
***
39560354 TACAAATTGAGGGTATTT-TGGTAATTT
1 TACAAACCAAGGGTATTTCT-GTAATTT
* * *
39560381 CACAAA-CTAGTGGTATTTCGGTAATTT
1 TACAAACCAAG-GGTATTTCTGTAATTT
* * *
39560408 CACAAACCAATGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCTGTAATTT
* * *
39560435 TAGAAACTAGGGGTATTT-TGGTAATTT
1 TACAAACCAAGGGTATTTCT-GTAATTT
39560462 TACAAA
1 TACAAA
39560468 ACTAGGGGTA
Statistics
Matches: 159, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.02
27 125 0.79
28 16 0.10
29 15 0.09
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCTGTAATTT
Found at i:39560396 original size:54 final size:53
Alignment explanation
Indices: 39560335--39560488 Score: 191
Period size: 54 Copynumber: 2.8 Consensus size: 53
39560325 TTTGTAAATC
*
39560335 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT-AGGGTATTTTGGTAATTTCACAAACT
* * * * * * * *
39560389 AGTGGTATTTCGGTAATTTCACAAACCAATGGTATTTCGGTAATTTTAGAAACT
1 AGGGGTATTTTGGTAATTTTACAAA-CTAGGGTATTTTGGTAATTTCACAAACT
39560443 AGGGGTATTTTGGTAATTTTACAAAACTAGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATTTTAC-AAACTA-GGGTATTTTGGTAATT
39560489 CAATGCTACA
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
54 65 0.79
55 17 0.21
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (53 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTCACAAACT
Found at i:39560431 original size:81 final size:82
Alignment explanation
Indices: 39560338--39560488 Score: 225
Period size: 81 Copynumber: 1.9 Consensus size: 82
39560328 GTAAATCAGG
* * *
39560338 GGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTTGGTAATTTCAC-AAACTAGTGGTATTTCG
1 GGTATTTCGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTCACAAAACTAGGGGTATTTCG
39560401 GTAATTTCACAAACCAAT
65 GTAATTTCACAAACCAAT
* * *
39560419 GGTATTTCGGTAATTTTAGAAACTAGGGGTATTTTGGTAATTTTACAAAACTAGGGGTATTTTGG
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAAACTAGGGGTATTTCGG
39560484 TAATT
66 TAATT
39560489 CAATGCTACA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 39 0.63
82 23 0.37
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (82 bp):
GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAAACTAGGGGTATTTCGG
TAATTTCACAAACCAAT
Found at i:39560554 original size:27 final size:27
Alignment explanation
Indices: 39560520--39560636 Score: 155
Period size: 27 Copynumber: 4.3 Consensus size: 27
39560510 GTAATTTCAC
*
39560520 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
39560547 AA-CTGAGGGTAAAATGGTAATTTTATA
1 AATC-GAGGGTAAAATGGTAATTTTATA
* * *
39560574 AATCGAGAGTAAAATGCTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
* * *
39560601 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTATA
39560628 AATCGAGGG
1 AATCGAGGG
39560637 CATTTCAGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.97
28 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTATA
Found at i:39563068 original size:47 final size:47
Alignment explanation
Indices: 39562990--39563581 Score: 923
Period size: 47 Copynumber: 12.6 Consensus size: 47
39562980 CCCTTCGGGA
* * * * * *
39562990 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39563037 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39563084 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39563131 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39563178 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39563227 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39563274 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39563321 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39563368 CGTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39563415 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39563462 CTTATCACATATATACACTTTCACATTCATTACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39563509 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39563556 CGTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
39563582 CACAATTATC
Statistics
Matches: 499, Mismatches: 44, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 454 0.91
49 45 0.09
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39565859 original size:34 final size:34
Alignment explanation
Indices: 39565811--39565875 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
39565801 AGATACAGTT
* *
39565811 TGGGCCTGATCCCATTACAGTATCAGTATCACTG
1 TGGGCCTGAGCCCATTACAGTAACAGTATCACTG
* *
39565845 TGGGCCTTAGCCCATTATAGTAACAGTATCA
1 TGGGCCTGAGCCCATTACAGTAACAGTATCA
39565876 GTGTAGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (34 bp):
TGGGCCTGAGCCCATTACAGTAACAGTATCACTG
Found at i:39566304 original size:27 final size:27
Alignment explanation
Indices: 39566274--39566447 Score: 125
Period size: 27 Copynumber: 6.4 Consensus size: 27
39566264 TAGGGCAAAT
*
39566274 CAGTCATTTTATCTTACAAGGGTATTA
1 CAGTCATTTTACCTTACAAGGGTATTA
39566301 CAGTCATTTTACCTTACAAGGGTATTA
1 CAGTCATTTTACCTTACAAGGGTATTA
* * * * *
39566328 TAGTCATTTTACCCTATAGGGGTATTC
1 CAGTCATTTTACCTTACAAGGGTATTA
* * ** *
39566355 CAGACATTTTACCCTA-TGGAGGTATTT
1 CAGTCATTTTACCTTACAAG-GGTATTA
** * * * *
39566382 TGGTCATTTTACCCTAGAGGGGTATTT
1 CAGTCATTTTACCTTACAAGGGTATTA
* * * *
39566409 CGGTCATTTTACCCTACAGGGGGTATTT
1 CAGTCATTTTACCTTACA-AGGGTATTA
*
39566437 CGGTCATTTTA
1 CAGTCATTTTA
39566448 TCCTATGGGG
Statistics
Matches: 128, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.02
27 104 0.81
28 22 0.17
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGTCATTTTACCTTACAAGGGTATTA
Found at i:39566465 original size:27 final size:27
Alignment explanation
Indices: 39566330--39566502 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
39566320 GGGTATTATA
* * *
39566330 GTCATTTTACCCTATAGGGGTATTCCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
39566357 GACATTTTACCCTATGGAGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
39566384 GTCATTTTACCCTA-GAGGGGTATTTCG
1 GTCATTTTACCCTATG-GGGGTATTTCG
*
39566411 GTCATTTTACCCTACAGGGGGTATTTCG
1 GTCATTTTACCCTA-TGGGGGTATTTCG
*
39566439 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
39566466 ATCATTTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
39566493 GTCACTTTAC
1 GTCATTTTAC
39566503 ACTACAAGGG
Statistics
Matches: 127, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 101 0.80
28 24 0.19
29 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:39566474 original size:82 final size:81
Alignment explanation
Indices: 39566304--39566524 Score: 248
Period size: 82 Copynumber: 2.7 Consensus size: 81
39566294 GGTATTACAG
* * * * * * * *
39566304 TCATTTTACCTTACAAGGGTATTAT-AGTCATTTTACCCTATAGGGGTATTCCAGACATTTTACC
1 TCATTTTACCCTAGAGGGGTATT-TCGGTCATTTTACCCTACAGGGGTATTTCGGTCATTTTACC
* *
39566368 CTATGGAGGTATTTTGG
65 CTATGGAGGTATTTCGA
*
39566385 TCATTTTACCCTAGAGGGGTATTTCGGTCATTTTACCCTACAGGGGGTATTTCGGTCATTTTATC
1 TCATTTTACCCTAGAGGGGTATTTCGGTCATTTTACCCTACA-GGGGTATTTCGGTCATTTTACC
*
39566450 CTATGGGGGTATTTCGA
65 CTATGGAGGTATTTCGA
* * * *
39566467 TCATTTTACCCTATG-GAGGTATTTCGGTCACTTTACACTACAAGGGGTATTTTGGTCA
1 TCATTTTACCCTA-GAGGGGTATTTCGGTCATTTTACCCTAC-AGGGGTATTTCGGTCA
39566525 CCATTTCGGC
Statistics
Matches: 120, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 35 0.29
82 82 0.68
83 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (81 bp):
TCATTTTACCCTAGAGGGGTATTTCGGTCATTTTACCCTACAGGGGTATTTCGGTCATTTTACCC
TATGGAGGTATTTCGA
Found at i:39572034 original size:27 final size:26
Alignment explanation
Indices: 39571836--39572144 Score: 224
Period size: 27 Copynumber: 11.4 Consensus size: 26
39571826 GCGTAAATCA
* * * *
39571836 GTCATTTTACCTTTTAGGGGTATTACT
1 GTCATTTTACCCTAT-GGGGTATTTCG
* ** * *
39571863 GTCATTTTGCCCTACAAGGGTATTACA
1 GTCATTTTACCCTA-TGGGGTATTTCG
**
39571890 GTCATTTTACCCTACAAGGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTTCG
* * **
39571917 ATCATTTTACCCTATTGGGTGCTTCG
1 GTCATTTTACCCTATGGGGTATTTCG
*
39571943 GTTATTTTACCCTATGGGGGGTATTTCG
1 GTCATTTTACCCTAT--GGGGTATTTCG
* * * *
39571971 GTCATTTTACCTTACAAGGGGAATTTTG
1 GTCATTTTACCCT--ATGGGGTATTTCG
*
39571999 GTCAGTTTACCCTATGGGCGTATTTCG
1 GTCATTTTACCCTATGGG-GTATTTCG
*
39572026 GTCATTTTACCCCATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
39572053 GTCATTTTACACTACAAGGGGTATTTCG
1 GTCATTTTACCCT--ATGGGGTATTTCG
*** *
39572081 GTCATTTTATTTTATAGGGG-CTTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
39572107 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
39572134 GTCACTTTACC
1 GTCATTTTACC
39572145 TTACAAGGGG
Statistics
Matches: 226, Mismatches: 45, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
26 48 0.21
27 113 0.50
28 63 0.28
29 1 0.00
30 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Done.